Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 32 of 45
Found at i:5594400 original size:18 final size:16
Alignment explanation
Indices: 5594359--5594401 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
5594349 TTTTCTGTTG
5594359 TTTTTTT-ACTCAAAT
1 TTTTTTTAACTCAAAT
5594374 TTTTGTTTAACTACAAAT
1 TTTT-TTTAACT-CAAAT
5594392 TTATTTTTAA
1 TT-TTTTTAA
5594402 TTACTATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.17
16 3 0.12
17 3 0.12
18 12 0.50
19 2 0.08
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTTTTTAACTCAAAT
Found at i:5597193 original size:2 final size:2
Alignment explanation
Indices: 5597188--5597215 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5597178 AAAGAAACAA
5597188 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
5597216 TGTTTGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5598634 original size:30 final size:30
Alignment explanation
Indices: 5598598--5598654 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
5598588 AAATCCAAAC
* *
5598598 TTGAAGCCAATAAATGATCTTGCCAATAAT
1 TTGAAGCAAAGAAATGATCTTGCCAATAAT
* *
5598628 TTGAAGCAAAGAGATGATCTTGTCAAT
1 TTGAAGCAAAGAAATGATCTTGCCAAT
5598655 GATGCAAGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (30 bp):
TTGAAGCAAAGAAATGATCTTGCCAATAAT
Found at i:5600367 original size:19 final size:19
Alignment explanation
Indices: 5600343--5600405 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
5600333 AAATAGTAAC
5600343 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
5600362 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
5600375 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
5600394 TGTATCGATACA
1 TGTATCGATACA
5600406 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:5600380 original size:13 final size:13
Alignment explanation
Indices: 5600362--5600419 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
5600352 ACATAAGTGT
5600362 TGTATCGATACAA
1 TGTATCGATACAA
5600375 TGTATCGATACATAA
1 TGTATCGATAC--AA
5600390 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
5600407 TGTATCGCTACAA
1 TGTATCGATACAA
5600420 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5600384 original size:32 final size:32
Alignment explanation
Indices: 5600343--5600418 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
5600333 AAATAGTAAC
5600343 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
5600375 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
5600407 TGTATCGCTACA
1 TGTATCGATACA
5600419 AAGCTACTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:5600475 original size:13 final size:13
Alignment explanation
Indices: 5600457--5600484 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5600447 CATTACTCAA
5600457 TGTATCGATACAT
1 TGTATCGATACAT
5600470 TGTATCGATACAT
1 TGTATCGATACAT
5600483 TG
1 TG
5600485 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5600479 original size:33 final size:33
Alignment explanation
Indices: 5600437--5600500 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
5600427 GCCAAGGAAA
5600437 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
5600470 TGTATCGATACATTGATCTTTGTATCGATAC
1 TGTATCGATACATTGATCAATGTATCGATAC
5600501 GTCTGGGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:5601997 original size:21 final size:20
Alignment explanation
Indices: 5601959--5601997 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
5601949 GTTTTATGTT
5601959 TAAAAATTATTTTAAAATAC
1 TAAAAATTATTTTAAAATAC
5601979 TAAAAGATT-TTTATAAAAT
1 TAAAA-ATTATTT-TAAAAT
5601998 TTTTAAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAAATTATTTTAAAATAC
Found at i:5607539 original size:32 final size:31
Alignment explanation
Indices: 5607475--5607553 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 31
5607465 CATTTTTCAT
*
5607475 TGTATTGATACATTCTGAGTTTTGACCCAAA
1 TGTATCGATACATTCTGAGTTTTGACCCAAA
* *
5607506 TGTATCTATACATTCT-AGGTTTTTGACCTAAA
1 TGTATCGATACATTCTGA-G-TTTTGACCCAAA
5607538 TGTATCGATACATTCT
1 TGTATCGATACATTCT
5607554 TTCATGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.02
31 15 0.36
32 26 0.62
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (31 bp):
TGTATCGATACATTCTGAGTTTTGACCCAAA
Found at i:5608074 original size:79 final size:79
Alignment explanation
Indices: 5607991--5608682 Score: 667
Period size: 79 Copynumber: 8.8 Consensus size: 79
5607981 ATTCATGTTT
* * *
5607991 TTATTTCTGAAGGGATACTCCAACTCCGGTTTTATTTTCAAAACATCAATTTTTCATAATCGAGG
1 TTATTTCTGAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCGGGG
5608056 ATACTCCAACCCCG
66 ATACTCCAACCCCG
* * *
5608070 TTATTTCCCTG--GGGATGCTCCAACCCC-AGTTTTATCTTCAAAACA-CTAATTTTTCACAATC
1 TTATTT--CTGAAGGGATACTCCAACCCCGA-TTTTATTTTCAAAACATC-AATTTTTCATAATC
*
5608131 GGGGATACTCCAATCCCG
62 GGGGATACTCCAACCCCG
* ** * * *
5608149 TTATTTCTG-AGAAGATACTATAACCCCGGTTTTATTTCCCAAATAC-T-AATTTTTTATAATCG
1 TTATTTCTGAAG-GGATACTCCAACCCCGATTTTATTT-TCAAA-ACATCAATTTTTCATAATCG
* * *
5608211 GAGATATTCCAACCTCG
63 GGGATACTCCAACCCCG
* * *
5608228 TTATTT-TCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGG
1 TTATTTCT-GAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCGGG
* * *
5608292 GATATTCTAACCCTG
65 GATACTCCAACCCCG
* * * * *
5608307 TTATTTCTGAGGGGATACTTCAACCCCGATTTTA-TTTCTAAAATATCAAATTTTCACAATCGGG
1 TTATTTCTGAAGGGATACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTTCATAATCGGG
* *
5608371 GATACTTCAACCCCA
65 GATACTCCAACCCCG
* * *
5608386 TTATTT-TCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGG
1 TTATTTCT-GAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCGGG
*
5608450 GATACTCCAACCCAG
65 GATACTCCAACCCCG
* * * * * *
5608465 TTATTTCTG-AGGGAATACTCTAACCTCGATTTTA-TTTCTAAAATATCGACTTTTCACAATCGG
1 TTATTTCTGAAGGG-ATACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTTCATAATCGG
* * **
5608528 AGATACTCTAACCCTA
64 GGATACTCCAACCCCG
* *
5608544 TTATTT-TCG-AGAGGATACTCTAACCCCGATTTTATTTTTAAAACATCAATTTTTCATAATCGG
1 TTATTTCT-GAAG-GGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCGG
* *
5608607 GGATATTCCAACCTCG
64 GGATACTCCAACCCCG
* * * * * *
5608623 TTATTTCCGAGGGGATACTCTAACCCTGATTTTA-TTTCTAAAATATCGATTTTTCATAAT
1 TTATTTCTGAAGGGATACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTTCATAAT
5608683 TGTTATCACG
Statistics
Matches: 508, Mismatches: 78, Indels: 54
0.79 0.12 0.08
Matches are distributed among these distances:
77 5 0.01
78 22 0.04
79 460 0.91
80 16 0.03
81 5 0.01
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (79 bp):
TTATTTCTGAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCGGGG
ATACTCCAACCCCG
Found at i:5608209 original size:158 final size:158
Alignment explanation
Indices: 5607991--5608678 Score: 827
Period size: 158 Copynumber: 4.4 Consensus size: 158
5607981 ATTCATGTTT
* * * * * *
5607991 TTATTTCTGAAGGGATACTCCAACTCCGGTTTTATTT-TCAAAACATCAATTTTTCATAATC-GA
1 TTATTTCTGAGGGGATACTCTAACCCCGATTTTATTTCT-AAAATATCAATTTTTCACAATCGGA
* * ** *
5608054 GGATACTCCAACCCCGTTATTTCCCTGGGGATGCTCCAACCCC-AGTTTTATCTT-CAAAACA-C
65 -GATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGA-TTTTAT-TTCCAAAACATC
5608116 TAATTTTTCACAATCGGGGATACTCCAATCCC-G
127 -AATTTTTCACAATCGGGGATACTCCAA-CCCAG
** * * ** * *
5608149 TTATTTCTGAGAAGATACTATAACCCCGGTTTTATTTCCCAAATA-CTAATTTTTTATAATCGGA
1 TTATTTCTGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATATC-AATTTTTCACAATCGGA
* * * *
5608213 GATATTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAAT
65 GATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAAT
* * * *
5608278 TTTTCATAATCGGGGATATTCTAACCCTG
130 TTTTCACAATCGGGGATACTCCAACCCAG
* *
5608307 TTATTTCTGAGGGGATACT-TCAACCCCGATTTTATTTCTAAAATATCAAATTTTCACAATCGGG
1 TTATTTCTGAGGGGATACTCT-AACCCCGATTTTATTTCTAAAATATCAATTTTTCACAATCGGA
*
5608371 GATACTTCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAAT
65 GATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAAT
5608436 TTTTCACAATCGGGGATACTCCAACCCAG
130 TTTTCACAATCGGGGATACTCCAACCCAG
* * * *
5608465 TTATTTCTGAGGGAATACTCTAACCTCGATTTTATTTCTAAAATATCGACTTTTCACAATCGGAG
1 TTATTTCTGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATATCAATTTTTCACAATCGGAG
* * * * **
5608530 ATACTCTAACCCTATTATTTTCGAGAGGATACTCTAACCCCGATTTTATTTTTAAAACATCAATT
66 ATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATT
* *
5608595 TTTCATAATCGGGGATATTCCAACCTC-G
131 TTTCACAATCGGGGATACTCCAACC-CAG
* * *
5608623 TTATTTCCGAGGGGATACTCTAACCCTGATTTTATTTCTAAAATATCGATTTTTCA
1 TTATTTCTGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATATCAATTTTTCA
5608679 TAATTGTTAT
Statistics
Matches: 463, Mismatches: 56, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
157 7 0.02
158 449 0.97
159 7 0.02
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (158 bp):
TTATTTCTGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATATCAATTTTTCACAATCGGAG
ATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATT
TTTCACAATCGGGGATACTCCAACCCAG
Found at i:5608421 original size:237 final size:238
Alignment explanation
Indices: 5607991--5608678 Score: 772
Period size: 237 Copynumber: 2.9 Consensus size: 238
5607981 ATTCATGTTT
* * * * *
5607991 TTATTTCTGAAGGGATACTCCAACTCCGGTTTTATTTTCAAAACATCAATTTTTCATAATCGAGG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGG
* * *** * *
5608056 ATACTCCAACCCCGTTATTTCCCTGGGGATGCTCCAACCCC-AGTTTTATCTTC-AAAACA-CTA
66 ATACTCTAACCCTGTTATTTCTGAGGGGATACTTCAACCCCGA-TTTTAT-TTCTAAAACATC-A
* * ** * *
5608118 ATTTTTCACAATCGGGGATACTCCAATCCCGTTA-TTTCTGAGAAGATACTATAACCCCGGTTTT
128 ATTTTTCACAATCGGGGATACTTCAACCCCGTTATTTTC-GAGGGGATACTCTAACCCCGATTTT
* * *
5608182 ATTTCCCAAATAC-T-AATTTTTTATAATCGGAGATATTCCAACCTC-G
192 ATTTCCCAAA-ACATCAATTTTTCACAATCGGAGATACTCCAACC-CAG
*
5608228 TTATTT-TCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGG
1 TTATTTCT-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGG
* * *
5608292 GATATTCTAACCCTGTTATTTCTGAGGGGATACTTCAACCCCGATTTTATTTCTAAAATATCAAA
65 GATACTCTAACCCTGTTATTTCTGAGGGGATACTTCAACCCCGATTTTATTTCTAAAACATCAAT
* *
5608357 TTTTCACAATCGGGGATACTTCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATT
130 TTTTCACAATCGGGGATACTTCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATT
*
5608422 T-CCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCAG
195 TCCCAAAACATCAATTTTTCACAATCGGAGATACTCCAACCCAG
* * * * * * * * *
5608465 TTATTTCTGAGGGAATACTCTAACCTCGATTTTATTTCTAAAATATCGACTTTTCACAATCGGAG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGG
* * *
5608530 ATACTCTAACCCTATTATTT-TCGAGAGGATAC-TCTAACCCCGATTTTATTTTTAAAACATCAA
66 ATACTCTAACCCTGTTATTTCT-GAGGGGATACTTC-AACCCCGATTTTATTTCTAAAACATCAA
* * * *
5608593 TTTTTCATAATCGGGGATA-TTCCAACCTCGTTATTTCCGAGGGGATACTCTAACCCTGATTTTA
129 TTTTTCACAATCGGGGATACTT-CAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTA
* * *
5608657 TTT-CTAAAATATCGATTTTTCA
193 TTTCCCAAAACATCAATTTTTCA
5608679 TAATTGTTAT
Statistics
Matches: 386, Mismatches: 53, Indels: 24
0.83 0.11 0.05
Matches are distributed among these distances:
235 2 0.01
236 16 0.04
237 361 0.94
238 7 0.02
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (238 bp):
TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGG
ATACTCTAACCCTGTTATTTCTGAGGGGATACTTCAACCCCGATTTTATTTCTAAAACATCAATT
TTTCACAATCGGGGATACTTCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTT
CCCAAAACATCAATTTTTCACAATCGGAGATACTCCAACCCAG
Found at i:5611776 original size:11 final size:10
Alignment explanation
Indices: 5611750--5611774 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5611740 TCTTTGAGGG
5611750 AAAAATATCA
1 AAAAATATCA
5611760 AAAAATATCA
1 AAAAATATCA
5611770 AAAAA
1 AAAAA
5611775 ATTGTTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATATCA
Found at i:5613522 original size:13 final size:13
Alignment explanation
Indices: 5613475--5613504 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
5613465 GTAAACCCAG
5613475 AATGTATCGATAC
1 AATGTATCGATAC
5613488 AATGTATCGATAC
1 AATGTATCGATAC
5613501 AATG
1 AATG
5613505 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:5615056 original size:20 final size:19
Alignment explanation
Indices: 5615011--5615062 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
5615001 CATTTCAAGC
5615011 ATGTATCGATACATTCACT
1 ATGTATCGATACATTCACT
5615030 ATGTATCGATACA-TCACCT
1 ATGTATCGATACATTCA-CT
5615049 ATTGTATCGATACA
1 A-TGTATCGATACA
5615063 AGTTGTAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.10
19 16 0.52
20 12 0.39
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACATTCACT
Found at i:5620196 original size:4 final size:4
Alignment explanation
Indices: 5620189--5620246 Score: 50
Period size: 4 Copynumber: 15.0 Consensus size: 4
5620179 CCTTTTTGTC
* * *
5620189 CTTT CTTT -TTT TTCTT CTTT CTTT CTTT CTTT CTTT CGTT -TTA CTTT
1 CTTT CTTT CTTT CT-TT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
*
5620236 ATTT -TTT CTTT
1 CTTT CTTT CTTT
5620247 TTTTTCTTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
3 7 0.16
4 34 0.77
5 3 0.07
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:5620222 original size:16 final size:15
Alignment explanation
Indices: 5620165--5620251 Score: 52
Period size: 16 Copynumber: 5.3 Consensus size: 15
5620155 TCACAAGCTA
*
5620165 TTTTTCTTTTTTTTCCT
1 TTTTTC-TTTCTTT-CT
*
5620182 TTTTGTCCTTTCTTTTT
1 TTTT-T-CTTTCTTTCT
5620199 TTTCTTCTTTCTTTCT
1 TTT-TTCTTTCTTTCT
5620215 TTCTTTCTTTCGTTTTACT
1 TT-TTTCTTTC--TTT-CT
5620234 TTATTT-TTTCTTT-T
1 TT-TTTCTTTCTTTCT
5620248 TTTT
1 TTTT
5620252 CTTCCCCAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
13 2 0.03
14 3 0.05
16 21 0.36
17 10 0.17
18 15 0.25
19 8 0.14
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTCTTTCTTTCT
Found at i:5622840 original size:6 final size:6
Alignment explanation
Indices: 5622829--5622855 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5622819 TCAACCCCTA
5622829 CCATCT CCATCT CCATCT CCATCT CCA
1 CCATCT CCATCT CCATCT CCATCT CCA
5622856 CCTTCACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.52, G:0.00, T:0.30
Consensus pattern (6 bp):
CCATCT
Found at i:5624797 original size:55 final size:55
Alignment explanation
Indices: 5624713--5624823 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
5624703 AACGAAAAAA
*
5624713 AAAAAATTTTATGCACAATTTATTAAATTGAAATGTAAAAATAGTAAGGGCAAAT
1 AAAAAATTTTATGCACAATTAATTAAATTGAAATGTAAAAATAGTAAGGGCAAAT
5624768 AAAAAATTTTATGCACAATTAATTAAATTGAAATGTAAAAATAGTAAGGGCAAAT
1 AAAAAATTTTATGCACAATTAATTAAATTGAAATGTAAAAATAGTAAGGGCAAAT
5624823 A
1 A
5624824 GTCATAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (55 bp):
AAAAAATTTTATGCACAATTAATTAAATTGAAATGTAAAAATAGTAAGGGCAAAT
Found at i:5625105 original size:21 final size:21
Alignment explanation
Indices: 5625081--5625122 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5625071 TTAAATGATG
*
5625081 CATTGGTTGGATGAAAGAATA
1 CATTGGTTGGATGAAAAAATA
**
5625102 CATTTTTTGGATGAAAAAATA
1 CATTGGTTGGATGAAAAAATA
5625123 TAACTTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (21 bp):
CATTGGTTGGATGAAAAAATA
Found at i:5625130 original size:21 final size:21
Alignment explanation
Indices: 5625087--5625130 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
5625077 GATGCATTGG
* **
5625087 TTGGATGAAAGAATACATTTT
1 TTGGATGAAAAAATACAACTT
*
5625108 TTGGATGAAAAAATATAACTT
1 TTGGATGAAAAAATACAACTT
5625129 TT
1 TT
5625131 ATAACCAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.39
Consensus pattern (21 bp):
TTGGATGAAAAAATACAACTT
Found at i:5630558 original size:2 final size:2
Alignment explanation
Indices: 5630551--5630589 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5630541 ATTTGTGGAC
5630551 AT 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 AT A
5630590 AATAGACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5631253 original size:36 final size:36
Alignment explanation
Indices: 5631206--5631280 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
5631196 AAAAAAATAA
* *
5631206 TAATAACCTTAAGAGGCAGTTTTGACCCTTTTTATT
1 TAATAACCTTAAAAGACAGTTTTGACCCTTTTTATT
* * *
5631242 TAATAACCTTAAAAGATATTTTTGACCCTTTTTTTT
1 TAATAACCTTAAAAGACAGTTTTGACCCTTTTTATT
5631278 TAA
1 TAA
5631281 GAATTAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (36 bp):
TAATAACCTTAAAAGACAGTTTTGACCCTTTTTATT
Found at i:5634854 original size:23 final size:23
Alignment explanation
Indices: 5634828--5634872 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
5634818 AACATAGTTT
5634828 TTTTCGTATAAAACTATAAAAAC
1 TTTTCGTATAAAACTATAAAAAC
** * *
5634851 TTTTTTTATTAAATTATAAAAA
1 TTTTCGTATAAAACTATAAAAA
5634873 TATAAATATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTTCGTATAAAACTATAAAAAC
Found at i:5648073 original size:19 final size:17
Alignment explanation
Indices: 5648025--5648096 Score: 87
Period size: 17 Copynumber: 4.4 Consensus size: 17
5648015 ATATTAAAAT
5648025 TTATATAATATAAATTA
1 TTATATAATATAAATTA
5648042 TTATATAATATAAATTA
1 TTATATAATATAAATTA
*
5648059 TTATATAA-ATAATAATA
1 TTATATAATATAA-ATTA
*
5648076 TTTTA-AATA-AAATTA
1 TTATATAATATAAATTA
*
5648091 TAATAT
1 TTATAT
5648097 CTGAAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
15 6 0.13
16 8 0.17
17 33 0.70
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTATATAATATAAATTA
Found at i:5648076 original size:29 final size:31
Alignment explanation
Indices: 5647996--5648076 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 31
5647986 TATAAAATAA
* *
5647996 ATAAAATAAATATATCAATATATTAAAATTTAT
1 ATAATATAAATA-AT-AATATAATAAAATTTAT
* *
5648029 ATAATATAAATTATTATATAATATAAA-TTAT
1 ATAATATAAATAATAATATAATA-AAATTTAT
5648060 -T-ATATAAATAATAATAT
1 ATAATATAAATAATAATAT
5648077 TTTAAATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 14 0.34
30 1 0.02
31 11 0.27
32 5 0.12
33 10 0.24
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (31 bp):
ATAATATAAATAATAATATAATAAAATTTAT
Found at i:5648107 original size:20 final size:20
Alignment explanation
Indices: 5648065--5648109 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5648055 ATTATTATAT
* * *
5648065 AAATAATAATATTTTAAATA
1 AAATAATAATATCTGAAAAA
*
5648085 AAATTATAATATCTGAAAAA
1 AAATAATAATATCTGAAAAA
5648105 AAATA
1 AAATA
5648110 CATTACTGTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATAATAATATCTGAAAAA
Found at i:5650447 original size:21 final size:19
Alignment explanation
Indices: 5650407--5650461 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
5650397 GATGTATGTC
5650407 TCTTCATTTCCTTTTTTTTTT
1 TCTT-ATTT-CTTTTTTTTTT
5650428 TCTTATTTCTTATTTATTTTT
1 TCTTATTTCTT-TTT-TTTTT
* *
5650449 TCATATATCTTTT
1 TCTTATTTCTTTT
5650462 ATCCCTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.10
20 9 0.30
21 18 0.60
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTATTTCTTTTTTTTTT
Found at i:5655283 original size:2 final size:2
Alignment explanation
Indices: 5655276--5655322 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
5655266 AGTCATTTTA
5655276 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
5655318 AT AT A
1 AT AT A
5655323 CACACACACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5656903 original size:2 final size:2
Alignment explanation
Indices: 5656898--5656924 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5656888 GTCGACACAC
5656898 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
5656925 AAGAAACAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5656957 original size:16 final size:16
Alignment explanation
Indices: 5656936--5656971 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
5656926 AGAAACAGTA
5656936 ACAAGGACAAAGTCGC
1 ACAAGGACAAAGTCGC
5656952 ACAAGGACAAAGTCGC
1 ACAAGGACAAAGTCGC
5656968 ACAA
1 ACAA
5656972 AAATATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.25, G:0.22, T:0.06
Consensus pattern (16 bp):
ACAAGGACAAAGTCGC
Found at i:5658115 original size:2 final size:2
Alignment explanation
Indices: 5658110--5658144 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5658100 GTGTGATTAC
5658110 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 A
5658145 CTTAGATGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5734755 original size:16 final size:16
Alignment explanation
Indices: 5734734--5734766 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5734724 ATCGAGATGA
5734734 ATTGTTCGCTCGATTT
1 ATTGTTCGCTCGATTT
5734750 ATTGTTCGCTCGATTT
1 ATTGTTCGCTCGATTT
5734766 A
1 A
5734767 ACCCTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.48
Consensus pattern (16 bp):
ATTGTTCGCTCGATTT
Found at i:5736060 original size:16 final size:15
Alignment explanation
Indices: 5736034--5736064 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
5736024 AGATAAAAGA
5736034 ATTTTTTATTATTTT
1 ATTTTTTATTATTTT
5736049 ATTTTGTTATTATTTT
1 ATTTT-TTATTATTTT
5736065 TTATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
ATTTTTTATTATTTT
Found at i:5737200 original size:51 final size:51
Alignment explanation
Indices: 5737130--5737587 Score: 582
Period size: 51 Copynumber: 9.3 Consensus size: 51
5737120 TCATCTTCTT
* * *
5737130 TTTTTCTTTATTT-ATTCCATCATGCTTCCTTTTATTATTCATGCTTTTTC
1 TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
5737180 TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
1 TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
** * *
5737231 TTTTTTGTTATTTCATTCCATCATACTACATTTTATTATTCA------TAC
1 TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
5737276 ---TT--TTATTTCATTCCATCATGCTACATTTTATTATTCATG------C
1 TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
5737316 --TTT--TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
1 TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
*
5737363 TTTTTTATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
1 TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
*
5737414 TTTTTTATTTCATTCCATCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
1 TTTTTCA-TT-ATT---TCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
5737470 TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
1 TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
**
5737521 TTTTTTTTTTTTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
1 ---TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
*
5737575 TTTTTTATTATTT
1 TTTTTCATTATTT
5737588 TTTTGATTGA
Statistics
Matches: 374, Mismatches: 12, Indels: 43
0.87 0.03 0.10
Matches are distributed among these distances:
40 35 0.09
41 39 0.10
42 2 0.01
45 2 0.01
47 1 0.00
49 3 0.01
50 12 0.03
51 176 0.47
52 2 0.01
53 3 0.01
54 52 0.14
55 2 0.01
56 45 0.12
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.59
Consensus pattern (51 bp):
TTTTTCATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC
Found at i:5737236 original size:23 final size:23
Alignment explanation
Indices: 5737159--5737242 Score: 60
Period size: 23 Copynumber: 3.4 Consensus size: 23
5737149 TCATGCTTCC
5737159 TTTTATTATTCATGCTTTTTCTT
1 TTTTATTATTCATGCTTTTTCTT
* * ** * *
5737182 TTTCATTATTTCATTCCATCATGCTACA
1 TTTTATTA-TTCA-TGC-TTTTTCT--T
5737210 TTTTATTATTCATGCTTTTTCTT
1 TTTTATTATTCATGCTTTTTCTT
*
5737233 TTTTGTTATT
1 TTTTATTATT
5737243 TCATTCCATC
Statistics
Matches: 43, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
23 16 0.37
24 4 0.09
25 6 0.14
26 6 0.14
27 4 0.09
28 7 0.16
ACGTcount: A:0.17, C:0.15, G:0.05, T:0.63
Consensus pattern (23 bp):
TTTTATTATTCATGCTTTTTCTT
Found at i:5737275 original size:19 final size:19
Alignment explanation
Indices: 5737251--5737313 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
5737241 TTTCATTCCA
5737251 TCATACTACATTTTATTAT
1 TCATACTACATTTTATTAT
** *
5737270 TCATACTTTTATTTCATTCCA-
1 TCATAC-TACATTTTATT--AT
*
5737291 TCATGCTACATTTTATTAT
1 TCATACTACATTTTATTAT
5737310 TCAT
1 TCAT
5737314 GCTTTTTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
18 1 0.03
19 10 0.30
20 16 0.48
21 5 0.15
22 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (19 bp):
TCATACTACATTTTATTAT
Found at i:5737333 original size:41 final size:41
Alignment explanation
Indices: 5737238--5737412 Score: 235
Period size: 41 Copynumber: 4.0 Consensus size: 41
5737228 TTCTTTTTTG
* *
5737238 TTATTTCATTCCATCATACTACATTTTATTATTCATAC-TT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
5737278 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
5737319 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATG------C---TTT
5737369 ATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
1 -TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
5737411 TT
1 TT
5737413 CTTTTTTATT
Statistics
Matches: 122, Mismatches: 2, Indels: 21
0.84 0.01 0.14
Matches are distributed among these distances:
40 36 0.30
41 41 0.34
42 3 0.02
45 1 0.01
47 1 0.01
50 3 0.02
51 37 0.30
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.55
Consensus pattern (41 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
Found at i:5737336 original size:22 final size:22
Alignment explanation
Indices: 5737276--5737338 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 22
5737266 TTATTCATAC
5737276 TTTTATTTCATTCCATCATGC-
1 TTTTATTTCATTCCATCATGCT
** *
5737297 -TACATTTTATT--ATTCATGCT
1 TTTTATTTCATTCCA-TCATGCT
5737317 TTTTATTTCATTCCATCATGCT
1 TTTTATTTCATTCCATCATGCT
5737339 ACATTTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 9
0.67 0.13 0.20
Matches are distributed among these distances:
18 1 0.03
19 6 0.19
20 8 0.26
21 8 0.26
22 7 0.23
23 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.54
Consensus pattern (22 bp):
TTTTATTTCATTCCATCATGCT
Found at i:5737337 original size:132 final size:137
Alignment explanation
Indices: 5737143--5737572 Score: 483
Period size: 132 Copynumber: 2.9 Consensus size: 137
5737133 TTCTTTATTT
* *
5737143 ATTCCATCATGCTTCCTTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCATCATGCTA
1 ATTCCATCATGCTACATTTTATTATTCATG-----TC-TTTT-ATTATTTCATTCCATCATGCTA
* *
5737208 CATTTTATTATTCATGCTTTTTCTTTTTTGTTATTTCATTCCATCATACTACATTTTATTATTCA
59 CATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATTATTCA
5737273 TACTTTT-ATT-TC
124 TACTTTTCATTCTC
5737285 ATTCCATCATGCTACATTTTATTATTCATG-C-TTT-TTATTTCATTCCATCATGCTACATTTTA
1 ATTCCATCATGCTACATTTTATTATTCATGTCTTTTATTATTTCATTCCATCATGCTACATTTTA
5737347 TTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTT
66 TTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATTATTCA------T
*
5737412 TCTTTTTTATTTCATTCCATC
125 AC-----T-TTTCATT-C-TC
5737433 ATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCATCATGCTA
1 ATTCCATCATGCTACATTTTATTATTCATG-----TC-TTTT-ATTATTTCATTCCATCATGCTA
*
5737498 CATTTTATTATTCATGCTTTTTCTTTTTTTTTTTTATTTCATTCCATCATGCTACATTTTATTAT
59 CATTTTATTATTCATGCTTTTTC---TTTTTTATTATTTCATTCCATCATGCTACATTTTATTAT
*
5737563 TCATGCTTTT
121 TCATACTTTT
5737573 TCTTTTTTAT
Statistics
Matches: 252, Mismatches: 7, Indels: 51
0.81 0.02 0.16
Matches are distributed among these distances:
132 84 0.33
134 3 0.01
136 1 0.00
138 2 0.01
142 28 0.11
143 1 0.00
144 3 0.01
145 3 0.01
148 32 0.13
149 3 0.01
150 1 0.00
154 1 0.00
155 2 0.01
156 3 0.01
158 44 0.17
161 41 0.16
ACGTcount: A:0.20, C:0.19, G:0.04, T:0.57
Consensus pattern (137 bp):
ATTCCATCATGCTACATTTTATTATTCATGTCTTTTATTATTTCATTCCATCATGCTACATTTTA
TTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATTATTCATACTTTT
CATTCTC
Found at i:5737368 original size:23 final size:23
Alignment explanation
Indices: 5737342--5737422 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
5737332 TCATGCTACA
5737342 TTTTATTATTCATGCTTTTTCTT
1 TTTTATTATTCATGCTTTTTCTT
* ** * *
5737365 TTTTATTATTTCATTCCATCATGCTACA
1 TTTTATTA-TTCA-TGC-TTTTTCT--T
5737393 TTTTATTATTCATGCTTTTTCTT
1 TTTTATTATTCATGCTTTTTCTT
5737416 TTTTATT
1 TTTTATT
5737423 TCATTCCATC
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
23 15 0.35
24 4 0.09
25 6 0.14
26 6 0.14
27 4 0.09
28 8 0.19
ACGTcount: A:0.17, C:0.15, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTTATTATTCATGCTTTTTCTT
Found at i:5737437 original size:107 final size:105
Alignment explanation
Indices: 5737321--5737587 Score: 473
Period size: 107 Copynumber: 2.5 Consensus size: 105
5737311 CATGCTTTTT
5737321 ATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCA
1 ATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCA
5737386 TGCTACATTTTATTATTCATGCTTTTTC-TTTTTTATTTC
66 TGCTACATTTTATTATTCATGCTTTTTCTTTTTTTATTTC
*
5737425 ATTCCATCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCA
1 ATT---TCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCA
* *
5737490 TCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTTTTTTT
63 TCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTTATTTC
5737533 ATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTT
1 ATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTT
5737588 TTTTGATTGA
Statistics
Matches: 155, Mismatches: 4, Indels: 7
0.93 0.02 0.04
Matches are distributed among these distances:
104 3 0.02
105 51 0.33
107 89 0.57
108 12 0.08
ACGTcount: A:0.19, C:0.18, G:0.04, T:0.59
Consensus pattern (105 bp):
ATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCA
TGCTACATTTTATTATTCATGCTTTTTCTTTTTTTATTTC
Found at i:5737506 original size:183 final size:180
Alignment explanation
Indices: 5737136--5737510 Score: 499
Period size: 183 Copynumber: 2.1 Consensus size: 180
5737126 TCTTTTTTTC
* *
5737136 TTTATTTATTCCATCATGCTTCCTTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCAT
1 TTTATTTATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCAT
5737201 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTGTTATTTCATTCCATCATACTACATTTTA
66 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTGTTATTTCATTCCATCATACTACATTTTA
** * * * *
5737266 TTATTCATACTTTTATTTCATTCCATCATGCTACATTTTATTATTCATGCTT
131 TTATTCATACTTTTATTT-ATTCCATCAT-CTACATTCCATCATGCATACAT
*
5737318 TTTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCA
1 TTTATTT-ATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCA
* *
5737383 TCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTTCATTCCATCATTCCATCATGCTAC
65 TCATGCTACATTTTATTATTCATGCTTTTTCTTTTTT-GTT-ATT---TCATTCCATCATACTAC
* * * *
5737448 ATTTTATTATTCATGCTTTT-TCTT-TTTCATTAT-TTCATTCCATCATGC-TACAT
125 ATTTTATTATTCATACTTTTAT-TTATTCCATCATCTACATTCCATCATGCATACAT
5737501 TTTA-TTATTC
1 TTTATTTATTC
5737511 ATGCTTTTTC
Statistics
Matches: 171, Mismatches: 15, Indels: 15
0.85 0.07 0.07
Matches are distributed among these distances:
181 4 0.02
182 9 0.05
183 98 0.57
184 12 0.07
185 3 0.02
186 7 0.04
187 1 0.01
188 37 0.22
ACGTcount: A:0.20, C:0.19, G:0.04, T:0.57
Consensus pattern (180 bp):
TTTATTTATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCATTATTTCATTCCAT
CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTGTTATTTCATTCCATCATACTACATTTTA
TTATTCATACTTTTATTTATTCCATCATCTACATTCCATCATGCATACAT
Found at i:5738174 original size:42 final size:42
Alignment explanation
Indices: 5738117--5738945 Score: 669
Period size: 42 Copynumber: 19.7 Consensus size: 42
5738107 TATTCTCCCA
* * *
5738117 GGTCAAAACCAACAGGCAGACTTAGGGAAAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAGTCTCCAG
* * * * *
5738160 GGTGAAA-CTGACAGGCAGACTAAGGGATGAAAAGCCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
*
5738201 GGTCAAAGCCGACAGGTAGACTAAGGGAAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
*
5738243 GGTCAAAACCGACAGGCAGACTAAGGGATAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGA-AGAAAAGTCTCCAG
** * *
5738286 GGTGGAA-CCAACAGGCAGACTAAGGGATGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * *
5738327 GGTCAAAGCCAATAGGCAGACTGAGGGAAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* *
5738369 GGTCAAAGCCGGCAGGCAGAATAAGGGAAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * *
5738411 GGTCAAAGCCGACAGGCAGACTAAGGGTAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * *
5738453 GGTCAAAGCTGACACGCAGACTAAGGGAAGAAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * * ** **
5738495 GGTCAAAGACGACATGCAAACTTTAAATG-AG-GCAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCCAG
** * * * * * *
5738537 GAACGAAGTCGACAGGTAGATTGAAGGGTAGGAAAA-TCTCCAA
1 GGTCAAAGCCGACAGGCAGACT-AAGGG-AAGAAAAGTCTCCAG
* * * *
5738580 GGTCAAAGCCGACAGGCAGACTTTA--GATGAAGTAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGAC-TAAGGGAAGAA-AAGTCTCCAG
* * * *
5738622 GGTCAAAGCCGAAAGGCATACTAAGGGAAGAAAAGTCACTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* *
5738664 GGTTAAAACCGACAGGCAGACTAAGGGATAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGA-AGAAAAGTCTCCAG
* ** ** *
5738707 GGTCAAAGCCGACAGGCAGATTTTAAATG-AG-GTAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGA--CTAAGGGAAGAAAAGTCTCCAG
* * * * *
5738749 GGTCAAAGCCGACAAGCAGACTGAGAGGAAGGAAAGTCTCTAA
1 GGTCAAAGCCGACAGGCAGACTAAG-GGAAGAAAAGTCTCCAG
* ** ** ** **
5738792 GGTTAAA-CTAACAGGCAGACTTTAA-ATAAG-GCAGTCTTTAG
1 GGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCCAG
* * * * *
5738833 GATCAAAGTCGACAGGCAGACTGAGGGAAAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAGTCTCCAG
* * * *
5738876 GGTCAAAACCGACAAGTAGACTAA-GGAAAAGAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGA-AAAGTCTCCAG
* * * *
5738918 GGTTAAA-CCGATAGGCAAACTGAGGGAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGAA
5738946 AACAGAAAAG
Statistics
Matches: 619, Mismatches: 139, Indels: 57
0.76 0.17 0.07
Matches are distributed among these distances:
40 9 0.01
41 69 0.11
42 402 0.65
43 127 0.21
44 8 0.01
45 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.29, T:0.14
Consensus pattern (42 bp):
GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
Found at i:5740939 original size:20 final size:20
Alignment explanation
Indices: 5740906--5740946 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
5740896 ACAAAGGTCA
5740906 AAACCCTCAAATGTATCGAT
1 AAACCCTCAAATGTATCGAT
* *
5740926 AAACCTTCAGATGTATCGAT
1 AAACCCTCAAATGTATCGAT
5740946 A
1 A
5740947 CATAATGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (20 bp):
AAACCCTCAAATGTATCGAT
Found at i:5740976 original size:13 final size:13
Alignment explanation
Indices: 5740958--5740982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5740948 ATAATGCACA
5740958 GTATCGATACATT
1 GTATCGATACATT
5740971 GTATCGATACAT
1 GTATCGATACAT
5740983 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:5740979 original size:33 final size:32
Alignment explanation
Indices: 5740937--5740999 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
5740927 AACCTTCAGA
*
5740937 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
5740970 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
5741000 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:5741076 original size:19 final size:20
Alignment explanation
Indices: 5741052--5741103 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
5741042 CTTAACTGTT
* *
5741052 TGTATCGATACAT-ACGAGA
1 TGTATCGATACATGACCAAA
5741071 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
5741091 TGTATCGATACAT
1 TGTATCGATACAT
5741104 TGGCTTGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:5745661 original size:13 final size:13
Alignment explanation
Indices: 5745643--5745669 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5745633 ACAAAGATCA
5745643 AATGTATCGATAC
1 AATGTATCGATAC
5745656 AATGTATCGATAC
1 AATGTATCGATAC
5745669 A
1 A
5745670 TTGAGTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:5745745 original size:19 final size:19
Alignment explanation
Indices: 5745721--5745785 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
5745711 AGCGATATAT
5745721 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
5745740 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
5745753 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
5745772 TGTATCGATACAAA
1 TGTATCGATACAAA
5745786 TTGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:5745755 original size:32 final size:32
Alignment explanation
Indices: 5745713--5745783 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
5745703 AGCTTCGTAG
*
5745713 CGATATATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
5745745 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
5745777 CGATACA
1 CGATACA
5745784 AATTGTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:5745758 original size:13 final size:13
Alignment explanation
Indices: 5745740--5745764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5745730 ACAAAACTTA
5745740 TGTATCGATACAT
1 TGTATCGATACAT
5745753 TGTATCGATACA
1 TGTATCGATACA
5745765 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5754218 original size:16 final size:16
Alignment explanation
Indices: 5754193--5754224 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5754183 TAGATAAAAA
*
5754193 ATTTTTTTATTATTTT
1 ATTTTGTTATTATTTT
5754209 ATTTTGTTATTATTTT
1 ATTTTGTTATTATTTT
5754225 TTATTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
ATTTTGTTATTATTTT
Found at i:5755357 original size:51 final size:51
Alignment explanation
Indices: 5755290--5755754 Score: 755
Period size: 51 Copynumber: 9.1 Consensus size: 51
5755280 CTGTTTTTCT
* *
5755290 TTATTT-ATTCCATCATGCTTCCTTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
5755340 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
5755391 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
5755442 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTTTT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC--TTTTTTA
5755495 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
* *
5755546 TTATTTCATTCAATCAGGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
5755597 TTTCATTCCATCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCA
1 -TT-ATT---TCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
5755653 TTATTTCATTCCATCATGCTACATTTTATTATTCATGC----T-TTTTTT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
5755698 TTATTTCATTCCATCATGCTACATTTTATTATTCATACTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
5755749 TTATTT
1 TTATTT
5755755 TTTTGATTGA
Statistics
Matches: 390, Mismatches: 11, Indels: 27
0.91 0.03 0.06
Matches are distributed among these distances:
45 37 0.09
46 5 0.01
47 1 0.00
49 1 0.00
50 12 0.03
51 231 0.59
52 2 0.01
53 53 0.14
54 3 0.01
55 2 0.01
56 43 0.11
ACGTcount: A:0.19, C:0.18, G:0.04, T:0.59
Consensus pattern (51 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
Found at i:5755541 original size:155 final size:153
Alignment explanation
Indices: 5755290--5755754 Score: 755
Period size: 155 Copynumber: 3.0 Consensus size: 153
5755280 CTGTTTTTCT
* *
5755290 TTATTT-ATTCCATCATGCTTCCTTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
5755354 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTA
66 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTA
5755419 TTATTCATGCTTTTTCTTTTTTA
131 TTATTCATGCTTTTTCTTTTTTA
*
5755442 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTTTTTTATTTCATTCC
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTC--TTTTTTATTATTTCATTCC
* *
5755507 ATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCAATCAGGCTACATTT
64 ATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTT
5755572 TATTATTCATGCTTTTTCTTTTTTA
129 TATTATTCATGCTTTTTCTTTTTTA
*
5755597 TTTCATTCCATCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTCATTATTTCAT
1 -TT-ATT---TCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCAT
5755662 TCCATCATGCTACATTTTATTATTCATGC----T-TTTTTT-TTATTTCATTCCATCATGCTACA
61 TCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACA
*
5755721 TTTTATTATTCATACTTTTTCTTTTTTA
126 TTTTATTATTCATGCTTTTTCTTTTTTA
5755749 TTATTT
1 TTATTT
5755755 TTTTGATTGA
Statistics
Matches: 295, Mismatches: 10, Indels: 21
0.90 0.03 0.06
Matches are distributed among these distances:
147 1 0.00
150 3 0.01
151 2 0.01
152 54 0.18
153 41 0.14
154 1 0.00
155 106 0.36
156 2 0.01
157 3 0.01
158 43 0.15
160 39 0.13
ACGTcount: A:0.19, C:0.18, G:0.04, T:0.59
Consensus pattern (153 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTA
TTATTCATGCTTTTTCTTTTTTA
Found at i:5755567 original size:104 final size:103
Alignment explanation
Indices: 5755278--5755754 Score: 756
Period size: 104 Copynumber: 4.7 Consensus size: 103
5755268 TTTTATCATC
* * *
5755278 TTCTGTTTTTCTTTATTT-ATTCCATCATGCTTCCTTTTATTATTCATGCTTTTTCTTTTTTATT
1 TTCT-TTTTTTTTTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATT
5755342 ATTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
65 ATTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
*
5755381 TTC-TTTTTTATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTA
1 TTCTTTTTTTTTTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTA
5755445 TTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
66 TTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
5755483 TTCTTTTTTTTTTTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATT
1 TTC-TTTTTTTTTTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATT
* *
5755548 ATTTCATTCAATCAGGCTACATTTTATTATTCATGCTTT
65 ATTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
* *
5755587 TTCTTTTTTATTTCATTCCATCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTC
1 TTCTTTTTT-TTTTATT---TCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTT
5755652 ATTATTTCATTCCATCATGCTACATTTTATTATTCATG----
62 ATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
*
5755690 --C-TTTTTTTTTATTTCATTCCATCATGCTACATTTTATTATTCATACTTTTTCTTTTTTATTA
1 TTCTTTTTTTTTTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTA
5755752 TTT
66 TTT
5755755 TTTTGATTGA
Statistics
Matches: 353, Mismatches: 14, Indels: 21
0.91 0.04 0.05
Matches are distributed among these distances:
96 50 0.14
99 6 0.02
100 5 0.01
101 12 0.03
102 86 0.24
103 9 0.03
104 105 0.30
107 80 0.23
ACGTcount: A:0.19, C:0.18, G:0.04, T:0.59
Consensus pattern (103 bp):
TTCTTTTTTTTTTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTA
TTTCATTCCATCATGCTACATTTTATTATTCATGCTTT
Found at i:5755682 original size:25 final size:25
Alignment explanation
Indices: 5755653--5755727 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
5755643 TTCTTTTTCA
5755653 TTATTTCATTCCATCATGCTACATT
1 TTATTTCATTCCATCATGCTACATT
***
5755678 TTA-TT-A-T---TCATGCTTTTTTT
1 TTATTTCATTCCATCATGC-TACATT
5755698 TTATTTCATTCCATCATGCTACATT
1 TTATTTCATTCCATCATGCTACATT
5755723 TTATT
1 TTATT
5755728 ATTCATACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
19 6 0.16
20 6 0.16
21 2 0.05
22 2 0.05
23 2 0.05
24 2 0.05
25 11 0.30
26 6 0.16
ACGTcount: A:0.21, C:0.19, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATTTCATTCCATCATGCTACATT
Found at i:5755789 original size:41 final size:42
Alignment explanation
Indices: 5755743--5755839 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 42
5755733 TACTTTTTCT
* *
5755743 TTTTTATTATTTTTTTGATTGATT-TT-TTTTGAATTTCTTGA
1 TTTTTATTATTTTATTGAAT-ATTATTATTTTGAATTTCTTGA
* * *
5755784 TTTTTATTATTATATTGAATATTATTATTTTTAATTTTTTGA
1 TTTTTATTATTTTATTGAATATTATTATTTTGAATTTCTTGA
5755826 TTTTT-TTATTTTAT
1 TTTTTATTATTTTAT
5755840 ATCAAAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 3 0.06
41 27 0.56
42 18 0.38
ACGTcount: A:0.22, C:0.01, G:0.06, T:0.71
Consensus pattern (42 bp):
TTTTTATTATTTTATTGAATATTATTATTTTGAATTTCTTGA
Found at i:5757561 original size:33 final size:33
Alignment explanation
Indices: 5757524--5757590 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5757514 TTCAACGATT
5757524 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
5757557 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
5757590 T
1 T
5757591 TTAAGCTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:5757562 original size:13 final size:13
Alignment explanation
Indices: 5757544--5757568 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5757534 CATAAAATGT
5757544 TGTATCGATACAA
1 TGTATCGATACAA
5757557 TGTATCGATACA
1 TGTATCGATACA
5757569 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5757651 original size:13 final size:13
Alignment explanation
Indices: 5757633--5757657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5757623 ATTACTCACA
5757633 TGTATCGATACAT
1 TGTATCGATACAT
5757646 TGTATCGATACA
1 TGTATCGATACA
5757658 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5757794 original size:52 final size:52
Alignment explanation
Indices: 5757666--5757786 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
5757656 CACTGATCTT
*
5757666 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
5757718 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
5757770 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
5757787 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5766076 original size:30 final size:29
Alignment explanation
Indices: 5766017--5766099 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 29
5766007 ATAAAAAAAA
*
5766017 TCCACGACTCAGTGGCAATCTCTTCTCAAAG
1 TCCACGACTCAGTGGC-AT-TTTTCTCAAAG
5766048 TCCACGACTCAGTGGCATTTTGTCTCAAAG
1 TCCACGACTCAGTGGCATTTT-TCTCAAAG
5766078 TCCACGACTCAGTGGCATTTTT
1 TCCACGACTCAGTGGCATTTTT
5766100 TCTTTAAAGC
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
29 3 0.06
30 31 0.62
31 16 0.32
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (29 bp):
TCCACGACTCAGTGGCATTTTTCTCAAAG
Found at i:5766147 original size:33 final size:34
Alignment explanation
Indices: 5766102--5766454 Score: 350
Period size: 34 Copynumber: 10.8 Consensus size: 34
5766092 GCATTTTTTC
* *
5766102 TTTAAAGCCCACAACTCCATGGCACCTTGTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
* *
5766136 TTT-AAGTCCACAACGCCGTGGCA----C--CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
* * * *
5766163 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
* *
5766197 CTTT-AAGTCCACAACTCCGTGGCA----C--CCG
1 -TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
5766225 TTT-AAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
5766257 TTTCAAAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCCT
**
5766291 TTTAAAGCCCACAACTTTGTGGCACCTTCTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
*
5766324 TTTCAAAGCTCACAACTCCGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCCT
** *
5766358 TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTCTTCCT
*
5766394 TTTCAAAGCCCACAACTCCGTGGCACCTT-TTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCCT
*
5766428 TTTAAAGCCCACAACTCTGTGGCACCT
1 TTTAAAGCCCACAACTCCGTGGCACCT
5766455 ACAACTTTGT
Statistics
Matches: 269, Mismatches: 29, Indels: 43
0.79 0.09 0.13
Matches are distributed among these distances:
27 28 0.10
28 18 0.07
31 1 0.00
32 4 0.01
33 90 0.33
34 93 0.35
35 9 0.03
36 6 0.02
37 20 0.07
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
Found at i:5766305 original size:67 final size:66
Alignment explanation
Indices: 5766072--5766598 Score: 401
Period size: 67 Copynumber: 8.2 Consensus size: 66
5766062 GCATTTTGTC
* * * * * * *
5766072 TCAAAGTCCACGACTCAGTGGCATTTTTTC-TTTAAAGCCCACAACTCCATGGCACCTTGTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTT-CT
5766136 TT
65 TT
* * * * *
5766138 T--AAGTCCACAACGCCGTGGCAC--C--CTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TCAAAGCCCACAACTCCGTGGCACTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTC-T
5766197 CTT
65 -TT
* *
5766200 T--AAGTCCACAACTCCGTGGCAC--C--CGTTT-AAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TCAAAGCCCACAACTCCGTGGCACTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
5766258 T
66 T
**
5766259 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACCTTCTTCT
1 TCAAAGCCCACAACTCCGTGGCA-CTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
5766324 TT
65 TT
* ** *
5766326 TCAAAGCTCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 TCAAAGCCCACAACTCCGTGGCA-CTTCTTCTTTTAAAGCCCACAACTCCGTGGCAC-C-TTCTT
5766391 CCTTT
63 -CTTT
* * * **
5766396 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACT
1 TCAAAGCCCACAACTCCGTGGCA-CTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
5766461 TT
65 TT
* * ** *
5766463 GT----G-GCAC-TCT-C-TTTC-C--C-T-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 -TCAAAGCCCACAACTCCGTGGCACTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
5766515 GTT
65 -TT
* * *
5766518 T-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTT
1 TCAAAGCCCACAACTCCGTGGCA--CTTCTT--CTTTT-AAAGCCCACAACTCCGTGGCACCTTC
*
5766582 TTCTTC
61 TTCTTT
5766588 T-AAAGCCCACA
1 TCAAAGCCCACA
5766599 CAAGTCGGTG
Statistics
Matches: 384, Mismatches: 44, Indels: 62
0.78 0.09 0.13
Matches are distributed among these distances:
54 30 0.08
55 3 0.01
57 1 0.00
58 4 0.01
59 5 0.01
60 6 0.02
61 75 0.20
62 31 0.08
63 3 0.01
64 20 0.05
66 5 0.01
67 90 0.23
68 3 0.01
69 5 0.01
70 74 0.19
71 29 0.08
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (66 bp):
TCAAAGCCCACAACTCCGTGGCACTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
T
Found at i:5766505 original size:37 final size:36
Alignment explanation
Indices: 5766463--5766584 Score: 176
Period size: 37 Copynumber: 3.4 Consensus size: 36
5766453 CTACAACTTT
5766463 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCC
1 GTGGCACTCT-TTTCCCTTTTTAAAGCCCACAACTCC
* *
5766500 GTGGCAC-CTTTT-TCTGTTTAAAGCCCACAACTCC
1 GTGGCACTCTTTTCCCTTTTTAAAGCCCACAACTCC
*
5766534 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCC
1 GTGGCACTC-TTTTCCCTTTTTAAAGCCCACAACTCC
*
5766571 GTGGCACTTTTTTC
1 GTGGCACTCTTTTC
5766585 TTCTAAAGCC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
34 27 0.36
35 4 0.05
36 11 0.14
37 34 0.45
ACGTcount: A:0.18, C:0.34, G:0.13, T:0.34
Consensus pattern (36 bp):
GTGGCACTCTTTTCCCTTTTTAAAGCCCACAACTCC
Found at i:5766514 original size:87 final size:88
Alignment explanation
Indices: 5766368--5766540 Score: 303
Period size: 87 Copynumber: 2.0 Consensus size: 88
5766358 TTTAAAGCCC
* *
5766368 ACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
*
5766432 AAGCCCACAACTCTGTGGCACCT
66 AAGCCCACAACTCCGTGGCACCT
*
5766455 ACAACTTTGTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
5766520 AAGCCCACAACTCCGTGGCAC
66 AAGCCCACAACTCCGTGGCAC
5766541 TCTTTTTCCC
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 57 0.70
88 24 0.30
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (88 bp):
ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
AAGCCCACAACTCCGTGGCACCT
Found at i:5766525 original size:34 final size:33
Alignment explanation
Indices: 5766481--5766598 Score: 173
Period size: 34 Copynumber: 3.4 Consensus size: 33
5766471 CTCTTTCCCT
5766481 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
5766514 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
*
5766551 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
*
5766585 TTCTAAAGCCCACA
1 TTTTAAAGCCCACA
5766599 CAAGTCGGTG
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
33 11 0.14
34 29 0.37
35 6 0.08
36 8 0.10
37 24 0.31
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
Found at i:5766560 original size:71 final size:70
Alignment explanation
Indices: 5766463--5766598 Score: 227
Period size: 71 Copynumber: 1.9 Consensus size: 70
5766453 CTACAACTTT
* *
5766463 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC
1 GTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TCTAAAGCCCAC
5766528 AACTCC
65 AACTCC
* *
5766534 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTCTAAAGCCCACA
1 GTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTAAAGCCCACA
5766599 CAAGTCGGTG
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
70 12 0.20
71 49 0.80
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (70 bp):
GTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTAAAGCCCACA
ACTCC
Found at i:5766677 original size:49 final size:49
Alignment explanation
Indices: 5766619--5767000 Score: 494
Period size: 49 Copynumber: 7.7 Consensus size: 49
5766609 GCAACCCTTC
* * * *
5766619 TAAGCCCAATATAGCTGGCCCTAAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
5766668 TAAGTCCAATGTGGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
5766717 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
5766766 TAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCACCGT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
5766815 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
5766864 TAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
5766913 TCAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
5766965 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
5767001 ACATCCTTTT
Statistics
Matches: 282, Mismatches: 48, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
49 243 0.86
51 2 0.01
52 37 0.13
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:5766793 original size:98 final size:98
Alignment explanation
Indices: 5766619--5767000 Score: 593
Period size: 98 Copynumber: 3.9 Consensus size: 98
5766609 GCAACCCTTC
* * * *
5766619 TAAGCCCAATATAGCTGGCCCTAAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTGGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
5766684 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* * *
5766717 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
5766782 GGCCTTGACTCAGCACATTGGCACCTTCACCGT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
*
5766815 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * *
5766880 GGCCTTGACTTAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* * *
5766913 TCAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTA
*
5766978 GCTGGCCTTGAATCAGCACATTG
63 GCTGGCCTTGACTCAGCACATTG
5767001 ACATCCTTTT
Statistics
Matches: 260, Mismatches: 21, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
98 220 0.85
100 2 0.01
101 38 0.15
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCACCAT
Found at i:5767967 original size:33 final size:33
Alignment explanation
Indices: 5767930--5767996 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5767920 TTCAACGATT
5767930 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
5767963 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
5767996 T
1 T
5767997 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:5767968 original size:13 final size:13
Alignment explanation
Indices: 5767950--5767974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5767940 CATAAAATGT
5767950 TGTATCGATACAA
1 TGTATCGATACAA
5767963 TGTATCGATACA
1 TGTATCGATACA
5767975 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5768057 original size:13 final size:13
Alignment explanation
Indices: 5768039--5768063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5768029 ATTACTCACA
5768039 TGTATCGATACAT
1 TGTATCGATACAT
5768052 TGTATCGATACA
1 TGTATCGATACA
5768064 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5768200 original size:52 final size:52
Alignment explanation
Indices: 5768072--5768192 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
5768062 CACTGATCTT
*
5768072 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
5768124 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
5768176 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
5768193 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5776486 original size:30 final size:29
Alignment explanation
Indices: 5776427--5776509 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 29
5776417 ATAAAAAAAA
*
5776427 TCCACGACTCAGTGGCAATCTCTTCTCAAAG
1 TCCACGACTCAGTGGC-AT-TTTTCTCAAAG
5776458 TCCACGACTCAGTGGCATTTTGTCTCAAAG
1 TCCACGACTCAGTGGCATTTT-TCTCAAAG
5776488 TCCACGACTCAGTGGCATTTTT
1 TCCACGACTCAGTGGCATTTTT
5776510 TCTTTAAAGC
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
29 3 0.06
30 31 0.62
31 16 0.32
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (29 bp):
TCCACGACTCAGTGGCATTTTTCTCAAAG
Found at i:5776557 original size:33 final size:34
Alignment explanation
Indices: 5776512--5776864 Score: 350
Period size: 34 Copynumber: 10.8 Consensus size: 34
5776502 GCATTTTTTC
* *
5776512 TTTAAAGCCCACAACTCCATGGCACCTTGTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
* *
5776546 TTT-AAGTCCACAACGCCGTGGCA----C--CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
* * * *
5776573 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
* *
5776607 CTTT-AAGTCCACAACTCCGTGGCA----C--CCG
1 -TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
5776635 TTT-AAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
5776667 TTTCAAAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCCT
**
5776701 TTTAAAGCCCACAACTTTGTGGCACCTTCTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
*
5776734 TTTCAAAGCTCACAACTCCGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCCT
** *
5776768 TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTCTTCCT
*
5776804 TTTCAAAGCCCACAACTCCGTGGCACCTT-TTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCCT
*
5776838 TTTAAAGCCCACAACTCTGTGGCACCT
1 TTTAAAGCCCACAACTCCGTGGCACCT
5776865 ACAACTTTGT
Statistics
Matches: 269, Mismatches: 29, Indels: 43
0.79 0.09 0.13
Matches are distributed among these distances:
27 28 0.10
28 18 0.07
31 1 0.00
32 4 0.01
33 90 0.33
34 93 0.35
35 9 0.03
36 6 0.02
37 20 0.07
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCCT
Found at i:5776715 original size:67 final size:66
Alignment explanation
Indices: 5776482--5777008 Score: 401
Period size: 67 Copynumber: 8.2 Consensus size: 66
5776472 GCATTTTGTC
* * * * * * *
5776482 TCAAAGTCCACGACTCAGTGGCATTTTTTC-TTTAAAGCCCACAACTCCATGGCACCTTGTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTT-CT
5776546 TT
65 TT
* * * * *
5776548 T--AAGTCCACAACGCCGTGGCAC--C--CTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TCAAAGCCCACAACTCCGTGGCACTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTC-T
5776607 CTT
65 -TT
* *
5776610 T--AAGTCCACAACTCCGTGGCAC--C--CGTTT-AAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TCAAAGCCCACAACTCCGTGGCACTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
5776668 T
66 T
**
5776669 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACCTTCTTCT
1 TCAAAGCCCACAACTCCGTGGCA-CTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
5776734 TT
65 TT
* ** *
5776736 TCAAAGCTCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 TCAAAGCCCACAACTCCGTGGCA-CTTCTTCTTTTAAAGCCCACAACTCCGTGGCAC-C-TTCTT
5776801 CCTTT
63 -CTTT
* * * **
5776806 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACT
1 TCAAAGCCCACAACTCCGTGGCA-CTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
5776871 TT
65 TT
* * ** *
5776873 GT----G-GCAC-TCT-C-TTTC-C--C-T-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 -TCAAAGCCCACAACTCCGTGGCACTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
5776925 GTT
65 -TT
* * *
5776928 T-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTT
1 TCAAAGCCCACAACTCCGTGGCA--CTTCTT--CTTTT-AAAGCCCACAACTCCGTGGCACCTTC
*
5776992 TTCTTC
61 TTCTTT
5776998 T-AAAGCCCACA
1 TCAAAGCCCACA
5777009 CAAGTCGGTG
Statistics
Matches: 384, Mismatches: 44, Indels: 62
0.78 0.09 0.13
Matches are distributed among these distances:
54 30 0.08
55 3 0.01
57 1 0.00
58 4 0.01
59 5 0.01
60 6 0.02
61 75 0.20
62 31 0.08
63 3 0.01
64 20 0.05
66 5 0.01
67 90 0.23
68 3 0.01
69 5 0.01
70 74 0.19
71 29 0.08
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (66 bp):
TCAAAGCCCACAACTCCGTGGCACTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
T
Found at i:5776915 original size:37 final size:36
Alignment explanation
Indices: 5776873--5776994 Score: 176
Period size: 37 Copynumber: 3.4 Consensus size: 36
5776863 CTACAACTTT
5776873 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCC
1 GTGGCACTCT-TTTCCCTTTTTAAAGCCCACAACTCC
* *
5776910 GTGGCAC-CTTTT-TCTGTTTAAAGCCCACAACTCC
1 GTGGCACTCTTTTCCCTTTTTAAAGCCCACAACTCC
*
5776944 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCC
1 GTGGCACTC-TTTTCCCTTTTTAAAGCCCACAACTCC
*
5776981 GTGGCACTTTTTTC
1 GTGGCACTCTTTTC
5776995 TTCTAAAGCC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
34 27 0.36
35 4 0.05
36 11 0.14
37 34 0.45
ACGTcount: A:0.18, C:0.34, G:0.13, T:0.34
Consensus pattern (36 bp):
GTGGCACTCTTTTCCCTTTTTAAAGCCCACAACTCC
Found at i:5776924 original size:87 final size:88
Alignment explanation
Indices: 5776778--5776950 Score: 303
Period size: 87 Copynumber: 2.0 Consensus size: 88
5776768 TTTAAAGCCC
* *
5776778 ACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
*
5776842 AAGCCCACAACTCTGTGGCACCT
66 AAGCCCACAACTCCGTGGCACCT
*
5776865 ACAACTTTGTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
5776930 AAGCCCACAACTCCGTGGCAC
66 AAGCCCACAACTCCGTGGCAC
5776951 TCTTTTTCCC
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 57 0.70
88 24 0.30
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (88 bp):
ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
AAGCCCACAACTCCGTGGCACCT
Found at i:5776935 original size:34 final size:33
Alignment explanation
Indices: 5776891--5777008 Score: 173
Period size: 34 Copynumber: 3.4 Consensus size: 33
5776881 CTCTTTCCCT
5776891 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
5776924 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
*
5776961 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
*
5776995 TTCTAAAGCCCACA
1 TTTTAAAGCCCACA
5777009 CAAGTCGGTG
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
33 11 0.14
34 29 0.37
35 6 0.08
36 8 0.10
37 24 0.31
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
Found at i:5776970 original size:71 final size:70
Alignment explanation
Indices: 5776873--5777008 Score: 227
Period size: 71 Copynumber: 1.9 Consensus size: 70
5776863 CTACAACTTT
* *
5776873 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC
1 GTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TCTAAAGCCCAC
5776938 AACTCC
65 AACTCC
* *
5776944 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTCTAAAGCCCACA
1 GTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTAAAGCCCACA
5777009 CAAGTCGGTG
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
70 12 0.20
71 49 0.80
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (70 bp):
GTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTCTAAAGCCCACA
ACTCC
Found at i:5777087 original size:49 final size:49
Alignment explanation
Indices: 5777029--5777859 Score: 1004
Period size: 49 Copynumber: 16.8 Consensus size: 49
5777019 GCAACCCTTC
* *
5777029 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * * *
5777078 TAAGTCCAATGTGGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
5777127 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
5777176 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCGT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
5777225 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
5777274 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
5777323 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
5777372 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-CATCTT
*
5777421 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
5777469 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
5777518 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
5777567 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-CATCTT
*
5777616 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
5777664 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
5777713 TCAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * *
5777765 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T--TCATCTT
* * * * *
5777821 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
5777860 TCTTTATCAC
Statistics
Matches: 659, Mismatches: 109, Indels: 21
0.84 0.14 0.03
Matches are distributed among these distances:
48 80 0.12
49 496 0.75
51 2 0.00
52 39 0.06
53 2 0.00
55 3 0.00
56 36 0.05
57 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:5777203 original size:98 final size:98
Alignment explanation
Indices: 5777029--5777800 Score: 1309
Period size: 98 Copynumber: 7.9 Consensus size: 98
5777019 GCAACCCTTC
* * * *
5777029 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTGGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
5777094 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* * *
5777127 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
5777192 GGCCTTGACTCAGCACATTGGCACCTTCACCGT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
5777225 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
5777290 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* *
5777323 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
5777388 GGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
66 GGCCTTGACTCAGCACATTGGCACCTT-CACCAT
5777421 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
5777485 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* *
5777518 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
5777583 GGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
66 GGCCTTGACTCAGCACATTGGCACCTT-CACCAT
5777616 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
5777680 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCAT
* * *
5777713 TCAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAATGTA
*
5777778 GCTGGCCTTGAATCAGCACATTG
63 GCTGGCCTTGACTCAGCACATTG
5777801 ACATCCTTTT
Statistics
Matches: 641, Mismatches: 24, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
97 186 0.29
98 413 0.64
99 3 0.00
101 39 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCACCAT
Found at i:5777522 original size:195 final size:195
Alignment explanation
Indices: 5777037--5777800 Score: 1334
Period size: 195 Copynumber: 3.9 Consensus size: 195
5777027 TCTAAGCCCA
* * *
5777037 ATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTGGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
*
5777102 CTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-
66 CTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* * *
5777166 TCATCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT-CACCGTTAAGT
131 T-TTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGT
5777230 CC
194 CC
5777232 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
1 -ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
5777297 ACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
65 ACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
5777362 CTTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTC
130 CTTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTC
5777427 C
195 C
5777428 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
5777493 CTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
66 CTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
5777558 TTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTCC
131 TTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTCC
5777623 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
* * * * *
5777688 CTCAGCACATTGGCACCTTCATCTTTCAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCAC
66 CTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-
* *
5777753 CTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
130 CTTTT--ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
5777801 ACATCCTTTT
Statistics
Matches: 549, Mismatches: 14, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
195 322 0.59
196 187 0.34
197 1 0.00
198 39 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (195 bp):
ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
CTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
TTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTCC
Found at i:5777813 original size:98 final size:95
Alignment explanation
Indices: 5777613--5777800 Score: 279
Period size: 101 Copynumber: 1.9 Consensus size: 95
5777603 GCACTTGCAC
5777613 CATTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
5777677 GCTGGCCTTGACTCAGCACATTGGCACCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTT
* * *
5777707 CATCTTTCAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTC
1 CA---TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCC
*
5777772 AATGTAGCTGGCCTTGAATCAGCACATTG
60 AATGTAGCTGGCCTTGACTCAGCACATTG
5777801 ACATCCTTTT
Statistics
Matches: 83, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
94 2 0.02
97 7 0.08
98 32 0.39
99 3 0.04
101 39 0.47
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (95 bp):
CATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCACCTT
Found at i:5778767 original size:33 final size:33
Alignment explanation
Indices: 5778730--5778796 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5778720 TTCAACGATT
5778730 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
5778763 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
5778796 T
1 T
5778797 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:5778768 original size:13 final size:13
Alignment explanation
Indices: 5778750--5778774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5778740 CATAAAATGT
5778750 TGTATCGATACAA
1 TGTATCGATACAA
5778763 TGTATCGATACA
1 TGTATCGATACA
5778775 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5778857 original size:13 final size:13
Alignment explanation
Indices: 5778839--5778863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5778829 ATTACTCACA
5778839 TGTATCGATACAT
1 TGTATCGATACAT
5778852 TGTATCGATACA
1 TGTATCGATACA
5778864 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5779000 original size:52 final size:52
Alignment explanation
Indices: 5778872--5778992 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
5778862 CACTGATCTT
*
5778872 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
5778924 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
5778976 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
5778993 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5784147 original size:20 final size:21
Alignment explanation
Indices: 5784122--5784170 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
5784112 TCAATAATAC
*
5784122 TATTTTTAATTAACT-TTGAA
1 TATTTTTAATTAACTGTTAAA
*
5784142 TA-TTTTAATTCACTGTTAAA
1 TATTTTTAATTAACTGTTAAA
5784162 TATTTTTAA
1 TATTTTTAA
5784171 ATATATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 8 0.32
21 6 0.24
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (21 bp):
TATTTTTAATTAACTGTTAAA
Found at i:5784256 original size:2 final size:2
Alignment explanation
Indices: 5784249--5784281 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5784239 ATTGTTTGAT
5784249 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5784282 CTTTAATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5784719 original size:29 final size:26
Alignment explanation
Indices: 5784684--5784748 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
5784674 ATTAATAATA
*
5784684 AAAATTTAATAATTTAATTTGATAAAATT
1 AAAATTTAATAATTT-ATCT-A-AAAATT
* *
5784713 AAAATTTTATGATTTATCTAAAAATT
1 AAAATTTAATAATTTATCTAAAAATT
*
5784739 AATATTTAAT
1 AAAATTTAAT
5784749 TTAATAATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 14 0.45
27 1 0.03
28 3 0.10
29 13 0.42
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (26 bp):
AAAATTTAATAATTTATCTAAAAATT
Found at i:5787903 original size:20 final size:21
Alignment explanation
Indices: 5787867--5787905 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
5787857 ACAAATGTTG
5787867 AAGTAAATACAACAATAATGA
1 AAGTAAATACAACAATAATGA
5787888 AAGTGAAATA-AA-AATAAT
1 AAGT-AAATACAACAATAAT
5787906 AATTATGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (21 bp):
AAGTAAATACAACAATAATGA
Found at i:5787975 original size:54 final size:54
Alignment explanation
Indices: 5787871--5787976 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 54
5787861 ATGTTGAAGT
* * **
5787871 AAATACAACAATAATGAAAGTGAAATAAAAATAATAATTATGTGAGTATAAAGC
1 AAATACAACAATAATGAAAATGAAATAAAAATAATAATAACATGAGTATAAAGC
* * * *
5787925 AAATACAATAATAATGAAAAT-AAAGTGAACATAATAATAACATGATTATAAA
1 AAATACAACAATAATGAAAATGAAA-TAAAAATAATAATAACATGAGTATAAA
5787977 TTAATAAGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 3 0.07
54 40 0.93
ACGTcount: A:0.59, C:0.06, G:0.10, T:0.25
Consensus pattern (54 bp):
AAATACAACAATAATGAAAATGAAATAAAAATAATAATAACATGAGTATAAAGC
Found at i:5789340 original size:29 final size:30
Alignment explanation
Indices: 5789276--5789379 Score: 76
Period size: 29 Copynumber: 3.6 Consensus size: 30
5789266 GCCTAAAGAA
5789276 CCTTAAAATGCATGAAAATGTTAGAATGAT
1 CCTTAAAATGCATGAAAATGTTAGAATGAT
* * *
5789306 GC-TAAAATGCATGAAATTG-TATAAT-AGT
1 CCTTAAAATGCATGAAAATGTTAGAATGA-T
* * *
5789334 CCTTAAAA--CATTGAAAATGACTAAAATGGT
1 CCTTAAAATGCA-TGAAAATG-TTAGAATGAT
*
5789364 -CTTAAAATACATGAAA
1 CCTTAAAATGCATGAAA
5789380 GTACTTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 3 0.05
28 14 0.24
29 28 0.47
30 12 0.20
31 2 0.03
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (30 bp):
CCTTAAAATGCATGAAAATGTTAGAATGAT
Found at i:5789370 original size:58 final size:57
Alignment explanation
Indices: 5789307--5789476 Score: 141
Period size: 58 Copynumber: 2.9 Consensus size: 57
5789297 TAGAATGATG
*
5789307 CTAAAATGCATGAAATTGTATAATAGTCCTTAAAACATTGAAAATGACTAAAATG-GT
1 CTAAAATGCATGAAATTGTATAATAGTCC-TAAAACATTGAAAATGACTAAAATGACT
* * * * *
5789364 CTTAAAATACATGAAA--GTACTTAAAAATCCCTAAAACA-TGACAAATTACCAAAATGACT
1 C-TAAAATGCATGAAATTGTA--TAATAGT-CCTAAAACATTGA-AAATGACTAAAATGACT
* * * * * *
5789423 CTAAAACGCATGAAATTGCATAAATGGTCCTAAATCATGGCAAATGACTAAAAT
1 CTAAAATGCATGAAATTGTAT-AATAGTCCTAAAACATTGAAAATGACTAAAAT
5789477 AAAGTAAAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
56 3 0.03
57 4 0.05
58 69 0.80
59 8 0.09
60 2 0.02
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (57 bp):
CTAAAATGCATGAAATTGTATAATAGTCCTAAAACATTGAAAATGACTAAAATGACT
Found at i:5790250 original size:912 final size:912
Alignment explanation
Indices: 5788625--5790445 Score: 3486
Period size: 912 Copynumber: 2.0 Consensus size: 912
5788615 CAATTAAAAG
5788625 TAAATCGGGTTTTAATAAATTTCAAAAATTAAAATATTTTTCACACTTTTTTAAAAAACTTGAAG
1 TAAATCGGGTTTTAATAAATTTCAAAAATTAAAATATTTTTCACACTTTTTTAAAAAACTTGAAG
5788690 GAATACGAAAATTTTATTTTACAAAAATTTAAAAATTCTGATTATTTATTTAAAGAGTGTATTCT
66 GAATACGAAAATTTTATTTTACAAAAATTTAAAAATTCTGATTATTTATTTAAAGAGTGTATTCT
5788755 TTTATTTAAAATAACCGATGAAGTAACTTCTATATACTAAAAATACACTTATGGACTATTTTAAC
131 TTTATTTAAAATAACCGATGAAGTAACTTCTATATACTAAAAATACACTTATGGACTATTTTAAC
*
5788820 TTAGAGATATTGCTTCAAATTTTCTTTAAAAATCGTACTATAATTGATAATATCATATTAGATTT
196 TTAGAGATATTGCTTCAAATTTGCTTTAAAAATCGTACTATAATTGATAATATCATATTAGATTT
* *
5788885 TTTAGCATAATAGTATCTAAAAGACTCAAAAGAACATGCATCAACATAAAAATTCTTGTATGATT
261 TTTAGCATAATAGTACCTAAAAGACTCAAAAGAACATGCATCAACATAAAAATTCTTGTATAATT
*
5788950 ATAATAGACATGTATTGACATAAAAGTTCCCACATAATCCTAAATCGACTTTAGGGTACTATTAT
326 ATAATAGACATGTATTGACATAAAAGTTCCCACATAATCCTAAATCGACTTTAGGGTACTATTAC
5789015 TAAAACAACCATAAGGGACATTTTTCGATGTGAAAGTTTCTTTATAACTCTAATAGACATGTATC
391 TAAAACAACCATAAGGGACATTTTTCGATGTGAAAGTTTCTTTATAACTCTAATAGACATGTATC
5789080 AATGCGAAGGTTCTCATAAGATTCTAAAATGATAAAAATCTCTAAAATGATCCTAAATTACGCAA
456 AATGCGAAGGTTCTCATAAGATTCTAAAATGATAAAAATCTCTAAAATGATCCTAAATTACGCAA
5789145 ACTATCTTAAATGGTTTTAAAATACAGGAAAAATGCTAAATGGTCCCTAGATTGTGAAAATAACT
521 ACTATCTTAAATGGTTTTAAAATACAGGAAAAATGCTAAATGGTCCCTAGATTGTGAAAATAACT
*
5789210 TATACGCCTCTAAAATGAAAAGAAATTTCCAAATGTTCCCTAATGTACATTTAATAGCCTAAAGA
586 TATACGCCTCTAAAATGAAAAGAAATTTCCAAATGGTCCCTAATGTACATTTAATAGCCTAAAGA
5789275 ACCTTAAAATGCATGAAAATGTTAGAATGATGCTAAAATGCATGAAATTGTATAATAGTCCTTAA
651 ACCTTAAAATGCATGAAAATGTTAGAATGATGCTAAAATGCATGAAATTGTATAATAGTCCTTAA
5789340 AACATTGAAAATGACTAAAATGGTCTTAAAATACATGAAAGTACTTAAAAATCCCTAAAACATGA
716 AACATTGAAAATGACTAAAATGGTCTTAAAATACATGAAAGTACTTAAAAATCCCTAAAACATGA
5789405 CAAATTACCAAAATGACTCTAAAACGCATGAAATTGCATAAATGGTCCTAAATCATGGCAAATGA
781 CAAATTACCAAAATGACTCTAAAACGCATGAAATTGCATAAATGGTCCTAAATCATGGCAAATGA
5789470 CTAAAATAAAGTAAAAATACA-TGAAATTACAAAATACCCCTTAAATCATAAAAATGACTAAATT
846 CTAAAATAAAGTAAAAATACATTG-AATTACAAAATACCCCTTAAATCATAAAAATGACTAAATT
5789534 GAT
910 GAT
*
5789537 TAAATCGGGTTTTAATAAATTTTAAAAATTAAAATATTTTTCACACTTTTTTAAAAAACTTGAAG
1 TAAATCGGGTTTTAATAAATTTCAAAAATTAAAATATTTTTCACACTTTTTTAAAAAACTTGAAG
* *
5789602 GAATACGAAAGTTTTATTTTTCAAAAATTTAAAAATTCTGATTATTTATTTAAAGAGTGTATT-T
66 GAATACGAAAATTTTATTTTACAAAAATTTAAAAATTCTGATTATTTATTTAAAGAGTGTATTCT
*
5789666 TTTATTTAAAATAACCGATGAAGTAACTTCTATATACTAAAAATACACTTATGGGCTATTTTAAC
131 TTTATTTAAAATAACCGATGAAGTAACTTCTATATACTAAAAATACACTTATGGACTATTTTAAC
*
5789731 TTGGAGATATTGCTTCAAATTTGCTTTAAAAATCGTACTATAATTGATAATATCATATTAGATTT
196 TTAGAGATATTGCTTCAAATTTGCTTTAAAAATCGTACTATAATTGATAATATCATATTAGATTT
*
5789796 TTTAGCATAATAGTACCTAAAAGACTCTAAAGAACATGCATCAACATAAAAATTCTTGTATAATT
261 TTTAGCATAATAGTACCTAAAAGACTCAAAAGAACATGCATCAACATAAAAATTCTTGTATAATT
5789861 ATAATAGACATGTATTGACATAAAAGTTCCCACATAATCCTAAAATCGACTTTAGGGTACTATTA
326 ATAATAGACATGTATTGACATAAAAGTTCCCACATAATCCT-AAATCGACTTTAGGGTACTATTA
5789926 CTAAAACAACCATAAGGGACATTTTTCGATGTGAAAGTTTCTTTATAACTCTAATAGACATGTAT
390 CTAAAACAACCATAAGGGACATTTTTCGATGTGAAAGTTTCTTTATAACTCTAATAGACATGTAT
5789991 CAATGCGAAGGTTCTCATAAGATTCTAAAATGATAAAAATCTCTAAAATGATCCTAAATTACGCA
455 CAATGCGAAGGTTCTCATAAGATTCTAAAATGATAAAAATCTCTAAAATGATCCTAAATTACGCA
*
5790056 AACTATCTTAAATGGTTTTAAAATACATGAAAAATGCTAAATGGTCCCTAGATTGTGAAAATAAC
520 AACTATCTTAAATGGTTTTAAAATACAGGAAAAATGCTAAATGGTCCCTAGATTGTGAAAATAAC
5790121 TTATACGCCTCTAAAATGAAAAGAAATTTCCAAATGGTCCCTAATGTACATTTAATAGCCTAAAG
585 TTATACGCCTCTAAAATGAAAAGAAATTTCCAAATGGTCCCTAATGTACATTTAATAGCCTAAAG
5790186 AACCTTAAAATGCATGAAAACT-TTAGAATGATGCTAAAATGCATGAAATTGTATAATAGTCCTT
650 AACCTTAAAATGCATGAAAA-TGTTAGAATGATGCTAAAATGCATGAAATTGTATAATAGTCCTT
5790250 AAAACATTGAAAATGACTAAAATGGTCTTAAAATACATGAAAGTACTTAAAAATCCCTAAAACAT
714 AAAACATTGAAAATGACTAAAATGGTCTTAAAATACATGAAAGTACTTAAAAATCCCTAAAACAT
5790315 GACAAATTACCAAAATGACTCTAAAACGCATGAAATTGCATAAATGGTCCTAAATCATGGCAAAT
779 GACAAATTACCAAAATGACTCTAAAACGCATGAAATTGCATAAATGGTCCTAAATCATGGCAAAT
5790380 GACTAAAATAAAGTAAAAATACATTGAATTACAAAATACCCCTTAAATCATAAAAATGACTAAAT
844 GACTAAAATAAAGTAAAAATACATTGAATTACAAAATACCCCTTAAATCATAAAAATGACTAAAT
5790445 T
909 T
5790446 AATGCTAAAT
Statistics
Matches: 894, Mismatches: 12, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
911 231 0.26
912 660 0.74
913 3 0.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (912 bp):
TAAATCGGGTTTTAATAAATTTCAAAAATTAAAATATTTTTCACACTTTTTTAAAAAACTTGAAG
GAATACGAAAATTTTATTTTACAAAAATTTAAAAATTCTGATTATTTATTTAAAGAGTGTATTCT
TTTATTTAAAATAACCGATGAAGTAACTTCTATATACTAAAAATACACTTATGGACTATTTTAAC
TTAGAGATATTGCTTCAAATTTGCTTTAAAAATCGTACTATAATTGATAATATCATATTAGATTT
TTTAGCATAATAGTACCTAAAAGACTCAAAAGAACATGCATCAACATAAAAATTCTTGTATAATT
ATAATAGACATGTATTGACATAAAAGTTCCCACATAATCCTAAATCGACTTTAGGGTACTATTAC
TAAAACAACCATAAGGGACATTTTTCGATGTGAAAGTTTCTTTATAACTCTAATAGACATGTATC
AATGCGAAGGTTCTCATAAGATTCTAAAATGATAAAAATCTCTAAAATGATCCTAAATTACGCAA
ACTATCTTAAATGGTTTTAAAATACAGGAAAAATGCTAAATGGTCCCTAGATTGTGAAAATAACT
TATACGCCTCTAAAATGAAAAGAAATTTCCAAATGGTCCCTAATGTACATTTAATAGCCTAAAGA
ACCTTAAAATGCATGAAAATGTTAGAATGATGCTAAAATGCATGAAATTGTATAATAGTCCTTAA
AACATTGAAAATGACTAAAATGGTCTTAAAATACATGAAAGTACTTAAAAATCCCTAAAACATGA
CAAATTACCAAAATGACTCTAAAACGCATGAAATTGCATAAATGGTCCTAAATCATGGCAAATGA
CTAAAATAAAGTAAAAATACATTGAATTACAAAATACCCCTTAAATCATAAAAATGACTAAATTG
AT
Found at i:5790282 original size:58 final size:57
Alignment explanation
Indices: 5790219--5790388 Score: 141
Period size: 58 Copynumber: 2.9 Consensus size: 57
5790209 TAGAATGATG
*
5790219 CTAAAATGCATGAAATTGTATAATAGTCCTTAAAACATTGAAAATGACTAAAATG-GT
1 CTAAAATGCATGAAATTGTATAATAGTCC-TAAAACATTGAAAATGACTAAAATGACT
* * * * *
5790276 CTTAAAATACATGAAA--GTACTTAAAAATCCCTAAAACA-TGACAAATTACCAAAATGACT
1 C-TAAAATGCATGAAATTGTA--TAATAGT-CCTAAAACATTGA-AAATGACTAAAATGACT
* * * * * *
5790335 CTAAAACGCATGAAATTGCATAAATGGTCCTAAATCATGGCAAATGACTAAAAT
1 CTAAAATGCATGAAATTGTAT-AATAGTCCTAAAACATTGAAAATGACTAAAAT
5790389 AAAGTAAAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
56 3 0.03
57 4 0.05
58 69 0.80
59 8 0.09
60 2 0.02
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (57 bp):
CTAAAATGCATGAAATTGTATAATAGTCCTAAAACATTGAAAATGACTAAAATGACT
Found at i:5790625 original size:56 final size:56
Alignment explanation
Indices: 5790537--5790642 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
5790527 AATAAGTGGT
* * **
5790537 CCTAAATCATGAAAATTTATTAAAATGACATT-ATGTGCATGAAATGACATAATAA
1 CCTAAATCATGAAAAATTAATAAAATGACATTAAAATGCATGAAATGACATAATAA
* *
5790592 CCTAAAGTTATGAAAAATTAATAAAATGCCATTAAAATGCATGAAATGACA
1 CCTAAA-TCATGAAAAATTAATAAAATGACATTAAAATGCATGAAATGACA
5790643 AAAAAGTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 6 0.14
56 22 0.51
57 15 0.35
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (56 bp):
CCTAAATCATGAAAAATTAATAAAATGACATTAAAATGCATGAAATGACATAATAA
Found at i:5794701 original size:20 final size:20
Alignment explanation
Indices: 5794676--5794798 Score: 75
Period size: 20 Copynumber: 5.5 Consensus size: 20
5794666 TTTTACCCAG
5794676 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
5794696 ATGTATCGATACATTCTGTCATTTTACCTA
1 ATGTATCGATACA-----T--TTTT--C-A
5794726 GATGTATCGATACATTTTTTCA
1 -ATGTATCGATACA-TTTTTCA
* * *
5794748 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
5794768 ATGGATAGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
5794788 ATGTATTGATA
1 ATGTATCGATA
5794799 TATTCTGTCT
Statistics
Matches: 80, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
20 40 0.50
21 13 0.16
22 1 0.01
23 1 0.01
25 5 0.06
27 5 0.06
29 1 0.01
30 1 0.01
31 13 0.16
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:5800683 original size:24 final size:24
Alignment explanation
Indices: 5800651--5800704 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
5800641 ACAGCATCAA
5800651 GCACCTGGTCCCTACTACCTGAAT
1 GCACCTGGTCCCTACTACCTGAAT
5800675 GCACCTGGTCCCTACTACCTGAAT
1 GCACCTGGTCCCTACTACCTGAAT
5800699 GCACCT
1 GCACCT
5800705 TACCCAAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.39, G:0.17, T:0.24
Consensus pattern (24 bp):
GCACCTGGTCCCTACTACCTGAAT
Found at i:5803342 original size:28 final size:28
Alignment explanation
Indices: 5803241--5804716 Score: 938
Period size: 28 Copynumber: 52.2 Consensus size: 28
5803231 TTGTGACCTC
* * *
5803241 TTTAAAGTCCACGATTCAGTGGCATTTCT
1 TTTAAAGTCCACAAGTCAGTGGCA-TCCT
* *
5803270 TTTCAAAGTCCACAACTTC-GTGGCGTCCT
1 TTT-AAAGTCCACAA-GTCAGTGGCATCCT
* *
5803299 TTT-AAGTCCACAACTCCGTGGCATCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
*
5803326 TTTAAAGTCCACAACTCCA-TGGCA-CTCT
1 TTTAAAGTCCACAAGT-CAGTGGCATC-CT
*
5803354 TTTAAAGTCCACAACTCCA-TGGCATCCT
1 TTTAAAGTCCACAAGT-CAGTGGCATCCT
* * * *
5803382 TTT-AAGTCCACAACTCCGTGGTATCTT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* * *
5803409 TTTAAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
*
5803437 TTTAAAGTCCACAACTCCA-TGGCAT-CT
1 TTTAAAGTCCACAAGT-CAGTGGCATCCT
* * * *
5803464 TTTTAAGTCCACAACTCCGTGGCA-CCC
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* * * *
5803491 TTTAAAGTCCACAACTCCGTAGCACCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* * * *
5803519 TTTAAAGTCCACCACTCCGTGGCACCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* *
5803547 TTT-AAGTTCACAACG-CTGTGGCATCCT
1 TTTAAAGTCCACAA-GTCAGTGGCATCCT
* * *
5803574 TTT-AAGTCTACAACTCCGTGGCA-CACT
1 TTTAAAGTCCACAAGTCAGTGGCATC-CT
* *
5803601 TTT-AAGTCCACAACTTCA-TGGCAT-TT
1 TTTAAAGTCCACAA-GTCAGTGGCATCCT
* * * * * *
5803627 GTTTCAAGTCCATAACTCTGTGGCGTTCT
1 -TTTAAAGTCCACAAGTCAGTGGCATCCT
* * *
5803656 TTTAAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
*
5803684 TTT-AAGT-CACAACTTCA-TGGCA-CTCT
1 TTTAAAGTCCACAA-GTCAGTGGCATC-CT
* *
5803710 TTT-AAGTCCACAACTCCGTGAG-ATCCT
1 TTTAAAGTCCACAAGTCAGTG-GCATCCT
*
5803737 TTT-AAGTCCACAAATTC-GTGGCATCCT
1 TTTAAAGTCCAC-AAGTCAGTGGCATCCT
* * * *
5803764 TTTTAAGCCCACAAGTCGGTGGCACCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
** * **
5803792 TACAAAGTCCACAACTTTGTGGCATCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* * * *
5803820 TTTTAAGCCCACAAGTCAGTGGTACCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
** * *
5803848 TCCAAAGTCCACAAGTCAATGGCACCTCTT
1 TTTAAAGTCCACAAGTCAGTGGCA--TCCT
* * **
5803878 TTTAAA-CCCACAAGTAAGTGGCATTAT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* * * * *
5803905 TTCAAAGCCCACACAAGTCTGTGGTAACTCAT
1 TTTAAAG-TC-CACAAGTCAGTGG-CA-TCCT
* * * *
5803937 TTGAAAGCCCACACAAGTCAATGGCAACCCAT
1 TTTAAAG-TC-CACAAGTCAGTGGC-ATCC-T
* ** *
5803969 TTCAAAACCCACACAAGTCAGTGGCAACCCAT
1 TT-TAAAGTC-CACAAGTCAGTGGC-ATCC-T
* *
5804001 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* *
5804029 TTTAAAGCCCACAAGTTAGTGGCATCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* ** * *
5804057 TTTCAAAGCCCACACAAGTTGGTGGTAACCCAT
1 TTT-AAAG-TC-CACAAGTCAGTGG-CATCC-T
* * * *
5804090 TTCAAAGGCCACAAATTAGTGGCA-CCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
*
5804117 TTTCAAAG-CTCACAA-TCAGTGGCATTCT
1 TTT-AAAGTC-CACAAGTCAGTGGCATCCT
* *
5804145 TTCAAAGTCCACAAGTCAGTGGCATGCTT
1 TTTAAAGTCCACAAGTCAGTGGCAT-CCT
*
5804174 TTTAAAG-CCTACAAG-CGGTGGCAT-CT
1 TTTAAAGTCC-ACAAGTCAGTGGCATCCT
* *
5804200 TTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTT-AAAGTCCACAAGTCAGTGGCATCCT
* *
5804229 TTTAAAGCCCACAAGTCAATGGCATCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
*
5804257 TTCAAAGTCCACAAGTCAGTGGCATCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* * *
5804285 TTTCAAAGCCCACAACG-CCGTGGCAACCCAT
1 TTT-AAAGTCCACAA-GTCAGTGGC-ATCC-T
* * *
5804316 TTCAAAG-CGCACAAATCAGTGGCACCCT
1 TTTAAAGTC-CACAAGTCAGTGGCATCCT
* * * *
5804344 TTCAAAGCCCACAAATCAGTGGCATTCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* * *
5804372 TTCAAAGTCCATAAGTCGGTGGCATCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
*
5804400 TTTCAAAGGCCACAAGTCAGTGGCAT-CT
1 TTT-AAAGTCCACAAGTCAGTGGCATCCT
* * * * *
5804428 TTTCCAAGCCCACAAATTAGTGGCATCAT
1 TTT-AAAGTCCACAAGTCAGTGGCATCCT
* * *
5804457 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* *
5804485 TTCAAA-ACCTACAAGTCAGTGGCATCCT
1 TTTAAAGTCC-ACAAGTCAGTGGCATCCT
* *
5804513 TTCAAAGTCCACAAGTCAATGGCATCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* *
5804541 TTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTT-AAAGTCCACAAGTCAGTGGCATCCT
* * *
5804570 TTCAAAGCCCAAAAGTCAGTGGCATCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
*
5804598 TTTAAAGTCCACAAGTCAGTCGCATCCT
1 TTTAAAGTCCACAAGTCAGTGGCATCCT
* *
5804626 TTTCAAAGCCCACAAGTCGGTGGCAT-CT
1 TTT-AAAGTCCACAAGTCAGTGGCATCCT
* *
5804654 TTTCAAAGCCCACAAGTCAGAGGCAT-CT
1 TTT-AAAGTCCACAAGTCAGTGGCATCCT
* * *
5804682 TCTCAAAATCCACAAGTCAGTGGTATCCT
1 T-TTAAAGTCCACAAGTCAGTGGCATCCT
5804711 TTTAAA
1 TTTAAA
5804717 TCCCACACAA
Statistics
Matches: 1190, Mismatches: 184, Indels: 147
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.00
26 32 0.03
27 231 0.19
28 609 0.51
29 147 0.12
30 78 0.07
31 26 0.02
32 60 0.05
33 6 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
TTTAAAGTCCACAAGTCAGTGGCATCCT
Found at i:5803356 original size:55 final size:54
Alignment explanation
Indices: 5803239--5803833 Score: 551
Period size: 55 Copynumber: 10.8 Consensus size: 54
5803229 TATTGTGACC
* * * * * * *
5803239 TCTTTAAAGTCCACGATTCAGTGGCATTTCTTTTCAAAGTCCACAACTTCGTGGCG
1 TCTTTTAAGTCCACAACTCCGTGGCA-TCCTTTT-AAAGTCCACAACTCCGTGGCA
*
5803295 TCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCATGGCA
1 T-CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA
* *
5803350 CTCTTTTAAAGTCCACAACTCCATGGCATCCTTTT-AAGTCCACAACTCCGTGGTA
1 -TCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA
* *
5803405 TCTTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCATGGCA
1 TC-TTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA
* *
5803461 TCTTTTTAAGTCCACAACTCCGTGGCA-CCCTTTAAAGTCCACAACTCCGTAGCA
1 TC-TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA
* * * * * *
5803515 CCCTTTTAAAGTCCACCACTCCGTGGCACCCTTTT-AAGTTCACAACGCTGTGGCA
1 -TCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA
* * *
5803570 TCCTTTTAAGTCTACAACTCCGTGGCA-CACTTTT-AAGTCCACAACTTCATGGCA
1 T-CTTTTAAGTCCACAACTCCGTGGCATC-CTTTTAAAGTCCACAACTCCGTGGCA
* * * * *
5803624 TTTGTTTCAAGTCCATAACTCTGTGGCGTTCTTTTAAAGTCCACAACTCCGTGGCA
1 TCT-TTT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA
* * *
5803680 CCCTTTTAAGT-CACAACTTCATGGCA-CTCTTTT-AAGTCCACAACTCCGTGAG-A
1 -TCTTTTAAGTCCACAACTCCGTGGCATC-CTTTTAAAGTCCACAACTCCGTG-GCA
* * * * * *
5803733 TCCTTTTAAGTCCACAAATTCGTGGCATCCTTTTTAAGCCCACAAGTCGGTGGCA
1 T-CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA
* ** ** * *
5803788 CCCTTACAAAGTCCACAACTTTGTGGCATCCTTTTTAAGCCCACAA
1 -TCTT-TTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAA
5803834 GTCAGTGGTA
Statistics
Matches: 455, Mismatches: 60, Indels: 48
0.81 0.11 0.09
Matches are distributed among these distances:
53 29 0.06
54 107 0.24
55 176 0.39
56 121 0.27
57 22 0.05
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.30
Consensus pattern (54 bp):
TCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA
Found at i:5803917 original size:85 final size:85
Alignment explanation
Indices: 5803754--5804768 Score: 892
Period size: 85 Copynumber: 11.7 Consensus size: 85
5803744 CCACAAATTC
* * * * * **
5803754 GTGGCATCCTTTT-TAAGCCCACAAGTCGGTGGCACCC-TTACAAAGTCCACAACTTTGTGGCAT
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAT
**
5803817 CCTTTTTAAGCCCACAAGTCA
65 CCTTTCAAAGCCCACAAGTCA
* * * * * * *
5803838 GTGGTACCCTTCCAAAGTCCACAAGTCAATGGCACCTCTTTTTAAA-CCCACAAGTAAGTGGCAT
1 GTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACC-CTTTTCAAAGCCCACAAGTCAGTGGCAT
** *
5803902 TATTTCAAAGCCCACACAAGTCT
65 CCTTTCAAAG-CC-CACAAGTCA
* * * * * *
5803925 GTGGTAACTCATTTGAAAGCCCACACAAGTCAATGGCAACCCATTTCAAAACCCACACAAGTCAG
1 GTGG-CAC-CTTTTCAAAG-CC-CACAAGTCAGTGGC-ACCCTTTTC-AAAGCC-CACAAGTCAG
*
5803990 TGGCAACCCATTTCAAAGCCCACAAGTCA
59 TGGC-ATCC-TTTCAAAGCCCACAAGTCA
* * **
5804019 GTGGCATCCTTTT-AAAGCCCACAAGTTAGTGGCATCCTTTTCAAAGCCCACACAAGTTGGTGGT
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG-CC-CACAAGTCAGTGG-
* * * * *
5804083 AACCCATTTCAAAGGCCACAAATTA
62 CATCC-TTTCAAAGCCCACAAGTCA
* ** *
5804108 GTGGCACCTTTTCAAAGCTCACAA-TCAGTGGCATTC-TTTCAAAGTCCACAAGTCAGTGGCATG
1 GTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAT-
* * * *
5804171 CTTTTTAAAGCCTACAAG-CG
65 CCTTTCAAAGCCCACAAGTCA
* *
5804191 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAATGGCATC
1 GTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATC
*
5804255 CTTTCAAAGTCCACAAGTCA
66 CTTTCAAAGCCCACAAGTCA
* * * *
5804275 GTGGCATCCTTTTCAAAGCCCACAACG-CCGTGGCAACCCATTTCAAAGCGCACAAATCAGTGGC
1 GTGGCA-CCTTTTCAAAGCCCACAA-GTCAGTGGC-ACCCTTTTCAAAGCCCACAAGTCAGTGGC
* *
5804339 ACCCTTTCAAAGCCCACAAATCA
63 ATCCTTTCAAAGCCCACAAGTCA
* * * * * *
5804362 GTGGCA-TTCTTTCAAAGTCCATAAGTCGGTGGCATCCTTTTCAAAGGCCACAAGTCAGTGGCAT
1 GTGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
5804426 CTTTTCCAAGCCCACAAATTA
65 CCTTTCAAAGCCCACAAGTCA
* * * *
5804447 GTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAACCTACAAGTCAGTGGCATC
1 GTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATC
*
5804511 CTTTCAAAGTCCACAAGTCA
66 CTTTCAAAGCCCACAAGTCA
* *
5804531 ATGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCAAAAGTCAGTGGCAT
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
5804595 CCTTTTAAAGTCCACAAGTCA
65 CCTTTCAAAGCCCACAAGTCA
* * * *
5804616 GTCGCATCCTTTTCAAAGCCCACAAGTCGGTGGCA-TCTTTTCAAAGCCCACAAGTCAGAGGCAT
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAT
**
5804680 -CTTCTCAAAATCCACAAGTCA
65 CCTT-TCAAAGCCCACAAGTCA
* * * *
5804701 GTGGTATCCTTTT-AAATCCCACACAAGTCGGTGGCA-ACTTTCTCTAAAGCCCCCACAAGTCAG
1 GTGGCA-CCTTTTCAAA-GCC-CACAAGTCAGTGGCACCCTTT-TC-AAAG--CCCACAAGTCAG
5804764 TGGCA
59 TGGCA
5804769 ACCCTTCTAA
Statistics
Matches: 767, Mismatches: 125, Indels: 72
0.80 0.13 0.07
Matches are distributed among these distances:
83 40 0.05
84 125 0.16
85 290 0.38
86 54 0.07
87 65 0.08
88 25 0.03
89 65 0.08
90 29 0.04
91 20 0.03
92 10 0.01
93 7 0.01
94 26 0.03
95 3 0.00
96 8 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (85 bp):
GTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATC
CTTTCAAAGCCCACAAGTCA
Found at i:5805533 original size:20 final size:20
Alignment explanation
Indices: 5805508--5805545 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5805498 TTTTTACCCA
5805508 AATGTATCAATACATTTTTC
1 AATGTATCAATACATTTTTC
*
5805528 AATGTATCGATACATTTT
1 AATGTATCAATACATTTT
5805546 GTCTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (20 bp):
AATGTATCAATACATTTTTC
Found at i:5805574 original size:51 final size:50
Alignment explanation
Indices: 5805498--5805685 Score: 207
Period size: 51 Copynumber: 3.9 Consensus size: 50
5805488 AAAAGTCACA
* *
5805498 TTTTTACCCAAATGTATCAATACATTTTTCAATGTATCGATACATTTTGTC
1 TTTTTATCCAAATGTATCGATACATTTTTCAATGTATCGATACA-TTTGTC
*
5805549 TTTTTATCCATATGTATCGATACATTTTTTCAATGTATCGATACA--TG--
1 TTTTTATCCAAATGTATCGATACA-TTTTTCAATGTATCGATACATTTGTC
* * *
5805596 ----TAT--GAATGTATCGATACATTCTTCAATGTATCGATACATTCTATC
1 TTTTTATCCAAATGTATCGATACATTTTTCAATGTATCGATACATT-TGTC
* *
5805641 TTTTTTTCTAAATGTATCGATACATTTTTCAATGTATCGATACAT
1 TTTTTATCCAAATGTATCGATACATTTTTCAATGTATCGATACAT
5805686 CTAGTTAAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
40 19 0.17
41 13 0.11
43 4 0.03
49 4 0.03
51 55 0.48
52 20 0.17
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (50 bp):
TTTTTATCCAAATGTATCGATACATTTTTCAATGTATCGATACATTTGTC
Found at i:5805636 original size:20 final size:20
Alignment explanation
Indices: 5805560--5805637 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
5805550 TTTTATCCAT
*
5805560 ATGTATCGATACATTTTTTCA
1 ATGTATCGATACA-TTCTTCA
* *
5805581 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
5805601 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
5805621 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
5805638 ATCTTTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
19 1 0.02
20 36 0.71
21 14 0.27
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:5805665 original size:92 final size:91
Alignment explanation
Indices: 5805508--5805685 Score: 284
Period size: 92 Copynumber: 1.9 Consensus size: 91
5805498 TTTTTACCCA
* * * *
5805508 AATGTATCAATACATTTTTCAATGTATCGATACATTTTGTCTTTTTATCCATATGTATCGATACA
1 AATGTATCAATACATTCTTCAATGTATCGATACATTCTATCTTTTTATCCAAATGTATCGATACA
5805573 TTTTTTCAATGTATCGATACATGTATG
66 -TTTTTCAATGTATCGATACATGTATG
* * *
5805600 AATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTTTCTAAATGTATCGATACA
1 AATGTATCAATACATTCTTCAATGTATCGATACATTCTATCTTTTTATCCAAATGTATCGATACA
5805665 TTTTTCAATGTATCGATACAT
66 TTTTTCAATGTATCGATACAT
5805686 CTAGTTAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 21 0.27
92 58 0.73
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (91 bp):
AATGTATCAATACATTCTTCAATGTATCGATACATTCTATCTTTTTATCCAAATGTATCGATACA
TTTTTCAATGTATCGATACATGTATG
Found at i:5814054 original size:22 final size:20
Alignment explanation
Indices: 5814011--5814054 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
5814001 AATGTTCCAA
5814011 TCATGGTGAAAAAGTTAACT
1 TCATGGTGAAAAAGTTAACT
* *
5814031 TCATGAGTGTAAAGAGTTATCT
1 TCATG-GTG-AAAAAGTTAACT
5814053 TC
1 TC
5814055 TCTACCTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 3 0.15
22 12 0.60
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TCATGGTGAAAAAGTTAACT
Found at i:5817713 original size:21 final size:21
Alignment explanation
Indices: 5817681--5817720 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5817671 GTCACTCTCA
5817681 TTTTTCTTTTTCTTTTTTTCC
1 TTTTTCTTTTTCTTTTTTTCC
5817702 TTTTT-TTCTTTCTTTTTTT
1 TTTTTCTT-TTTCTTTTTTT
5817721 TAAAGCTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTCTTTTTCTTTTTTTCC
Found at i:5818246 original size:28 final size:27
Alignment explanation
Indices: 5818185--5818436 Score: 244
Period size: 27 Copynumber: 9.3 Consensus size: 27
5818175 AAAAAAAATC
*
5818185 AATT-AAAATCTTAT-TGTAAAAGTTT
1 AATTAAAAATTTTATATGTAAAAGTTT
*
5818210 AATTAAAAATTTTATATGTAAAGAGTCT
1 AATTAAAAATTTTATATGTAAA-AGTTT
* * **
5818238 AATTGAAAA-TTCATATACAAAAGTTT
1 AATTAAAAATTTTATATGTAAAAGTTT
*
5818264 AA-TAAAAATTTTATATGTAAAAAGTTC
1 AATTAAAAATTTTATATGT-AAAAGTTT
* * * * *
5818291 AATTGAAAATTTTTTATATGAAAGTAT
1 AATTAAAAATTTTATATGTAAAAGTTT
* ** *
5818318 AATTAAAAATTCTATAAATAAAAAGTCT
1 AATTAAAAATTTTATATGT-AAAAGTTT
* *
5818346 AAATCAAAATTTTATATGTAAAAGTTT
1 AATTAAAAATTTTATATGTAAAAGTTT
*
5818373 AATT-AAAATTTCTATATGCAAAATGTTT
1 AATTAAAAATTT-TATATGTAAAA-GTTT
*
5818401 AATTAAAAATTTTAGATGTAAAAGTTT
1 AATTAAAAATTTTATATGTAAAAGTTT
5818428 AATTAAAAA
1 AATTAAAAA
5818437 GTCTAATTGA
Statistics
Matches: 183, Mismatches: 34, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
25 9 0.05
26 28 0.15
27 77 0.42
28 62 0.34
29 7 0.04
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (27 bp):
AATTAAAAATTTTATATGTAAAAGTTT
Found at i:5818281 original size:53 final size:55
Alignment explanation
Indices: 5818177--5818436 Score: 264
Period size: 55 Copynumber: 4.8 Consensus size: 55
5818167 TTTGGTTGAA
* * *
5818177 AAAAAATC-AATT-AAAATCTTAT-TGTAAAAGTTTAATTAAAAATTTTATATGT
1 AAAAAGTCTAATTGAAAATTTTATATATAAAAGTTTAATTAAAAATTTTATATGT
* * *
5818229 AAAGAGTCTAATTGAAAA-TTCATATACAAAAGTTTAA-TAAAAATTTTATATGT
1 AAAAAGTCTAATTGAAAATTTTATATATAAAAGTTTAATTAAAAATTTTATATGT
* * * * **
5818282 AAAAAGT-TCAATTGAAAATTTTTTATATGAAAGTATAATTAAAAATTCTATAAAT
1 AAAAAGTCT-AATTGAAAATTTTATATATAAAAGTTTAATTAAAAATTTTATATGT
* * * *
5818337 AAAAAGTCTAAATCAAAATTTTATATGTAAAAGTTTAATT-AAAATTTCTATATGC
1 AAAAAGTCTAATTGAAAATTTTATATATAAAAGTTTAATTAAAAATTT-TATATGT
* * * * *
5818392 AAAATGTTTAATTAAAAATTTTAGATGTAAAAGTTTAATTAAAAA
1 AAAAAGTCTAATTGAAAATTTTATATATAAAAGTTTAATTAAAAA
5818437 GTCTAATTGA
Statistics
Matches: 169, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
52 7 0.04
53 38 0.22
54 35 0.21
55 84 0.50
56 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (55 bp):
AAAAAGTCTAATTGAAAATTTTATATATAAAAGTTTAATTAAAAATTTTATATGT
Found at i:5818368 original size:14 final size:13
Alignment explanation
Indices: 5818351--5818435 Score: 68
Period size: 14 Copynumber: 6.3 Consensus size: 13
5818341 AGTCTAAATC
5818351 AAAATTTTATATGT
1 AAAATTTTA-ATGT
*
5818365 AAAAGTTTAAT-T
1 AAAATTTTAATGT
*
5818377 AAAATTTCTATATGC
1 AAAATTT-TA-ATGT
5818392 AAAATGTTTAAT-T
1 AAAAT-TTTAATGT
5818405 AAAAATTTTAGATGT
1 -AAAATTTTA-ATGT
*
5818420 AAAAGTTTAAT-T
1 AAAATTTTAATGT
5818432 AAAA
1 AAAA
5818436 AGTCTAATTG
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
12 12 0.20
13 10 0.17
14 27 0.46
15 8 0.14
16 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.41
Consensus pattern (13 bp):
AAAATTTTAATGT
Found at i:5818444 original size:40 final size:40
Alignment explanation
Indices: 5818400--5818476 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
5818390 GCAAAATGTT
*
5818400 TAATTAAAAATTTTAGATGTAAAAGTTTAATTAAAAAGTC
1 TAATTAAAAATTTCAGATGTAAAAGTTTAATTAAAAAGTC
* * * *
5818440 TAATTGAAAATTTCATATGTGAATGTTTAATTAAAAA
1 TAATTAAAAATTTCAGATGTAAAAGTTTAATTAAAAA
5818477 TTTTAAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (40 bp):
TAATTAAAAATTTCAGATGTAAAAGTTTAATTAAAAAGTC
Found at i:5818499 original size:95 final size:96
Alignment explanation
Indices: 5818330--5818530 Score: 230
Period size: 95 Copynumber: 2.1 Consensus size: 96
5818320 TTAAAAATTC
* *
5818330 TATAAATAAAAAGTCTAAATCAAAATTTTATATGTAAAAGTTTAATTAAAATTTCTATATGCAAA
1 TATAATTAAAAAGTCTAAATCAAAATTTCATATGTAAAAGTTTAATTAAAATTTCTATATGCAAA
* * *
5818395 ATGTTTAATT-AAAAATTTTAGATGTAAAAG
66 ATATCTAATTAAAAAATTCTAGATGTAAAAG
* * * * * *
5818425 TTTAATTAAAAAGTCTAATTGAAAATTTCATATGTGAATGTTTAATTAAAAATTT-TAAATTTG-
1 TATAATTAAAAAGTCTAAATCAAAATTTCATATGTAAAAGTTTAATT-AAAATTTCT--ATATGC
*
5818488 AAAA-ATCTAATTAAAAAATTCTATATGTAAAAG
63 AAAATATCTAATTAAAAAATTCTAGATGTAAAAG
*
5818521 TATGATTAAA
1 TATAATTAAA
5818531 TATTCTTTGT
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
95 47 0.53
96 37 0.42
97 4 0.05
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (96 bp):
TATAATTAAAAAGTCTAAATCAAAATTTCATATGTAAAAGTTTAATTAAAATTTCTATATGCAAA
ATATCTAATTAAAAAATTCTAGATGTAAAAG
Found at i:5819218 original size:2 final size:2
Alignment explanation
Indices: 5819211--5819264 Score: 72
Period size: 2 Copynumber: 26.5 Consensus size: 2
5819201 ATACATACAC
* *
5819211 AT AT AT AT CAT AT AT AC AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
5819254 AT TT AT AT AT A
1 AT AT AT AT AT A
5819265 CTGCCTAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5823564 original size:2 final size:2
Alignment explanation
Indices: 5823559--5823599 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5823549 ATATTATATA
5823559 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
5823600 ATTATTTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:5827687 original size:2 final size:2
Alignment explanation
Indices: 5827682--5827721 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
5827672 CCCCTACATG
*
5827682 CA CA CA CA CA CA CA CA CA CA CA CG CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
5827722 AAAAAACACC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Done.