Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 33
Found at i:5552706 original size:16 final size:15
Alignment explanation
Indices: 5552660--5552708 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 15
5552650 AGGTTATTAT
5552660 TATTATTATTATTTA
1 TATTATTATTATTTA
5552675 TTATTATTATTATTTA
1 -TATTATTATTATTTA
*
5552691 TATTATTAATTTTTTA
1 TATTATT-ATTATTTA
5552707 TA
1 TA
5552709 GACCCAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 7 0.23
16 24 0.77
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTATTATTATTTA
Found at i:5553224 original size:11 final size:11
Alignment explanation
Indices: 5553208--5553235 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
5553198 AGAATGGTTC
5553208 AAAAAAATAGA
1 AAAAAAATAGA
5553219 AAAAAAATAGA
1 AAAAAAATAGA
5553230 AAAAAA
1 AAAAAA
5553236 CACAACGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAATAGA
Found at i:5554151 original size:2 final size:2
Alignment explanation
Indices: 5554144--5554188 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
5554134 TAACAACCTT
5554144 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5554186 TA T
1 TA T
5554189 TTTAAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5554389 original size:17 final size:16
Alignment explanation
Indices: 5554360--5554401 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
5554350 AAACGCATAT
5554360 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
5554377 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
5554392 AATTATTTTA
1 AATTATTTTA
5554402 AGACGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:5554516 original size:23 final size:22
Alignment explanation
Indices: 5554473--5554520 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
5554463 ATTATGACAC
*
5554473 ATTTATAAATAATATAAAATTAT
1 ATTTAAAAATAATATAAAATT-T
5554496 ATTTAAAAATAATA-AACAATTT
1 ATTTAAAAATAATATAA-AATTT
5554518 ATT
1 ATT
5554521 ACGAATACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTAAAAATAATATAAAATTT
Found at i:5556006 original size:14 final size:15
Alignment explanation
Indices: 5555987--5556015 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5555977 AATGTTCTAA
5555987 TTAAA-GAAAATAAT
1 TTAAAGGAAAATAAT
5556001 TTAAAGGAAAATAAT
1 TTAAAGGAAAATAAT
5556016 AAATAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (15 bp):
TTAAAGGAAAATAAT
Found at i:5560124 original size:21 final size:21
Alignment explanation
Indices: 5560080--5560128 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
5560070 GAGAGTGATG
* * *
5560080 ATGACGATGAGGAGGAGGAGA
1 ATGATGATGAGGAGGAAGACA
*
5560101 ATGATGATGAGGATGAAGACA
1 ATGATGATGAGGAGGAAGACA
5560122 ATGATGA
1 ATGATGA
5560129 CGGCGAGGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.39, T:0.16
Consensus pattern (21 bp):
ATGATGATGAGGAGGAAGACA
Found at i:5562979 original size:21 final size:22
Alignment explanation
Indices: 5562949--5562990 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
5562939 TTAGGATCAA
*
5562949 TGGGATTAGGAATAGGATTTGG
1 TGGGATTAGGAAGAGGATTTGG
*
5562971 TGGGA-TAGGAGGAGGATTTG
1 TGGGATTAGGAAGAGGATTTG
5562991 AAGGAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.45, T:0.29
Consensus pattern (22 bp):
TGGGATTAGGAAGAGGATTTGG
Found at i:5563694 original size:21 final size:21
Alignment explanation
Indices: 5563670--5563729 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
5563660 CCAGAAACCC
*
5563670 CAGGGGGTATCGATTCTCCTA
1 CAGGGGGTATCGATTCCCCTA
*
5563691 CAGGGGGTATCAATTCCCCTA
1 CAGGGGGTATCGATTCCCCTA
*
5563712 CAGGGGGAATCGATTCCC
1 CAGGGGGTATCGATTCCC
5563730 TCTGCCCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (21 bp):
CAGGGGGTATCGATTCCCCTA
Found at i:5569954 original size:32 final size:32
Alignment explanation
Indices: 5569918--5569978 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
5569908 GTGTGTGTAT
*
5569918 GTGTATGCGTATTCTTTTATTTACTATTTTAG
1 GTGTATGCGTATGCTTTTATTTACTATTTTAG
*
5569950 GTGTATGTGTATGCTTTTATTTACTATTT
1 GTGTATGCGTATGCTTTTATTTACTATTT
5569979 AAAGTCTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.57
Consensus pattern (32 bp):
GTGTATGCGTATGCTTTTATTTACTATTTTAG
Found at i:5571063 original size:81 final size:81
Alignment explanation
Indices: 5570968--5571244 Score: 277
Period size: 83 Copynumber: 3.4 Consensus size: 81
5570958 GTATTTTCTG
* * * * *
5570968 TTATTCAGAAAATCTATCCCA-TAATAGTACTTCATCCCATCCGAATTGAAAGGTGCATTCCAGA
1 TTATTCAGAGAATCTATGCCAGTCATAGT-CTTCATCCCATCCGAAATGAAAGGTGCATTCTAGA
* *
5571032 TGAAGCATTTTCCATTA
65 GGAAGCATTTTCTATTA
* * * **
5571049 TTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGATAGGTGTGTTCTAG
1 TTATTCAGAGAATCTATGCCA-GTCATAGTCTT-CATCCCATCCGAAATGAAAGGTGCATTCTAG
* *
5571114 AGGAAGCCTTTTCTGTTA
64 AGGAAGCATTTTCTATTA
* * * * * **
5571132 TTATTCAGAGAATCTCTGCCATGTCATAGTGTTTTATCCCATCCGAAACGAGAGACGCATTCTAG
1 TTATTCAGAGAATCTATGCCA-GTCATAGT-CTTCATCCCATCCGAAATGAAAGGTGCATTCTAG
* *
5571197 GGGAAGCGTTTTCTATTA
64 AGGAAGCATTTTCTATTA
*
5571215 TTATTCAGAGAATCTATGTCATGTCATAGT
1 TTATTCAGAGAATCTATGCCA-GTCATAGT
5571245 GTTCCATCTT
Statistics
Matches: 165, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.11
82 2 0.01
83 143 0.87
84 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (81 bp):
TTATTCAGAGAATCTATGCCAGTCATAGTCTTCATCCCATCCGAAATGAAAGGTGCATTCTAGAG
GAAGCATTTTCTATTA
Found at i:5571094 original size:83 final size:83
Alignment explanation
Indices: 5571000--5571252 Score: 335
Period size: 83 Copynumber: 3.0 Consensus size: 83
5570990 AATAGTACTT
* * * *
5571000 CATCCCATCCGAATTGAAAGGTGCATTCCAGATGAAGCATTTTCCATTATTATTCAGAGAATCTC
1 CATCCCATCCGAAATGAAAGGTGCATTCTAGAGGAAGCATTTTCTATTATTATTCAGAGAATCTC
5571065 TGCCATGTCATAGTGTTC
66 TGCCATGTCATAGTGTTC
* ** * *
5571083 CATCCCATCCGAAATGATAGGTGTGTTCTAGAGGAAGCCTTTTCTGTTATTATTCAGAGAATCTC
1 CATCCCATCCGAAATGAAAGGTGCATTCTAGAGGAAGCATTTTCTATTATTATTCAGAGAATCTC
*
5571148 TGCCATGTCATAGTGTTT
66 TGCCATGTCATAGTGTTC
* * * ** * * *
5571166 TATCCCATCCGAAACGAGAGACGCATTCTAGGGGAAGCGTTTTCTATTATTATTCAGAGAATCTA
1 CATCCCATCCGAAATGAAAGGTGCATTCTAGAGGAAGCATTTTCTATTATTATTCAGAGAATCTC
*
5571231 TGTCATGTCATAGTGTTC
66 TGCCATGTCATAGTGTTC
5571249 CATC
1 CATC
5571253 TTTAGAGAAT
Statistics
Matches: 146, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 146 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (83 bp):
CATCCCATCCGAAATGAAAGGTGCATTCTAGAGGAAGCATTTTCTATTATTATTCAGAGAATCTC
TGCCATGTCATAGTGTTC
Found at i:5571347 original size:118 final size:118
Alignment explanation
Indices: 5571138--5571372 Score: 301
Period size: 118 Copynumber: 2.0 Consensus size: 118
5571128 GTTATTATTC
* * *
5571138 AGAGAATCTCTGCCATGTCATAGTGTTTTATCCCATCCGAAACGAGAGACGCATTCTAGGGGAAG
1 AGAGAATCTCTGCCATGTCATAGTGTTTTATCCCATCCGAAACGAAAGACGCATTCTAAGGAAAG
* * *
5571203 CGTTTTCTATTATTATTCAGAGAATCTATGTCATGTCATAGTGTTCCATCTTT
66 CGTTTTCCATTATTATTCACAAAATCTATGTCATGTCATAGTGTTCCATCTTT
* * * * ** *
5571256 AGAGAATCTCTTCCATGTCATAGTGTTTTATCCTATCTGAAATGAAAGGTGCCTT-TCAAGGAAA
1 AGAGAATCTCTGCCATGTCATAGTGTTTTATCCCATCCGAAACGAAAGACGCATTCT-AAGGAAA
* * * *
5571320 GTGTTTTCCATTATTATTCACAAAATCTATGTTATGTCATAGTTTTTCATCTT
65 GCGTTTTCCATTATTATTCACAAAATCTATGTCATGTCATAGTGTTCCATCTT
5571373 ATCTGAAATA
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
117 1 0.01
118 98 0.99
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (118 bp):
AGAGAATCTCTGCCATGTCATAGTGTTTTATCCCATCCGAAACGAAAGACGCATTCTAAGGAAAG
CGTTTTCCATTATTATTCACAAAATCTATGTCATGTCATAGTGTTCCATCTTT
Found at i:5571402 original size:201 final size:201
Alignment explanation
Indices: 5571055--5571453 Score: 475
Period size: 201 Copynumber: 2.0 Consensus size: 201
5571045 ATTATTATTC
*
5571055 AGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGATAGGTGTGTTCTAGAGGAAG
1 AGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGTGTGTTCTAGAGGAAG
** * * * * *
5571120 CCTTTTCTGTTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTTATCCCATCCGAAACGAGA
66 CCTTTTCCATTATTATTCACAAAATCTATGCCATGTCATAGTGTTTTATCCCATCCGAAACAAAA
* *
5571185 GACGCATTCTAGGGGAAGC-GTTTTCTATTATTATTCAGAGAATCTATGTCATGTCATAGTGTTC
131 GACGCATTCCAGGGGAAGCATTTTTC-ATTATTATTCAGAGAATCTATGTCATGTCATAGTGTTC
5571249 CATCTTT
195 CATCTTT
* ** * *
5571256 AGAGAATCTCTTCCATGTCATAGTGTTTTATCCTATCTGAAATGAAAGGTGCCT-TTC-A-AGGA
1 AGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGTG--TGTTCTAGAGG-
** ** ** * *
5571318 AAGTGTTTTCCATTATTATTCACAAAATCTATGTTATGTCATAGT-TTTTCATCTTATCTGAAAT
63 AAGCCTTTTCCATTATTATTCACAAAATCTATGCCATGTCATAGTGTTTT-ATCCCATCCGAAAC
* * * *
5571382 AAAAGGCGCATTCCAGGGGAAGTATTTTTCATTATTATTCAGAGAATCTCTTTCATGTCATAGTG
127 AAAAGACGCATTCCAGGGGAAGCATTTTTCATTATTATTCAGAGAATCTATGTCATGTCATAGTG
5571447 TTCCATC
192 TTCCATC
5571454 CCATCCGAAA
Statistics
Matches: 166, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
200 7 0.04
201 150 0.90
202 8 0.05
203 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (201 bp):
AGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGTGTGTTCTAGAGGAAG
CCTTTTCCATTATTATTCACAAAATCTATGCCATGTCATAGTGTTTTATCCCATCCGAAACAAAA
GACGCATTCCAGGGGAAGCATTTTTCATTATTATTCAGAGAATCTATGTCATGTCATAGTGTTCC
ATCTTT
Found at i:5571415 original size:83 final size:83
Alignment explanation
Indices: 5571256--5571637 Score: 401
Period size: 83 Copynumber: 4.6 Consensus size: 83
5571246 TTCCATCTTT
* ** * * * * * * *
5571256 AGAGAATCTCT-TCCATGTCATAGTGTTTTATCCTATCTGAAATGAAAGGTGCCTTTCAAGGAAA
1 AGAGAATCTCTGT-TATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCATTCCAGGGGAA
*
5571320 GTGTTTTCCATTATTATTC
65 GCGTTTTCCATTATTATTC
* * * * * ** * *
5571339 ACAAAATCTATGTTATGTCATAGTTTTTCATCTTATCTGAAATAAAAGGCGCATTCCAGGGGAAG
1 AGAGAATCTCTGTTATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCATTCCAGGGGAAG
** *
5571404 TATTTTTCATTATTATTC
66 CGTTTTCCATTATTATTC
* *
5571422 AGAGAATCTCT-TTCATGTCATAGTGTTCCATCCCATCCGAAATGAAA-GTGCATTCTAGGGGAA
1 AGAGAATCTCTGTT-ATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCATTCCAGGGGAA
5571485 GCGTTTTCCATTATTATTC
65 GCGTTTTCCATTATTATTC
* * * * * **
5571504 AGAGAATCTCTGTCATGTCATAGTATTGCATCCCATCCGAAATGAAAGGCACGTTTTAGGGGAAG
1 AGAGAATCTCTGTTATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCATTCCAGGGGAAG
*
5571569 CGTTTTCCATTATTATTA
66 CGTTTTCCATTATTATTC
* * *
5571587 AGAGAATCTCTGCTATGTCATAGTGTTCCATCCCATCCAAAATAAAAGGCG
1 AGAGAATCTCTGTTATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCG
5571638 TATGTTCCAT
Statistics
Matches: 251, Mismatches: 44, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
82 74 0.29
83 176 0.70
84 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (83 bp):
AGAGAATCTCTGTTATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGCATTCCAGGGGAAG
CGTTTTCCATTATTATTC
Found at i:5571568 original size:165 final size:165
Alignment explanation
Indices: 5571256--5571634 Score: 454
Period size: 165 Copynumber: 2.3 Consensus size: 165
5571246 TTCCATCTTT
** * * *
5571256 AGAGAATCTCTTCCATGTCATAGTGTTTTATCCTATCTGAAATGAAAGGTGCCTTTCAAGGAAAG
1 AGAGAATCTCTTCCATGTCATAGTGTTCCATCCCATCCGAAATGAAA-GTGCATTTCAAGGAAAG
* * * * ** *
5571321 TGTTTTCCATTATTATTCACAAAATCTATGTTATGTCATAGTTTTTCATCTTATCTGAAATAAAA
65 CGTTTTCCATTATTATTCACAAAATCTATGTCATGTCATAGTATTGCATCCCATCCGAAATAAAA
* * * *
5571386 GGCGCATTCCAGGGGAAGTATTTTTCATTATTATTC
130 GGCACATTCCAGGGGAAGCATTTTCCATTATTATTA
* * *
5571422 AGAGAATCTCTTTCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGTGCA-TTCTAGGGGAAG
1 AGAGAATCTCTTCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGTGCATTTC-AAGGAAAG
* * * *
5571486 CGTTTTCCATTATTATTCAGAGAATCTCTGTCATGTCATAGTATTGCATCCCATCCGAAATGAAA
65 CGTTTTCCATTATTATTCACAAAATCTATGTCATGTCATAGTATTGCATCCCATCCGAAATAAAA
* ** *
5571551 GGCACGTTTTAGGGGAAGCGTTTTCCATTATTATTA
130 GGCACATTCCAGGGGAAGCATTTTCCATTATTATTA
* * * *
5571587 AGAGAATCTCTGCTATGTCATAGTGTTCCATCCCATCCAAAATAAAAG
1 AGAGAATCTCTTCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAG
5571635 GCGTATGTTC
Statistics
Matches: 180, Mismatches: 32, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
164 3 0.02
165 135 0.75
166 42 0.23
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (165 bp):
AGAGAATCTCTTCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGTGCATTTCAAGGAAAGC
GTTTTCCATTATTATTCACAAAATCTATGTCATGTCATAGTATTGCATCCCATCCGAAATAAAAG
GCACATTCCAGGGGAAGCATTTTCCATTATTATTA
Found at i:5571789 original size:16 final size:16
Alignment explanation
Indices: 5571745--5571796 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
5571735 TTGGTATCTT
5571745 TGAAA-TCTCAAACTA
1 TGAAACTCTCAAACTA
* *
5571760 TCAAACATGT-AAACTA
1 TGAAAC-TCTCAAACTA
5571776 TGAAACTCTCAAACTA
1 TGAAACTCTCAAACTA
*
5571792 AGAAA
1 TGAAA
5571797 ATAACTCTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 6 0.21
16 21 0.72
17 2 0.07
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (16 bp):
TGAAACTCTCAAACTA
Found at i:5576738 original size:71 final size:71
Alignment explanation
Indices: 5576606--5576757 Score: 236
Period size: 73 Copynumber: 2.1 Consensus size: 71
5576596 CTTTTATATT
* * *
5576606 TTAAATTTTTTCTTTATATTTTGTATTAATCATTTATTTTTGTTCTTAAAATTTTATAAATTTAT
1 TTAAATTTTTTCTTTATATTTTGTATTAATAATTTATTCTTGATCTTAAAATTTTATAAATTTAT
5576671 CTTTATC
66 C-TTATC
5576678 TTAAATTTTTTTCTTTATATTTTGTATTAATAATTTA-TCTT-ATCTTAAAATTTTATAAATTTA
1 TTAAA-TTTTTTCTTTATATTTTGTATTAATAATTTATTCTTGATCTTAAAATTTTATAAATTTA
5576741 TCTTATC
65 TCTTATC
*
5576748 TTAAAATTTT
1 TTAAATTTTT
5576758 ATAAATTTAT
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
69 4 0.05
70 10 0.13
71 23 0.31
72 8 0.11
73 30 0.40
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (71 bp):
TTAAATTTTTTCTTTATATTTTGTATTAATAATTTATTCTTGATCTTAAAATTTTATAAATTTAT
CTTATC
Found at i:5576794 original size:26 final size:26
Alignment explanation
Indices: 5576709--5576793 Score: 143
Period size: 26 Copynumber: 3.3 Consensus size: 26
5576699 TTGTATTAAT
5576709 AATTTATCTTATCTTAAAATTTTATA
1 AATTTATCTTATCTTAAAATTTTATA
5576735 AATTTATCTTATCTTAAAATTTTATA
1 AATTTATCTTATCTTAAAATTTTATA
* **
5576761 AATTTATTTTATCTTAAAAAATTATA
1 AATTTATCTTATCTTAAAATTTTATA
5576787 AATTTAT
1 AATTTAT
5576794 TCCTTAATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (26 bp):
AATTTATCTTATCTTAAAATTTTATA
Found at i:5580258 original size:31 final size:31
Alignment explanation
Indices: 5580220--5580304 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
5580210 ACACAGATCA
*
5580220 CTTTAAATGTAATTAGCAGTTATAACTGAGT
1 CTTTAAATGTAATTAGCAATTATAACTGAGT
*
5580251 CTTTAAATGTAATTAGCAATTATAACTTAGT
1 CTTTAAATGTAATTAGCAATTATAACTGAGT
*
5580282 CTTTAAATGTAATTACCAATTAT
1 CTTTAAATGTAATTAGCAATTAT
5580305 TATTGTAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (31 bp):
CTTTAAATGTAATTAGCAATTATAACTGAGT
Found at i:5581008 original size:27 final size:28
Alignment explanation
Indices: 5580978--5581033 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
5580968 GTCTCTATTT
5580978 ATATTATGTCGT-GAGCCAGTACTTGAA
1 ATATTATGTCGTCGAGCCAGTACTTGAA
* * *
5581005 ATATTCTGTCGTCGAGTCAGTGCTTGAA
1 ATATTATGTCGTCGAGCCAGTACTTGAA
5581033 A
1 A
5581034 ATAAAGGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (28 bp):
ATATTATGTCGTCGAGCCAGTACTTGAA
Found at i:5582289 original size:20 final size:20
Alignment explanation
Indices: 5582253--5582291 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5582243 AACAGATTAT
*
5582253 GAAAATATACTCTATTTGAA
1 GAAAATATACTCCATTTGAA
5582273 GAAAATAT-CTCACATTTGA
1 GAAAATATACTC-CATTTGA
5582292 GTTAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (20 bp):
GAAAATATACTCCATTTGAA
Found at i:5589775 original size:17 final size:17
Alignment explanation
Indices: 5589725--5589825 Score: 103
Period size: 18 Copynumber: 5.8 Consensus size: 17
5589715 ATTCTAAATG
* *
5589725 TTTACATTTATCAGACA
1 TTTACAGTTATCAGATA
*
5589742 TTTCACATTTATCAGATA
1 TTT-ACAGTTATCAGATA
*
5589760 TTTACAGTTATTAGATA
1 TTTACAGTTATCAGATA
* *
5589777 TTTACAGTTATAAGATGT
1 TTTACAGTTATCAGAT-A
* *
5589795 TTTTCAGTTATCAGATGT
1 TTTACAGTTATCAGAT-A
5589813 TTTACAGTTATCA
1 TTTACAGTTATCA
5589826 AACGTAGATT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
17 30 0.41
18 44 0.59
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (17 bp):
TTTACAGTTATCAGATA
Found at i:5594706 original size:206 final size:207
Alignment explanation
Indices: 5594331--5594743 Score: 771
Period size: 206 Copynumber: 2.0 Consensus size: 207
5594321 CTATTAAGAA
5594331 CCAGAAGACCTTGACATGCCACCAGAAGCAGAGACAACGAAGAATACGGTGCGGCTACAACGGTT
1 CCAGAAGACCTTGACATGCCACCAGAAGCAGAGACAACGAAGAATACGGTGCGGCTACAACGGTT
5594396 CCACATGTTGCAACACCTAGTTCTTATTACCAGCCACCATCGTACTTTTCAACAATTGATATGGA
66 CCACATGTTGCAACACCTAGTTCTTATTACCAGCCACCATCGTACTTTTCAACAATTGATATGGA
5594461 AAGCATTCAACGCTCCAGAATTTTCCTAATTCCCAGATTGAGCAATACAATCAACGTAGT-ATGG
131 AAGCATTCAACGCTCCAGAATTTTCCTAATTCCCAGATTGAGCAATACAATCAACGTAGTGATGG
5594525 -GATCTCTATGT
196 TGATCTCTATGT
5594536 CCAGAAGACCTTGACATGCCACCAGAAGCAGAAGACAACGAAGAATACGGTGCGGCTACAACGGT
1 CCAGAAGACCTTGACATGCCACCAGAAGCAG-AGACAACGAAGAATACGGTGCGGCTACAACGGT
5594601 TCCACATGTTGCAACACCTAGTTCTTATTACCAGCCACCATCGTACTTTTCAACAATTGATAT-G
65 TCCACATGTTGCAACACCTAGTTCTTATTACCAGCCACCATCGTACTTTTCAACAATTGATATGG
5594665 -AAGCATTCAACGCTCCAGAATTTTCCTAATTCCCACAGATTGAGCAATACAATCAACGTAGTGA
130 AAAGCATTCAACGCTCCAGAATTTTCCTAATT-CC-CAGATTGAGCAATACAATCAACGTAGTGA
5594729 TGGTGATCTCTATGT
193 TGGTGATCTCTATGT
5594744 TGGAATGGTT
Statistics
Matches: 203, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
204 31 0.15
205 34 0.17
206 123 0.61
207 4 0.02
208 11 0.05
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (207 bp):
CCAGAAGACCTTGACATGCCACCAGAAGCAGAGACAACGAAGAATACGGTGCGGCTACAACGGTT
CCACATGTTGCAACACCTAGTTCTTATTACCAGCCACCATCGTACTTTTCAACAATTGATATGGA
AAGCATTCAACGCTCCAGAATTTTCCTAATTCCCAGATTGAGCAATACAATCAACGTAGTGATGG
TGATCTCTATGT
Found at i:5603648 original size:18 final size:19
Alignment explanation
Indices: 5603614--5603649 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5603604 ACATGATGGT
*
5603614 TTTCAAAGTTTTTTGTTTA
1 TTTCAAAGTTTTGTGTTTA
5603633 TTTCAAA-TTTTGTGTTT
1 TTTCAAAGTTTTGTGTTT
5603650 TCTATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (19 bp):
TTTCAAAGTTTTGTGTTTA
Found at i:5603667 original size:2 final size:2
Alignment explanation
Indices: 5603662--5603691 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
5603652 TATTTTTTAA
5603662 AT AT AT AT A- 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 A
5603692 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5604005 original size:21 final size:21
Alignment explanation
Indices: 5603957--5604006 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
5603947 AATTTAATAT
5603957 TTTAATAA-ATTTAATAAAAA
1 TTTAATAACATTTAATAAAAA
* *
5603977 TTT-GTAACGTTTCAAT-AAAA
1 TTTAATAACATTT-AATAAAAA
5603997 TTTAATAACA
1 TTTAATAACA
5604007 ATTTTCTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
19 3 0.13
20 13 0.57
21 7 0.30
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (21 bp):
TTTAATAACATTTAATAAAAA
Found at i:5606251 original size:14 final size:14
Alignment explanation
Indices: 5606234--5606264 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5606224 TAAATAAACC
*
5606234 AATAATAATATTAA
1 AATAAAAATATTAA
5606248 AATAAAAATATTAA
1 AATAAAAATATTAA
5606262 AAT
1 AAT
5606265 TCTAGGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAAAATATTAA
Found at i:5607387 original size:3 final size:3
Alignment explanation
Indices: 5607379--5607404 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5607369 GCTCATTATT
5607379 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
5607405 TACAATGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5607762 original size:80 final size:81
Alignment explanation
Indices: 5607534--5607873 Score: 322
Period size: 82 Copynumber: 4.3 Consensus size: 81
5607524 TGGGAAATTC
* * * * * *
5607534 GCTCAACTATTTATTCAGGGAGATCAGCCTTGATATGT-TCCTCTTTTTTGGGTAGTCATATCAA
1 GCTCTACTATTCATTCAGGGAGATCAGACATGATATGTGT-CTCTTTTTCGGGTAGTCAGATCAA
* * *
5607598 TTTTGGAAGATGGGTAT
65 TTTTGGAAGACGTGTCT
* * * * * * * * *
5607615 GCTCCACTATTCTTTCAGGGCAGATAAGACATGATTTGTGCCTCTTTTTCAGGTATTTAGATTAA
1 GCTCTACTATTCATTCAGGG-AGATCAGACATGATATGTGTCTCTTTTTCGGGTAGTCAGATCAA
5607680 TTTTGGAAGACGTGTCT
65 TTTTGGAAGACGTGTCT
* * * * * *
5607697 ACTCTACTATTCATTTAGGGAGATTAGTC-TGATCTGTGTCTCTTTTTCGGGTAGTTAGATCAAT
1 GCTCTACTATTCATTCAGGGAGATCAGACATGATATGTGTCTCTTTTTCGGGTAGTCAGATCAAT
5607761 TTTGGAAGACGTGTCT
66 TTTGGAAGACGTGTCT
* *
5607777 GCTC--CTATTCATTCAGGGGAGATCAGAC-T--TATATG--T-ATTTTCGGGTAGTCAGATCAA
1 GCTCTACTATTCATTCA-GGGAGATCAGACATGATATGTGTCTCTTTTTCGGGTAGTCAGATCAA
* *
5607834 TTTTGGAAAACGTGTTT
65 TTTTGGAAGACGTGTCT
*
5607851 GCTCTATTATTCATTCAGGGAGA
1 GCTCTACTATTCATTCAGGGAGA
5607874 CGGGGCTCGA
Statistics
Matches: 215, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
74 38 0.18
75 7 0.03
76 10 0.05
77 4 0.02
78 10 0.05
79 11 0.05
80 49 0.23
81 24 0.11
82 62 0.29
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.39
Consensus pattern (81 bp):
GCTCTACTATTCATTCAGGGAGATCAGACATGATATGTGTCTCTTTTTCGGGTAGTCAGATCAAT
TTTGGAAGACGTGTCT
Found at i:5608020 original size:89 final size:89
Alignment explanation
Indices: 5607879--5608324 Score: 457
Period size: 89 Copynumber: 5.1 Consensus size: 89
5607869 GGAGACGGGG
* * * *
5607879 CTCGAGATTGATTTTCTTCACTACTCTTTCTTAGAGATCAAATCTGAAATAAGAAGAATTTGTTG
1 CTCGAGATTGATTTGCTTCACTACTCTTTCGTAGAGATCAAATCTGAAATAAGAAGAATATGTTC
*
5607944 CACTACTCTTCCATGGAGATCAGA
66 CACTACTCTTCCGTGGAGATCAGA
* * * *
5607968 CTCGGGATTGATTTGCTTCACTACTCTTCCATAGAGATCAAATCTGAAATAAGAA-CATATGTTC
1 CTCGAGATTGATTTGCTTCACTACTCTTTCGTAGAGATCAAATCTGAAATAAGAAGAATATGTTC
* * * *
5608032 CTCTACT-ATCCGGGGAAATCAGA
66 CACTACTCTTCCGTGGAGATCAGA
* * * *
5608055 CTC---ATTGATTTGCTTCACTACTCTTCCGTGGAGATCAAATCTGAAATAAGAAGAATCTATTC
1 CTCGAGATTGATTTGCTTCACTACTCTTTCGTAGAGATCAAATCTGAAATAAGAAGAATATGTTC
*
5608117 CACTACTCTTCCGTGGAGATCATA
66 CACTACTCTTCCGTGGAGATCAGA
* * * * * *
5608141 CTCAAGATTGATTTGTTTCACCACTCTTTCGT-GAAGACCAACATTTGAAATAAAAAGAATATGT
1 CTCGAGATTGATTTGCTTCACTACTCTTTCGTAG-AGATCAA-ATCTGAAATAAGAAGAATATGT
*
5608205 T---C-ACTCTTCCAT-GAGATCAGA
64 TCCACTACTCTTCCGTGGAGATCAGA
* * * * ** *
5608226 CTCGAAATTGATTTGCTTCACTACTCTTTTGTGGAGA-CTAAATCTGAAATATGGTGAATTTGTT
1 CTCGAGATTGATTTGCTTCACTACTCTTTCGTAGAGATC-AAATCTGAAATAAGAAGAATATGTT
** * *
5608290 CCTTTACTCTTCCGGGGATATCAGA
65 CCACTACTCTTCCGTGGAGATCAGA
5608315 CTCGAGATTG
1 CTCGAGATTG
5608325 GAGACCAAAT
Statistics
Matches: 295, Mismatches: 48, Indels: 28
0.80 0.13 0.08
Matches are distributed among these distances:
84 65 0.22
85 52 0.18
86 25 0.08
87 16 0.05
88 21 0.07
89 97 0.33
90 19 0.06
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (89 bp):
CTCGAGATTGATTTGCTTCACTACTCTTTCGTAGAGATCAAATCTGAAATAAGAAGAATATGTTC
CACTACTCTTCCGTGGAGATCAGA
Found at i:5608098 original size:173 final size:172
Alignment explanation
Indices: 5607885--5608324 Score: 494
Period size: 173 Copynumber: 2.5 Consensus size: 172
5607875 GGGGCTCGAG
* * * *
5607885 ATTGATTTTCTTCACTACTCTTTCTTAGAGATCAAATCTGAAATAAGAAGAATTTGTTGCACTAC
1 ATTGATTTGCTTCACTACTCTTTCGTGGAGATCAAATCTGAAATAAGAAGAATTTGTTCCACTAC
* * * *
5607950 TCTTCCATGGAGATCAGACTCGGGATTGATTTGCTTCACTACTCTTCCAT-AGAGATCAA-ATCT
66 TCTTCCGTGGAGATCAGACTCGAGATTGATTTGCTTCACCACTCTTCCATGA-AGACCAACATCT
* * * *
5608013 GAAATAAGAA-CATATGTTCCTCTACTATCCGGGGAAATCAGACTC-
130 GAAATAAAAAGAATATGTT-CACT-CT-TCC-AGGAAATCAGACTCA
* * *
5608058 ATTGATTTGCTTCACTACTCTTCCGTGGAGATCAAATCTGAAATAAGAAGAATCTATTCCACTAC
1 ATTGATTTGCTTCACTACTCTTTCGTGGAGATCAAATCTGAAATAAGAAGAATTTGTTCCACTAC
* * * * * *
5608123 TCTTCCGTGGAGATCATACTCAAGATTGATTTGTTTCACCACTCTTTCGTGAAGACCAACATTTG
66 TCTTCCGTGGAGATCAGACTCGAGATTGATTTGCTTCACCACTCTTCCATGAAGACCAACATCTG
* *
5608188 AAATAAAAAGAATATGTTCACTCTTCCATGAGATCAGACTCGAA
131 AAATAAAAAGAATATGTTCACTCTTCCAGGAAATCAGACTC--A
* * ** **
5608232 ATTGATTTGCTTCACTACTCTTTTGTGGAGA-CTAAATCTGAAATATGGTGAATTTGTTCCTTTA
1 ATTGATTTGCTTCACTACTCTTTCGTGGAGATC-AAATCTGAAATAAGAAGAATTTGTTCCACTA
* *
5608296 CTCTTCCGGGGATATCAGACTCGAGATTG
65 CTCTTCCGTGGAGATCAGACTCGAGATTG
5608325 GAGACCAAAT
Statistics
Matches: 224, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
171 11 0.05
172 3 0.01
173 109 0.49
174 94 0.42
175 7 0.03
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (172 bp):
ATTGATTTGCTTCACTACTCTTTCGTGGAGATCAAATCTGAAATAAGAAGAATTTGTTCCACTAC
TCTTCCGTGGAGATCAGACTCGAGATTGATTTGCTTCACCACTCTTCCATGAAGACCAACATCTG
AAATAAAAAGAATATGTTCACTCTTCCAGGAAATCAGACTCA
Found at i:5608474 original size:89 final size:87
Alignment explanation
Indices: 5608323--5608556 Score: 263
Period size: 89 Copynumber: 2.7 Consensus size: 87
5608313 GACTCGAGAT
* * * * * * **
5608323 TGGAGACCAAATCTGATATAAGAAGAATTTTCTCCACTACACTTCTGTGGTTTTCAGACTCGAAA
1 TGGAGACCAAATCTGACATAAGGAGAATATGCTCCACTACTCTTCCGTGGTGATCAGACTCG-AA
* **
5608388 ATGAGTTGCTTCACTACTTTTTTA
65 AT-AGTTGCTTCACTACTCTTCCA
* * *
5608412 TGGAGACCAAATCTGACATAAGGAGAATATGATCCACTACTCTTCCATGGTGATCAGACTCGAGA
1 TGGAGACCAAATCTGACATAAGGAGAATATGCTCCACTACTCTTCCGTGGTGATCAGACTCGAAA
** *
5608477 TTTTTGCTTCACTACTCTTCCG
66 TAGTTGCTTCACTACTCTTCCA
* * *
5608499 TGGAGA-CAAATCTGACATAAAGAGAATCTGCTCCACTACTTTTCCGTGGTGATCAGAC
1 TGGAGACCAAATCTGACATAAGGAGAATATGCTCCACTACTCTTCCGTGGTGATCAGAC
5608557 CGTGCTGGGG
Statistics
Matches: 123, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
86 47 0.38
87 21 0.17
88 3 0.02
89 52 0.42
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (87 bp):
TGGAGACCAAATCTGACATAAGGAGAATATGCTCCACTACTCTTCCGTGGTGATCAGACTCGAAA
TAGTTGCTTCACTACTCTTCCA
Found at i:5608534 original size:86 final size:87
Alignment explanation
Indices: 5608393--5608556 Score: 240
Period size: 86 Copynumber: 1.9 Consensus size: 87
5608383 CGAAAATGAG
* ** *
5608393 TTGCTTCACTACTTTTTTATGGAGACCAAATCTGACATAAGGAGAATATGATCCACTACTCTTCC
1 TTGCTTCACTACTCTTCCATGGAGACCAAATCTGACATAAAGAGAATATGATCCACTACTCTTCC
5608458 ATGGTGATCAGACTCGAGATTT
66 ATGGTGATCAGACTCGAGATTT
* * * *
5608480 TTGCTTCACTACTCTTCCGTGGAGA-CAAATCTGACATAAAGAGAATCTGCTCCACTACTTTTCC
1 TTGCTTCACTACTCTTCCATGGAGACCAAATCTGACATAAAGAGAATATGATCCACTACTCTTCC
*
5608544 GTGGTGATCAGAC
66 ATGGTGATCAGAC
5608557 CGTGCTGGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
86 47 0.69
87 21 0.31
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (87 bp):
TTGCTTCACTACTCTTCCATGGAGACCAAATCTGACATAAAGAGAATATGATCCACTACTCTTCC
ATGGTGATCAGACTCGAGATTT
Found at i:5608670 original size:62 final size:62
Alignment explanation
Indices: 5608561--5609344 Score: 825
Period size: 62 Copynumber: 13.0 Consensus size: 62
5608551 TCAGACCGTG
* * * *
5608561 CTGGGGAGTCAGGAATAACAAAGA-CGACTTCTATTCACGACGAAGTCAAGGGTTGACTCTA
1 CTGGGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* *
5608622 CTGGGGAGTCATAAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
1 CTGGGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* * *
5608684 CT----AGTCAGAAATAATAAA-ATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTTTA
1 CTGGGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* * * *
5608741 CTGGGTAGTTAGAAATAACAAACG-TTGACTTTTATTCACGAGGAAGTCAAGGGTTGACTCTA
1 CTGGGGAGTCAGAAATAACAAA-GATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* * * *
5608803 CTCGGGAGTTAGAAATAACAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGGTTGACTCTA
1 CTGGGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
*
5608865 CTGGGGAGTCAGAAATAACAAAGTTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
1 CTGGGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* *
5608927 CTGGGGGAGTCACAAATAACAAA-ACTTGACTTCTCTTCACGAGGAAGTCAAGGGTTAACTCTA
1 CT-GGGGAGTCAGAAATAACAAAGA-TTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* * * *
5608990 CTGGTGAGTCATAAAT--GAAA-ATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGATTCTA
1 CTGGGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* ** * *
5609049 CTAGGGAGTCAGAAATAACAAAGGCT-ACTTCTCTTCATGATGAAGTCAAGGGTTGACTCTA
1 CTGGGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* * * * * ** *
5609110 CTAGGGATTCA-AGGATAA-ATATG-TTGACTTTTCTT-ATAAGGAAGTTAAGGGTTGACTCTA
1 CTGGGGAGTCAGA-AATAACA-AAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* * * * *
5609170 CTGGGGAGTCAGGAATAACAAAGGTTGACTTCTCTTCATGAGAAAGTCAATGGTTGA----A
1 CTGGGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* * * ***
5609228 ------A-TCATG-AATAACAAAGGTTGACTTCTCTTTATGAGGAAGTCAAAAATTGACTCTA
1 CTGGGGAGTCA-GAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
* * * **
5609283 CTAGGGAGTCAGGAATAACAAAGGTTGAC-TCTTCTTCACGAGGAAGTCAAGAATTGACTCTA
1 CTGGGGAGTCAGAAATAACAAAGATTGACTTC-TCTTCACGAGGAAGTCAAGGGTTGACTCTA
5609345 GGAAACAAGA
Statistics
Matches: 622, Mismatches: 67, Indels: 67
0.82 0.09 0.09
Matches are distributed among these distances:
51 42 0.07
52 2 0.00
55 1 0.00
57 38 0.06
58 15 0.02
59 49 0.08
60 44 0.07
61 112 0.18
62 261 0.42
63 58 0.09
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (62 bp):
CTGGGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTA
Found at i:5608879 original size:124 final size:123
Alignment explanation
Indices: 5608564--5609344 Score: 847
Period size: 119 Copynumber: 6.5 Consensus size: 123
5608554 GACCGTGCTG
* ** * *
5608564 GGGAGTCAGGAATAACAAA-GACGACTTCTATTCACGACGAAGTCAAGGGTTGACTCTACTGGGG
1 GGGAGTCAGAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGG
* *
5608628 AGTCATAAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACT-
66 AGTCAGAAATAACAAAG-TTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTA
* * * * *
5608686 ---AGTCAGAAATAATAAA-ATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTTTACTGGGT
1 GGGAGTCAGAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGG
* * * *
5608747 AGTTAGAAATAACAAACGTTGACTTTTATTCACGAGGAAGTCAAGGGTTGACTCTACTC
66 AGTCAGAAATAACAAA-GTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTA
* *
5608806 GGGAGTTAGAAATAACAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGGTTGACTCTACTGGGG
1 GGGAGTCAGAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGG
*
5608871 AGTCAGAAATAACAAAGTTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGG
66 AGTCAGAAATAACAAAG-TTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACT-A
* ** * *
5608931 GGGAGTCACAAATAACAAAACTTGACTTCTCTTCACGAGGAAGTCAAGGGTTAACTCTACTGGTG
1 GGGAGTCAGAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGG
* * *
5608996 AGTCATAAATGA-AAA-TTGACTTCTCTTCACGAGGAAGTCAAGGGTTGATTCTACTA
66 AGTCAGAAATAACAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTA
* * * *
5609052 GGGAGTCAGAAATAACAAAGGCT-ACTTCTCTTCATGATGAAGTCAAGGGTTGACTCTACTAGGG
1 GGGAGTCAGAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGG
* * * * ** * *
5609116 ATTCA-AGGATAA-ATATGTTGACTTTTCTT-ATAAGGAAGTTAAGGGTTGACTCTACTG
66 AGTCAGA-AATAACA-AAGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTA
* * * *
5609173 GGGAGTCAGGAATAACAAAGGTTGACTTCTCTTCATGAGAAAGTCAATGGTTGA----A------
1 GGGAGTCAGAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGG
* * ***
5609228 A-TCATG-AATAACAAAGGTTGACTTCTCTTTATGAGGAAGTCAAAAATTGACTCTACTA
66 AGTCA-GAAATAACAAA-GTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTA
* **
5609286 GGGAGTCAGGAATAACAAAGGTTGAC-TCTTCTTCACGAGGAAGTCAAGAATTGACTCTA
1 GGGAGTCAGAAATAACAAAGGTTGACTTC-TCTTCACGAGGAAGTCAAGGGTTGACTCTA
5609345 GGAAACAAGA
Statistics
Matches: 562, Mismatches: 75, Indels: 49
0.82 0.11 0.07
Matches are distributed among these distances:
111 8 0.01
112 16 0.03
113 68 0.12
117 1 0.00
118 1 0.00
119 103 0.18
120 45 0.08
121 64 0.11
122 77 0.14
123 15 0.03
124 96 0.17
125 68 0.12
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (123 bp):
GGGAGTCAGAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGG
AGTCAGAAATAACAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTA
Found at i:5609154 original size:243 final size:245
Alignment explanation
Indices: 5608564--5609224 Score: 824
Period size: 243 Copynumber: 2.7 Consensus size: 245
5608554 GACCGTGCTG
* * * *
5608564 GGGAGTCAGGAATAACAAAGACGACTTCTATTCACGACGAAGTCAAGGGTTGACTCTACTGGGGA
1 GGGAGTCAGAAATAACAAAGGCTACTTCTCTTCACGACGAAGTCAAGGGTTGACTCTACTGGGGA
*
5608629 GTCATA-AATAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACT----AGT
66 GTCA-AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGGAGT
* * * * *
5608689 CAGAAATAATAAAATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTTTACTGGGTAGTTAGA
130 CAGAAATAACAAAATTGACTTCTCTTCACGAGGAAGTCAAGGGTTAACTCTACTGGGTAGTCAGA
* *
5608754 AATAACAAACGTTGACTTTTATTCACGAGGAAGTCAAGGGTTGACTCTACTC
195 AATAACAAAC-TTGACTTCTATTCACGAGGAAGTCAAGGGTTGACTCTACTA
* * * *
5608806 GGGAGTTAGAAATAACAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGGTTGACTCTACTGGGG
1 GGGAGTCAGAAATAACAAAGGCT-ACTTCTCTTCACGACGAAGTCAAGGGTTGACTCTACTGGGG
*
5608871 AGTC-AGAAATAACAAAGTTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGGGA
65 AGTCAAG-AATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACT-GGGGA
*
5608935 GTCACAAATAACAAAACTTGACTTCTCTTCACGAGGAAGTCAAGGGTTAACTCTACT-GGTGAGT
128 GTCAGAAATAACAAAA-TTGACTTCTCTTCACGAGGAAGTCAAGGGTTAACTCTACTGGGT-AGT
* * * *
5608999 CATAAATGA-AAA-TTGACTTCTCTTCACGAGGAAGTCAAGGGTTGATTCTACTA
191 CAGAAATAACAAACTTGACTTCTATTCACGAGGAAGTCAAGGGTTGACTCTACTA
* * *
5609052 GGGAGTCAGAAATAACAAAGGCTACTTCTCTTCATGATGAAGTCAAGGGTTGACTCTACTAGGGA
1 GGGAGTCAGAAATAACAAAGGCTACTTCTCTTCACGACGAAGTCAAGGGTTGACTCTACTGGGGA
* * * * ** *
5609117 TTCAAGGATAA-ATATG-TTGACTTTTCTT-ATAAGGAAGTTAAGGGTTGACTCTACTGGGGAGT
66 GTCAAGAATAACA-AAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGGAGT
* * * * *
5609179 CAGGAATAACAAAGGTTGACTTCTCTTCATGAGAAAGTCAATGGTT
130 CAGAAATAACAAA-ATTGACTTCTCTTCACGAGGAAGTCAAGGGTT
5609225 GAAATCATGA
Statistics
Matches: 365, Mismatches: 41, Indels: 26
0.84 0.09 0.06
Matches are distributed among these distances:
241 1 0.00
242 64 0.18
243 115 0.32
244 12 0.03
245 46 0.13
246 60 0.16
248 21 0.06
249 46 0.13
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (245 bp):
GGGAGTCAGAAATAACAAAGGCTACTTCTCTTCACGACGAAGTCAAGGGTTGACTCTACTGGGGA
GTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGGGGAGTC
AGAAATAACAAAATTGACTTCTCTTCACGAGGAAGTCAAGGGTTAACTCTACTGGGTAGTCAGAA
ATAACAAACTTGACTTCTATTCACGAGGAAGTCAAGGGTTGACTCTACTA
Found at i:5609171 original size:305 final size:304
Alignment explanation
Indices: 5608561--5609226 Score: 916
Period size: 305 Copynumber: 2.2 Consensus size: 304
5608551 TCAGACCGTG
** * *
5608561 CTGGGGAGTCAGGAATAACAAAGACGACTTCTATTCACGACGAAGTCAAGGGTTGACTCTACTGG
1 CTGGGGAGTCAGGAATAACAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGG
* *
5608626 GGAGTCATAAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTAGTCA
66 GGAGTCACAAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGGGTTAACTCTACTAGTCA
*
5608691 GAAATAATAAAATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTTTACTGGGTAGTTAGAAA
131 GAAATAATAAAATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTTTACTGGGTAGTCAGAAA
* * *
5608756 TAACAAACGTTGACTTTTATTCACGAGGAAGTCAAGGGTTGACTCTACTCGGGAGTTAGAAATAA
196 TAACAAACGCTGACTTCTATTCACGAGGAAGTCAAGGGTTGACTCTACTAGGGAGTTAGAAATAA
5608821 CAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGGTTGACTCTA
261 CAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGGTTGACTCTA
*
5608865 CTGGGGAGTCAGAAATAACAAAGTTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTG
1 CTGGGGAGTCAGGAATAACAAAG-TTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACT-
* *
5608930 GGGGAGTCACAAATAACAAA-ACTTGACTTCTCTTCACGAGGAAGTCAAGGGTTAACTCTACTGG
64 GGGGAGTCACAAATAACAAAGA-TCGACTTCTCTTCACGAGGAAGTCAAGGGTTAACTCTACTAG
* ** *
5608994 TGAGTCATAAATGAAAATTGACTTCTCTTCACGAGGAAGTCAAGGGTTGA-TTCTACTAGGG-AG
128 TCAGAAAT-AAT-AAAATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTT-TACT-GGGTAG
* * * *
5609057 TCAGAAATAACAAAGGCT-ACTTCTCTTCATGATGAAGTCAAGGGTTGACTCTACTAGGGA-TTC
189 TCAGAAATAACAAACGCTGACTTCTATTCACGAGGAAGTCAAGGGTTGACTCTACTAGGGAGTT-
* * * * * *
5609120 A-AGGATAA-ATATGTTGACTTTTCTT-ATAAGGAAGTTAAGGGTTGACTCTA
253 AGA-AATAACAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGGTTGACTCTA
* * *
5609170 CTGGGGAGTCAGGAATAACAAAGGTTGACTTCTCTTCATGAGAAAGTCAATGGTTGA
1 CTGGGGAGTCAGGAATAACAAA-GTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGA
5609227 AATCATGAAT
Statistics
Matches: 321, Mismatches: 31, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
304 22 0.07
305 111 0.35
306 81 0.25
307 47 0.15
308 57 0.18
309 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (304 bp):
CTGGGGAGTCAGGAATAACAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGGTTGACTCTACTGG
GGAGTCACAAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGGGTTAACTCTACTAGTCA
GAAATAATAAAATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTTTACTGGGTAGTCAGAAA
TAACAAACGCTGACTTCTATTCACGAGGAAGTCAAGGGTTGACTCTACTAGGGAGTTAGAAATAA
CAAAGGTTGACTTCTCTTCACAAGGAAGTCAAGGGTTGACTCTA
Found at i:5615012 original size:13 final size:13
Alignment explanation
Indices: 5614994--5615041 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
5614984 GCTCAATGAA
5614994 CGTCATAAATACG
1 CGTCATAAATACG
**
5615007 CGTCATAAATGTG
1 CGTCATAAATACG
*
5615020 TGTC-TAAATACG
1 CGTCATAAATACG
5615032 CGTCATAAAT
1 CGTCATAAAT
5615042 TTATGACGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (13 bp):
CGTCATAAATACG
Found at i:5616819 original size:141 final size:141
Alignment explanation
Indices: 5616545--5616823 Score: 510
Period size: 141 Copynumber: 2.0 Consensus size: 141
5616535 CCTTATAAAG
5616545 GCTATATTTGTAAGAGAAGGGTATGGTGCTTGAGCGTATCTTCTGGGTAAGGTCAAGGGTCATTG
1 GCTATATTTGTAAGAGAAGGGTATGGTGCTTGAGCGTATCTTCTGGGTAAGGTCAAGGGTCATTG
5616610 TTTTATTGTTTTCAACCTTTTCACTCGGTCAAAGATTTAACTCTAATGACTTAAAGAGTTTTAAT
66 TTTTATTGTTTTCAACCTTTTCACTCGGTCAAAGATTTAACTCTAATGACTTAAAGAGTTTTAAT
5616675 TCAGTTGAATT
131 TCAGTTGAATT
5616686 GCTATATTTGTAAGAGAAGGGTATGGTGCTTGAGCGTATC-T-TGGGTAAGGTCAAGGGTCATTG
1 GCTATATTTGTAAGAGAAGGGTATGGTGCTTGAGCGTATCTTCTGGGTAAGGTCAAGGGTCATTG
5616749 TTTTATTAGTTTT-AACCTTTTCACTCGGTCAAAGATTATAACTCTAATGACTTAAAGAGTTTTT
66 TTTTATT-GTTTTCAACCTTTTCACTCGGTCAAAGATT-TAACTCTAATGACTTAAAGAG-TTTT
5616813 AATTCAGTTGA
128 AATTCAGTTGA
5616824 TATTTAAAGA
Statistics
Matches: 135, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
139 53 0.39
140 27 0.20
141 55 0.41
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (141 bp):
GCTATATTTGTAAGAGAAGGGTATGGTGCTTGAGCGTATCTTCTGGGTAAGGTCAAGGGTCATTG
TTTTATTGTTTTCAACCTTTTCACTCGGTCAAAGATTTAACTCTAATGACTTAAAGAGTTTTAAT
TCAGTTGAATT
Found at i:5621231 original size:23 final size:21
Alignment explanation
Indices: 5621172--5621232 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
5621162 ACTTGAGTAA
* *
5621172 AATAATATTTAAAAATATTAT
1 AATAAAATTAAAAAATATTAT
*
5621193 AATAAAATTAACAAATATGTA-
1 AATAAAATTAAAAAATAT-TAT
5621214 AATAAAGAATTAAAAAATA
1 AAT-AA-AATTAAAAAATA
5621233 ATAAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 18 0.55
22 4 0.12
23 11 0.33
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (21 bp):
AATAAAATTAAAAAATATTAT
Found at i:5624120 original size:39 final size:39
Alignment explanation
Indices: 5624076--5624150 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
5624066 GCACAGTTTG
* *
5624076 GCATATTATAAAAAGAAATGGACTCATGCGCACCTGCTA
1 GCATATTATAAAAAGAAAAGGACCCATGCGCACCTGCTA
* * * *
5624115 GCATATTTTCAAATGAAAAGGCCCCATGCGCACCTG
1 GCATATTATAAAAAGAAAAGGACCCATGCGCACCTG
5624151 TGAAGAATGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (39 bp):
GCATATTATAAAAAGAAAAGGACCCATGCGCACCTGCTA
Found at i:5633934 original size:157 final size:157
Alignment explanation
Indices: 5633648--5633962 Score: 630
Period size: 157 Copynumber: 2.0 Consensus size: 157
5633638 CAATTTGTTT
5633648 TTATAGTTAAGTTGACAAGGATTTGTGTTAAGGCTAGTCAAGAGTGATTGAACTAGTTCGTGACA
1 TTATAGTTAAGTTGACAAGGATTTGTGTTAAGGCTAGTCAAGAGTGATTGAACTAGTTCGTGACA
5633713 AAGAGTAAGAGATGGGGTATAAGAGAAAAAGAGTTTCCATACGTAAAGGCAAAAATTTCCATAGT
66 AAGAGTAAGAGATGGGGTATAAGAGAAAAAGAGTTTCCATACGTAAAGGCAAAAATTTCCATAGT
5633778 GGGAAACGAGAAGAGAGTCCGATGGGC
131 GGGAAACGAGAAGAGAGTCCGATGGGC
5633805 TTATAGTTAAGTTGACAAGGATTTGTGTTAAGGCTAGTCAAGAGTGATTGAACTAGTTCGTGACA
1 TTATAGTTAAGTTGACAAGGATTTGTGTTAAGGCTAGTCAAGAGTGATTGAACTAGTTCGTGACA
5633870 AAGAGTAAGAGATGGGGTATAAGAGAAAAAGAGTTTCCATACGTAAAGGCAAAAATTTCCATAGT
66 AAGAGTAAGAGATGGGGTATAAGAGAAAAAGAGTTTCCATACGTAAAGGCAAAAATTTCCATAGT
5633935 GGGAAACGAGAAGAGAGTCCGATGGGC
131 GGGAAACGAGAAGAGAGTCCGATGGGC
5633962 T
1 T
5633963 CGAGGGCATC
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 158 1.00
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (157 bp):
TTATAGTTAAGTTGACAAGGATTTGTGTTAAGGCTAGTCAAGAGTGATTGAACTAGTTCGTGACA
AAGAGTAAGAGATGGGGTATAAGAGAAAAAGAGTTTCCATACGTAAAGGCAAAAATTTCCATAGT
GGGAAACGAGAAGAGAGTCCGATGGGC
Found at i:5637375 original size:35 final size:35
Alignment explanation
Indices: 5637330--5637399 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
5637320 ATTCTTCATA
*
5637330 GGGTATCGATACGAAT-TGGTAA-TATCGGTACCAT
1 GGGTATCGATACGAATGTGG-AAGTATCAGTACCAT
*
5637364 GGGTAATCGATACTAATGTGGAAGTATCAGTACCAT
1 GGGT-ATCGATACGAATGTGGAAGTATCAGTACCAT
5637400 TTTTACAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 4 0.13
35 13 0.42
36 14 0.45
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (35 bp):
GGGTATCGATACGAATGTGGAAGTATCAGTACCAT
Found at i:5638126 original size:21 final size:21
Alignment explanation
Indices: 5638102--5638181 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
5638092 GTCATTCGAG
5638102 ACATATATGTGATCCTTTGGA
1 ACATATATGTGATCCTTTGGA
* * *
5638123 ACATATACG-CAGTCCTTTGGG
1 ACATATATGTGA-TCCTTTGGA
* * *
5638144 ACATATATTTGGTTCTTTGGA
1 ACATATATGTGATCCTTTGGA
*
5638165 ACATATATGTGGTCCTT
1 ACATATATGTGATCCTT
5638182 AGGGACAGTT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 1 0.02
21 45 0.98
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (21 bp):
ACATATATGTGATCCTTTGGA
Found at i:5638180 original size:42 final size:42
Alignment explanation
Indices: 5638101--5638188 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
5638091 GGTCATTCGA
*
5638101 GACATATATGTGATCCTTTGGAACATATACGCAGTCCTTTGG
1 GACATATATGTGATCCTTTGGAACATATACGCAGTCCTTAGG
* * * * **
5638143 GACATATATTTGGTTCTTTGGAACATATATGTGGTCCTTAGG
1 GACATATATGTGATCCTTTGGAACATATACGCAGTCCTTAGG
5638185 GACA
1 GACA
5638189 GTTTTATGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (42 bp):
GACATATATGTGATCCTTTGGAACATATACGCAGTCCTTAGG
Found at i:5638222 original size:21 final size:21
Alignment explanation
Indices: 5638192--5638232 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5638182 AGGGACAGTT
*
5638192 TTATGTGGTCATTCAGGATAA
1 TTATGAGGTCATTCAGGATAA
* *
5638213 TTATGAGGTCCTTCGGGATA
1 TTATGAGGTCATTCAGGATA
5638233 TATATGTGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (21 bp):
TTATGAGGTCATTCAGGATAA
Found at i:5639262 original size:103 final size:104
Alignment explanation
Indices: 5639083--5639291 Score: 393
Period size: 103 Copynumber: 2.0 Consensus size: 104
5639073 GCGAACACTT
5639083 ATGTAGTACCTATACAAGATCAAGAGTTATTTTCCAAGACGTTGAACGCTATTCTAACGCTTTTT
1 ATGTAGTACCTATACAAGATCAAGAGTTATTTTCCAAGACGTTGAACGCTATTCTAACGCTTTTT
5639148 CAACCTCCTGCTCCCT-CTCCTAGAGTAAATATAGCTAA
66 CAACCTCCTGCTCCCTACTCCTAGAGTAAATATAGCTAA
5639186 ATGTAGTACCTATACAAGATCAAGAGTTATTTTCCAAGACGTTGAACGCTATTCTAACGCTTTTT
1 ATGTAGTACCTATACAAGATCAAGAGTTATTTTCCAAGACGTTGAACGCTATTCTAACGCTTTTT
5639251 CAACCTCCTGCTCCCTCAACTCCTAGAGTAAATATAGCTAA
66 CAACCTCCTGCTCCCT--ACTCCTAGAGTAAATATAGCTAA
5639292 TGAATTGAAA
Statistics
Matches: 103, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
103 81 0.79
106 22 0.21
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (104 bp):
ATGTAGTACCTATACAAGATCAAGAGTTATTTTCCAAGACGTTGAACGCTATTCTAACGCTTTTT
CAACCTCCTGCTCCCTACTCCTAGAGTAAATATAGCTAA
Found at i:5654877 original size:21 final size:20
Alignment explanation
Indices: 5654797--5654878 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 20
5654787 CGCAAATCAG
5654797 TTTCCAGATTCGCAATGCGAT
1 TTTCCA-ATTCGCAATGCGAT
* * *
5654818 TAT-GACTATCGCAATGCGAT
1 TTTCCAAT-TCGCAATGCGAT
**
5654838 TTTCCAATTTCGCGTTGCGAT
1 TTTCCAA-TTCGCAATGCGAT
5654859 TTTCCCAATTCGCAATGCGA
1 TTT-CCAATTCGCAATGCGA
5654879 ATATTCGCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
19 1 0.02
20 15 0.32
21 26 0.55
22 5 0.11
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (20 bp):
TTTCCAATTCGCAATGCGAT
Found at i:5654886 original size:15 final size:15
Alignment explanation
Indices: 5654866--5654896 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5654856 GATTTTCCCA
*
5654866 ATTCGCAATGCGAAT
1 ATTCGCAACGCGAAT
5654881 ATTCGCAACGCGAAT
1 ATTCGCAACGCGAAT
5654896 A
1 A
5654897 AGTAAATCGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (15 bp):
ATTCGCAACGCGAAT
Found at i:5654947 original size:41 final size:42
Alignment explanation
Indices: 5654920--5655057 Score: 144
Period size: 41 Copynumber: 3.4 Consensus size: 42
5654910 GCGAATTTGG
5654920 AAAATCGCAATGCGATACTGACTATCGCAACGCG-ATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGAATAATAC
* *
5654961 AAAATCGCAATGCGATACTGACTTTCGCAACGCG-ATACTTAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGAATA-ATAC
** * * *
5655003 --TTTCGCAACT-AGATACTGACTTTCGCAACGAG-ATAATAC
1 AAAATCGCAA-TGCGATACTGACTATCGCAACGCGAATAATAC
*
5655042 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
5655058 TTTCAAAGCG
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
39 3 0.04
40 30 0.37
41 46 0.56
42 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGAATAATAC
Found at i:5654948 original size:20 final size:20
Alignment explanation
Indices: 5654923--5655057 Score: 96
Period size: 20 Copynumber: 6.7 Consensus size: 20
5654913 AATTTGGAAA
5654923 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
5654943 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
5654964 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
5654984 TTCGCAACGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
5655004 TTCGCAACT-AGATACTGACT
1 ATCGCAA-TGCGATACTGACT
* * * *
5655024 TTCGCAACGAGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
5655044 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
5655058 TTTCAAAGCG
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
19 4 0.04
20 61 0.67
21 24 0.26
22 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:5655556 original size:20 final size:20
Alignment explanation
Indices: 5655517--5655575 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
5655507 TTTATTCTCT
* **
5655517 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
5655537 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* * *
5655557 TGTTACGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
5655576 AGAAACTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:5655766 original size:25 final size:24
Alignment explanation
Indices: 5655712--5655766 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
5655702 TGTTTATTAT
* *
5655712 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
5655736 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
5655762 TGTTT
1 TGTTT
5655767 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:5656897 original size:18 final size:18
Alignment explanation
Indices: 5656876--5656923 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
5656866 TCCACTTCGG
5656876 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
5656894 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
5656912 GAGCCATCACCT
1 GAGCCATCACCT
5656924 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:5657503 original size:19 final size:19
Alignment explanation
Indices: 5657479--5657537 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
5657469 ACACGAATTT
5657479 CGATTTTCATTTTGCGTTG
1 CGATTTTCATTTTGCGTTG
*
5657498 CGA--TT--TTGT-CGTTG
1 CGATTTTCATTTTGCGTTG
* *
5657512 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTTGCGTTG
5657531 CGATTTT
1 CGATTTT
5657538 GTCGTTGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 2 0.06
17 2 0.06
18 2 0.06
19 14 0.45
ACGTcount: A:0.12, C:0.17, G:0.20, T:0.51
Consensus pattern (19 bp):
CGATTTTCATTTTGCGTTG
Found at i:5657512 original size:14 final size:14
Alignment explanation
Indices: 5657487--5657551 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 14
5657477 TTCGATTTTC
5657487 ATTTTG-CGTTGCG
1 ATTTTGTCGTTGCG
5657500 ATTTTGTCGTTGCG
1 ATTTTGTCGTTGCG
*
5657514 ATTTTCATTTCGCATTGCG
1 A-TTT--TGTCG--TTGCG
*
5657533 ATTTTGTCGTTGTG
1 ATTTTGTCGTTGCG
5657547 ATTTT
1 ATTTT
5657552 CATTTCGCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 6 0.14
14 17 0.40
15 3 0.07
16 4 0.09
17 4 0.09
18 3 0.07
19 6 0.14
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (14 bp):
ATTTTGTCGTTGCG
Found at i:5657521 original size:33 final size:33
Alignment explanation
Indices: 5657479--5657567 Score: 151
Period size: 33 Copynumber: 2.7 Consensus size: 33
5657469 ACACGAATTT
* *
5657479 CGATTTTCATTTTGCGTTGCGATTTTGTCGTTG
1 CGATTTTCATTTCGCATTGCGATTTTGTCGTTG
5657512 CGATTTTCATTTCGCATTGCGATTTTGTCGTTG
1 CGATTTTCATTTCGCATTGCGATTTTGTCGTTG
*
5657545 TGATTTTCATTTCGCATTGCGAT
1 CGATTTTCATTTCGCATTGCGAT
5657568 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.49
Consensus pattern (33 bp):
CGATTTTCATTTCGCATTGCGATTTTGTCGTTG
Found at i:5657586 original size:20 final size:20
Alignment explanation
Indices: 5657551--5657626 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
5657541 GTTGTGATTT
5657551 TCATTT-CGCATTGCGATAG
1 TCATTTCCGCATTGCGATAG
* * *
5657570 CCATTTCCGCGTTGCGATAA
1 TCATTTCCGCATTGCGATAG
*
5657590 TCATTTCCGCGTTGCGATAG
1 TCATTTCCGCATTGCGATAG
*
5657610 TCATTTTCGCATTGCGA
1 TCATTTCCGCATTGCGA
5657627 AAGTATGTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 5 0.10
20 44 0.90
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (20 bp):
TCATTTCCGCATTGCGATAG
Found at i:5657637 original size:20 final size:19
Alignment explanation
Indices: 5657554--5657651 Score: 63
Period size: 20 Copynumber: 4.9 Consensus size: 19
5657544 GTGATTTTCA
* *
5657554 TTTCGCATTGCGATAGCCAT
1 TTTCGCATTGCGAAAG-TAT
* *
5657574 TTCCGCGTTGCGATAA-TCAT
1 TTTCGCATTGCGA-AAGT-AT
* * *
5657594 TTCCGCGTTGCGATAGTCAT
1 TTTCGCATTGCGAAAGT-AT
5657614 TTTCGCATTGCGAAAGTAT
1 TTTCGCATTGCGAAAGTAT
**
5657633 GTTTCGTGTTGCGAAAGTA
1 -TTTCGCATTGCGAAAGTA
5657652 AACTATTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
19 3 0.05
20 60 0.94
21 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (19 bp):
TTTCGCATTGCGAAAGTAT
Found at i:5658027 original size:21 final size:20
Alignment explanation
Indices: 5658001--5658070 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
5657991 CTGTCATCCC
5658001 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
5658022 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
5658043 TCAAGAGTCCCCCCCCACCGT
1 TCAAGAGT-CCCCTCCATCGT
5658064 TCAAGAG
1 TCAAGAG
5658071 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 32 0.86
22 5 0.14
ACGTcount: A:0.24, C:0.41, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:5658053 original size:42 final size:42
Alignment explanation
Indices: 5657994--5658101 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
5657984 GACTCACCTG
* * *
5657994 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
* *
5658036 TCATCCCTCAAGAGTCCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
** *
5658078 TCATCGTTGAAGAGGTCCCCCCCA
1 TCATCCCTCAAGA-GTCCCCCCCA
5658102 CCATTCCAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
42 47 0.84
43 9 0.16
ACGTcount: A:0.22, C:0.42, G:0.17, T:0.19
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
Found at i:5659525 original size:14 final size:14
Alignment explanation
Indices: 5659491--5659529 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
5659481 TTGATTGTTT
5659491 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
5659505 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
5659519 TGTTGATTTGT
1 AATTGATTTGT
5659530 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:5659734 original size:19 final size:20
Alignment explanation
Indices: 5659710--5659758 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
5659700 AAAATCACAA
*
5659710 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTCCATTTTCGCGT
**
5659729 TGCGATAACCATTTTCGCGT
1 TGCGATTTCCATTTTCGCGT
5659749 TGCGATTTCC
1 TGCGATTTCC
5659759 CCGTTGCGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.41
Consensus pattern (20 bp):
TGCGATTTCCATTTTCGCGT
Found at i:5660325 original size:20 final size:20
Alignment explanation
Indices: 5660300--5660391 Score: 123
Period size: 20 Copynumber: 4.6 Consensus size: 20
5660290 ATTATGTATT
* *
5660300 ATCTCGTTGCGATAGTTAGA
1 ATCTCGTTGCGAAAGTCAGA
5660320 ATCTCGTTGCGAAAGTCAGA
1 ATCTCGTTGCGAAAGTCAGA
*
5660340 ATCGCGTTGCGAAAGTCAGA
1 ATCTCGTTGCGAAAGTCAGA
*
5660360 ATCGT-GTTGCGAAAGTCAGT
1 ATC-TCGTTGCGAAAGTCAGA
*
5660380 ATCGCGTTGCGA
1 ATCTCGTTGCGA
5660392 TTTTGTATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (20 bp):
ATCTCGTTGCGAAAGTCAGA
Found at i:5660425 original size:20 final size:20
Alignment explanation
Indices: 5660299--5660425 Score: 121
Period size: 20 Copynumber: 6.3 Consensus size: 20
5660289 GATTATGTAT
* * *
5660299 TATCTCGTTGCGATAGTTAG
1 TATCGCGTTGCGAAAGTCAG
* *
5660319 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
5660339 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
5660359 AATCGTGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
5660379 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
5660400 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
5660420 TATCGC
1 TATCGC
5660426 ATTGTGATTT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.03
20 73 0.79
21 14 0.15
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:5660447 original size:41 final size:41
Alignment explanation
Indices: 5660324--5660454 Score: 113
Period size: 41 Copynumber: 3.2 Consensus size: 41
5660314 GTTAGAATCT
* * * *** *
5660324 CGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGA-ATCG
1 CGTTGCGATAGTCAGTATCGCATTGCGATTTTCAAATATCG
* * * ** *
5660364 TGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCG
1 CGTTGCGATAGTCAGTATCGCATTGCGATTTTCAAATATCG
*
5660405 CGTTGCGATAGTCAGTATCGCATTGTGATTTTCCAAAT-TCG
1 CGTTGCGATAGTCAGTATCGCATTGCGATTTT-CAAATATCG
5660446 CGTTGCGAT
1 CGTTGCGAT
5660455 TTACTTATTC
Statistics
Matches: 73, Mismatches: 16, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
40 27 0.37
41 44 0.60
42 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (41 bp):
CGTTGCGATAGTCAGTATCGCATTGCGATTTTCAAATATCG
Found at i:5660515 original size:21 final size:22
Alignment explanation
Indices: 5660463--5660515 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
5660453 ATTTACTTAT
*
5660463 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGAAAAA
* **
5660484 TCGTAACGCGAAATT-GAAAAA
1 TCGCATTGCGAAATTGGAAAAA
5660505 TCGCATTGCGA
1 TCGCATTGCGA
5660516 TAGTCATAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGAAAAA
Found at i:5663012 original size:27 final size:27
Alignment explanation
Indices: 5662962--5663013 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
5662952 TATATTTTTA
**
5662962 TTTAATGTGGTATTTGAATCTAATATT
1 TTTAATGTGGTATTCAAATCTAATATT
*
5662989 TTTAATGTGGTATTCAAATTTAATA
1 TTTAATGTGGTATTCAAATCTAATA
5663014 AGTTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (27 bp):
TTTAATGTGGTATTCAAATCTAATATT
Found at i:5663019 original size:27 final size:27
Alignment explanation
Indices: 5662962--5663020 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
5662952 TATATTTTTA
** **
5662962 TTTAATGTGGTATTTGAATCTAATATT
1 TTTAATGTGGTATTCAAATCTAATAAG
*
5662989 TTTAATGTGGTATTCAAATTTAATAAG
1 TTTAATGTGGTATTCAAATCTAATAAG
5663016 TTTAA
1 TTTAA
5663021 AATTTAATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (27 bp):
TTTAATGTGGTATTCAAATCTAATAAG
Found at i:5670210 original size:22 final size:23
Alignment explanation
Indices: 5670185--5670231 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
5670175 TTTATTATTT
5670185 TTATATAT-ACTTTTTAATAAAA
1 TTATATATAACTTTTTAATAAAA
* * *
5670207 TTATGTATAATTTTTTTATAAAA
1 TTATATATAACTTTTTAATAAAA
5670230 TT
1 TT
5670232 TAAAAGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATATATAACTTTTTAATAAAA
Found at i:5670299 original size:16 final size:16
Alignment explanation
Indices: 5670278--5670308 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5670268 TATGTATATT
5670278 TTAATTTTAAATAATA
1 TTAATTTTAAATAATA
*
5670294 TTAATTTTACATAAT
1 TTAATTTTAAATAAT
5670309 TTATCTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATTTTAAATAATA
Found at i:5675407 original size:19 final size:19
Alignment explanation
Indices: 5675383--5675419 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
5675373 GTTTTGTTTC
5675383 TTGCTTGAAGCTT-GTTATT
1 TTGCTTGAA-CTTAGTTATT
5675402 TTGCTTGAACTTAGTTAT
1 TTGCTTGAACTTAGTTAT
5675420 AATATTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.51
Consensus pattern (19 bp):
TTGCTTGAACTTAGTTATT
Found at i:5677711 original size:42 final size:42
Alignment explanation
Indices: 5677664--5677752 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
5677654 ATAATAAAAT
* * *
5677664 AATATATTATTGATGATTTTTTATATGAATAATTTTTATTTA
1 AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
*
5677706 AATATATTATCGATGAATTTTTATATAAATGATTTTTATTTA
1 AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
5677748 AATAT
1 AATAT
5677753 TTAAAATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (42 bp):
AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
Found at i:5677742 original size:16 final size:15
Alignment explanation
Indices: 5677722--5677754 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5677712 TTATCGATGA
5677722 ATTTTTATATAAATG
1 ATTTTTATATAAATG
*
5677737 ATTTTTATTTAAAT-
1 ATTTTTATATAAATG
5677751 ATTT
1 ATTT
5677755 AAAATTTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTTTTATATAAATG
Found at i:5680354 original size:22 final size:23
Alignment explanation
Indices: 5680317--5680363 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
5680307 AACCCTAAAC
5680317 AAGCCCAAAAATCGTATCTGCTA
1 AAGCCCAAAAATCGTATCTGCTA
* *
5680340 AAGCCC-AGAATCGTATCTTCTA
1 AAGCCCAAAAATCGTATCTGCTA
5680362 AA
1 AA
5680364 CTCGCGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (23 bp):
AAGCCCAAAAATCGTATCTGCTA
Found at i:5683801 original size:181 final size:182
Alignment explanation
Indices: 5683466--5683879 Score: 605
Period size: 181 Copynumber: 2.3 Consensus size: 182
5683456 GATCCAAATT
* * * * ***
5683466 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGATAACAAAATGATA
** ** * *
5683531 AAACCGGTAAAGTGCTACTGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGCTACCAGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
5683596 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
5683648 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGATAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGATAACAAAATGATA
* * *
5683713 AAACCGGTAAAACGTTACCAGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGCTACCAGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
5683777 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
5683829 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCG
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCG
5683880 GTAAAACGAT
Statistics
Matches: 207, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
181 113 0.55
182 94 0.45
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGATAACAAAATGATA
AAACCGGTAAAACGCTACCAGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:5686139 original size:21 final size:21
Alignment explanation
Indices: 5686109--5686173 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
5686099 AAGACAATCA
* *
5686109 AGAGTTGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
5686130 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
5686151 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
5686172 AG
1 AG
5686174 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:5686249 original size:33 final size:33
Alignment explanation
Indices: 5686207--5686272 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
5686197 AAATAGATGG
*
5686207 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
5686240 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
5686273 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:5688089 original size:19 final size:19
Alignment explanation
Indices: 5688065--5688113 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
5688055 AATGTAGGGT
5688065 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
5688084 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
5688103 TAATTTTGTAT
1 TAATTTTGTAT
5688114 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:5688969 original size:400 final size:400
Alignment explanation
Indices: 5688226--5689570 Score: 2230
Period size: 400 Copynumber: 3.4 Consensus size: 400
5688216 AATTTACAAT
* *
5688226 ATGGCAAACAAGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
5688291 CAAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTGCAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
5688356 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTTGATATTTCTGGTCCAG
131 ATGAGAGAATAGGTATAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
* *
5688421 AATGAATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGAACCCATA
196 AATGAATGGCAAACAGGGTGCAACCATAAAGTGT-GATCCATATATAAAAAGTGTCGATCCCATA
*
5688486 AACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCG
260 AACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCG
* *
5688551 GTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACAC-TTTTGTAGTTTGTGTCGATATTTTTG
325 GTTTTATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGATATTTTTG
5688615 GTCCAGAATGA
390 GTCCAGAATGA
*
5688626 ATGGCAAACAGGGTGCAACCATAAAGTGTTGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
5688691 CGAAACCAAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
5688756 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTATAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
5688821 AATGAATGGCAAACAGGGTGCAACCATAAAGTGTTGATCCATATATAAAAAGTGTCGATCCCATA
196 AATGAATGGCAAACAGGGTGCAACCATAAAGTG-TGATCCATATATAAAAAGTGTCGATCCCATA
*
5688886 AACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCT
260 AACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCG
*
5688951 GTTTTATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGATATTTCTG
325 GTTTTATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGATATTTTTG
5689016 GTCCAGAATGA
390 GTCCAGAATGA
* *
5689027 ATGGCAAACAGGCTGCAACCATATAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
5689092 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
5689157 ATGAGAGAATAGGTATAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTATAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
5689222 AATGAATGGCAAACAGGGTG----C----A-----A-CC----AT--AAAGTGTCGATCCCATAA
196 AATGAATGGCAAACAGGGTGCAACCATAAAGTGTGATCCATATATAAAAAGTGTCGATCCCATAA
5689267 ACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG
261 ACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG
5689332 TTTTATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGATATTTTTGG
326 TTTTATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGATATTTTTGG
5689397 TCCAGAATGA
391 TCCAGAATGA
* *
5689407 ATGGCAAACAGGGTGGAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
5689472 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
5689537 ATGAGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTATA-AATAATGTATCGACACT
5689571 GTTTAATGTT
Statistics
Matches: 903, Mismatches: 39, Indels: 26
0.93 0.04 0.03
Matches are distributed among these distances:
380 307 0.34
381 3 0.00
382 2 0.00
386 2 0.00
387 1 0.00
393 1 0.00
397 1 0.00
400 343 0.38
401 243 0.27
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (400 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTATAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGAATGGCAAACAGGGTGCAACCATAAAGTGTGATCCATATATAAAAAGTGTCGATCCCATAA
ACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG
TTTTATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGATATTTTTGG
TCCAGAATGA
Found at i:5689104 original size:201 final size:200
Alignment explanation
Indices: 5688226--5689570 Score: 1951
Period size: 200 Copynumber: 6.8 Consensus size: 200
5688216 AATTTACAAT
* *
5688226 ATGGCAAACAAGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
5688291 C-AAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTGCAAGTATACCGGTTT
66 CGAAAA-CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
* * *
5688355 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTTGATATTTCTGGTCCA
130 TATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
5688420 GAATGA
195 GAATGA
* *
5688426 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGAACCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
5688491 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
5688556 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
5688621 AATGA
196 AATGA
*
5688626 ATGGCAAACAGGGTGCAACCATAAAGTGTTGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
5688691 CG-AAACCAAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTT
66 CGAAAACC-AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
*
5688755 TATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCA
130 TATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
5688820 GAATGA
195 GAATGA
*
5688826 ATGGCAAACAGGGTGCAACCATAAAGTGTTGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
5688891 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCTGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
5688956 ATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGATATTTCTGGTCCA
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACAC-TTTTGTAGTTTGTGTCGATATTTTTGGTCCA
5689021 GAATGA
195 GAATGA
* *
5689027 ATGGCAAACAGGCTGCAACCATATAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
5689092 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
5689157 ATGAGAGAATAGGTATAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
5689222 AATGA
196 AATGA
* * *
5689227 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCC---CATAAACA---TCGAAACCC--AAA-A
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCG-ATCCCATAAACA
* * * * * * * * * **
5689283 --G--TA--TAATGTA-ATATGTAATTTTTCAA--TCT-AACCGGT-ACAAGTATACCGGT-T--
65 TCGAAAACCAAAAGTATA-ATGTAATATGT-AATTTTTCAATC--TAAC-CG-GTACAAGTATAC
* *
5689334 -----TTATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGATATTTT
124 CGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACAC-TTTTGTAGTTTGTGTCGATATTTT
5689394 TGGTCCAGAATGA
188 TGGTCCAGAATGA
* *
5689407 ATGGCAAACAGGGTGGAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
5689472 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
5689537 ATGAGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTGTCGACACT
5689571 GTTTAATGTT
Statistics
Matches: 1033, Mismatches: 71, Indels: 82
0.87 0.06 0.07
Matches are distributed among these distances:
179 33 0.03
180 69 0.07
183 6 0.01
184 3 0.00
185 9 0.01
186 20 0.02
187 10 0.01
188 2 0.00
190 2 0.00
192 1 0.00
193 10 0.01
194 18 0.02
195 9 0.01
196 3 0.00
197 6 0.01
199 5 0.00
200 597 0.58
201 227 0.22
202 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:5689300 original size:179 final size:179
Alignment explanation
Indices: 5689070--5689570 Score: 689
Period size: 179 Copynumber: 2.7 Consensus size: 179
5689060 CCATATATAA
*
5689070 AAAGTGTCGATCCCATAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
5689135 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTATAAATAATGTGTCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTATAAATAATGTGTCGACACTTTTGTAGTT
*
5689200 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCAT
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAAT
5689249 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* * *
5689314 CCGGTACAAGTATACCGGTTTTATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTTTTAGT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTATAAATAATGTGTCGACAC-TTTTGTAGT
*
5689379 TTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGGAACAAT
130 TTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAAT
* *
5689429 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTA
1 AAAGTGTCGATCC---------------C-AT--AA---ACATCGAAACCCAAAAGTATAATGTA
* *
5689494 ATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATTGGTATATAAT-
45 ATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTATA-AATA
*
5689558 ATGTATCGACACT
109 ATGTGTCGACACT
5689571 GTTTAATGTT
Statistics
Matches: 286, Mismatches: 13, Indels: 25
0.88 0.04 0.08
Matches are distributed among these distances:
179 117 0.41
180 69 0.24
195 1 0.00
196 2 0.01
198 1 0.00
200 1 0.00
201 92 0.32
202 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (179 bp):
AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTATAAATAATGTGTCGACACTTTTGTAGTT
TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAAT
Found at i:5691078 original size:6 final size:6
Alignment explanation
Indices: 5691067--5691154 Score: 86
Period size: 6 Copynumber: 14.7 Consensus size: 6
5691057 CAAGCGGTCA
* * * * * *
5691067 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGGAG ATGAGG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * *
5691115 ATGACG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
5691155 TGACGATGAT
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.39, C:0.08, G:0.35, T:0.18
Consensus pattern (6 bp):
ATGAAG
Found at i:5691162 original size:6 final size:6
Alignment explanation
Indices: 5691080--5691175 Score: 74
Period size: 6 Copynumber: 16.5 Consensus size: 6
5691070 AAGATGAAGC
* * * * *
5691080 TGACGA TGAAGA TGACGA TGGA-GA TGAGGA TGATGA TGACGA TGAAGC
1 TGACGA TGACGA TGACGA T-GACGA TGACGA TGACGA TGACGA TGACGA
* * * *
5691128 TGACGA TGAAGA TGACGA TGA--A -GATGA TGACGA TGATGA TGATGA
1 TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA
5691173 TGA
1 TGA
5691176 TTATCCAAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
3 2 0.03
4 1 0.01
5 3 0.04
6 65 0.89
7 2 0.03
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
TGACGA
Found at i:5691165 original size:24 final size:24
Alignment explanation
Indices: 5691067--5691172 Score: 122
Period size: 24 Copynumber: 4.4 Consensus size: 24
5691057 CAAGCGGTCA
* *
5691067 ATGAAGATGAAGCTGACGATGAAG
1 ATGACGATGAAGATGACGATGAAG
* * *
5691091 ATGACGATGGAGATGAGGATGATG
1 ATGACGATGAAGATGACGATGAAG
*
5691115 ATGACGATGAAGCTGACGATGAAG
1 ATGACGATGAAGATGACGATGAAG
* * *
5691139 ATGACGATGAAGATGATGACGATG
1 ATGACGATGAAGATGACGATGAAG
*
5691163 ATGATGATGA
1 ATGACGATGA
5691173 TGATTATCCA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.38, C:0.08, G:0.35, T:0.20
Consensus pattern (24 bp):
ATGACGATGAAGATGACGATGAAG
Found at i:5691166 original size:12 final size:12
Alignment explanation
Indices: 5691067--5691154 Score: 122
Period size: 12 Copynumber: 7.3 Consensus size: 12
5691057 CAAGCGGTCA
*
5691067 ATGAAGATGAAG
1 ATGACGATGAAG
*
5691079 CTGACGATGAAG
1 ATGACGATGAAG
*
5691091 ATGACGATGGAG
1 ATGACGATGAAG
* *
5691103 ATGAGGATGATG
1 ATGACGATGAAG
5691115 ATGACGATGAAG
1 ATGACGATGAAG
*
5691127 CTGACGATGAAG
1 ATGACGATGAAG
5691139 ATGACGATGAAG
1 ATGACGATGAAG
5691151 ATGA
1 ATGA
5691155 TGACGATGAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.39, C:0.08, G:0.35, T:0.18
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:5691167 original size:12 final size:12
Alignment explanation
Indices: 5691080--5691176 Score: 97
Period size: 12 Copynumber: 7.8 Consensus size: 12
5691070 AAGATGAAGC
*
5691080 TGACGATGAAGA
1 TGACGATGATGA
5691092 TGACGATGGA-GA
1 TGACGAT-GATGA
*
5691104 TGAGGATGATGA
1 TGACGATGATGA
* *
5691116 TGACGATGAAGC
1 TGACGATGATGA
*
5691128 TGACGATGAAGA
1 TGACGATGATGA
5691140 TGACGATGAAGATGA
1 TGACGAT---GATGA
5691155 TGACGATGATGA
1 TGACGATGATGA
*
5691167 TGATGATGAT
1 TGACGATGAT
5691177 TATCCAAACA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
11 2 0.03
12 58 0.79
13 2 0.03
15 11 0.15
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:5692878 original size:183 final size:183
Alignment explanation
Indices: 5692389--5692963 Score: 978
Period size: 183 Copynumber: 3.1 Consensus size: 183
5692379 CAAAGTTTTC
* *
5692389 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATT-
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACC-TTG
* *
5692453 TCAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
65 TCAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
* *
5692516 ATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGATCTACAACCTATATTG
127 ATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* * *
5692573 ACACTTTTT-TTCGCTTGCGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTT
1 ACACTTTTTAAT--ATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTT
5692637 GTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
64 GTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
5692702 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
5692757 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
5692822 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
5692887 AACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
5692940 ACACTTTTTAATATTGTGTCGGTA
1 ACACTTTTTAATATTGTGTCGGTA
5692964 ATTTTAAGTA
Statistics
Matches: 372, Mismatches: 13, Indels: 13
0.93 0.03 0.03
Matches are distributed among these distances:
183 193 0.52
184 117 0.31
185 59 0.16
187 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:5695839 original size:23 final size:23
Alignment explanation
Indices: 5695808--5695880 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
5695798 ATAGGTAAAA
*
5695808 ATATGATGTAATAGGTATCGCTT
1 ATATAATGTAATAGGTATCGCTT
* *
5695831 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTATCGCTT
5695854 ATATAATGTAATAGGTAGT-GCTT
1 ATATAATGTAATAGGTA-TCGCTT
5695877 ATAT
1 ATAT
5695881 TGTAAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:5699286 original size:37 final size:37
Alignment explanation
Indices: 5699245--5699320 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
5699235 TCAATCAAAC
*
5699245 AATTTATTATTAACCCTACTTAAACCGAGAGTAGATT
1 AATTTATTATTAACCCTACTTAAACCAAGAGTAGATT
* *
5699282 AATTTATTATTAACCCTAGTTAAACTAAGAGTAGATT
1 AATTTATTATTAACCCTACTTAAACCAAGAGTAGATT
5699319 AA
1 AA
5699321 GGCTTTCTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.36
Consensus pattern (37 bp):
AATTTATTATTAACCCTACTTAAACCAAGAGTAGATT
Found at i:5701748 original size:74 final size:74
Alignment explanation
Indices: 5701600--5701805 Score: 252
Period size: 74 Copynumber: 2.8 Consensus size: 74
5701590 CAAAGCCAAA
* * * * **
5701600 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCTGAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCTAAACAGT
5701665 TTGGCTCCGAG
64 TTGGCTCCGAG
* *
5701676 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACATTTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
* *
5701741 TGTTCCGAG
66 GGCTCCGAG
* * * *
5701750 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCT
5701806 GTTCAACGGT
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
74 83 0.73
75 6 0.05
76 25 0.22
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (74 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
GGCTCCGAG
Found at i:5707584 original size:20 final size:23
Alignment explanation
Indices: 5707556--5707613 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
5707546 TGGTGCAGAA
*
5707556 GGAATCGA-TCCCCCCTTG-A-G
1 GGAACCGATTCCCCCCTTGAAGG
*
5707576 GGAACCGATTCCCCCTTTGAAGG
1 GGAACCGATTCCCCCCTTGAAGG
5707599 GGAACCGATTCCCCC
1 GGAACCGATTCCCCC
5707614 ACAGGGGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 7 0.21
21 9 0.27
22 1 0.03
23 16 0.48
ACGTcount: A:0.21, C:0.36, G:0.24, T:0.19
Consensus pattern (23 bp):
GGAACCGATTCCCCCCTTGAAGG
Found at i:5707639 original size:19 final size:20
Alignment explanation
Indices: 5707596--5707633 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5707586 CCCCCTTTGA
*
5707596 AGGGGAACCGATTCCCCCAC
1 AGGGGAACCGATACCCCCAC
*
5707616 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
5707634 CTGGGGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGGGAACCGATACCCCCAC
Found at i:5710389 original size:75 final size:77
Alignment explanation
Indices: 5710207--5710413 Score: 262
Period size: 76 Copynumber: 2.7 Consensus size: 77
5710197 CAAAGCAAAA
* * * *
5710207 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATT--CCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCCTGAATAG
5710270 TTTGGCTCCGAG
66 TTTGGCTCCGAG
*
5710282 ATTTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCCT-AATTA
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCCTGAA-TA
* * *
5710345 TTTTTGTTCCGAG
65 GTTTGGCTCCGAG
* * * *
5710358 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCC
5710414 TGTTCAACGG
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
74 21 0.18
75 27 0.23
76 61 0.53
77 6 0.05
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCCTGAATAG
TTTGGCTCCGAG
Found at i:5711419 original size:3 final size:3
Alignment explanation
Indices: 5711411--5711449 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
5711401 ATATTTTATT
5711411 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
5711450 TGAAAACTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:5715211 original size:37 final size:38
Alignment explanation
Indices: 5715169--5715240 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
5715159 TTTATTTTGT
5715169 TCGGGTC-GGGTTTTTTAAGTGTAATATTCGGGTCGAG
1 TCGGGTCAGGGTTTTTTAAGTGTAATATTCGGGTCGAG
* *
5715206 TCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTC
1 TCGGGTCAGGGTTTTTTAAGTGTAATATTCGGGTC
5715241 AGGTTCGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 7 0.22
38 25 0.78
ACGTcount: A:0.15, C:0.11, G:0.33, T:0.40
Consensus pattern (38 bp):
TCGGGTCAGGGTTTTTTAAGTGTAATATTCGGGTCGAG
Found at i:5715403 original size:37 final size:38
Alignment explanation
Indices: 5715353--5715426 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
5715343 ATTATTTCGG
*
5715353 GTCGGGTCGGG-TTTTTTAAGTGGGATATTCGGGTCGA
1 GTCGGGTCGGGTTTTTTTAAGTGGGATATTCGAGTCGA
* *
5715390 GTCGGGTCGGGTTTTTTTAAGTGTGCTATTCGAGTCG
1 GTCGGGTCGGGTTTTTTTAAGTGGGATATTCGAGTCG
5715427 GGTTCAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 11 0.33
38 22 0.67
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (38 bp):
GTCGGGTCGGGTTTTTTTAAGTGGGATATTCGAGTCGA
Found at i:5716032 original size:16 final size:18
Alignment explanation
Indices: 5716011--5716055 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
5716001 TATGGAATTG
*
5716011 GATTCCAATTCC-T-ATA
1 GATTCCAATTCCTTCACA
5716027 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
5716045 GATTCCAATTC
1 GATTCCAATTC
5716056 TCTCATAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 13 0.50
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:5716191 original size:3 final size:3
Alignment explanation
Indices: 5716185--5716268 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
5716175 AGGAAGAAAG
*
5716185 GAA GAA GAA GAA GAA -AA GAA GAA GAA GAA GTA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
5716232 GAA GAA GAA GAA GAA GAA -AT GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
5716269 GTTCCAGATA
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 3 0.04
3 72 0.96
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:5716623 original size:41 final size:43
Alignment explanation
Indices: 5716561--5716646 Score: 113
Period size: 41 Copynumber: 2.0 Consensus size: 43
5716551 ATTCTGCCTG
* * *
5716561 AAGGTCTTATGGATGACCCGAAGGACTT-ATCATCTTGCTCGA
1 AAGGTCTTATAGATGACCCGAAGGACTTAAGCATCATGCTCGA
* *
5716603 AAGG-CTTATAGATTACCCGAAGGATTTAAGCATCATGCTCGA
1 AAGGTCTTATAGATGACCCGAAGGACTTAAGCATCATGCTCGA
5716645 AA
1 AA
5716647 TACTTACTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 20 0.53
42 18 0.47
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AAGGTCTTATAGATGACCCGAAGGACTTAAGCATCATGCTCGA
Found at i:5716895 original size:58 final size:58
Alignment explanation
Indices: 5716793--5716942 Score: 205
Period size: 58 Copynumber: 2.6 Consensus size: 58
5716783 GAAATCATCT
* * * * **
5716793 AGAAACTTCAGAAAATTAGACTTAGCTTCTTT-AAAATTCATTTGAAAACATTATGTCA
1 AGAAACCTCTGAAAATTAGACTTAGTTTCTTTAAAAATGCATTTGAAAA-ACCATGTCA
5716851 AGAAACC-CTGAAAATTAGACTTAGTTTCTTTAAAAATGCATTTGAAAAACCATGTCA
1 AGAAACCTCTGAAAATTAGACTTAGTTTCTTTAAAAATGCATTTGAAAAACCATGTCA
* *
5716908 AGAAACCTCTGAAAATCAGACTTAGTTTCTCTAAA
1 AGAAACCTCTGAAAATTAGACTTAGTTTCTTTAAA
5716943 GATATCATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
57 36 0.44
58 46 0.56
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (58 bp):
AGAAACCTCTGAAAATTAGACTTAGTTTCTTTAAAAATGCATTTGAAAAACCATGTCA
Found at i:5730932 original size:2 final size:2
Alignment explanation
Indices: 5730925--5731029 Score: 192
Period size: 2 Copynumber: 52.5 Consensus size: 2
5730915 GATTTAATCC
5730925 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
5730967 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
* *
5731009 AT AT AT AG AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
5731030 ATTAAGTGTT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 99 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5731635 original size:2 final size:2
Alignment explanation
Indices: 5731628--5731659 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5731618 AAGGAACATA
5731628 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
5731660 TAAAATTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5735011 original size:61 final size:60
Alignment explanation
Indices: 5734916--5735032 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 60
5734906 GGATGCAGTT
* * *
5734916 CTCCCAATTGACGACAAATTTGCTTAAGTTATTTTTCAGAGCTGACACGATAAGCCAGTGC
1 CTCCCAATTGACGACAAACTTGCTTAAGGTA-TTTTCAGAGCTGACACGACAAGCCAGTGC
* *
5734977 CTCCCAATTGACGACAAACTTGCTTAAGGTATTTTCGGAGCTGTCACGACAAGCCA
1 CTCCCAATTGACGACAAACTTGCTTAAGGTATTTTCAGAGCTGACACGACAAGCCA
5735033 AGGCTGTGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 22 0.43
61 29 0.57
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (60 bp):
CTCCCAATTGACGACAAACTTGCTTAAGGTATTTTCAGAGCTGACACGACAAGCCAGTGC
Found at i:5739701 original size:21 final size:21
Alignment explanation
Indices: 5739666--5739707 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
5739656 AAAATATATA
5739666 ATATATATAGTTTTTGAAAAT
1 ATATATATAGTTTTTGAAAAT
5739687 ATATAGTATAGTTTTTGAAAA
1 ATATA-TATAGTTTTTGAAAA
5739708 CACGGTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (21 bp):
ATATATATAGTTTTTGAAAAT
Found at i:5739776 original size:42 final size:39
Alignment explanation
Indices: 5739713--5739858 Score: 143
Period size: 40 Copynumber: 3.7 Consensus size: 39
5739703 GAAAACACGG
* * *
5739713 TTTTGAAAGCATATAATATATAGTTTTCTTAAAAATTATT
1 TTTTTAAAACATATAATATATAGTTTT-TTAAAAAGTATT
* * *
5739753 TTTTTAAAACATATATATAATATAGTCTTTGAAAACGTATT
1 TTTTTAAAACATATA-AT-ATATAGTTTTTTAAAAAGTATT
*
5739794 TTTTTGAAAACATATAATATATAGTTTTTTAAAACG-A-T
1 TTTTT-AAAACATATAATATATAGTTTTTTAAAAAGTATT
* * * *
5739832 TTTTGAACATATATAATATATAATTTT
1 TTTTTAAAACATATAATATATAGTTTT
5739859 AAAAAAATGG
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
37 19 0.21
38 5 0.05
39 1 0.01
40 29 0.32
41 18 0.20
42 19 0.21
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (39 bp):
TTTTTAAAACATATAATATATAGTTTTTTAAAAAGTATT
Found at i:5739796 original size:40 final size:39
Alignment explanation
Indices: 5739676--5739903 Score: 136
Period size: 40 Copynumber: 5.9 Consensus size: 39
5739666 ATATATATAG
* **
5739676 TTTTTG-AAA-ATAT-ATAGTATAGTTTTTGAAAAC-ACG
1 TTTTTGAAAACATATAATA-TATAGTCTTTGAAAACGATT
* * * * **
5739712 GTTTTGAAAGCATATAATATATAGTTTTCTTAAAAATTATT
1 TTTTTGAAAACATATAATATATAG-TCT-TTGAAAACGATT
5739753 TTTTT-AAAACATATATATAATATAGTCTTTGAAAACGTATT
1 TTTTTGAAAACATATA-AT-ATATAGTCTTTGAAAACG-ATT
* *
5739794 TTTTTGAAAACATATAATATATAGTTTTTTAAAACGA--
1 TTTTTGAAAACATATAATATATAGTCTTTGAAAACGATT
* * * ** *
5739831 TTTTTGAACATATATAATATATAAT-TTT-AAAAAAATGG
1 TTTTTGAAAACATATAATATATAGTCTTTGAAAACGAT-T
5739869 TTTTTGAAAAACATAT-ATAATATAGAT-TTTGAAAA
1 TTTTTG-AAAACATATAAT-ATATAG-TCTTTGAAAA
5739904 ATTATAATAT
Statistics
Matches: 153, Mismatches: 22, Indels: 29
0.75 0.11 0.14
Matches are distributed among these distances:
35 5 0.03
36 8 0.05
37 24 0.16
38 17 0.11
39 19 0.12
40 41 0.27
41 23 0.15
42 16 0.10
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (39 bp):
TTTTTGAAAACATATAATATATAGTCTTTGAAAACGATT
Found at i:5739905 original size:39 final size:37
Alignment explanation
Indices: 5739675--5739905 Score: 118
Period size: 38 Copynumber: 6.0 Consensus size: 37
5739665 AATATATATA
* *
5739675 GTTTTTG-AAA-ATATATAGTATAGTTTTTGAAAACACG
1 GTTTTTGAAAACATATATAATATAG-TTTTGAAAA-ATG
* * *
5739712 G-TTTTGAAAGCATATA-ATATATAGTTTTCTTAAAAATTA
1 GTTTTTGAAAACATATATA-ATATAG-TTT-TGAAAAA-TG
* *
5739751 TTTTTTTAAAACATATATATAATATAGTCTTTGAAAACGTAT-
1 GTTTTTGAAAAC--ATATATAATATAGT-TTTGAAAA---ATG
* ** *
5739793 TTTTTTGAAAACATATA-ATATATAGTTTTTTAAAACG
1 GTTTTTGAAAACATATATA-ATATAGTTTTGAAAAATG
* * *
5739830 ATTTTTG--AACATATATAATATATAATTTTAAAAAAATG
1 GTTTTTGAAAACATATAT-A-ATATAGTTTT-GAAAAATG
5739868 GTTTTTGAAAAACATATATAATATAGATTTTGAAAAAT
1 GTTTTTG-AAAACATATATAATATAG-TTTTGAAAAAT
5739906 TATAATATAA
Statistics
Matches: 151, Mismatches: 21, Indels: 42
0.71 0.10 0.20
Matches are distributed among these distances:
35 8 0.05
36 6 0.04
37 21 0.14
38 26 0.17
39 23 0.15
40 25 0.17
41 15 0.10
42 24 0.16
43 2 0.01
44 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (37 bp):
GTTTTTGAAAACATATATAATATAGTTTTGAAAAATG
Found at i:5739926 original size:46 final size:45
Alignment explanation
Indices: 5739869--5740040 Score: 147
Period size: 48 Copynumber: 3.7 Consensus size: 45
5739859 AAAAAAATGG
*
5739869 TTTTTGAAAAACATATATAATATAGATTTT-GAAAAATTATAATATAA
1 TTTTTG-AAAACATAT-T-ATATAGATTTTAAAAAAATTATAATATAA
* * *
5739916 TTTTTGAAAACATATTATATAGTTTTTAAAAAAACATATAACATATAG
1 TTTTTGAAAACATATTATATAGATTTTAAAAAAA-TTAT-A-ATATAA
* * *
5739964 TTTTTGAAAATATA-TAGTATA-ATTTTTAAAAACATATTGTTATATAA
1 TTTTTGAAAACATATTA-TATAGA-TTTTAAAAA-A-ATTATAATATAA
*
5740011 -TTTTGAAAACATATTATAT-GATTTTGAAAA
1 TTTTTGAAAACATATTATATAGATTTTAAAAA
5740041 TATAATATAT
Statistics
Matches: 103, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
44 10 0.10
45 14 0.14
46 28 0.27
47 16 0.16
48 31 0.30
49 3 0.03
50 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (45 bp):
TTTTTGAAAACATATTATATAGATTTTAAAAAAATTATAATATAA
Found at i:5740020 original size:70 final size:67
Alignment explanation
Indices: 5739870--5740044 Score: 187
Period size: 70 Copynumber: 2.5 Consensus size: 67
5739860 AAAAAATGGT
*
5739870 TTTTGAAAAACATATATAATATAGATTTTGAAAA-ATTATAATATAATTTTTGAAAACATATTAT
1 TTTTG-AAAACATATA-AATATAGATTTTGAAAATA-TATAATATAATTTTTAAAAACATATTAT
*
5739934 ATAGT
63 ATAGA
* * *
5739939 TTTTAAAAAAACATATAACATATAGTTTTTGAAAATATATAGTATAATTTTTAAAAACATATTGT
1 TTTT--GAAAACATATAA-ATATAGATTTTGAAAATATATAATATAATTTTTAAAAACATA---T
5740004 TATATA-A
60 TATATAGA
*
5740011 TTTTGAAAACATAT-TATAT-GATTTTGAAAATATA
1 TTTTGAAAACATATAAATATAGATTTTGAAAATATA
5740045 ATATATTATA
Statistics
Matches: 91, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
67 14 0.15
68 4 0.04
69 5 0.05
70 56 0.62
71 1 0.01
72 4 0.04
73 7 0.08
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (67 bp):
TTTTGAAAACATATAAATATAGATTTTGAAAATATATAATATAATTTTTAAAAACATATTATATA
GA
Found at i:5740043 original size:19 final size:21
Alignment explanation
Indices: 5739870--5740050 Score: 105
Period size: 22 Copynumber: 7.9 Consensus size: 21
5739860 AAAAAATGGT
5739870 TTTTGAAAAACATATATAATATAGA
1 TTTTG-AAAACATAT-T-ATATA-A
*
5739895 TTTTGAAAA-ATTATAATATAA
1 TTTTGAAAACA-TATTATATAA
*
5739916 TTTTTGAAAACATATTATATAGT
1 -TTTTGAAAACATATTATATA-A
* * *
5739939 TTTTAAAAAAACATATAACATATAGT
1 TTTT--GAAAACATAT--TATATA-A
*
5739965 TTTTGAAAATATA-TAGTATAA
1 TTTTGAAAACATATTA-TATAA
*
5739986 TTTTTAAAAACATATTGTTATATAA
1 -TTTTGAAAACATA---TTATATAA
*
5740011 TTTTGAAAACATATTATATGA
1 TTTTGAAAACATATTATATAA
* *
5740032 TTTTGAAAATATAATATAT
1 TTTTGAAAACATATTATAT
5740051 TATATAGTTT
Statistics
Matches: 127, Mismatches: 15, Indels: 32
0.73 0.09 0.18
Matches are distributed among these distances:
21 26 0.20
22 41 0.32
23 2 0.02
24 35 0.28
25 10 0.08
26 13 0.10
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (21 bp):
TTTTGAAAACATATTATATAA
Found at i:5740103 original size:3 final size:3
Alignment explanation
Indices: 5740095--5740139 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
5740085 TATATTAAGC
5740095 TTA TTA TTA TTA TTA TTA TTTA TT- TTA TATA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA
5740140 ATTTTATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.11
3 28 0.74
4 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5740122 original size:24 final size:23
Alignment explanation
Indices: 5740098--5740147 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
5740088 ATTAAGCTTA
*
5740098 TTATTATT--ATTATTATTTATT
1 TTATTATTATATTATTATTAATT
5740119 TTATATATTATATTATTATTAATT
1 TTAT-TATTATATTATTATTAATT
5740143 TTATT
1 TTATT
5740148 TTCCGTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 4 0.16
22 4 0.16
23 1 0.04
24 16 0.64
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTATTATTATATTATTATTAATT
Found at i:5741451 original size:5 final size:5
Alignment explanation
Indices: 5741427--5741481 Score: 67
Period size: 5 Copynumber: 10.4 Consensus size: 5
5741417 CTTTTAATTC
5741427 TTTTA -TTTA TTTAATA TTTTA TTTTA TTTTA TTTAATA TTTTA TTTTA
1 TTTTA TTTTA TTT--TA TTTTA TTTTA TTTTA TTT--TA TTTTA TTTTA
5741475 TTTTA TT
1 TTTTA TT
5741482 GTTTAACATT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.09
5 31 0.69
7 10 0.22
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:5741460 original size:22 final size:22
Alignment explanation
Indices: 5741427--5741481 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
5741417 CTTTTAATTC
5741427 TTTTA-TTTATTTAATATTTTA
1 TTTTATTTTATTTAATATTTTA
5741448 TTTTATTTTATTTAATATTTTA
1 TTTTATTTTATTTAATATTTTA
5741470 TTTTATTTTATT
1 TTTTATTTTATT
5741482 GTTTAACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTATTTTATTTAATATTTTA
Found at i:5741486 original size:17 final size:16
Alignment explanation
Indices: 5741427--5741478 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
5741417 CTTTTAATTC
*
5741427 TTTTA-TTTATTTAAT
1 TTTTATTTTATTTTAT
5741442 ATTTTATTTTATTTTAT
1 -TTTTATTTTATTTTAT
*
5741459 TTAATATTTTATTTTAT
1 TT-TTATTTTATTTTAT
5741476 TTT
1 TTT
5741479 ATTGTTTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 7 0.23
17 24 0.77
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:5745259 original size:24 final size:24
Alignment explanation
Indices: 5745238--5745283 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5745228 GCTAAAAATG
* *
5745238 ACAAGTTTCATTTGTTGCAAAAAA
1 ACAAGTTTCATCTGCTGCAAAAAA
*
5745262 ACATGTTTCATCTGCTGCAAAA
1 ACAAGTTTCATCTGCTGCAAAA
5745284 GCACAAGCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (24 bp):
ACAAGTTTCATCTGCTGCAAAAAA
Found at i:5752550 original size:21 final size:21
Alignment explanation
Indices: 5752524--5752569 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
5752514 TCGAGGGTTC
* * *
5752524 TATGTAGTCCTTCGGGACATA
1 TATGTAATACTTCGGAACATA
*
5752545 TATGTAATACTTTGGAACATA
1 TATGTAATACTTCGGAACATA
5752566 TATG
1 TATG
5752570 CGGTACTTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (21 bp):
TATGTAATACTTCGGAACATA
Found at i:5753718 original size:21 final size:21
Alignment explanation
Indices: 5753683--5753724 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
5753673 AATATATATA
5753683 ATATATATAGTTTTTGAAAAT
1 ATATATATAGTTTTTGAAAAT
5753704 ATATAGTATAGTTTTTGAAAA
1 ATATA-TATAGTTTTTGAAAA
5753725 CACGGTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (21 bp):
ATATATATAGTTTTTGAAAAT
Done.