Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 33
Found at i:1545010 original size:85 final size:85
Alignment explanation
Indices: 1544907--1545124 Score: 251
Period size: 85 Copynumber: 2.6 Consensus size: 85
1544897 AGATAATCTG
** * * * * *
1544907 CGGCGTTTGTATAAAAAAAACATCGGTATATA-C-CAGACCTTTTGTGGCGTTTGTTAAAAACGC
1 CGGCGTTTGTATCCAAAAAACGTCGATATATATCTCA-ACCTTTTGCGGCATTT-TTAAAAAAGC
* * *
1544970 CGTTATAGATATAGAGCTTTTA
64 CGCTAAAGATATAGACCTTTTA
* * * * *
1544992 CGTCGTTTTTATCCAAAAAACGCCGCTAAATATCTCAACCTTTTGCGGCATTTTTAAAAAAGCCG
1 CGGCGTTTGTATCCAAAAAACGTCGATATATATCTCAACCTTTTGCGGCATTTTTAAAAAAGCCG
1545057 CTAAAGATATAGACCTTTTA
66 CTAAAGATATAGACCTTTTA
* *
1545077 CGGCGTTTGTATCCAAAAAACGTCGATATATCTCTCGACCTTTTGCGG
1 CGGCGTTTGTATCCAAAAAACGTCGATATATATCTCAACCTTTTGCGG
1545125 TGTTTATCCC
Statistics
Matches: 110, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
85 93 0.85
86 15 0.14
87 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (85 bp):
CGGCGTTTGTATCCAAAAAACGTCGATATATATCTCAACCTTTTGCGGCATTTTTAAAAAAGCCG
CTAAAGATATAGACCTTTTA
Found at i:1545035 original size:45 final size:44
Alignment explanation
Indices: 1544986--1545189 Score: 131
Period size: 42 Copynumber: 4.8 Consensus size: 44
1544976 AGATATAGAG
*
1544986 CTTTTACGTCGTTTTTATCCAAAAAACGCCGCTAAATATCTCAAC
1 CTTTTGCG-CGTTTTTATCCAAAAAACGCCGCTAAATATCTCAAC
* * *
1545031 CTTTTGCG-GCATTTT-T--AAAAAA-GCCGCTAAAGATAT-AGAC
1 CTTTTGCGCG-TTTTTATCCAAAAAACGCCGCTAAATATCTCA-AC
* * * * * * *
1545071 CTTTTACGGCGTTTGTATCCAAAAAACGTCGATATATCTCTCGAC
1 CTTTTGC-GCGTTTTTATCCAAAAAACGCCGCTAAATATCTCAAC
* * * * * *
1545116 CTTTTGCG-GTGTTTATCCCACAAACACCGCTATATAT-TCGAC
1 CTTTTGCGCGTTTTTATCCAAAAAACGCCGCTAAATATCTCAAC
*
1545158 CTTTTGCG-GTGTTTATTCC-AAAAACGCCGCTA
1 CTTTTGCGCGTTTTTA-TCCAAAAAACGCCGCTA
1545190 TATCTCTTTA
Statistics
Matches: 124, Mismatches: 25, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
39 1 0.01
40 20 0.16
41 10 0.08
42 33 0.27
43 26 0.21
44 11 0.09
45 23 0.19
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (44 bp):
CTTTTGCGCGTTTTTATCCAAAAAACGCCGCTAAATATCTCAAC
Found at i:1545073 original size:40 final size:40
Alignment explanation
Indices: 1544941--1545080 Score: 102
Period size: 40 Copynumber: 3.4 Consensus size: 40
1544931 GGTATATACC
** * * * *
1544941 AGACCTTTTGTGGCGTTTGTTAAAAACGCCGTTATAGATAT
1 AGACCTTTTACGGCATTT-TTAAAAAAGCCGCTAAAGATAT
* * * * *
1544982 AGAGCTTTTACGTCGTTTTTATCCAAAAAACGCCGCTAAATATCT
1 AGACCTTTTACGGC-ATTTT-T--AAAAAA-GCCGCTAAAGATAT
*
1545027 CA-ACCTTTTGCGGCATTTTTAAAAAAGCCGCTAAAGATAT
1 -AGACCTTTTACGGCATTTTTAAAAAAGCCGCTAAAGATAT
1545067 AGACCTTTTACGGC
1 AGACCTTTTACGGC
1545081 GTTTGTATCC
Statistics
Matches: 75, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
39 1 0.01
40 23 0.31
41 17 0.23
42 4 0.05
43 1 0.01
44 9 0.12
45 19 0.25
46 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (40 bp):
AGACCTTTTACGGCATTTTTAAAAAAGCCGCTAAAGATAT
Found at i:1545165 original size:42 final size:42
Alignment explanation
Indices: 1545111--1545192 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
1545101 GATATATCTC
*
1545111 TCGACCTTTTGCGGTGTTTATCCCACAAACACCGCTATATAT
1 TCGACCTTTTGCGGTGTTTATCCCAAAAACACCGCTATATAT
* *
1545153 TCGACCTTTTGCGGTGTTTATTCCAAAAACGCCGCTATAT
1 TCGACCTTTTGCGGTGTTTATCCCAAAAACACCGCTATAT
1545193 CTCTTTACCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (42 bp):
TCGACCTTTTGCGGTGTTTATCCCAAAAACACCGCTATATAT
Found at i:1545561 original size:72 final size:73
Alignment explanation
Indices: 1545422--1545561 Score: 165
Period size: 72 Copynumber: 1.9 Consensus size: 73
1545412 TTGGACAGTG
* * * * * * * * * **
1545422 CTCGACTCGTGCTCGCTAAAAAAAATTTATTGCTTAACTCGACTCGTTTCTCGTTAAGCTCGTTA
1 CTCGACTCATGCTCACTAAAAAAAATTTACTGATCAACTAGACTCATTGCACGTTAAGCTCACTA
1545487 AAATTGTA
66 AAATTGTA
*
1545495 CTCGACTCATGCTCATTAAAAAAAA-TTACTGATCAACTAGACTCATTGCACGTTAAGCTCACTA
1 CTCGACTCATGCTCACTAAAAAAAATTTACTGATCAACTAGACTCATTGCACGTTAAGCTCACTA
1545559 AAA
66 AAA
1545562 AATTACCTTG
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
72 33 0.60
73 22 0.40
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (73 bp):
CTCGACTCATGCTCACTAAAAAAAATTTACTGATCAACTAGACTCATTGCACGTTAAGCTCACTA
AAATTGTA
Found at i:1545693 original size:21 final size:19
Alignment explanation
Indices: 1545636--1545688 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
1545626 GTCTTTTTTG
1545636 TATT-AAAATAATATTATT
1 TATTAAAAATAATATTATT
* **
1545654 AATTAATAATATTTTATTATT
1 TATTAA-AA-ATAATATTATT
1545675 TATTAAAAATAATA
1 TATTAAAAATAATA
1545689 GATTAGTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
18 3 0.12
19 5 0.19
20 4 0.15
21 14 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTAAAAATAATATTATT
Found at i:1557441 original size:29 final size:29
Alignment explanation
Indices: 1557408--1557471 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
1557398 AAATGCTTAA
*
1557408 TTTAAGATTTTAATATTTAGAATGTATGG
1 TTTAAGATTTTAATATTTAGAATCTATGG
1557437 TTTAAGATTTTAATATTTAGAATCTATGG
1 TTTAAGATTTTAATATTTAGAATCTATGG
1557466 TTTAAG
1 TTTAAG
1557472 TGTATGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (29 bp):
TTTAAGATTTTAATATTTAGAATCTATGG
Found at i:1559493 original size:20 final size:20
Alignment explanation
Indices: 1559464--1559527 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
1559454 ATATTCTCTA
*
1559464 GTAATATTTTATTCTCACTG
1 GTAATTTTTTATTCTCACTG
*
1559484 GTAATTTTTTATTCT-ACTA
1 GTAATTTTTTATTCTCACTG
1559503 GTAATTTTTTATTCTCACTG
1 GTAATTTTTTATTCTCACTG
*
1559523 ATAAT
1 GTAAT
1559528 CTTTCATTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 18 0.46
20 21 0.54
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (20 bp):
GTAATTTTTTATTCTCACTG
Found at i:1559506 original size:19 final size:19
Alignment explanation
Indices: 1559455--1559517 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
1559445 ATAGTAATCA
*
1559455 TATTCT-CTAGTAATATTT
1 TATTCTACTAGTAATTTTT
*
1559473 TATTCTCACTGGTAATTTTT
1 TATTCT-ACTAGTAATTTTT
1559493 TATTCTACTAGTAATTTTT
1 TATTCTACTAGTAATTTTT
1559512 TATTCT
1 TATTCT
1559518 CACTGATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
18 6 0.15
19 18 0.45
20 16 0.40
ACGTcount: A:0.24, C:0.13, G:0.06, T:0.57
Consensus pattern (19 bp):
TATTCTACTAGTAATTTTT
Found at i:1560478 original size:59 final size:58
Alignment explanation
Indices: 1560361--1560508 Score: 215
Period size: 59 Copynumber: 2.5 Consensus size: 58
1560351 CTAAATTTTC
* * *
1560361 TATTTAATATATTGGCAATATATATTTTTTATAAAATTAATAAATTAATAATATAAATTA
1 TATTTAATATATTTGC-A-ATATATGTTTTATAAAATTAATAAATTAACAATATAAATTA
* *
1560421 TATTTAATATATTTGCAATATATGTTTTACTAATATTAATGAATTAACAATATAAATTA
1 TATTTAATATATTTGCAATATATGTTTTA-TAAAATTAATAAATTAACAATATAAATTA
*
1560480 TATTTAATATATTTGCAATAAATGTTTTA
1 TATTTAATATATTTGCAATATATGTTTTA
1560509 ATACATTAGT
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
58 11 0.14
59 55 0.68
60 15 0.19
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (58 bp):
TATTTAATATATTTGCAATATATGTTTTATAAAATTAATAAATTAACAATATAAATTA
Found at i:1561187 original size:21 final size:21
Alignment explanation
Indices: 1561135--1561181 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
1561125 GTTTCTAGAT
1561135 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
1561156 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
1561177 TCGCA
1 TCGCA
1561182 TTGCGATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:1561248 original size:42 final size:40
Alignment explanation
Indices: 1561196--1561373 Score: 189
Period size: 42 Copynumber: 4.3 Consensus size: 40
1561186 GATTTACATA
* * * *
1561196 TTCGCATTGCGATAGTCCAAGTTCGTGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATATTCCAAATTC--GTTGCGATAGTCCAAG
* *
1561238 TTCGCGTTGCGATTTTCCAAATTCGTTGTGATAGTCCAAG
1 TTCGCGTTGCGATATTCCAAATTCGTTGCGATAGTCCAAG
* *
1561278 TTCGTGTTGCGATTTATTCCAAATTTGTTGCGATAGTCCAAG
1 TTCGCGTTGCGA--TATTCCAAATTCGTTGCGATAGTCCAAG
* * *
1561320 TTCGTGTTGCGATTTATTACAAATTCGTTGTGATAGTCCAAG
1 TTCGCGTTGCGA--TATTCCAAATTCGTTGCGATAGTCCAAG
1561362 TT--CGTTGCGATA
1 TTCGCGTTGCGATA
1561374 GTCGAAGTTC
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
38 2 0.02
40 32 0.27
42 86 0.72
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (40 bp):
TTCGCGTTGCGATATTCCAAATTCGTTGCGATAGTCCAAG
Found at i:1561318 original size:61 final size:60
Alignment explanation
Indices: 1561206--1561324 Score: 141
Period size: 61 Copynumber: 1.9 Consensus size: 60
1561196 TTCGCATTGC
* * **
1561206 GATAGTCCAAGTTCGTGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGT
1 GATAGTCCAAGTTCGTGTTGCGATAGTCCAAATTC-CGTTGCGATAGTCCAAATTCGTTGT
* * *
1561267 GATAGTCCAAGTTCGTGTTGCGATTTATTCCAAATT-TGTTGCGATAGTCCAAGTTCGT
1 GATAGTCCAAGTTCGTGTTGCGA--TAGTCCAAATTCCGTTGCGATAGTCCAAATTCGT
1561325 GTTGCGATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
61 41 0.84
63 8 0.16
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (60 bp):
GATAGTCCAAGTTCGTGTTGCGATAGTCCAAATTCCGTTGCGATAGTCCAAATTCGTTGT
Found at i:1561360 original size:61 final size:61
Alignment explanation
Indices: 1561295--1561422 Score: 193
Period size: 61 Copynumber: 2.1 Consensus size: 61
1561285 TGCGATTTAT
* * * *
1561295 TCCAAATTTGTTGCGATAGTCCAAGTTCGTGTTGCGATTTATTACAAATTCGTTGTGATAG
1 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCAATTTATTACAAATTCGTTGCGATAG
* * *
1561356 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCAATTTATTACAAATTCGTTGCGATAG
1561417 TCCAAA
1 TCCAAA
1561423 ATCGCAACGA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (61 bp):
TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCAATTTATTACAAATTCGTTGCGATAG
Found at i:1561369 original size:82 final size:81
Alignment explanation
Indices: 1561221--1561372 Score: 243
Period size: 82 Copynumber: 1.9 Consensus size: 81
1561211 TCCAAGTTCG
* *
1561221 TGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGTGATAGTCCAAGTTCGTGTT
1 TGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTACAAATTCGTTGTGATAGTCCAAGTTCG-GTT
1561286 GCGATTTATTCCAAATT
65 GCGATTTATTCCAAATT
*
1561303 TGTTGCGATAGTCCAAGTTCGTGTTGCGATTTATTACAAATTCGTTGTGATAGTCCAAGTTC-GT
1 TGTTGCGATAGTCCAAGTTCGCGTTGCGA-TT-TTACAAATTCGTTGTGATAGTCCAAGTTCGGT
1561367 TGCGAT
64 TGCGAT
1561373 AGTCGAAGTT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
82 35 0.54
83 2 0.03
84 28 0.43
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (81 bp):
TGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTACAAATTCGTTGTGATAGTCCAAGTTCGGTTG
CGATTTATTCCAAATT
Found at i:1561382 original size:103 final size:102
Alignment explanation
Indices: 1561202--1561421 Score: 291
Period size: 103 Copynumber: 2.1 Consensus size: 102
1561192 CATATTCGCA
* ** *
1561202 TTGCGATAGTCCAAGTTCGTGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGT
1 TTGCGATAGTCCAAGTTCGTGTTGCGATAGTCGAAATTC-CGTTGCGATAGTCCAAATTCGTTGC
* * *
1561267 GATAGTCCAAGTTCGTGTTGCGATTTATTCCAAATTTG
65 GATAGTCCAAGTTCGCGTTGCAATTTATTCCAAATTCG
* * *
1561305 TTGCGATAGTCCAAGTTCGTGTTGCGATTTATTAC-AAATT-CGTTGTGATAGTCCAAGTTCGTT
1 TTGCGATAGTCCAAGTTCGTGTTGCGA--TAGT-CGAAATTCCGTTGCGATAGTCCAAATTCGTT
*
1561368 GCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCG
63 GCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAAATTCG
1561408 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
1561422 AATCGCAACG
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
103 95 0.92
105 7 0.07
106 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (102 bp):
TTGCGATAGTCCAAGTTCGTGTTGCGATAGTCGAAATTCCGTTGCGATAGTCCAAATTCGTTGCG
ATAGTCCAAGTTCGCGTTGCAATTTATTCCAAATTCG
Found at i:1562268 original size:21 final size:21
Alignment explanation
Indices: 1562242--1562417 Score: 148
Period size: 21 Copynumber: 8.4 Consensus size: 21
1562232 TTCTTAATAA
*
1562242 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* *
1562263 ATCGCAA--CGAACTTGAAAT
1 ATCGCAACGCGAACTTGGACT
* *
1562282 AAATCGCAACGTGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
1562305 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* * *
1562326 ATCACAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
* *
1562345 AAATCGCAACGTGAACTTTGACT
1 --ATCGCAACGCGAACTTGGACT
* *
1562368 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
1562387 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
1562410 ATCGCAAC
1 ATCGCAAC
1562418 AAATTTGGAA
Statistics
Matches: 120, Mismatches: 23, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
19 27 0.22
21 67 0.56
23 26 0.22
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:1562318 original size:63 final size:63
Alignment explanation
Indices: 1562242--1562376 Score: 225
Period size: 63 Copynumber: 2.1 Consensus size: 63
1562232 TTCTTAATAA
*
1562242 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGAAATAAATCGCAACGTGAACTTCGACT
1 ATCGCAACGCGAACTTCGACTATCACAACGAACTTGAAATAAATCGCAACGTGAACTTCGACT
* * * *
1562305 ATCGCAACGCGAACTTGGACTATCACAACGAATTTGGAATAAATCGCAACGTGAACTTTGACT
1 ATCGCAACGCGAACTTCGACTATCACAACGAACTTGAAATAAATCGCAACGTGAACTTCGACT
1562368 ATCGCAACG
1 ATCGCAACG
1562377 AATTTGGAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (63 bp):
ATCGCAACGCGAACTTCGACTATCACAACGAACTTGAAATAAATCGCAACGTGAACTTCGACT
Found at i:1562397 original size:63 final size:62
Alignment explanation
Indices: 1562242--1562397 Score: 197
Period size: 63 Copynumber: 2.5 Consensus size: 62
1562232 TTCTTAATAA
* *
1562242 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGAAATAAATCGCAACGTGAACTTCGACT
1 ATCGCAAC-CGAACTTGGAATATCGCAACGAACTTGAAATAAATCGCAACGTGAACTTCGACT
* * * * *
1562305 ATCGCAACGCGAACTTGGACTATCACAACGAATTTGGAATAAATCGCAACGTGAACTTTGACT
1 ATCGCAAC-CGAACTTGGAATATCGCAACGAACTTGAAATAAATCGCAACGTGAACTTCGACT
*
1562368 ATCGCAA-CGAATTTGGAATAAATCGCAACG
1 ATCGCAACCGAACTTGGAAT--ATCGCAACG
1562398 CGAACTTGGA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
61 10 0.12
63 73 0.88
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (62 bp):
ATCGCAACCGAACTTGGAATATCGCAACGAACTTGAAATAAATCGCAACGTGAACTTCGACT
Found at i:1562423 original size:42 final size:42
Alignment explanation
Indices: 1562305--1562427 Score: 210
Period size: 42 Copynumber: 2.9 Consensus size: 42
1562295 AACTTCGACT
*
1562305 ATCGCAACGCGAACTTGGACTATCACAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
* *
1562347 ATCGCAACGTGAACTTTGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
*
1562389 ATCGCAACGCGAACTTGGACTATCGCAACAAATTTGGAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAA
1562428 AATCACATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (42 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
Found at i:1568972 original size:2 final size:2
Alignment explanation
Indices: 1568967--1569022 Score: 60
Period size: 2 Copynumber: 28.5 Consensus size: 2
1568957 ATATGCCCCC
* * * * *
1568967 CT CT CT CT CT CT CT CC CT CT CC CT CT CC CT CT CC CT CT CC CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1569009 C- CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT C
1569023 AACAAAAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (2 bp):
CT
Found at i:1568978 original size:6 final size:6
Alignment explanation
Indices: 1568971--1569022 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
1568961 GCCCCCCTCT
* * *
1568971 CTCTCT CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTC-CT CTCTCT
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
1569018 CTCTC
1 CTCTC
1569023 AACAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
CTCTCC
Found at i:1573320 original size:172 final size:172
Alignment explanation
Indices: 1573034--1573378 Score: 690
Period size: 172 Copynumber: 2.0 Consensus size: 172
1573024 TTTAAGATAT
1573034 GGTGTAATCTGAAACAGAAAATCATTTAGAGTCGGGTGACACCATCTGAATGTTAGACTTACTTG
1 GGTGTAATCTGAAACAGAAAATCATTTAGAGTCGGGTGACACCATCTGAATGTTAGACTTACTTG
1573099 AACGGAGGAACGCCGGTAAGCTCATCGTGGAACGTCAGCAGCAGCAGCTAAGTCTGCAATTAGAG
66 AACGGAGGAACGCCGGTAAGCTCATCGTGGAACGTCAGCAGCAGCAGCTAAGTCTGCAATTAGAG
1573164 AGGAGAAAATTGAGAATAAAATCATTAACAGATTTTCATTAA
131 AGGAGAAAATTGAGAATAAAATCATTAACAGATTTTCATTAA
1573206 GGTGTAATCTGAAACAGAAAATCATTTAGAGTCGGGTGACACCATCTGAATGTTAGACTTACTTG
1 GGTGTAATCTGAAACAGAAAATCATTTAGAGTCGGGTGACACCATCTGAATGTTAGACTTACTTG
1573271 AACGGAGGAACGCCGGTAAGCTCATCGTGGAACGTCAGCAGCAGCAGCTAAGTCTGCAATTAGAG
66 AACGGAGGAACGCCGGTAAGCTCATCGTGGAACGTCAGCAGCAGCAGCTAAGTCTGCAATTAGAG
1573336 AGGAGAAAATTGAGAATAAAATCATTAACAGATTTTCATTAA
131 AGGAGAAAATTGAGAATAAAATCATTAACAGATTTTCATTAA
1573378 G
1 G
1573379 CTCGAAATTA
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 173 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (172 bp):
GGTGTAATCTGAAACAGAAAATCATTTAGAGTCGGGTGACACCATCTGAATGTTAGACTTACTTG
AACGGAGGAACGCCGGTAAGCTCATCGTGGAACGTCAGCAGCAGCAGCTAAGTCTGCAATTAGAG
AGGAGAAAATTGAGAATAAAATCATTAACAGATTTTCATTAA
Found at i:1574758 original size:31 final size:31
Alignment explanation
Indices: 1574720--1574782 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
1574710 GGAACCACTT
1574720 ACATCTTCCTATAGTAAGGTTTTCATAACTA
1 ACATCTTCCTATAGTAAGGTTTTCATAACTA
*
1574751 ACATCTTCCTATGGTAAGGTTTTCATAACTA
1 ACATCTTCCTATAGTAAGGTTTTCATAACTA
1574782 A
1 A
1574783 GGGACATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (31 bp):
ACATCTTCCTATAGTAAGGTTTTCATAACTA
Found at i:1576332 original size:11 final size:11
Alignment explanation
Indices: 1576316--1576340 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1576306 CGATGGGGTT
1576316 TTTCGAAATAA
1 TTTCGAAATAA
1576327 TTTCGAAATAA
1 TTTCGAAATAA
1576338 TTT
1 TTT
1576341 TTAGAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTCGAAATAA
Found at i:1578436 original size:38 final size:37
Alignment explanation
Indices: 1578363--1578438 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
1578353 GTTGGAAAAT
*
1578363 ATTTATATATTTTCTTTAAAAAAATTAAATTTATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAATATATAAA
* * *
1578400 ATTTATATAATTTTTTTTTACAAAATTGAAA-ATATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAATATATAAA
1578438 A
1 A
1578439 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 8 0.24
38 22 0.67
39 3 0.09
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAATATATAAA
Found at i:1578686 original size:15 final size:15
Alignment explanation
Indices: 1578666--1578702 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1578656 AGGAAAGGGA
* *
1578666 GGTAATGACATTTTC
1 GGTAATAACATTCTC
1578681 GGTAATAACATTCTC
1 GGTAATAACATTCTC
1578696 GGTAATA
1 GGTAATA
1578703 TACCCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (15 bp):
GGTAATAACATTCTC
Found at i:1579973 original size:52 final size:51
Alignment explanation
Indices: 1579864--1579976 Score: 136
Period size: 52 Copynumber: 2.2 Consensus size: 51
1579854 ATCCAACAAA
* * *
1579864 CTTCAACAACACCCCAAGCTGGATGTTCAATATTTACCCTATTTCAACCAC
1 CTTCAACAACACCCCAAGCTGGATCTTCAACATTTACCCTACTTCAACCAC
* * * * *
1579915 CTTTCAACACCTCCCCAAGCTTGATCTTCAACATTTACCCTGCTTCAGCCAGC
1 C-TTCAACAACACCCCAAGCTGGATCTTCAACATTTACCCTACTTCAACCA-C
1579968 CTTCAACAA
1 CTTCAACAA
1579977 GCATAAAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
51 1 0.02
52 48 0.94
53 2 0.04
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.27
Consensus pattern (51 bp):
CTTCAACAACACCCCAAGCTGGATCTTCAACATTTACCCTACTTCAACCAC
Found at i:1600958 original size:71 final size:71
Alignment explanation
Indices: 1600842--1600991 Score: 282
Period size: 71 Copynumber: 2.1 Consensus size: 71
1600832 AAAGCCCCCA
*
1600842 GAATCTGTTTATAAAGAAGTTGGTTTGGGAACAACAGGATGTTCCTTGATTTATAAAGAAACTTA
1 GAATCTGCTTATAAAGAAGTTGGTTTGGGAACAACAGGATGTTCCTTGATTTATAAAGAAACTTA
1600907 AACCAG
66 AACCAG
*
1600913 GAATCTGCTTATAAAGAAGTTGGTTTGGGAACAACAGGATGTTCCTTGATTTATAAAGAAATTTA
1 GAATCTGCTTATAAAGAAGTTGGTTTGGGAACAACAGGATGTTCCTTGATTTATAAAGAAACTTA
1600978 AACCAG
66 AACCAG
1600984 GAATCTGC
1 GAATCTGC
1600992 ATTGTAATTC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 77 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (71 bp):
GAATCTGCTTATAAAGAAGTTGGTTTGGGAACAACAGGATGTTCCTTGATTTATAAAGAAACTTA
AACCAG
Found at i:1601404 original size:12 final size:10
Alignment explanation
Indices: 1601372--1601402 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
1601362 TTCATCACAC
1601372 CAAATTCTCT
1 CAAATTCTCT
1601382 CAAATTCTCT
1 CAAATTCTCT
1601392 CAAATTCTCT
1 CAAATTCTCT
1601402 C
1 C
1601403 TCGTTTAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:1601480 original size:17 final size:18
Alignment explanation
Indices: 1601443--1601483 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1601433 ATATTATGTA
*
1601443 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
1601461 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
1601478 TTTACT
1 TTTACT
1601484 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:1605021 original size:51 final size:51
Alignment explanation
Indices: 1604913--1605023 Score: 123
Period size: 51 Copynumber: 2.2 Consensus size: 51
1604903 AGACACACAT
* * * * * *
1604913 ATATAGCGCGGTTCAGGGGGCTCGCTATACCCCACGTGTAACCCAGTCAGC
1 ATATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGAACCAAATCAAC
* * **
1604964 AAATAGCGCGGTGCAGGGGGCGCGCTATACCTCACGTGGCGCCAAATCAAC
1 ATATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGAACCAAATCAAC
*
1605015 GTATAGCGC
1 ATATAGCGC
1605024 ATGCCAGGAG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (51 bp):
ATATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGAACCAAATCAAC
Found at i:1607599 original size:17 final size:17
Alignment explanation
Indices: 1607528--1607600 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
1607518 CTTTATGTAC
1607528 TTTATTTATTTT-TCTCA
1 TTTATTTATTTTAT-TCA
*
1607545 -TTATTATTTTTTATTCA
1 TTTATT-TATTTTATTCA
* *
1607562 -ATATTTA-TTTATTTA
1 TTTATTTATTTTATTCA
*
1607577 TCTATTTATTTTATTCA
1 TTTATTTATTTTATTCA
1607594 TTTATTT
1 TTTATTT
1607601 TCATTAATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
15 7 0.16
16 12 0.27
17 25 0.56
18 1 0.02
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATTTATTTTATTCA
Found at i:1612130 original size:10 final size:10
Alignment explanation
Indices: 1612108--1612187 Score: 54
Period size: 11 Copynumber: 7.4 Consensus size: 10
1612098 CCTAATTTAA
*
1612108 AAAAATTAA-
1 AAAAATAAAT
1612117 AAAAATAAAT
1 AAAAATAAAT
* *
1612127 AAAAAGACAGAAA
1 -AAAA-ATA-AAT
1612140 AAAACATAAAAT
1 AAAA-AT-AAAT
1612152 AAAAATAAAAT
1 AAAAAT-AAAT
1612163 AAAAATAAAAT
1 AAAAAT-AAAT
*
1612174 AAACATAAAT
1 AAAAATAAAT
1612184 AAAA
1 AAAA
1612188 GGACCTAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
9 8 0.14
10 7 0.12
11 27 0.47
12 13 0.22
13 3 0.05
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.15
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:1612155 original size:5 final size:5
Alignment explanation
Indices: 1612145--1612187 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
1612135 AGAAAAAAAC
1612145 ATAAA ATAAAA ATAAA ATAAAA ATAAA ATAAA CAT-AA ATAAA A
1 ATAAA AT-AAA ATAAA AT-AAA ATAAA ATAAA -ATAAA ATAAA A
1612188 GGACCTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 2 0.06
5 20 0.59
6 12 0.35
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:1612158 original size:6 final size:6
Alignment explanation
Indices: 1612108--1612182 Score: 52
Period size: 6 Copynumber: 12.5 Consensus size: 6
1612098 CCTAATTTAA
*
1612108 AAAAATT AAAAA- AATAAAT AAAAAG ACAGAAA- AAAACAT -AAAAT AAAAAT
1 AAAAA-T AAAAAT AA-AAAT AAAAAT A-A-AAAT AAAA-AT AAAAAT AAAAAT
*
1612158 -AAAAT AAAAAT -AAAAT AAACAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1612183 TAAAAGGACC
Statistics
Matches: 57, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
5 16 0.28
6 29 0.51
7 9 0.16
8 3 0.05
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:1612159 original size:11 final size:11
Alignment explanation
Indices: 1612117--1612187 Score: 74
Period size: 11 Copynumber: 6.4 Consensus size: 11
1612107 AAAAAATTAA
1612117 AAAAAT-AAAT
1 AAAAATAAAAT
* *
1612127 AAAAAGACAGAAA
1 AAAAATA-A-AAT
1612140 AAAACATAAAAT
1 AAAA-ATAAAAT
1612152 AAAAATAAAAT
1 AAAAATAAAAT
1612163 AAAAATAAAAT
1 AAAAATAAAAT
*
1612174 AAACAT-AAAT
1 AAAAATAAAAT
1612184 AAAA
1 AAAA
1612188 GGACCTAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
10 12 0.24
11 23 0.45
12 7 0.14
13 7 0.14
14 2 0.04
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.14
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:1613786 original size:59 final size:59
Alignment explanation
Indices: 1613705--1613964 Score: 315
Period size: 59 Copynumber: 4.4 Consensus size: 59
1613695 ATTCTCTACT
* *
1613705 GGAAATGTTGGTCCCT-AGAGTGAGGCGTTGCTGATTCAAAGTATTGTGAATCGAGCAAA
1 GGAAATGTTGATCCCTCA-AGTGAGGCGTTGCTGATTCAAAGTATTGTGAATCAAGCAAA
* ** * ** * *
1613764 GGAAATATTGATCCCTCAAGTGAGAAGTTGCTAATTTGAAGTATTATGAATCAAGAAAA
1 GGAAATGTTGATCCCTCAAGTGAGGCGTTGCTGATTCAAAGTATTGTGAATCAAGCAAA
* * * * * *
1613823 GAAAACGTTGATCCCTCAAGTGAGGCATTGCCGATTCAAAGTGTTGCGAATCAAGCAAA
1 GGAAATGTTGATCCCTCAAGTGAGGCGTTGCTGATTCAAAGTATTGTGAATCAAGCAAA
* * **
1613882 GGAAATGTTGATCCCTCAAGTGAGGCGTTGCTGATTCGAAGTGTTGTGAATTGAGCAAA
1 GGAAATGTTGATCCCTCAAGTGAGGCGTTGCTGATTCAAAGTATTGTGAATCAAGCAAA
*
1613941 GGAAATGTTAATCCCTCAAGTGAG
1 GGAAATGTTGATCCCTCAAGTGAG
1613965 ACGTAGTCTC
Statistics
Matches: 167, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
59 166 0.99
60 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (59 bp):
GGAAATGTTGATCCCTCAAGTGAGGCGTTGCTGATTCAAAGTATTGTGAATCAAGCAAA
Found at i:1614063 original size:74 final size:75
Alignment explanation
Indices: 1613975--1614508 Score: 526
Period size: 74 Copynumber: 7.0 Consensus size: 75
1613965 ACGTAGTCTC
*
1613975 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTTTGTTTCGAGTGAAACTATCTCAAGCGAGA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
*
1614040 T-AAATCATA
66 TAAAATCTTA
* *
1614049 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTTTGAGTGAAACTATCTCAAGCGAGA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
* *
1614114 T-GAATCTTG
66 TAAAATCTTA
* *
1614123 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTTTGTTTCGAGTGAAACTATCTCAAGCGGGA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
*
1614188 T-AAATTTTA
66 TAAAATCTTA
* * * * * ** *
1614197 TGTTT-TGATTGAAACTATTTAAAGTGTTATAAAATCTTCTATTTCGAGTGAAACTATCTCAAGC
1 T-TTTAAGA--AAAACAATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGC
*
1614261 GAGATAAAATCTTCTG
62 GAGATAAAATC-T-TA
* ** * * * *
1614277 TTTTGAGTGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTGGAGTGAAACTATCCCAAGCGAG
1 TTTTAAGAAAAACAATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAG
1614342 ATAAAATCTTA
65 ATAAAATCTTA
* ** * * *
1614353 TGTTTCGAGTGAAACTATCTCAA-TCGAGATATAATTTTCTGTTTCGAGTGAAACTATCTCAAGT
1 T-TTT-AAGAAAAACAATCTCAAGT-GAGATA-AATCTTCTGTTTCGAGTGAAACTATCTCAAGC
* **
1614417 GAGATAAAATATGG
62 GAGATAAAATCTTA
* * * * *
1614431 TTTTAAAGAAAAACAATCTCAAGTGAGATAACGT-TTCTGTATT-AAATGAGACTGTCTCAAGCG
1 TTTT-AAGAAAAACAATCTCAAGTGAGATAA-ATCTTCTGT-TTCGAGTGAAACTATCTCAAGCG
*
1614494 AGACAAAAT-TTA
63 AGATAAAATCTTA
1614506 TTT
1 TTT
1614509 GGAAATGTTG
Statistics
Matches: 387, Mismatches: 58, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
74 138 0.36
75 7 0.02
76 46 0.12
77 65 0.17
78 124 0.32
79 4 0.01
80 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (75 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
TAAAATCTTA
Found at i:1614076 original size:36 final size:36
Alignment explanation
Indices: 1613975--1614157 Score: 204
Period size: 36 Copynumber: 5.0 Consensus size: 36
1613965 ACGTAGTCTC
*
1613975 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTT
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTA
* ** * * *
1614011 TGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCATA
1 T-TTT-AAGAAAAACAATCTCAAGTGAGATAAATCTTA
1614049 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATC-T-TA
* ** * * * *
1614087 TTTTGAGTGAAACTATCTCAAGCGAGATGAATCTTG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTA
1614123 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTT
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTT
1614158 TTGTTTCGAG
Statistics
Matches: 117, Mismatches: 26, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
36 55 0.47
37 7 0.06
38 55 0.47
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (36 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTA
Found at i:1614252 original size:39 final size:39
Alignment explanation
Indices: 1613984--1614426 Score: 465
Period size: 39 Copynumber: 11.6 Consensus size: 39
1613974 CTTTTAAGAA
* * *
1613984 AAACAATCTCAAGTGAGAT-AAATCTTTTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * * **
1614022 AAACTATCTCAAGCGAGAT-AAATCATAT-TTT-AAGAA
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * * *
1614058 AAACAATCTCAAGTGAGAT-AAATCTTCTATTTTGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* ** **
1614096 AAACTATCTCAAGCGAGAT-GAATC-T-TGTTTTAAGAA
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * *
1614132 AAACAATCTCAAGTGAGAT-AAATCTTTTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * * * *
1614170 AAACTATCTCAAGCGGGAT-AAATTTTATGTTTTGATTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * * ** *
1614208 AAACTATTTAAAGTGTTATAAAATCTTCTATTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
1614247 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTTGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
1614286 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTGGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
1614325 AAACTATCCCAAGCGAGATAAAATCTTATGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * *
1614364 AAACTATCTCAATCGAGATATAATTTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
1614403 AAACTATCTCAAGTGAGATAAAAT
1 AAACTATCTCAAGCGAGATAAAAT
1614427 ATGGTTTTAA
Statistics
Matches: 336, Mismatches: 64, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
36 54 0.16
37 8 0.02
38 99 0.29
39 175 0.52
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (39 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
Found at i:1614324 original size:78 final size:76
Alignment explanation
Indices: 1613984--1614461 Score: 529
Period size: 78 Copynumber: 6.3 Consensus size: 76
1613974 CTTTTAAGAA
*
1613984 AAACAATCTCAAGTGAGATAAATCTTTTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATC--A
1 AAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTA
* * **
1614047 TATTTTAAGAA
66 TGTTTTGAGTG
* * *
1614058 AAACAATCTCAAGTGAGATAAATCTTCTATTTTGAGTGAAACTATCTCAAGCGAGATGAATC-T-
1 AAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTA
* **
1614121 TGTTTTAAGAA
66 TGTTTTGAGTG
* * *
1614132 AAACAATCTCAAGTGAGATAAATCTTTTGTTTCGAGTGAAACTATCTCAAGCGGGATAAATTTTA
1 AAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTA
*
1614197 TGTTTTGATTG
66 TGTTTTGAGTG
* * * ** *
1614208 AAACTATTTAAAGTGTTATAAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGATAAAATCT
1 AAACAATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGAT-AAATCT
*
1614273 TCTGTTTTGAGTG
64 TATGTTTTGAGTG
* * * *
1614286 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTGGAGTGAAACTATCCCAAGCGAGATAAAATCT
1 AAACAATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGAT-AAATCT
*
1614351 TATGTTTCGAGTG
64 TATGTTTTGAGTG
* * * *
1614364 AAACTATCTCAA-TCGAGATATAATTTTCTGTTTCGAGTGAAACTATCTCAAGTGAGATAAA--A
1 AAACAATCTCAAGT-GAGATA-AATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCT
* **
1614426 TATGGTTTTAAAGAA
64 TAT-GTTTT-GAGTG
1614441 AAACAATCTCAAGTGAGATAA
1 AAACAATCTCAAGTGAGATAA
1614462 CGTTTCTGTA
Statistics
Matches: 347, Mismatches: 47, Indels: 18
0.84 0.11 0.04
Matches are distributed among these distances:
74 124 0.36
75 4 0.01
76 26 0.07
77 58 0.17
78 135 0.39
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (76 bp):
AAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTA
TGTTTTGAGTG
Found at i:1615590 original size:2 final size:2
Alignment explanation
Indices: 1615583--1615626 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1615573 TCATCTTTAT
1615583 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
1615625 TA
1 TA
1615627 ATCGCCTTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1617347 original size:23 final size:26
Alignment explanation
Indices: 1617307--1617354 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 26
1617297 AAGACCAGAC
1617307 AAAAGTAAATCAATGTTAGTAGAAAA
1 AAAAGTAAATCAATGTTAGTAGAAAA
*
1617333 AAAAG-AAA-CAA-GTTAGTTGAAA
1 AAAAGTAAATCAATGTTAGTAGAAA
1617355 TGATTAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
24 3 0.14
25 3 0.14
26 5 0.24
ACGTcount: A:0.58, C:0.04, G:0.17, T:0.21
Consensus pattern (26 bp):
AAAAGTAAATCAATGTTAGTAGAAAA
Found at i:1621111 original size:23 final size:23
Alignment explanation
Indices: 1621081--1621202 Score: 208
Period size: 23 Copynumber: 5.3 Consensus size: 23
1621071 TATGGCGCTA
1621081 CGGTGCAATTCTACGCGGCACTT
1 CGGTGCAATTCTACGCGGCACTT
*
1621104 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTT
*
1621127 CGGTGCAATTCTACGCGACACTT
1 CGGTGCAATTCTACGCGGCACTT
*
1621150 CGGTGTAATTCTACGCGGCACTT
1 CGGTGCAATTCTACGCGGCACTT
*
1621173 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTT
1621196 CGGTGCA
1 CGGTGCA
1621203 TTTATATGAG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 92 1.00
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (23 bp):
CGGTGCAATTCTACGCGGCACTT
Found at i:1626388 original size:14 final size:13
Alignment explanation
Indices: 1626363--1626394 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
1626353 AAAGCAACCC
1626363 ATTTTATTATTTT
1 ATTTTATTATTTT
1626376 ATTTTATTTATTTT
1 ATTTTA-TTATTTT
1626390 ATTTT
1 ATTTT
1626395 GGTATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
ATTTTATTATTTT
Found at i:1628858 original size:23 final size:22
Alignment explanation
Indices: 1628828--1628901 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 22
1628818 TCGAGGGTTC
1628828 TATGTGGTCCTTCAGGACAAAA
1 TATGTGGTCCTTCAGGACAAAA
**
1628850 TTATGTGGTCCTTCAGGACAATCC
1 -TATGTGGTCCTTCAGGACAA-AA
1628874 TATGTGGTCCTT-AGGGAC-AAA
1 TATGTGGTCCTTCA-GGACAAAA
1628895 TATGTGG
1 TATGTGG
1628902 CACTTTGGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.16
22 2 0.04
23 36 0.80
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (22 bp):
TATGTGGTCCTTCAGGACAAAA
Found at i:1630172 original size:14 final size:13
Alignment explanation
Indices: 1630136--1630169 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1630126 CATCTCCATC
*
1630136 TTTCTTTCTTTAT
1 TTTCTTTCATTAT
1630149 TATTCTTTCATTAT
1 T-TTCTTTCATTAT
1630163 TTTCTTT
1 TTTCTTT
1630170 TCACAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTTCATTAT
Found at i:1640702 original size:17 final size:17
Alignment explanation
Indices: 1640682--1640724 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
1640672 TGATGACAAC
1640682 GAGTTGTCATTGACATA
1 GAGTTGTCATTGACATA
1640699 GAGTT-TCCATTGACATA
1 GAGTTGT-CATTGACATA
*
1640716 GAGATGTCA
1 GAGTTGTCA
1640725 GAATTGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (17 bp):
GAGTTGTCATTGACATA
Found at i:1642602 original size:90 final size:89
Alignment explanation
Indices: 1642488--1642662 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
1642478 TCCCGAATAT
* * * * *
1642488 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCTTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAAAAATAAAAACCCTAATATAATTAG
1642553 GGTAACTTGGATATAAAAGGATTA
66 GGTAACTTGGATATAAAAGGATTA
1642577 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAAAAATAAAAACCCTAATATAATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAAAAATAAAAACCCTAATATAATTA
* *
1642642 GGGTGACTTGGGTATAAAAGG
65 GGGTAACTTGGATATAAAAGG
1642663 GTGTGTTAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAAAAATAAAAACCCTAATATAATTAG
GGTAACTTGGATATAAAAGGATTA
Found at i:1648163 original size:21 final size:21
Alignment explanation
Indices: 1648125--1648165 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1648115 GTCATTCGGG
*
1648125 ACATATATGTAATCCTTTGGA
1 ACATATATGTAATACTTTGGA
**
1648146 ACATATATGTGGTACTTTGG
1 ACATATATGTAATACTTTGG
1648166 TACACCTAGT
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:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (21 bp):
ACATATATGTAATACTTTGGA
Found at i:1648238 original size:21 final size:21
Alignment explanation
Indices: 1648214--1648255 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1648204 TAAGGAGATT
1648214 TCTATGTGGTCCTTCGAGACA
1 TCTATGTGGTCCTTCGAGACA
*
1648235 TCTATGTGGTCCTTCGGGACA
1 TCTATGTGGTCCTTCGAGACA
1648256 AATTCTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (21 bp):
TCTATGTGGTCCTTCGAGACA
Found at i:1672653 original size:41 final size:41
Alignment explanation
Indices: 1672606--1672709 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 41
1672596 CAGACTCATT
*
1672606 GTTTGTGGCATTTTTTAACAAACATTGCAATAGGATACATA
1 GTTTGTGGCATTTTTTAACAAACACTGCAATAGGATACATA
* * *
1672647 GTTTGTGGCGTTTTTTAAAAAACACTGCAATAGGATATATA
1 GTTTGTGGCATTTTTTAACAAACACTGCAATAGGATACATA
* *
1672688 GTTCGTGG-AGTTTTCTAACAAA
1 GTTTGTGGCA-TTTTTTAACAAA
1672710 GGTCATTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (41 bp):
GTTTGTGGCATTTTTTAACAAACACTGCAATAGGATACATA
Found at i:1675298 original size:22 final size:23
Alignment explanation
Indices: 1675271--1675313 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1675261 ACATATTGAA
*
1675271 GAGTTGAAACA-ATTATGTGTAG
1 GAGTTGAAACATATGATGTGTAG
1675293 GAGTTGAAACATATGATGTGT
1 GAGTTGAAACATATGATGTGT
1675314 TAAAGAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (23 bp):
GAGTTGAAACATATGATGTGTAG
Found at i:1679687 original size:27 final size:26
Alignment explanation
Indices: 1679593--1679681 Score: 169
Period size: 26 Copynumber: 3.4 Consensus size: 26
1679583 TTATTATAGT
1679593 TGTTGAACTATATACATTTCACTTAA
1 TGTTGAACTATATACATTTCACTTAA
1679619 TGTTGAACTATATACATTTCACTTAA
1 TGTTGAACTATATACATTTCACTTAA
1679645 TGTTGAACTATATTACATTTCACTTAA
1 TGTTGAACTATA-TACATTTCACTTAA
1679672 TGTTGAACTA
1 TGTTGAACTA
1679682 CATTACTTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 38 0.61
27 24 0.39
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.43
Consensus pattern (26 bp):
TGTTGAACTATATACATTTCACTTAA
Found at i:1679943 original size:42 final size:41
Alignment explanation
Indices: 1679872--1679950 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 41
1679862 CTAAAACGCC
* *
1679872 GCTAATATCATAACATCTTGCGGCATTTATACAAAAATGAT
1 GCTAATATCATAACATATTGCAGCATTTATACAAAAATGAT
* *
1679913 GCTACATATCATAACCTATTGCAGCGTTTATACAAAAA
1 GCTA-ATATCATAACATATTGCAGCATTTATACAAAAA
1679951 AACGCCGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 4 0.12
42 29 0.88
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.30
Consensus pattern (41 bp):
GCTAATATCATAACATATTGCAGCATTTATACAAAAATGAT
Found at i:1680047 original size:43 final size:45
Alignment explanation
Indices: 1680000--1680093 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 45
1679990 AAAAAAATGG
* * *
1680000 CGCTAAATGTCCACACCTTTTGTGACA-TTTTTA-AAACAAACGC
1 CGCTAAAAGTCCAAACCTATTGTGACATTTTTTATAAACAAACGC
* * **
1680043 CGCTAAAAGTCTAAACCTATTGTGGCATTTTTTATTTACAAACGC
1 CGCTAAAAGTCCAAACCTATTGTGACATTTTTTATAAACAAACGC
1680088 CGCTAA
1 CGCTAA
1680094 TATTTGAGGC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 22 0.52
44 6 0.14
45 14 0.33
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (45 bp):
CGCTAAAAGTCCAAACCTATTGTGACATTTTTTATAAACAAACGC
Found at i:1682365 original size:92 final size:93
Alignment explanation
Indices: 1682190--1682370 Score: 285
Period size: 92 Copynumber: 1.9 Consensus size: 93
1682180 TGACTAAATT
*
1682190 TATTATGTCAATAATCATAAAAAAAATATCAACATAGTATGTTTAATTTAAGTTTTAATAGTAAC
1 TATTATGTCAATAATCAT--AAAAAATATCAAAATAGTATGTTTAATTTAAGTTTTAATAGTAAC
1682255 CTTTATTATAATTTTAGATATTTTATTTTC
64 CTTTATTATAATTTTAGATATTTTATTTTC
* * *
1682285 TATTATGTCAATAATCAT-AAAAAT-TCAAAATAGTATGTTTAATTTAAGTTTTAGTTGTAAACT
1 TATTATGTCAATAATCATAAAAAATATCAAAATAGTATGTTTAATTTAAGTTTTAATAGT-AACC
1682348 TTTATTATAATTTTAGATATTTT
65 TTTATTATAATTTTAGATATTTT
1682371 GTAACATTTA
Statistics
Matches: 81, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
91 31 0.38
92 32 0.40
95 18 0.22
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (93 bp):
TATTATGTCAATAATCATAAAAAATATCAAAATAGTATGTTTAATTTAAGTTTTAATAGTAACCT
TTATTATAATTTTAGATATTTTATTTTC
Found at i:1686558 original size:17 final size:18
Alignment explanation
Indices: 1686525--1686558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1686515 AAGTAGAAAC
*
1686525 AAGTGTTATATTCCTCAA
1 AAGTGTTATACTCCTCAA
1686543 AAGTGTTAT-CTCCTCA
1 AAGTGTTATACTCCTCA
1686559 TATTCCTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (18 bp):
AAGTGTTATACTCCTCAA
Found at i:1688050 original size:19 final size:20
Alignment explanation
Indices: 1688026--1688063 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1688016 TATAGGGTAA
1688026 TTTAGGATAT-TTTTATTAT
1 TTTAGGATATATTTTATTAT
*
1688045 TTTAGGATTTATTTTATTA
1 TTTAGGATATATTTTATTA
1688064 ATGAAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (20 bp):
TTTAGGATATATTTTATTAT
Found at i:1688915 original size:21 final size:21
Alignment explanation
Indices: 1688891--1688930 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1688881 TATTTATTAA
1688891 ATTTTGATGT-TAATTTCATTT
1 ATTTTGATGTAT-ATTTCATTT
*
1688912 ATTTTTATGTATATTTCAT
1 ATTTTGATGTATATTTCAT
1688931 ATTTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.62
Consensus pattern (21 bp):
ATTTTGATGTATATTTCATTT
Found at i:1692522 original size:20 final size:20
Alignment explanation
Indices: 1692494--1692549 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1692484 TATCTGTTTA
*
1692494 AAGTGTCGATACTTTGATAT
1 AAGTATCGATACTTTGATAT
1692514 AAGTATCGATACTTTGATAT
1 AAGTATCGATACTTTGATAT
1692534 AAGTATCGATACTTTG
1 AAGTATCGATACTTTG
1692550 GAAATTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
AAGTATCGATACTTTGATAT
Found at i:1692574 original size:202 final size:200
Alignment explanation
Indices: 1692311--1693082 Score: 961
Period size: 182 Copynumber: 4.0 Consensus size: 200
1692301 GATATGTTGA
** * * *
1692311 AAGTATCGATTAGATTGAAATAAGTATCGACAATTTGGGAATTTAAAAGAGAAGAAGTAATAGCG
1 AAGTATCGA-TACTTTGATATAAGTATCGACACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCG
*
1692376 CCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAAAAGGTAAAAATATG
65 CCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATG
* * * *
1692441 ACAAAACCGGTCTCGAAAAGACAAAACCGGTAAAGCGCTACCATATCTGTTTAAAGTGTCGATAC
130 ACAAAACCGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCAGATC-ATTGAAAGTGTCGATAC
1692506 TTTGATAT
194 TTTGA-AT
* *
1692514 AAGTATCGATACTTTGATATAAGTATCGATACTTTGGAAATTTAAAAGAGAAGCAGTAATAGCGC
1 AAGTATCGATACTTTGATATAAGTATCGACACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGC
* * *
1692579 CTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCTTAATGATATAATAGGTAAAAATATGA
66 CTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGA
*
1692644 CAAAACCGGTCTCGAAATGACAAAACTGGTAAAGCGCTA-C----C---G-AA---T--ATA--T
131 CAAAACCGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCAGATCATTGAAAGTGTCGATACTT
1692693 TG-A-
196 TGAAT
* * **
1692696 AAGTGTCGATACTTTAATATAAGTATCGACACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCAT
1 AAGTATCGATACTTTGATATAAGTATCGACACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGC
*
1692761 CTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAGCAGGTAAAAATATGA
66 CTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGA
*
1692826 CAAAACCGGTCTCGAAATGACAAAACCGGTAAAGTGCTACC-G------G--A---T--ATA--T
131 CAAAACCGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCAGATCATTGAAAGTGTCGATACTT
1692875 TG-A-
196 TGAAT
* * * * *
1692878 AAGTGTCGATACTTTAATATAAGTATCGACACTTTGGGCATTTAAAAGAGAAGCAATAATAGTGC
1 AAGTATCGATACTTTGATATAAGTATCGACACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGC
*
1692943 TTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGA
66 CTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGA
** * *
1693008 CAAAACCGGTCTCGAAATGACAAAACTAGTAAAGTGCTACCAGATACATTGAAAGTGTCAATACT
131 CAAAACCGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCAGAT-CATTGAAAGTGTCGATACT
1693073 TT-AAT
195 TTGAAT
1693078 AAGTA
1 AAGTA
1693083 ACTGTAATAA
Statistics
Matches: 513, Mismatches: 35, Indels: 45
0.87 0.06 0.08
Matches are distributed among these distances:
182 328 0.64
183 4 0.01
185 3 0.01
187 3 0.01
189 1 0.00
190 1 0.00
192 3 0.01
195 1 0.00
197 4 0.01
199 3 0.01
200 4 0.01
201 1 0.00
202 148 0.29
203 9 0.02
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (200 bp):
AAGTATCGATACTTTGATATAAGTATCGACACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGC
CTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGA
CAAAACCGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCAGATCATTGAAAGTGTCGATACTT
TGAAT
Found at i:1695630 original size:66 final size:66
Alignment explanation
Indices: 1695524--1695650 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 66
1695514 GGGGGTGGAA
** ** *
1695524 GGAAAAATAGATGGAGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAACTTAAGATGGTGACGGG
1 GGAAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGACTGAACTTAAGAAGGTGACGGG
1695589 T
66 T
* * * * *
1695590 GGAAAAATTGATGGAGTGGT-CAAGCAGGTTGTGGAATTGAGGACTGAACTTACGAAGGTGA
1 GGAAAAATAGATGGAGTGGTGAAAG-AAGTTGAGGAATTGAGGACTGAACTTAAGAAGGTGA
1695651 AGGGGGTGGT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 3 0.06
66 47 0.94
ACGTcount: A:0.32, C:0.06, G:0.39, T:0.23
Consensus pattern (66 bp):
GGAAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGACTGAACTTAAGAAGGTGACGGG
T
Found at i:1696173 original size:36 final size:36
Alignment explanation
Indices: 1696133--1696205 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
1696123 GTAACAACCT
1696133 GAATATTTACAAAATAGTATTTAATTGAAATTGGAG
1 GAATATTTACAAAATAGTATTTAATTGAAATTGGAG
1696169 GAATATTTACAAAATAGTATTTAATTGAAATTGGAG
1 GAATATTTACAAAATAGTATTTAATTGAAATTGGAG
1696205 G
1 G
1696206 TTAATTGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.36
Consensus pattern (36 bp):
GAATATTTACAAAATAGTATTTAATTGAAATTGGAG
Found at i:1696914 original size:19 final size:19
Alignment explanation
Indices: 1696890--1696931 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1696880 CTGGAAAACT
** *
1696890 GGTTTGACTGGTTTTGACC
1 GGTTTGACCAGTTTCGACC
1696909 GGTTTGACCAGTTTCGACC
1 GGTTTGACCAGTTTCGACC
1696928 GGTT
1 GGTT
1696932 CGAACCGGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (19 bp):
GGTTTGACCAGTTTCGACC
Found at i:1696917 original size:9 final size:9
Alignment explanation
Indices: 1696890--1696946 Score: 51
Period size: 10 Copynumber: 6.0 Consensus size: 9
1696880 CTGGAAAACT
*
1696890 GGTTTGACT
1 GGTTTGACC
1696899 GGTTTTGACC
1 GG-TTTGACC
1696909 GGTTTGACC
1 GGTTTGACC
*
1696918 AGTTTCGACC
1 GGTTT-GACC
*
1696928 GGTTCGAACC
1 GGTTTG-ACC
*
1696938 GGTCTGACC
1 GGTTTGACC
1696947 CGATCTGACC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 17 0.44
10 22 0.56
ACGTcount: A:0.14, C:0.25, G:0.30, T:0.32
Consensus pattern (9 bp):
GGTTTGACC
Found at i:1696974 original size:17 final size:17
Alignment explanation
Indices: 1696952--1696989 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1696942 TGACCCGATC
1696952 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1696969 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1696986 TGAC
1 TGAC
1696990 TGTTGACCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:1697004 original size:13 final size:14
Alignment explanation
Indices: 1696980--1697010 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1696970 GACCCGACCC
1696980 GACCGTTGACTGTT
1 GACCGTTGACTGTT
1696994 GACCG-TGACTGTT
1 GACCGTTGACTGTT
1697007 GACC
1 GACC
1697011 TCATTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (14 bp):
GACCGTTGACTGTT
Found at i:1704296 original size:19 final size:19
Alignment explanation
Indices: 1704254--1704302 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1704244 GAACCGGTCT
* *
1704254 GACCCGATCTGACCTGACCT
1 GACCCGA-CCGACCTGACCG
*
1704274 GACCCGACCGACTTGACCG
1 GACCCGACCGACCTGACCG
1704293 GACCCGACCG
1 GACCCGACCG
1704303 TTGACCGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.20, C:0.43, G:0.24, T:0.12
Consensus pattern (19 bp):
GACCCGACCGACCTGACCG
Found at i:1707091 original size:19 final size:19
Alignment explanation
Indices: 1707067--1707115 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1707057 AATGTAGGGT
1707067 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1707086 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1707105 TAATTTTGTAT
1 TAATTTTGTAT
1707116 GTGAATGTAA
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:1708028 original size:201 final size:198
Alignment explanation
Indices: 1707568--1708171 Score: 743
Period size: 201 Copynumber: 3.0 Consensus size: 198
1707558 AAGTACATGT
* *
1707568 TCGATACATTTAT-AAAA-TATCGATCCCAAAAACTTCGAAACCCATAATTACAATGTAATAAAT
1 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATAAGT
* ** *
1707631 AAATTTGCAATGTAATCGGTGGATATATACCGGTTTTATGAGAGAATAGGTCTATATAATGTATC
66 AAATTTGCAATGTAACCGGTATATATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
* * * * *
1707696 GACGCTTTTAAAATTCGCGTCGATACATTTTATCCAGAATGAATGGAAAACTAGGTGCACACATA
131 GACACTTTTTAAATTTGC-TCGATAC-TTTTGTCCAGAATGAATGCAAAACTAGGTGCACACATA
1707761 AAGTG
194 AAGTG
* * *
1707766 TCGATACATTTATAAAAAGTGTTGATCCCAAAAACATCGAAACCCATAATTACAATGTAATATGT
1 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATAAGT
* * * *
1707831 -AATTTGTCAATGTAACCAGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGTAC
66 AAATTTG-CAATGTAACCGGTATATATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
* * *
1707895 CCACACTTTTTAAATTTGTCTCGATACTTTCTGTTCAGAATGAATGTCCAAACTAGGTGCA-AGC
130 CGACACTTTTTAAATTTG-CTCGATACTTT-TGTCCAGAATGAATG-CAAAACTAGGTGCACA-C
1707959 ATATAA-TG
191 ATA-AAGTG
* * * *
1707967 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATATTGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATAAGT
* * * *
1708032 AAATTTACAATGTAAGCGGTATATTTATACCGGTTTTATGAGAGAATAGGTCTACATCATGTATC
66 AAATTTGCAATGTAACCGGTATATATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
* * * * * *
1708097 GACAC-TTTTATAATTTAGGTCGATACTTTTTGTCCAGAATGTATGAACAAACGAGGTGTACGCA
131 GACACTTTTTA-AATTT-GCTCGATAC-TTTTGTCCAGAATGAATGCA-AAACTAGGTGCACACA
1708161 TAAAGTG
192 TAAAGTG
1708168 TCGA
1 TCGA
1708172 CACCTTTTAA
Statistics
Matches: 347, Mismatches: 44, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
198 13 0.04
199 13 0.04
200 132 0.38
201 178 0.51
202 11 0.03
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (198 bp):
TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATAAGT
AAATTTGCAATGTAACCGGTATATATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
GACACTTTTTAAATTTGCTCGATACTTTTGTCCAGAATGAATGCAAAACTAGGTGCACACATAAA
GTG
Found at i:1708185 original size:73 final size:72
Alignment explanation
Indices: 1708095--1708254 Score: 191
Period size: 73 Copynumber: 2.2 Consensus size: 72
1708085 ACATCATGTA
* * *
1708095 TCGACACTTTTATAATTTAG-G-TCGATACTTTTTGTCCAGAATGTATGAACAAACGAGGTGTAC
1 TCGACACTTTTATAATTT-GTGCT-GATACATTTTGTCCAGAATGAATG-ACAAACGAGGTGCAC
1708158 GCATAAAGTG
63 GCATAAAGTG
* * *
1708168 TCGACACCTTTTA-AATTTGTGCTGATACATTTTGTCCATAATGAATGTCAAACTAGGTGCACGC
1 TCGACA-CTTTTATAATTTGTGCTGATACATTTTGTCCAGAATGAATGACAAACGAGGTGCACGC
1708232 ATAAAGTG
65 ATAAAGTG
* *
1708240 TCGATACATTTATAA
1 TCGACACTTTTATAA
1708255 AAAATGTCGA
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
71 5 0.07
72 30 0.40
73 33 0.44
74 7 0.09
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (72 bp):
TCGACACTTTTATAATTTGTGCTGATACATTTTGTCCAGAATGAATGACAAACGAGGTGCACGCA
TAAAGTG
Found at i:1708435 original size:273 final size:274
Alignment explanation
Indices: 1707897--1708444 Score: 752
Period size: 273 Copynumber: 2.0 Consensus size: 274
1707887 TAATGTACCC
* *
1707897 ACACTTTTTAAATTTGTCTCGATACTTTCTGTTCAGAATGAATGTCCAAACTAGGTGCAAGCATA
1 ACACCTTTTAAATTTGTCTCGATACTTTCTGTCCAGAATGAATGTCCAAACTAGGTGCAAGCATA
* * *
1707962 TAATGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATATTGTAA
66 TAATGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCAAAACCCATAATTACAATGTAA
* ** * *
1708027 TAGGTAAATTTACAATGTAAGCGGTATATTTATACCGGTTTTATGAGAGAATAGGTCTACATCAT
131 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTAATGAGAGAATAGGTCTACATAAT
* *
1708092 GTATCGACACTTTTATAATTTAGGTCGATACTTTTTGTCCAGAATGTATGAACAAACGAGGTGTA
196 GTATCGACACTTTTATAATTTAGGTCGATACTTTTTGTCCAGAATGGATGAACAAACGAGGTGCA
1708157 CGCATAAAGTGTCG
261 CGCATAAAGTGTCG
* *
1708171 ACACCTTTTAAATTTGTGCT-GATACATTT-TGTCCATAATGAATGT-CAAACTAGGTGCACGCA
1 ACACCTTTTAAATTTGT-CTCGATAC-TTTCTGTCCAGAATGAATGTCCAAACTAGGTGCAAGCA
* * **
1708233 TA-AAGTGTCGATACATTTATAAAAAATGTCGATCCCAAAAATATTGAAACCCATAATTACAATG
64 TATAA-TGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCAAAACCCATAATTACAATG
* *
1708297 TAATAGGT-AATTTGTCAATGTAACCGGTATAAATATATCGGTTTAATGAGAGAATAGGTCTACA
128 TAATAGGTAAATTT-ACAATGTAACCGGTATAAATATACCGGTTTAATGAGAGAATAGGTCTACA
** * *
1708361 TAATGTATCGACACTTTTGA-AATTTTTGTCGATACTTTTTG-CTCAGAATGGAT-ACCCAAACT
192 TAATGTATCGACACTTTT-ATAATTTAGGTCGATACTTTTTGTC-CAGAATGGATGA-ACAAACG
*
1708423 AGGTGCACGCATATAGTGTCG
254 AGGTGCACGCATAAAGTGTCG
1708444 A
1 A
1708445 TACATTTATA
Statistics
Matches: 242, Mismatches: 25, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
272 9 0.04
273 192 0.79
274 36 0.15
275 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (274 bp):
ACACCTTTTAAATTTGTCTCGATACTTTCTGTCCAGAATGAATGTCCAAACTAGGTGCAAGCATA
TAATGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCAAAACCCATAATTACAATGTAA
TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTAATGAGAGAATAGGTCTACATAAT
GTATCGACACTTTTATAATTTAGGTCGATACTTTTTGTCCAGAATGGATGAACAAACGAGGTGCA
CGCATAAAGTGTCG
Found at i:1708643 original size:200 final size:200
Alignment explanation
Indices: 1708216--1708655 Score: 580
Period size: 200 Copynumber: 2.2 Consensus size: 200
1708206 TAATGAATGT
* * *
1708216 CAAACTAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAATGTCGATCCCAAAAATATTGAA
1 CAAACTAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAA
* * *
1708281 ACCCATAATTACAATGTAATAGGTAATTTGTCAATGTAACCGGTATAAATATATCGGTTTAATGA
66 ACCCATAATTACAATGTAATAGGTAATTTGACAATGTAACCGGTATAAATATACCGATTTAATGA
* *
1708346 GAGAATAGGTCTACATAATGTATCGACACTTTTGAAATTTTTGTCGATACTTTTTG-CTCAGAAT
131 GAGAATAGGTCCACATAATGTATCGACACTTTT-AAATTTGTGTCGATACTTTTTGTC-CAGAAT
* *
1708410 GGATACC
194 GAATGCC
* *
1708417 CAAACTAGGTGCACGCATATAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAA
1 CAAACTAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAA
* * * ** ** *
1708482 ACCCATAATTATATTGTAATAGGTAATTT-ACAATTTAAGTGGTATATTTATACCGATTTTATGA
66 ACCCATAATTACAATGTAATAGGTAATTTGACAATGTAACCGGTATAAATATACCGATTTAATGA
** *
1708546 GAGAATAGGTCCAGTTCATGTATCGACACTTTTATAATTTGTGTCGATACTTTTTGTCCAGAATG
131 GAGAATAGGTCCACATAATGTATCGACACTTTTA-AATTTGTGTCGATACTTTTTGTCCAGAATG
*
1708611 TATGCC
195 AATGCC
* * * *
1708617 CAAACGAGGTGTATGCATAAAGTGTCGATACCTTT-TAAA
1 CAAACTAGGTGCACGCATAAAGTGTCGATACATTTATAAA
1708656 TTTGTGTCGA
Statistics
Matches: 209, Mismatches: 28, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
199 5 0.02
200 116 0.56
201 88 0.42
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (200 bp):
CAAACTAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAA
ACCCATAATTACAATGTAATAGGTAATTTGACAATGTAACCGGTATAAATATACCGATTTAATGA
GAGAATAGGTCCACATAATGTATCGACACTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGA
ATGCC
Found at i:1708735 original size:72 final size:73
Alignment explanation
Indices: 1708586--1708735 Score: 178
Period size: 72 Copynumber: 2.1 Consensus size: 73
1708576 TTTATAATTT
* ** * * * *
1708586 GTGTCGATACTTTTTGTCCAGAATGTATGCCCAAACGAGGTGTATGCATAAAGTGTCGATACCTT
1 GTGTCGATACATTTTGTCCAGAATAAATGCCCAAACGAGGTGCACGCATAAAATGTCGATACATT
**
1708651 TTAAATTT
66 TTAAATAA
* *
1708659 GTGTCGATACATTTTGTCCATAATAAATG-CCAAACTAGGTGCACGCATAAAATGTCGATACATT
1 GTGTCGATACATTTTGTCCAGAATAAATGCCCAAACGAGGTGCACGCATAAAATGTCGATACATT
1708723 TATAAA-AA
66 T-TAAATAA
1708731 GTGTC
1 GTGTC
1708736 AATCCCAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
72 36 0.55
73 29 0.45
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (73 bp):
GTGTCGATACATTTTGTCCAGAATAAATGCCCAAACGAGGTGCACGCATAAAATGTCGATACATT
TTAAATAA
Found at i:1708743 original size:473 final size:472
Alignment explanation
Indices: 1707700--1709145 Score: 2328
Period size: 473 Copynumber: 3.1 Consensus size: 472
1707690 TGTATCGACG
* * * * ** *
1707700 CTTTTAAAATTCGCGTCGATACATTTTATCCAGAATGAATGGAAAACTAGGTGCACACATAAAGT
1 CTTTT-AAATTTGTGTCGATACATTTTGTCCATAATGAATGCCAAACTAGGTGCACGCATAAAGT
* * *
1707765 GTCGATACATTTATAAAAAGTGTTGATCCCAAAAACATCGAAACCCATAATTACAATGTAATATG
65 GTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATTGAAACCCATAATTACAATGTAATAGG
* * * *
1707830 TAATTTGTCAATGTAACCAGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGTAC
130 TAATTTGTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
* * * * * *
1707895 CCACACTTTTTAAATTTGTCTCGATACTTTCTGTTCAGAATGAATGTCCAAACTAGGTGCAAGCA
195 CAACACTTTTGAAATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACTAGGTGCACGCA
* *
1707960 TATAATGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATATTGT
260 TATAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATTGT
1708025 AATAGGTAAATTTACAATGTAAGCGGTATATTTATACCGGTTTTATGAGAGAATAGGTCTACA-T
325 AATAGGTAAATTTACAATGTAAGCGGTATATTTATACC-GTTTTATGAGAGAATAGGTC--CATT
**
1708089 CATGTATCGACACTTTTATAATTTAG-GTCGATACTTTTTGTCCAGAATGTATGAACAAACGAGG
387 CATGTATCGACACTTTTATAATTT-GTGTCGATACTTTTTGTCCAGAATGTATGCCCAAACGAGG
*
1708153 TGTACGCATAAAGTGTCGACAC
451 TGTACGCATAAAGTGTCGATAC
*
1708175 CTTTTAAATTTGTG-CTGATACATTTTGTCCATAATGAATGTCAAACTAGGTGCACGCATAAAGT
1 CTTTTAAATTTGTGTC-GATACATTTTGTCCATAATGAATGCCAAACTAGGTGCACGCATAAAGT
* *
1708239 GTCGATACATTTATAAAAAATGTCGATCCCAAAAATATTGAAACCCATAATTACAATGTAATAGG
65 GTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATTGAAACCCATAATTACAATGTAATAGG
*
1708304 TAATTTGTCAATGTAACCGGTATAAATATATCGGTTTAATGAGAGAATAGGTCTACATAATGTAT
130 TAATTTGTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACATAATGTAT
* * * * *
1708369 CGACACTTTTGAAATTTTTGTCGATACTTTTTGCTCAGAATGGATACCCAAACTAGGTGCACGCA
195 CAACACTTTTGAAATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACTAGGTGCACGCA
1708434 TATAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATTGT
260 TATAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATTGT
* *
1708499 AATAGGT-AATTTACAATTTAAGTGGTATATTTATACCGATTTTATGAGAGAATAGGTCCAGTTC
325 AATAGGTAAATTTACAATGTAAGCGGTATATTTATACCG-TTTTATGAGAGAATAGGTCCA-TTC
1708563 ATGTATCGACACTTTTATAATTTGTGTCGATACTTTTTGTCCAGAATGTATGCCCAAACGAGGTG
388 ATGTATCGACACTTTTATAATTTGTGTCGATACTTTTTGTCCAGAATGTATGCCCAAACGAGGTG
*
1708628 TATGCATAAAGTGTCGATAC
453 TACGCATAAAGTGTCGATAC
* *
1708648 CTTTTAAATTTGTGTCGATACATTTTGTCCATAATAAATGCCAAACTAGGTGCACGCATAAAATG
1 CTTTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGCCAAACTAGGTGCACGCATAAAGTG
* * *
1708713 TCGATACATTTATAAAAAGTGTCAATCCCAAAAGCATTGAAACCCATAATTATAATGTAATAGGT
66 TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATTGAAACCCATAATTACAATGTAATAGGT
1708778 AATTTGTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
131 AATTTGTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
*
1708843 AACGCTTTTGAAATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACTAGGTGCACGCAT
196 AACACTTTTGAAATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACTAGGTGCACGCAT
*
1708908 ACAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATTGTA
261 ATAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATTGTA
*
1708973 ATAGGTAAATTTACAATGTAAGCGGTATATTTATACATGTTTTATGAGAGAAT-GGTCTACATT-
326 ATAGGTAAATTTACAATGTAAGCGGTATATTTATAC-CGTTTTATGAGAGAATAGGTC--CATTC
**
1709036 ATGTATCGACACTTTTATAATTTGTGTCGATACTTTTTGTTTAGAATGTATGCCCAAACGAGGTG
388 ATGTATCGACACTTTTATAATTTGTGTCGATACTTTTTGTCCAGAATGTATGCCCAAACGAGGTG
1709101 TACGCATAAAGTGTCGATAC
453 TACGCATAAAGTGTCGATAC
1709121 CTTTTAAATTTGTGTCGATACATTT
1 CTTTTAAATTTGTGTCGATACATTT
1709146 AAAATTGTAT
Statistics
Matches: 904, Mismatches: 57, Indels: 22
0.92 0.06 0.02
Matches are distributed among these distances:
471 2 0.00
472 2 0.00
473 553 0.61
474 339 0.38
475 8 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (472 bp):
CTTTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGCCAAACTAGGTGCACGCATAAAGTG
TCGATACATTTATAAAAAGTGTCGATCCCAAAAACATTGAAACCCATAATTACAATGTAATAGGT
AATTTGTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACATAATGTATC
AACACTTTTGAAATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACTAGGTGCACGCAT
ATAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATTGTA
ATAGGTAAATTTACAATGTAAGCGGTATATTTATACCGTTTTATGAGAGAATAGGTCCATTCATG
TATCGACACTTTTATAATTTGTGTCGATACTTTTTGTCCAGAATGTATGCCCAAACGAGGTGTAC
GCATAAAGTGTCGATAC
Found at i:1708917 original size:273 final size:273
Alignment explanation
Indices: 1708416--1708929 Score: 744
Period size: 273 Copynumber: 1.9 Consensus size: 273
1708406 GAATGGATAC
* * *
1708416 CCAAACTAGGTGCACGCATATAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGA
1 CCAAACTAGGTGCACGCATAAAATGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGA
* * ** **
1708481 AACCCATAATTATATTGTAATAGGTAATTTACAATTTAAGTGGTATATTTATACCGATTTTATGA
66 AACCCATAATTATAATGTAATAGGTAATTTACAATGTAACCGGTATAAATATACCGATTTTATGA
** * *
1708546 GAGAATAGGTCCAGTTCATGTATCGACACTTTTATAATTTGTGTCGATACTTTTTGTCCAGAATG
131 GAGAATAGGTCCACATAATGTATCAACACTTTTATAATTTGTGTCGATACTTTTTGTCCAGAATG
* * * *
1708611 TATGCCCAAACGAGGTGTATGCATAAAGTGTCGATACCTTT-TAAATTTGTGTCGATACATTTTG
196 AATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATAAATTTGTGTCGATACATTTTG
1708675 TCCATAATAAATG
261 TCCATAATAAATG
* * *
1708688 CCAAACTAGGTGCACGCATAAAATGTCGATACATTTATAAAAAGTGTCAATCCCAAAAGCATTGA
1 CCAAACTAGGTGCACGCATAAAATGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGA
* * *
1708753 AACCCATAATTATAATGTAATAGGTAATTTGTCAATGTAACCGGTATAAATATATCGGTTTTATG
66 AACCCATAATTATAATGTAATAGGTAATTT-ACAATGTAACCGGTATAAATATACCGATTTTATG
* * *
1708818 AGAGAATAGGTCTACATAATGTATCAACGCTTTTGA-AATTTGTGTCGATACTTTTTGTTCAGAA
130 AGAGAATAGGTCCACATAATGTATCAACACTTTT-ATAATTTGTGTCGATACTTTTTGTCCAGAA
* *
1708882 TGAATGCCCAAACTAGGTGCACGCATACAGTGTCGATACATTTATAAA
194 TGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATAAA
1708930 AAGTATCGAT
Statistics
Matches: 211, Mismatches: 28, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
272 88 0.42
273 118 0.56
274 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (273 bp):
CCAAACTAGGTGCACGCATAAAATGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGA
AACCCATAATTATAATGTAATAGGTAATTTACAATGTAACCGGTATAAATATACCGATTTTATGA
GAGAATAGGTCCACATAATGTATCAACACTTTTATAATTTGTGTCGATACTTTTTGTCCAGAATG
AATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATAAATTTGTGTCGATACATTTTG
TCCATAATAAATG
Found at i:1709148 original size:20 final size:21
Alignment explanation
Indices: 1709111--1709159 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
1709101 TACGCATAAA
* *
1709111 GTGTCGATACCTTTTAAATTT
1 GTGTCGATACCATTTAAAATT
1709132 GTGTCGATA-CATTTAAAATT
1 GTGTCGATACCATTTAAAATT
*
1709152 GTATCGAT
1 GTGTCGAT
1709160 CCCAAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (21 bp):
GTGTCGATACCATTTAAAATT
Found at i:1709193 original size:200 final size:201
Alignment explanation
Indices: 1708648--1709128 Score: 557
Period size: 200 Copynumber: 2.4 Consensus size: 201
1708638 GTGTCGATAC
* * * * * *
1708648 CTTTT-AAATTTGTGTCGATACATTTTGTCCATAATAAATG-CCAAACTAGGTGCACGCATAAAA
1 CTTTTGAAATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACGAGGTGCACGCATAAAG
* * * * *
1708711 TGTCGATACATTTATAAAAAGTGTCAATCCCAAAAGCATTGAAACCCATAATTATA-AT-GTAAT
66 TGTCGATACATTTATAAAAAGTATCGATCACAAAAACATCGAAACCCATAA-TA-ACATCGTAAT
* * ** ** *
1708774 AGGT-AATTTGTCAATGTAACCGGTATAAATATATC-GGTTTTATGAGAGAATAGGTCTACATAA
129 ACGTAAATTT-ACAATGTAAGAGGTATATTTATA-CATGTTTTATGAGAGAATAGGTCTACATAA
*
1708837 TGTATCAACG
192 TGTATCAACA
* *
1708847 CTTTTGAAATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACTAGGTGCACGCATACAG
1 CTTTTGAAATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACGAGGTGCACGCATAAAG
* * * * *
1708912 TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATTGTAATAG
66 TGTCGATACATTTATAAAAAGTATCGATCACAAAAACATCGAAACCCATAATAACATCGTAATAC
* *
1708977 GTAAATTTACAATGTAAGCGGTATATTTATACATGTTTTATGAGAGAAT-GGTCTACATTATGTA
131 GTAAATTTACAATGTAAGAGGTATATTTATACATGTTTTATGAGAGAATAGGTCTACATAATGTA
*
1709041 TCGACA
196 TCAACA
* * *
1709047 CTTTT-ATAATTTGTGTCGATACTTTTTGTTTAGAATGTATGCCCAAACGAGGTGTACGCATAAA
1 CTTTTGA-AATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACGAGGTGCACGCATAAA
*
1709111 GTGTCGATACCTTT-TAAA
65 GTGTCGATACATTTATAAA
1709129 TTTGTGTCGA
Statistics
Matches: 250, Mismatches: 25, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
199 11 0.04
200 123 0.49
201 111 0.44
202 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (201 bp):
CTTTTGAAATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACGAGGTGCACGCATAAAG
TGTCGATACATTTATAAAAAGTATCGATCACAAAAACATCGAAACCCATAATAACATCGTAATAC
GTAAATTTACAATGTAAGAGGTATATTTATACATGTTTTATGAGAGAATAGGTCTACATAATGTA
TCAACA
Found at i:1709213 original size:220 final size:222
Alignment explanation
Indices: 1708911--1709349 Score: 616
Period size: 220 Copynumber: 2.0 Consensus size: 222
1708901 CACGCATACA
* *
1708911 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATTGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATA
** * * *
1708976 GGTAAATTTACAATGTAAGCGGTATATTTATACATGTTTTATGAGAGAAT-GGTCTACATTATGT
66 GGTAAATTTACAATGTAAGCGGTATAAATATACAGGCTTTATGAGAGAATAGGTCTACATAATGT
* ** * * **
1709040 ATCGACACTTTTATAATTTGTGTCGATACTTTTTGTTTAGAATGTATGCCCAAACGAGGTGTACG
131 ATCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAG-GGTCCACG
*
1709105 CATAAAGTGTCGATACCTTT-TAAATTT
195 CATAAAGTGTCGATACATTTATAAATTT
** **
1709132 GTGTCGATACATTTA-AAATTGTATCGATCCCAAAAACATCGAAACCGTTAATTACAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATA
* * *
1709196 GGTATATTT-CTAATGTAAGTGGTATAAATATACCGGCTTTATGAGAGAATAGGTCTACATAATG
66 GGTAAATTTAC-AATGTAAGCGGTATAAATATACAGGCTTTATGAGAGAATAGGTCTACATAATG
*
1709260 TATCGACACTTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTCCACG
130 TATCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTCCACG
*
1709325 TATAAAGTGTCGATACATTTATAAA
195 CATAAAGTGTCGATACATTTATAAA
1709350 AGGTGTCGAC
Statistics
Matches: 191, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
219 1 0.01
220 108 0.57
221 82 0.43
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (222 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTACAATGTAATA
GGTAAATTTACAATGTAAGCGGTATAAATATACAGGCTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTCCACGC
ATAAAGTGTCGATACATTTATAAATTT
Found at i:1709453 original size:421 final size:421
Alignment explanation
Indices: 1708711--1709494 Score: 1144
Period size: 421 Copynumber: 1.9 Consensus size: 421
1708701 ACGCATAAAA
* * * *
1708711 TGTCGATACATTTATAAAAAGTGTCAATCCCAAAAGCATTGAAACCCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTACAATGTAATAG
* * *
1708776 GTAATTTGTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACATAATGTA
66 GTAATTTCTCAATGTAACCGGTATAAATATACCGGCTTTATGAGAGAATAGGTCTACATAATGTA
* * *
1708841 TCAACGCTTTTGAAATTTGTGTCGATACTTTTTGTTCAGAATGAATGCCCAAACTAGGTGCACGC
131 TCAACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAC-AGGTCCACGC
* * * * *
1708906 ATACAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATTG
195 ATAAAGTGTCGATACATTTATAAAAAGTATCGACCCCAAAAACATCAAAACCCATAATAATAATG
* * ** * * * *
1708971 TAATAGGTAAATTTACAATGTAAGCGGTATATTTATACATGTTTTATGAGAGAATGGTCTACATT
260 TAATAGATAAATTTACAATGTAACCGGTATACATATACAGGTGTTAAGAGAGAATGGTCTACATA
1709036 ATGTATCGACAC-TTTTATAATTTGTGTCGATACTTTTTGTTTAGAATGTATGCCCAAACGAGGT
325 ATGTATCGACACTTTTTA-AATTTGTGTCGATACTTTTTGTTTAGAATGTATGCCCAAACGAGGT
1709100 GTACGCATAAAGTGTCGATACCTTTTAAATTTG
389 GTACGCATAAAGTGTCGATACCTTTTAAATTTG
** * **
1709133 TGTCGATACATTTA-AAATTGTATCGATCCCAAAAACATCGAAACCGTTAATTACAATGTAATAG
1 TGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTACAATGTAATAG
**
1709197 GTATATTTCT-AATGTAAGTGGTATAAATATACCGGCTTTATGAGAGAATAGGTCTACATAATGT
66 GTA-ATTTCTCAATGTAACCGGTATAAATATACCGGCTTTATGAGAGAATAGGTCTACATAATGT
* *
1709261 ATCGACACTTTTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA-AGGGTCCACG
130 ATCAACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACA-GGTCCACG
* * *
1709325 TATAAAGTGTCGATACATTTATAAAAGGTGTCGACCCCAAAAACATCAAAACCCATAATAATAAT
194 CATAAAGTGTCGATACATTTATAAAAAGTATCGACCCCAAAAACATCAAAACCCATAATAATAAT
* * *
1709390 GTAATAGATAATTTTTCAATGTAACCGGTATACATATACCGGTGTTAAGAGAGAATAGGTCTACA
259 GTAATAGATAAATTTACAATGTAACCGGTATACATATACAGGTGTTAAGAGAGAAT-GGTCTACA
*
1709455 TAATGTATCGACACTTTTTAAATTTGTGTCGATATTTTTT
323 TAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTT
1709495 TAAATTTCAC
Statistics
Matches: 319, Mismatches: 39, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
419 1 0.00
420 110 0.34
421 184 0.58
422 24 0.08
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (421 bp):
TGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTACAATGTAATAG
GTAATTTCTCAATGTAACCGGTATAAATATACCGGCTTTATGAGAGAATAGGTCTACATAATGTA
TCAACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACAGGTCCACGCA
TAAAGTGTCGATACATTTATAAAAAGTATCGACCCCAAAAACATCAAAACCCATAATAATAATGT
AATAGATAAATTTACAATGTAACCGGTATACATATACAGGTGTTAAGAGAGAATGGTCTACATAA
TGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTTTAGAATGTATGCCCAAACGAGGTGT
ACGCATAAAGTGTCGATACCTTTTAAATTTG
Found at i:1709727 original size:18 final size:18
Alignment explanation
Indices: 1709704--1709741 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1709694 AATTGGACTC
1709704 TTTTTTTCCTTAATGTGT
1 TTTTTTTCCTTAATGTGT
**
1709722 TTTTTTTTGTTAATGTGT
1 TTTTTTTCCTTAATGTGT
1709740 TT
1 TT
1709742 GTGTTCCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.05, G:0.13, T:0.71
Consensus pattern (18 bp):
TTTTTTTCCTTAATGTGT
Found at i:1712297 original size:24 final size:25
Alignment explanation
Indices: 1712270--1712324 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
1712260 TTTCAAGTTC
*
1712270 ATTTCATATGT-AATTGGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
* *
1712294 ATTT-AAATTTCAATTTGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
1712318 ATTTCAA
1 ATTTCAA
1712325 TATAAATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 20 0.77
25 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTTCAAATGTCAATTGGAGTTTGA
Found at i:1712310 original size:18 final size:18
Alignment explanation
Indices: 1712289--1712325 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1712279 GTAATTGGAG
1712289 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1712307 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1712325 T
1 T
1712326 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1712332 original size:24 final size:24
Alignment explanation
Indices: 1712281--1712333 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1712271 TTTCATATGT
* * *
1712281 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
1712305 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
1712329 AATTT
1 AATTT
1712334 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:1713116 original size:22 final size:21
Alignment explanation
Indices: 1713091--1713134 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1713081 AAAATAGGTA
*
1713091 TACATAATATATCGATACTTTT
1 TACAT-ATATATCGAAACTTTT
* *
1713113 TACATTTATGTCGAAACTTTT
1 TACATATATATCGAAACTTTT
1713134 T
1 T
1713135 GTCCAGAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TACATATATATCGAAACTTTT
Found at i:1713162 original size:198 final size:197
Alignment explanation
Indices: 1712823--1713526 Score: 894
Period size: 199 Copynumber: 3.5 Consensus size: 197
1712813 TGAAATTGAA
**
1712823 AATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAAT
1 AATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCAATTTTATGAGAAAAT
* * * * *
1712888 AGGTATATATAATGTATCGACACTGTTTACATTTGTGTCGATATTTTTTGTCCAGAATGAATGCT
66 AGGTATACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAT-AT
* *
1712953 CAACGAGGTTCACGCATAAAGTGTCGATACATTTACAATTGTATCGATCCCAAAAACATCAAAAC
130 CAACGAGGTTCACACATAAAGTGTCGATACATTTA-AATTGTATCGATCCCAAAAACATCGAAAC
*
1713018 CGAT
194 CCAT
* * * ** *
1713022 AATTATAATGTAATAGGTAATTTTGCAATGTAACCGGTACGAA-ATACCGATTTTATGAGAAAAT
1 AATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCAATTTTATGAGAAAAT
* * * * *
1713086 AGGTATACATAATATATCGATACTTTTTACATTTATGTCGAAACTTTTTGTCCAGAATGAATATT
66 AGGTATACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATA-T
* * *
1713151 AAACGAGGTTCACACATAAAGTGTCGATACATTTGAAATTGTATCGATCCTAAGAACATCGAAAC
130 CAACGAGGTTCACACATAAAGTGTCGATACATTT-AAATTGTATCGATCCCAAAAACATCGAAAC
1713216 CCAT
194 CCAT
* * * * * *
1713220 AATTATAATGTAATAGGTAATTTTGCAATGTAACCGGTATAAGTATA-CAAGTTTAATTAGAAAA
1 AATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCAA-TTTTATGAGAAAA
* * * * *
1713284 CATGTCA-ACATAATGTATCGACAATATTTAAATATGTGTCGATACTTTTTTGTCCAGAATGAAT
65 TAGGT-ATACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC-TTTTTGTCCAGAATGAAT
* *
1713348 GA-CAACGAGGTGCACACATAAAGTGTCGATACATTTAAATTTGTATCAATCCCAAAAACATCGA
128 -ATCAACGAGGTTCACACATAAAGTGTCGATACATTTAAA-TTGTATCGATCCCAAAAACATCGA
1713412 AACCCAT
191 AACCCAT
* * * * *
1713419 AAATATAATGTAATAGATAAATTTACAATGTAACCAGTATAAATATATCAAGTTTATGAGAGAAT
1 AATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCAATTTTATGAGAAAAT
* * *
1713484 AGGTCTCCATAATGTATCGACACTTTTAAAATTTGTGTCGATA
66 AGGTATACATAATGTATCGACACTTTTTAAATTTGTGTCGATA
1713527 ATTATTTTTT
Statistics
Matches: 436, Mismatches: 59, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
198 182 0.42
199 231 0.53
200 22 0.05
201 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (197 bp):
AATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCAATTTTATGAGAAAAT
AGGTATACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATATC
AACGAGGTTCACACATAAAGTGTCGATACATTTAAATTGTATCGATCCCAAAAACATCGAAACCC
AT
Found at i:1717793 original size:21 final size:21
Alignment explanation
Indices: 1717763--1717813 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
1717753 GTGCACGCAT
* *
1717763 AAAGTGTCGGTATATTTATTC
1 AAAGTATCGGTACATTTATTC
1717784 AAAGTATCGGTACATTTATTC
1 AAAGTATCGGTACATTTATTC
1717805 AAAGTATCG
1 AAAGTATCG
1717814 ATCCCAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (21 bp):
AAAGTATCGGTACATTTATTC
Found at i:1717971 original size:221 final size:221
Alignment explanation
Indices: 1717584--1718013 Score: 578
Period size: 221 Copynumber: 1.9 Consensus size: 221
1717574 ACATTTTCTA
*
1717584 AAAGTATGGACCCCAAAAACATCGAAACCAATAATTATAATGTAATAGATAAATTAAAAATGTAA
1 AAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATAGATAAATTAAAAATGTAA
* * * *
1717649 CCGGTATAAATATACCAATTAATTAGAAAACATGCCAGCATAATGTATCGACACTTGTGGAATTT
66 ACGGTATAAATATACCAATTAATGAGAAAACAGGCCAACATAATGTATCGACACTTGTGGAATTT
* *
1717714 GTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGGTATATT
131 GTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATT
*
1717779 TATTCAAAGTATCGGTACATTTATTC
196 TATTAAAAGTATCGGTACATTTATTC
* * * * * * *
1717805 AAAGTATCGATCCCAGAAATATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATAGATAAATTAAAAATGTAA
* * * * ** **
1717870 ACGGTATAAATATACCGATTTTATGAGAGAATAGGTTAACATAATGTATCGACACTT-TTTATAT
66 ACGGTATAAATATACC-AATTAATGAGAAAACAGGCCAACATAATGTATCGACACTTGTGGA-AT
* * *
1717934 TTGTGTCGATA-TATTTTGTCCATAATGAATG-CCAAACGAGGTGCATGCATAAAGTGTCGATAC
129 TTGTGTCGATACT-TATTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATAC
1717997 ATTTATTAAAAGTATCG
193 ATTTATTAAAAGTATCG
1718014 ATCCAAAAAA
Statistics
Matches: 180, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
221 120 0.67
222 60 0.33
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (221 bp):
AAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATAGATAAATTAAAAATGTAA
ACGGTATAAATATACCAATTAATGAGAAAACAGGCCAACATAATGTATCGACACTTGTGGAATTT
GTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATT
TATTAAAAGTATCGGTACATTTATTC
Found at i:1718299 original size:198 final size:199
Alignment explanation
Indices: 1717805--1718304 Score: 611
Period size: 200 Copynumber: 2.5 Consensus size: 199
1717795 ACATTTATTC
* * *
1717805 AAAGTATCGATCCCAGAAATATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTTA
* * * *
1717870 ACGGTATAAATATACCGATTTTATGAGAGAATAGGT-TAACATAATGTATCGACACTTTTTATAT
66 CCGGTATAAATATACCG-GTTTATGAGAAAATAGGTCTAACATAATATATCGACACTTTTTATAT
* * * * *
1717934 TTGTGTCGATATATTTTGTCCATAATGAATGCCAAACGAGGTGCATGCATAAAGTGTCGATACAT
130 TTGTGTCGATATATTTTGTCCAGAATAAATGCCAAACGAAGTGCACGCATAAAGTGTCGATACAG
1717999 TTATTA
195 TTA-TA
* *
1718005 AAAGTATCGATCCAAAAAACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATG-TA
1 AAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTTA
* * *
1718069 CCCGATAGAAATATATCGGTTTTATGAGAAAATAGGTCT-ACATAATATATCGACACTTTTTA-A
66 -CCGGTATAAATATACCGG-TTTATGAGAAAATAGGTCTAACATAATATATCGACACTTTTTATA
* *
1718132 TTTTGTGTCGATACT-TTTT-TCCAGAATAAATATCCAAA-GAAGTGTACGCATAAAGTGTCGAT
129 -TTTGTGTCGATA-TATTTTGTCCAGAATAAAT-GCCAAACGAAGTGCACGCATAAAGTGTCGAT
*
1718194 ATAGTTA-A
191 ACAGTTATA
* * * * ** *
1718202 AATTGTATCGATCCCAAAAACATCGAAATCGATAATTATAATATCATAGGTAAATTTGTATTGTT
1 AA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTT
*
1718267 ACCGGTATAAATATACCGGTTTAGTTAGAAAATAGGTC
65 ACCGGTATAAATATACCGGTTTA-TGAGAAAATAGGTC
1718305 AATATAAGCG
Statistics
Matches: 258, Mismatches: 33, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
197 7 0.03
198 79 0.31
199 40 0.16
200 130 0.50
201 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (199 bp):
AAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTTA
CCGGTATAAATATACCGGTTTATGAGAAAATAGGTCTAACATAATATATCGACACTTTTTATATT
TGTGTCGATATATTTTGTCCAGAATAAATGCCAAACGAAGTGCACGCATAAAGTGTCGATACAGT
TATA
Found at i:1718398 original size:87 final size:87
Alignment explanation
Indices: 1718306--1718467 Score: 274
Period size: 87 Copynumber: 1.9 Consensus size: 87
1718296 AAATAGGTCA
*
1718306 ATATAAGCGCTACCTATTACATTATA-TAAGC-GTTACCTAATATGTTATTGTACTTGATAATAT
1 ATATAAGCGCTACCTATTACATTATATTAA-CTG-TACCTAATATGTTATTATACTTGATAATAT
1718369 TTTCGGTTAAATGTCTATTTTATT
64 TTTCGGTTAAATGTCTATTTTATT
*
1718393 ATATAAGCGCTACCTATTCCATTATATTAACTGTACCTAATATGTTATTATACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATTAACTGTACCTAATATGTTATTATACTTGATAATATTT
1718458 TCGGTTAAAT
66 TCGGTTAAAT
1718468 TATATAACTT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
87 67 0.94
88 4 0.06
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATTAACTGTACCTAATATGTTATTATACTTGATAATATTT
TCGGTTAAATGTCTATTTTATT
Found at i:1728679 original size:59 final size:59
Alignment explanation
Indices: 1728136--1728652 Score: 802
Period size: 59 Copynumber: 8.7 Consensus size: 59
1728126 TTTCCATACA
* * * * * * *
1728136 GAAATTCATACACTTAGTATGAATTTCTTATCCTTTTAGCACAC-AAGGTGCCCAACATA
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAA-GTGCCCTATATG
* *
1728195 GAAATTCATACACTTAGTATGAATTTCTTTCTCATGTTAGTACACGAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGAA-TTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
*
1728255 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTACATG
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
* *
1728314 GAAATTCGTATACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
* * *
1728373 AAAATTCATACACATAGTATGAATTTCTTCTCATGTTAGCACACGAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
1728432 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
*
1728491 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAATGCCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
* * * *
1728550 GAAATTCATACACTCAGTATGGATTCCTTCTCATGTTAGCACACGAAGTGTCCTATATC
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
** *
1728609 GAAATTCATACACTTAGTATGAATTCCTTGACATTTTAGCACAC
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACAC
1728653 TTAGTGCCAT
Statistics
Matches: 422, Mismatches: 34, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
59 373 0.88
60 47 0.11
61 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
Found at i:1729164 original size:92 final size:90
Alignment explanation
Indices: 1729006--1729203 Score: 240
Period size: 92 Copynumber: 2.1 Consensus size: 90
1728996 TCCGACAATA
*
1729006 GTATCGATACTACCCTACTATGGTATTGATACCCTTCCAGTATCGATACCAAAATTAGATTCGAT
1 GTATCGATACTA--CTACTATGGTACTGATACCCTTCCAGTATCGATACCAAAATTAGATTCGAT
*
1729071 GTGTCCCAT-TATCAATACCCTTACCATG
64 GT-TACC-TGTATCAATACCCTTACCATG
* *
1729099 GTATCGATACTACTA-TATGGTACTGATACCCCTT-TATGATATCGATACCAAAATTAGGTTCGA
1 GTATCGATACTACTACTATGGTACTGATA-CCCTTCCA-G-TATCGATACCAAAATTAGATTCGA
*
1729162 TGTTACCTGGTATCGATACCCTTACCATG
63 TGTTACCT-GTATCAATACCCTTACCATG
* *
1729191 ATATCTATACTAC
1 GTATCGATACTAC
1729204 CTCATCGGTA
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
90 14 0.15
91 12 0.13
92 55 0.59
93 12 0.13
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (90 bp):
GTATCGATACTACTACTATGGTACTGATACCCTTCCAGTATCGATACCAAAATTAGATTCGATGT
TACCTGTATCAATACCCTTACCATG
Found at i:1735119 original size:8 final size:7
Alignment explanation
Indices: 1735107--1735255 Score: 94
Period size: 7 Copynumber: 20.4 Consensus size: 7
1735097 ATAAAAAACT
1735107 AAAGAAA
1 AAAGAAA
1735114 AGAAGAAA
1 A-AAGAAA
* *
1735122 GAATAAA
1 AAAGAAA
1735129 AAA-ATAA
1 AAAGA-AA
1735136 AAAGAAGA
1 AAAGAA-A
1735144 TGAAA-AAA
1 --AAAGAAA
1735152 AACAG-AA
1 AA-AGAAA
1735159 AAAGAAA
1 AAAGAAA
1735166 AGAAGAAA
1 A-AAGAAA
1735174 AAAGAAGA
1 AAAGAA-A
1735182 AAA-AAA
1 AAAGAAA
*
1735188 AAAAAAA
1 AAAGAAA
*
1735195 AAAAAAA
1 AAAGAAA
1735202 AAAGAAA
1 AAAGAAA
*
1735209 AAATAGAA
1 AAAGA-AA
*
1735217 AAATAAA
1 AAAGAAA
1735224 AGAA-AAA
1 A-AAGAAA
1735231 ATAA-AAA
1 A-AAGAAA
1735238 AAAGAAA
1 AAAGAAA
1735245 AGAAGAAA
1 A-AAGAAA
1735253 AAA
1 AAA
1735256 AATGAGAGAT
Statistics
Matches: 120, Mismatches: 6, Indels: 32
0.76 0.04 0.20
Matches are distributed among these distances:
6 11 0.09
7 68 0.57
8 36 0.30
9 2 0.02
10 3 0.03
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.04
Consensus pattern (7 bp):
AAAGAAA
Found at i:1735131 original size:28 final size:25
Alignment explanation
Indices: 1735099--1735257 Score: 119
Period size: 27 Copynumber: 6.1 Consensus size: 25
1735089 CACAAGAGAT
*
1735099 AAAAAACTAAAGAAAAGAAGAAAGAA
1 AAAAAAATAAAGAAAAGAAGAAA-AA
*
1735125 TAAAAAAATAAA-AAGAAGATGAAAAA
1 -AAAAAAATAAAGAA-AAGAAGAAAAA
*
1735151 AAACAGAA-AAAGAAAAGAAGAAAAAA
1 AAA-AAAATAAAGAAAAGAAG-AAAAA
* * * *
1735177 GAAGAAAAAAAAAAAAAAAAAAAAAAA
1 -AA-AAAAATAAAGAAAAGAAGAAAAA
*
1735204 AGAAAAAATAGAA-AAATAAAAGAAAAA
1 A-AAAAAATA-AAGAAA-AGAAGAAAAA
*
1735231 ATAAAAA-AAAGAAAAGAAGAAAAA
1 AAAAAAATAAAGAAAAGAAGAAAAA
1735255 AAA
1 AAA
1735258 TGAGAGATGC
Statistics
Matches: 108, Mismatches: 13, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
24 13 0.12
25 15 0.14
26 29 0.27
27 41 0.38
28 10 0.09
ACGTcount: A:0.82, C:0.01, G:0.12, T:0.04
Consensus pattern (25 bp):
AAAAAAATAAAGAAAAGAAGAAAAA
Found at i:1735149 original size:35 final size:31
Alignment explanation
Indices: 1735107--1735257 Score: 114
Period size: 33 Copynumber: 4.7 Consensus size: 31
1735097 ATAAAAAACT
1735107 AAAGAAAAGAAGAAAGAATAAAAAAATAAAAAG
1 AAAGAAAAGAA-AAAGAA-AAAAAAATAAAAAG
*
1735140 AAGATGAAAA-AAAACAGAAAAAGAAAAGAAGAAA-
1 AA-A-GAAAAGAAAA-AGAAAAA-AAAATAA-AAAG
* * *
1735174 AAAGAAGAAAAAAAAAAAAAAAAAAAAAAAAG
1 AAAGAA-AAGAAAAAGAAAAAAAAATAAAAAG
*
1735206 AAA-AAATAGAAAAATAAAAGAAAAAATAAAAA-
1 AAAGAAA-AGAAAAA-GAAA-AAAAAATAAAAAG
*
1735238 AAAGAAAAGAAGAA-AAAAAA
1 AAAGAAAAGAAAAAGAAAAAA
1735258 TGAGAGATGC
Statistics
Matches: 100, Mismatches: 6, Indels: 28
0.75 0.04 0.21
Matches are distributed among these distances:
29 3 0.03
30 4 0.04
31 11 0.11
32 25 0.25
33 30 0.30
34 19 0.19
35 8 0.08
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.04
Consensus pattern (31 bp):
AAAGAAAAGAAAAAGAAAAAAAAATAAAAAG
Found at i:1735166 original size:14 final size:13
Alignment explanation
Indices: 1735107--1735254 Score: 71
Period size: 11 Copynumber: 11.2 Consensus size: 13
1735097 ATAAAAAACT
1735107 AAAGAAAAGAAGAA
1 AAAGAAAA-AAGAA
* *
1735121 AGAATAAAAAAATAA
1 A-AA-GAAAAAAGAA
1735136 AAAGAAGATGAAA-AA
1 AAAGAA-A--AAAGAA
*
1735151 AAACAGAAAAAGAAA
1 AAAGA-AAAAAG-AA
1735166 AGAAGAAAAAAGAA
1 A-AAGAAAAAAGAA
*
1735180 GAA-AAAAAA-AA
1 AAAGAAAAAAGAA
1735191 AAA-AAAAAA-AA
1 AAAGAAAAAAGAA
*
1735202 AAAGAAAAAATAGA
1 AAAGAAAAAAGA-A
*
1735216 AAA-ATAAAAG-A
1 AAAGAAAAAAGAA
*
1735227 AAA-AATAAA-AA
1 AAAGAAAAAAGAA
1735238 AAAGAAAAGAAGAA
1 AAAGAAAA-AAGAA
1735252 AAA
1 AAA
1735255 AAATGAGAGA
Statistics
Matches: 106, Mismatches: 12, Indels: 32
0.71 0.08 0.21
Matches are distributed among these distances:
11 27 0.25
12 15 0.14
13 15 0.14
14 15 0.14
15 23 0.22
16 11 0.10
ACGTcount: A:0.82, C:0.01, G:0.13, T:0.04
Consensus pattern (13 bp):
AAAGAAAAAAGAA
Found at i:1735171 original size:52 final size:49
Alignment explanation
Indices: 1735107--1735254 Score: 137
Period size: 52 Copynumber: 3.1 Consensus size: 49
1735097 ATAAAAAACT
* * * *
1735107 AAAGAAAAGAAGAAAGAATAA-AAAAATAAAAAGAAGATGAAAAAAAACAGAA
1 AAAGAAAAGAAGAAAAAAGAAGAAAAA-AAAAA-AA-A-AAAAAAAAAAAGAA
1735159 AAAGAAAAGAAGAAAAAAGAAGAAAAAAAAAAAAAAAAAAAAAAAAG-A
1 AAAGAAAAGAAGAAAAAAGAAGAAAAAAAAAAAAAAAAAAAAAAAAGAA
* * * * *
1735207 AAA-AATAGAA-AAATAA-AAG-AAAAAATAAAAAAAAGAAAAGAAGAA
1 AAAGAAAAGAAGAAAAAAGAAGAAAAAAAAAAAAAAAAAAAAAAAAGAA
1735252 AAA
1 AAA
1735255 AAATGAGAGA
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
44 21 0.25
45 7 0.08
46 5 0.06
47 6 0.07
48 4 0.05
49 10 0.12
50 1 0.01
51 2 0.02
52 24 0.28
53 5 0.06
ACGTcount: A:0.82, C:0.01, G:0.13, T:0.04
Consensus pattern (49 bp):
AAAGAAAAGAAGAAAAAAGAAGAAAAAAAAAAAAAAAAAAAAAAAAGAA
Found at i:1735176 original size:38 final size:38
Alignment explanation
Indices: 1735134--1735255 Score: 138
Period size: 38 Copynumber: 3.1 Consensus size: 38
1735124 ATAAAAAAAT
* * *
1735134 AAAAAGAAGATGAAAAAAAACAGAAAAAGAAAAGAAGA
1 AAAAAGAAGATAAAAAAAAAAAAAAAAAGAAAAGAAGA
* *
1735172 AAAAAGAAGAAAAAAAAAAAAAAAAAAAAAAAAGAA-A
1 AAAAAGAAGATAAAAAAAAAAAAAAAAAGAAAAGAAGA
* *
1735209 AAATAGAAAAATAAAAGAAAAAATAAAAAAAAGAAAAGAAGA
1 AAAAAG-AAGAT-AAA-AAAAAA-AAAAAAAAGAAAAGAAGA
1735251 AAAAA
1 AAAAA
1735256 AATGAGAGAT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
37 6 0.09
38 34 0.49
39 3 0.04
40 6 0.09
41 15 0.22
42 5 0.07
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (38 bp):
AAAAAGAAGATAAAAAAAAAAAAAAAAAGAAAAGAAGA
Found at i:1735194 original size:43 final size:45
Alignment explanation
Indices: 1735146--1735255 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 45
1735136 AAAGAAGATG
* * * *
1735146 AAAAAAAACAGAAAAAGAAAAGA-AGAAAAA-AGAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAGAAAAAATAGAAAAATAAAAGAAAAAAAA
*
1735189 AAAAAAAAAAAAAAAAGAAAAAATAGAAAAATAAAAG-AAAAAAT
1 AAAAAAAAAAAAAAAAGAAAAAATAGAAAAATAAAAGAAAAAAAA
* *
1735233 AAAAAAAAGAAAAGAAGAAAAAA
1 AAAAAAAAAAAAAAAAGAAAAAA
1735256 AATGAGAGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
43 20 0.34
44 34 0.59
45 4 0.07
ACGTcount: A:0.85, C:0.01, G:0.11, T:0.03
Consensus pattern (45 bp):
AAAAAAAAAAAAAAAAGAAAAAATAGAAAAATAAAAGAAAAAAAA
Found at i:1735276 original size:1 final size:1
Alignment explanation
Indices: 1735146--1735257 Score: 80
Period size: 1 Copynumber: 112.0 Consensus size: 1
1735136 AAAGAAGATG
* * * * * * * *
1735146 AAAAAAAACAGAAAAAGAAAAGAAGAAAAAAGAAGAAAAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
1735211 ATAGAAAAATAAAAGAAAAAATAAAAAAAAGAAAAGAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1735258 TGAGAGATGC
Statistics
Matches: 79, Mismatches: 32, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.86, C:0.01, G:0.11, T:0.03
Consensus pattern (1 bp):
A
Found at i:1739323 original size:26 final size:27
Alignment explanation
Indices: 1739294--1739351 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
1739284 CCGCTTAATT
*
1739294 TAAAATTTATAAAATTTTAGA-AAAAA
1 TAAAATTTAAAAAATTTTAGAGAAAAA
* *
1739320 T-AAACTTAAAAAATTTTATAGAAAAA
1 TAAAATTTAAAAAATTTTAGAGAAAAA
*
1739346 GAAAAT
1 TAAAAT
1739352 AAATTACTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
25 16 0.64
26 6 0.24
27 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (27 bp):
TAAAATTTAAAAAATTTTAGAGAAAAA
Found at i:1742770 original size:22 final size:22
Alignment explanation
Indices: 1742743--1742785 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1742733 TAAAATATAT
*
1742743 TTTTAGTTATCATAACAAATTA
1 TTTTAGTTATAATAACAAATTA
1742765 TTTTAGTTATAATAACAAATT
1 TTTTAGTTATAATAACAAATT
1742786 TAAATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTTAGTTATAATAACAAATTA
Found at i:1742980 original size:31 final size:33
Alignment explanation
Indices: 1742898--1742980 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 33
1742888 TTTAATCAAA
* * * *
1742898 ATAACAATTTATAACAAATATTAATTACTCATT
1 ATAACAAATTGTAACAAATAATAATTACTCACT
**
1742931 ATAA-AAATTTGTGGCAAATAAT-ATT-CTCACT
1 ATAACAAA-TTGTAACAAATAATAATTACTCACT
1742962 ATAACAAATTGTAACAAAT
1 ATAACAAATTGTAACAAAT
1742981 TATTTAGTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
31 18 0.45
32 8 0.20
33 14 0.35
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (33 bp):
ATAACAAATTGTAACAAATAATAATTACTCACT
Found at i:1743658 original size:28 final size:29
Alignment explanation
Indices: 1743623--1743679 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
1743613 GATTTAGTGA
*
1743623 GTGACCAAATTATAAATTTT-AAAGTTTG
1 GTGACCAAAGTATAAATTTTAAAAGTTTG
1743651 GTGACCAAAGTATAAATTTTGAAAAGTTT
1 GTGACCAAAGTATAAATTTT-AAAAGTTT
1743680 AAGGACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 19 0.73
30 7 0.27
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (29 bp):
GTGACCAAAGTATAAATTTTAAAAGTTTG
Found at i:1745261 original size:24 final size:24
Alignment explanation
Indices: 1745234--1745281 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1745224 GCATGACATG
*
1745234 GTACATGGATGTTTTATACATCAT
1 GTACATAGATGTTTTATACATCAT
*
1745258 GTACATATATGTTTTATACATCAT
1 GTACATAGATGTTTTATACATCAT
1745282 CAGGAAGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (24 bp):
GTACATAGATGTTTTATACATCAT
Found at i:1751158 original size:59 final size:59
Alignment explanation
Indices: 1751085--1751350 Score: 399
Period size: 59 Copynumber: 4.5 Consensus size: 59
1751075 TTACCATACA
** * * * * * *
1751085 GAAATTCATACACTTAGTATGAATTTATTATCATTTTAGTACAC-AAGGTGCCCAACATA
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAA-GTGCCCTATATG
* * *
1751144 GAAATTCATACACTTAGTATGAATTTCTTTCTAATGTTAGCACACAAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGAA-TTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
*
1751204 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCAGACGAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
1751263 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
1751322 GAAATTCATACACTTAGTATGAATTCCTT
1 GAAATTCATACACTTAGTATGAATTCCTT
1751351 GGCATTTATC
Statistics
Matches: 191, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
59 142 0.74
60 47 0.25
61 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATG
Found at i:1751791 original size:20 final size:21
Alignment explanation
Indices: 1751766--1751818 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
1751756 TATGTCCCAC
1751766 TATCGATACCCT-TACCATGG
1 TATCGATACCCTATACCATGG
* *
1751786 TATCGATACTACTATACTATGG
1 TATCGATAC-CCTATACCATGG
1751808 TATCGATACCC
1 TATCGATACCC
1751819 CTTTATGGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.32
21 3 0.11
22 16 0.57
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (21 bp):
TATCGATACCCTATACCATGG
Found at i:1753653 original size:3 final size:3
Alignment explanation
Indices: 1753645--1753725 Score: 90
Period size: 3 Copynumber: 26.7 Consensus size: 3
1753635 CTACAAAAAA
* * * * * * *
1753645 TAT TAT TAT TAT TAC TAT TAT TAC TAT TAT TAT TAAC CAA AAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
1753691 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1753726 CCTTTTGTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
3 66 0.99
4 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:1755267 original size:29 final size:30
Alignment explanation
Indices: 1755196--1755281 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
1755186 TGTTAATACC
* * *
1755196 ATTTTAATCCCTTAAGTTTTTATTTTTACA
1 ATTTTATTCCTTTAAGTTTCTATTTTTACA
* *
1755226 ATTTTAGTT-CTTTAACTTTCTATTTTTACT
1 ATTTTA-TTCCTTTAAGTTTCTATTTTTACA
*
1755256 A-TTTATTCCTTTAAGTTTCTAGTTTT
1 ATTTTATTCCTTTAAGTTTCTATTTTT
1755282 GCTGTTTAGC
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.04
29 20 0.43
30 24 0.51
31 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.05, T:0.60
Consensus pattern (30 bp):
ATTTTATTCCTTTAAGTTTCTATTTTTACA
Found at i:1757232 original size:3 final size:3
Alignment explanation
Indices: 1757226--1757279 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
1757216 ATAGACATAG
1757226 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1757274 ATA ATA
1 ATA ATA
1757280 GTACGTTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1760140 original size:42 final size:43
Alignment explanation
Indices: 1760090--1760188 Score: 132
Period size: 42 Copynumber: 2.3 Consensus size: 43
1760080 CGTTTTAGCC
*
1760090 CAAACACCGCAATAGAGTGGTAAAT-TAGCGGTGTTTATACC-A
1 CAAACACCGCAATAGAGT-GTAAATATAGCGGCGTTTATACCTA
* *
1760132 CAAACACCGCAATAGAGTGTACATATAGCGGCGTTTATTCCTA
1 CAAACACCGCAATAGAGTGTAAATATAGCGGCGTTTATACCTA
*
1760175 -AAACGCCGCAATAG
1 CAAACACCGCAATAG
1760189 TTTTAATCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 5 0.10
42 45 0.88
43 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (43 bp):
CAAACACCGCAATAGAGTGTAAATATAGCGGCGTTTATACCTA
Found at i:1760228 original size:41 final size:41
Alignment explanation
Indices: 1760174--1760334 Score: 205
Period size: 41 Copynumber: 3.9 Consensus size: 41
1760164 GTTTATTCCT
* * * *
1760174 AAAACGCCGCAATAGTTTTAATCAATAGTTGTGTTTTTAGAC
1 AAAA-GCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGAC
* *
1760216 AAAAGCCGCAATAGTGTTAATTAATAGTGGCGTTTTTAGAC
1 AAAAGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGAC
* * *
1760257 AAACGCCACAATAGAGTTAATCAATAGTGGCATTTTTAGAC
1 AAAAGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGAC
* * *
1760298 AAACGCCATAATAGTGTTAATCAATAATGGCGTTTTT
1 AAAAGCCACAATAGTGTTAATCAATAGTGGCGTTTTT
1760335 TTGTATAAAC
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 102 0.96
42 4 0.04
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (41 bp):
AAAAGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGAC
Found at i:1761839 original size:42 final size:41
Alignment explanation
Indices: 1761792--1761924 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 41
1761782 TTCTAAACCC
* *
1761792 TAAACGCCACTAAAAAGTTGTACTTTAATGGCGTTTTTGACA
1 TAAACGCCACTAAAGAGTTGTA-TTTAGTGGCGTTTTTGACA
* *
1761834 TAAACGTCGC-AATAGAGTTGTATTTAGTGGCGTTTGTT-AC-
1 TAAACGCCACTAA-AGAGTTGTATTTAGTGGCGTTT-TTGACA
* * ** *
1761874 CAAACACTGCTAAAGAGTTGTAATTTAGTGGCGTTTTTGAAA
1 TAAACGCCACTAAAGAGTTGT-ATTTAGTGGCGTTTTTGACA
1761916 TAAACGCCA
1 TAAACGCCA
1761925 TAATTGTTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
40 16 0.22
41 33 0.46
42 23 0.32
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (41 bp):
TAAACGCCACTAAAGAGTTGTATTTAGTGGCGTTTTTGACA
Found at i:1761965 original size:42 final size:42
Alignment explanation
Indices: 1761897--1762048 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 42
1761887 AGAGTTGTAA
* * *
1761897 TTTAGTGGCGTTTTTGA-AATAAACGCCATAATTGTTTACTCC
1 TTTAGTGGCG-TTTTCATAATAAACGCCACAATTGTTTTCTCC
* * **
1761939 TTTACTGGTGTTTTTGTAATAAACGCCACAATTGTTTTCTCC
1 TTTAGTGGCGTTTTCATAATAAACGCCACAATTGTTTTCTCC
* * *
1761981 GTTAGTGGCGTTTTCATAATAAACACCACATTTGTTTTCT-C
1 TTTAGTGGCGTTTTCATAATAAACGCCACAATTGTTTTCTCC
1762022 TGTTAGTGGCGTTTTCATAATAAACGC
1 T-TTAGTGGCGTTTTCATAATAAACGC
1762049 TGTAGTGGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 5 0.05
42 88 0.95
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (42 bp):
TTTAGTGGCGTTTTCATAATAAACGCCACAATTGTTTTCTCC
Found at i:1770710 original size:44 final size:44
Alignment explanation
Indices: 1770570--1770710 Score: 180
Period size: 44 Copynumber: 3.2 Consensus size: 44
1770560 AAATATCAAC
1770570 ACCTATTA-CGGCGTTTGTA-CCTAAAAACG-TCGCTATATACCAG
1 ACCT-TTAGCGGCGTTTGTATCCTAAAAACGCT-GCTATATACCAG
* * *
1770613 ACCTTTAGCAGCGTTTGTATCCTAAAAATGCCGCTATATACCAG
1 ACCTTTAGCGGCGTTTGTATCCTAAAAACGCTGCTATATACCAG
* * *
1770657 TCCTTTAGCGGTGTTTGTATCCTAAAAACGCTGCTATATACAAG
1 ACCTTTAGCGGCGTTTGTATCCTAAAAACGCTGCTATATACCAG
*
1770701 ACTTTTAGCG
1 ACCTTTAGCG
1770711 TCGCTATATA
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
42 3 0.04
43 14 0.17
44 67 0.80
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
ACCTTTAGCGGCGTTTGTATCCTAAAAACGCTGCTATATACCAG
Found at i:1770720 original size:24 final size:24
Alignment explanation
Indices: 1770689--1770734 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1770679 TAAAAACGCT
*
1770689 GCTATATACAAGACTTTTAGCGTC
1 GCTATATACAAGACCTTTAGCGTC
*
1770713 GCTATATACCAGACCTTTAGCG
1 GCTATATACAAGACCTTTAGCG
1770735 GTGTTTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (24 bp):
GCTATATACAAGACCTTTAGCGTC
Found at i:1770847 original size:45 final size:45
Alignment explanation
Indices: 1770709--1770850 Score: 207
Period size: 45 Copynumber: 3.2 Consensus size: 45
1770699 AGACTTTTAG
* **
1770709 CGTCGCTATATACCAGACC-TTTAGCGGTGTTTGTATCCTAAAAA
1 CGTCGCTATATACCAGTCCTTTTAGCGACGTTTGTATCCTAAAAA
* * *
1770753 TGTCACTATATACCAGTCCTTTTAGC-AGCATTTGTATCCTAAAAA
1 CGTCGCTATATACCAGTCCTTTTAGCGA-CGTTTGTATCCTAAAAA
1770798 CGTCGCTATATACCAGTCCTTTTAGCGACGTTTGTATCCTAAAAA
1 CGTCGCTATATACCAGTCCTTTTAGCGACGTTTGTATCCTAAAAA
1770843 CGTCGCTA
1 CGTCGCTA
1770851 AATATCAACA
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
44 16 0.19
45 69 0.80
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (45 bp):
CGTCGCTATATACCAGTCCTTTTAGCGACGTTTGTATCCTAAAAA
Found at i:1770872 original size:45 final size:45
Alignment explanation
Indices: 1770783--1770919 Score: 122
Period size: 45 Copynumber: 3.1 Consensus size: 45
1770773 TTTAGCAGCA
* * *
1770783 TTTGTATCCTAAAAACGTCGCTATATACCAGTC-CTT-TTAGCGACG
1 TTTGTATCCTAAAAACGTCGCTAAATATCA-ACACTTATTA-CGACG
1770828 TTTGTATCCTAAAAACGTCGCTAAATATCAACACTTATTACGACG
1 TTTGTATCCTAAAAACGTCGCTAAATATCAACACTTATTACGACG
* * * * * * *
1770873 CTTGTGA---TAAAAACGCCGCTAAATCTCTACACCTATTGCGGCG
1 TTTGT-ATCCTAAAAACGTCGCTAAATATCAACACTTATTACGACG
1770916 TTTG
1 TTTG
1770920 ACTCAGAACC
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
43 33 0.42
44 1 0.01
45 40 0.51
46 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (45 bp):
TTTGTATCCTAAAAACGTCGCTAAATATCAACACTTATTACGACG
Done.