Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 58 of 259
Found at i:18526326 original size:47 final size:47
Alignment explanation
Indices: 18526271--18526438 Score: 189
Period size: 47 Copynumber: 3.6 Consensus size: 47
18526261 CTCTTAACCA
*
18526271 ATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGACG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGACG
* * * * *
18526318 ATGCATGTCCTAGACATGTCTTACACTAGC-ACTCGTC-TCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTA-TCATCATCGAGGACG
* * * * *
18526364 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTGATAAT-GTGGTCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCATCATCGAGGACG
18526412 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
18526439 GGCACACAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
46 20 0.20
47 59 0.58
48 21 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGACG
Found at i:18536074 original size:23 final size:23
Alignment explanation
Indices: 18536048--18536093 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18536038 AATTGTAACA
18536048 ATGTTTATCATATGAACTTACAT
1 ATGTTTATCATATGAACTTACAT
18536071 ATGTTTATCATATGAACTTACAT
1 ATGTTTATCATATGAACTTACAT
18536094 CGTACTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (23 bp):
ATGTTTATCATATGAACTTACAT
Found at i:18538105 original size:70 final size:70
Alignment explanation
Indices: 18537987--18538126 Score: 244
Period size: 70 Copynumber: 2.0 Consensus size: 70
18537977 AGTCTGTAAT
* * *
18537987 TTTCTTTTCTTGATCTAAATGTAATCAAAATTAACTTATTTAATTATCTCTTTATTCAAATTAGT
1 TTTCCTTTCTTGATCTAAATGTAATAAAAATTAACTTATTTAATTATCTCTCTATTCAAATTAGT
18538052 CTAAA
66 CTAAA
*
18538057 TTTCCTTTCTTGATCTAAATGTAATAAAAATTAACTTATTTAATTATCTCTCTATTCAATTTAGT
1 TTTCCTTTCTTGATCTAAATGTAATAAAAATTAACTTATTTAATTATCTCTCTATTCAAATTAGT
18538122 CTAAA
66 CTAAA
18538127 ATTCACATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (70 bp):
TTTCCTTTCTTGATCTAAATGTAATAAAAATTAACTTATTTAATTATCTCTCTATTCAAATTAGT
CTAAA
Found at i:18543236 original size:19 final size:19
Alignment explanation
Indices: 18543196--18543236 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
18543186 AGGCCTTCGA
*
18543196 GGCCTAAAACATACATATG
1 GGCCTAAAACATACATAGG
*
18543215 GGCCTAAAACATACATCGG
1 GGCCTAAAACATACATAGG
18543234 GGC
1 GGC
18543237 TATTCAGGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (19 bp):
GGCCTAAAACATACATAGG
Found at i:18548380 original size:40 final size:40
Alignment explanation
Indices: 18548323--18548545 Score: 324
Period size: 40 Copynumber: 5.6 Consensus size: 40
18548313 GATGATAACG
* * * *
18548323 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
18548363 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTAGTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
18548403 AGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
18548443 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
18548483 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
18548523 GGGCTAAGTCCCGAAGGCGTTTG
1 GGGCTAAGTCCCGAAGGCATTTG
18548546 AGTGAGTAGC
Statistics
Matches: 170, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 168 0.99
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:18548559 original size:40 final size:40
Alignment explanation
Indices: 18548323--18548578 Score: 315
Period size: 40 Copynumber: 6.4 Consensus size: 40
18548313 GATGATAACG
* * * *
18548323 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
18548363 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTAGTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
18548403 AGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
18548443 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
18548483 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
18548523 GGGCTAAGTCCCGAAGGCGTTTGAGTGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
18548563 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
18548579 TACTTGGTTT
Statistics
Matches: 197, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.08
40 180 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:18551250 original size:15 final size:15
Alignment explanation
Indices: 18551232--18551265 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18551222 ATGAAGAAGC
18551232 CCAAAATAAAGAAAT
1 CCAAAATAAAGAAAT
* *
18551247 CCAAGATAAGGAAAT
1 CCAAAATAAAGAAAT
18551262 CCAA
1 CCAA
18551266 TTTACAACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.18, G:0.12, T:0.12
Consensus pattern (15 bp):
CCAAAATAAAGAAAT
Found at i:18557163 original size:28 final size:26
Alignment explanation
Indices: 18557131--18557182 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
18557121 AAAATAATTA
18557131 AAATTAAATATGTTAATAATTTAAGTGT
1 AAATTAAATAT-TTAATAA-TTAAGTGT
* *
18557159 AAATTAATTATTTTATAATTAAGT
1 AAATTAAATATTTAATAATTAAGT
18557183 ATGAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 6 0.27
28 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (26 bp):
AAATTAAATATTTAATAATTAAGTGT
Found at i:18559755 original size:55 final size:55
Alignment explanation
Indices: 18559694--18559817 Score: 140
Period size: 55 Copynumber: 2.3 Consensus size: 55
18559684 GCCATACATA
** * * * * *
18559694 CTGACTTATTCACACAGCCATAAGACACGCCCGTGTGTCTAGCCCGTGTAACTCT
1 CTGACTTACCCACACAGCCACAAGACACGCCCGTCTATCTAGCCCATGCAACTCT
* * * *
18559749 TTGACTTGCCCACACGGCCACAAGACAGGCCCGTCTATCTAGCCCATGCAACTCT
1 CTGACTTACCCACACAGCCACAAGACACGCCCGTCTATCTAGCCCATGCAACTCT
*
18559804 CTGACTTGCCCACA
1 CTGACTTACCCACA
18559818 TGGCCTGGAA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (55 bp):
CTGACTTACCCACACAGCCACAAGACACGCCCGTCTATCTAGCCCATGCAACTCT
Found at i:18573950 original size:86 final size:87
Alignment explanation
Indices: 18573806--18573967 Score: 228
Period size: 86 Copynumber: 1.9 Consensus size: 87
18573796 CAATGTTAAC
18573806 GTCCCAGACATGGTCTTACATGTAATAAAATGTCGATGCCACTGTCCCAGACAGGGTCTTACACG
1 GTCCCAGACATGGTCTTACATGTAATAAAATGTCGATGCCACTGTCCCAGACAGGGTCTTACACG
18573871 A-AAC-CATATACGACACCGAT
66 ATAACACATATACGACACCGAT
*
18573891 GTCCCAGACATGGTCTTACATGTAAATCTCAAAT-T-GATGCCAAC-GTCCCAGAC-GTGGTCTT
1 GTCCCAGACATGGTCTTACATGT-AA--TAAAATGTCGATGCC-ACTGTCCCAGACAG-GGTCTT
18573952 ACACGATAACACATAT
61 ACACGATAACACATAT
18573968 TGGAATCCTA
Statistics
Matches: 69, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
85 24 0.35
86 29 0.42
87 6 0.09
88 10 0.14
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (87 bp):
GTCCCAGACATGGTCTTACATGTAATAAAATGTCGATGCCACTGTCCCAGACAGGGTCTTACACG
ATAACACATATACGACACCGAT
Found at i:18575717 original size:20 final size:20
Alignment explanation
Indices: 18575692--18575734 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18575682 AGCAAACACA
18575692 ATGGCAGCTAACTCAAAGTC
1 ATGGCAGCTAACTCAAAGTC
18575712 ATGGCAGCTAACTCAAAGTC
1 ATGGCAGCTAACTCAAAGTC
18575732 ATG
1 ATG
18575735 TGTTGGATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
ATGGCAGCTAACTCAAAGTC
Found at i:18586476 original size:49 final size:49
Alignment explanation
Indices: 18586310--18586547 Score: 296
Period size: 49 Copynumber: 4.8 Consensus size: 49
18586300 TGAGGTCGCA
* * * * *
18586310 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * * **
18586361 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
18586411 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * * *
18586460 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
18586509 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
18586548 GCTTTGGCGA
Statistics
Matches: 162, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 87 0.54
50 44 0.27
51 31 0.19
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:18586491 original size:99 final size:100
Alignment explanation
Indices: 18586303--18586547 Score: 341
Period size: 99 Copynumber: 2.5 Consensus size: 100
18586293 TCTATTGTGA
* * *
18586303 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
* **
18586368 TACTAAGTGTAGGCTACTACGTGTATCAAATGGTT
66 TACTAAGTGCAGGCTACTACGTGTATCAAATAATT
* * * *
18586403 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTA
**
18586466 GTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTATCAAATAATT
* *
18586502 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
18586548 GCTTTGGCGA
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 41 0.32
99 44 0.35
100 1 0.01
101 41 0.32
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTATCAAATAATT
Found at i:18589564 original size:15 final size:15
Alignment explanation
Indices: 18589544--18589598 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
18589534 GTATCTTGGG
18589544 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
18589559 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
18589574 TTT-TCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
18589588 TTTCTTTATTC
1 TTTCTTTATTC
18589599 GTTTTCTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 20 0.61
16 2 0.06
ACGTcount: A:0.11, C:0.15, G:0.13, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:18591897 original size:49 final size:49
Alignment explanation
Indices: 18591731--18591967 Score: 298
Period size: 49 Copynumber: 4.8 Consensus size: 49
18591721 TGAGGTCGCA
* * * * *
18591731 TGTGTAGTAATAAGTGCAGGCTACTATC-CGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA-CGTGTACCAGATAA-T-TGGTCACG
* **
18591782 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
18591832 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
18591881 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGC-
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
18591929 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
18591968 GCTTTGGCTA
Statistics
Matches: 165, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
48 34 0.21
49 53 0.32
50 47 0.28
51 31 0.19
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:18591910 original size:99 final size:99
Alignment explanation
Indices: 18591731--18591967 Score: 327
Period size: 99 Copynumber: 2.4 Consensus size: 99
18591721 TGAGGTCGCA
* * *
18591731 TGTGTAGTAATAAGTGCAGGCTACTATC-CGTACCCGAAAACTGTGATCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTA-CGCGTACCAGATAACTGTGATCACGTGTGTAGTACTAA
**
18591795 GTGCAGGCTACTACGTGTATCAGATGGTTAGGTCAC
65 GTGCAGGCTACTACGTGTATCAGATAATT-GGTCAC
* *
18591831 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACGTGTGTAGTACTAA
1 -TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTGTGATCACGTGTGTAGTACTAA
* *
18591894 GTGCAGGCTACTACGTGTATCGGATAATTGGTCGC
65 GTGCAGGCTACTACGTGTATCAGATAATTGGTCAC
* *
18591929 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
18591968 GCTTTGGCTA
Statistics
Matches: 123, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
97 36 0.29
98 5 0.04
99 46 0.37
100 2 0.02
101 34 0.28
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTGTGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTATCAGATAATTGGTCAC
Found at i:18600306 original size:55 final size:55
Alignment explanation
Indices: 18600241--18600347 Score: 144
Period size: 55 Copynumber: 1.9 Consensus size: 55
18600231 GTCTGGGACG
* ** *
18600241 TTGGCATCGATATTTGATT-TCGACATCTGTGTTCGTGTAAGACCACGTTTAATAC
1 TTGGCATCGATATGTGATTCT-GACATCTGTGCGCGAGTAAGACCACGTTTAATAC
* *
18600296 TTGGCATCGATATGTGATTCTGATATGTGTGCGCGAGTAAGACCACGTTTAA
1 TTGGCATCGATATGTGATTCTGACATCTGTGCGCGAGTAAGACCACGTTTAA
18600348 GACCACGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 44 0.98
56 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (55 bp):
TTGGCATCGATATGTGATTCTGACATCTGTGCGCGAGTAAGACCACGTTTAATAC
Found at i:18600350 original size:12 final size:12
Alignment explanation
Indices: 18600333--18600359 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18600323 TGTGCGCGAG
18600333 TAAGACCACGTT
1 TAAGACCACGTT
18600345 TAAGACCACGTT
1 TAAGACCACGTT
18600357 TAA
1 TAA
18600360 TACGTTGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (12 bp):
TAAGACCACGTT
Found at i:18600376 original size:68 final size:67
Alignment explanation
Indices: 18600278--18600415 Score: 215
Period size: 68 Copynumber: 2.0 Consensus size: 67
18600268 TGTGTTCGTG
* *
18600278 TAAGACCACGTTTAATACTTGGCATCGATATGTGA-TTCTGATATGTGTGCGCGAGTAAGACCAC
1 TAAGACCACGTTTAATACTTGGCATCGATATATGATTTC-GATATGTGTGCACGAGTAAGACCAC
*
18600342 GTT
65 ATT
*
18600345 TAAGACCACGTTTAATACGTTGGCATCGATATATGATTTCGATATGTGTGTACGAGTAAGACCAC
1 TAAGACCACGTTTAATAC-TTGGCATCGATATATGATTTCGATATGTGTGCACGAGTAAGACCAC
18600410 ATT
65 ATT
18600413 TAA
1 TAA
18600416 TACATTGGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
67 18 0.28
68 44 0.68
69 3 0.05
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (67 bp):
TAAGACCACGTTTAATACTTGGCATCGATATATGATTTCGATATGTGTGCACGAGTAAGACCACA
TT
Found at i:18600407 original size:56 final size:56
Alignment explanation
Indices: 18600345--18600630 Score: 403
Period size: 56 Copynumber: 5.1 Consensus size: 56
18600335 AGACCACGTT
* *
18600345 TAAGACCACGTTTAATACGTTGGCATCGATATATGATTTCGATATGTGTGTACGAG
1 TAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACGAG
* * * *
18600401 TAAGACCACATTTAATACATTGGAATCGATATGTGATTCCAATATGTGTGTACGAG
1 TAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACGAG
* * *
18600457 TAAGACCACATTTAATACGTTGGCATCGAT-TTTGATTCCGATATGTGTGTTCGAG
1 TAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACGAG
* * * *
18600512 TAAGAGCACGTTTAATACATTGACATCGATATGTGATTCCGATATGTGTGTGCGAG
1 TAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACGAG
* * * * *
18600568 TAAGACCATGTTTAATACGTTGGCATCAATAGGTGATTCCAATATGTGTTTACGAG
1 TAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACGAG
18600624 TAAGACC
1 TAAGACC
18600631 TTGTCTAGGA
Statistics
Matches: 203, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
55 48 0.24
56 155 0.76
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (56 bp):
TAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACGAG
Found at i:18600512 original size:111 final size:112
Alignment explanation
Indices: 18600345--18600630 Score: 416
Period size: 111 Copynumber: 2.6 Consensus size: 112
18600335 AGACCACGTT
* *
18600345 TAAGACCACGTTTAATACGTTGGCATCGATATATGATTTCGATATGTGTGTACGAGTAAGACCAC
1 TAAGACCACGTTTAATACGTTGGCATCGATATATGATTCCGATATGTGTGTTCGAGTAAGACCAC
18600410 ATTTAATACATTGGA-ATCGATATGTGATTCCAATATGTGTGTACGAG
66 ATTTAATACATT-GACATCGATATGTGATTCCAATATGTGTGTACGAG
* * *
18600457 TAAGACCACATTTAATACGTTGGCATCGAT-TTTGATTCCGATATGTGTGTTCGAGTAAGAGCAC
1 TAAGACCACGTTTAATACGTTGGCATCGATATATGATTCCGATATGTGTGTTCGAGTAAGACCAC
* * *
18600521 GTTTAATACATTGACATCGATATGTGATTCCGATATGTGTGTGCGAG
66 ATTTAATACATTGACATCGATATGTGATTCCAATATGTGTGTACGAG
* * ** *
18600568 TAAGACCATGTTTAATACGTTGGCATCAATAGGTGATTCCAATATGTGT-TTACGAGTAAGACC
1 TAAGACCACGTTTAATACGTTGGCATCGATATATGATTCCGATATGTGTGTT-CGAGTAAGACC
18600631 TTGTCTAGGA
Statistics
Matches: 156, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
110 2 0.01
111 100 0.64
112 54 0.35
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (112 bp):
TAAGACCACGTTTAATACGTTGGCATCGATATATGATTCCGATATGTGTGTTCGAGTAAGACCAC
ATTTAATACATTGACATCGATATGTGATTCCAATATGTGTGTACGAG
Found at i:18600651 original size:167 final size:167
Alignment explanation
Indices: 18600345--18600653 Score: 420
Period size: 167 Copynumber: 1.9 Consensus size: 167
18600335 AGACCACGTT
* * *
18600345 TAAGACCACGTTTAATACGTTGGCATCGATATATGATTTCGATATGTGTGTACGAGTAAGACCAC
1 TAAGACCACGTTTAATACATTGACATCGATATATGATTCCGATATGTGTGTACGAGTAAGACCAC
* * * *
18600410 ATTTAATACATTGGAATCGATATGTGATTCCAATATGTGTGTACGAGTAAGACCACATTTAATAC
66 ATTTAATACATTGGAATCAATAGGTGATTCCAATATGTGTGTACGAGTAAGACCACATCTAAGAC
***
18600475 GTTGGCATCGATTTTGATTCCGATATGTGTGTTCGAG
131 AACGGCATCGATTTTGATTCCGATATGTGTGTTCGAG
* * * *
18600512 TAAGAGCACGTTTAATACATTGACATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCAT
1 TAAGACCACGTTTAATACATTGACATCGATATATGATTCCGATATGTGTGTACGAGTAAGACCAC
* * * * *** *
18600577 GTTTAATACGTTGGCATCAATAGGTGATTCCAATATGTGTTTACGAGTAAGACCTTGTCTAGGAC
66 ATTTAATACATTGGAATCAATAGGTGATTCCAATATGTGTGTACGAGTAAGACCACATCTAAGAC
18600642 AACGGCATCGAT
131 AACGGCATCGAT
18600654 ATGTAATTAC
Statistics
Matches: 120, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
167 120 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (167 bp):
TAAGACCACGTTTAATACATTGACATCGATATATGATTCCGATATGTGTGTACGAGTAAGACCAC
ATTTAATACATTGGAATCAATAGGTGATTCCAATATGTGTGTACGAGTAAGACCACATCTAAGAC
AACGGCATCGATTTTGATTCCGATATGTGTGTTCGAG
Found at i:18601160 original size:20 final size:20
Alignment explanation
Indices: 18601135--18601175 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18601125 AATTAAGCAT
18601135 AATTTA-AAATATATTAAAAC
1 AATTTATAAATATA-TAAAAC
*
18601155 AATTTATACATATATAAAAC
1 AATTTATAAATATATAAAAC
18601175 A
1 A
18601176 TGTAACACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (20 bp):
AATTTATAAATATATAAAAC
Found at i:18618338 original size:28 final size:28
Alignment explanation
Indices: 18618293--18618406 Score: 122
Period size: 28 Copynumber: 4.0 Consensus size: 28
18618283 AGCATGACTG
* *
18618293 TAAATGTGATTTGCGCCTAGT-GGCCATA
1 TAAATGTGA-TTGGGCCTAATGGGCCATA
* * *
18618321 TGAATGTGTTTTGGGCCTAATGGGCCACA
1 TAAATGTG-ATTGGGCCTAATGGGCCATA
*
18618350 TAAATGTGAATGGGCCTAATGGGCCATA
1 TAAATGTGATTGGGCCTAATGGGCCATA
* * *
18618378 TAAAAGAGATTGGGCCTAGTGGGCCATA
1 TAAATGTGATTGGGCCTAATGGGCCATA
18618406 T
1 T
18618407 CATGTATGTA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
28 58 0.82
29 13 0.18
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAATGGGCCATA
Found at i:18622593 original size:56 final size:56
Alignment explanation
Indices: 18622515--18622635 Score: 224
Period size: 56 Copynumber: 2.2 Consensus size: 56
18622505 TTTGTGTGCA
18622515 AGTAAGACCACATTTTATACGTTGGCATCGATATGTGACTTCGATATATGTGTGTG
1 AGTAAGACCACATTTTATACGTTGGCATCGATATGTGACTTCGATATATGTGTGTG
**
18622571 AGTAAGACCATGTTTTATACGTTGGCATCGATATGTGACTTCGATATATGTGTGTG
1 AGTAAGACCACATTTTATACGTTGGCATCGATATGTGACTTCGATATATGTGTGTG
18622627 AGTAAGACC
1 AGTAAGACC
18622636 CTATCTGGGA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (56 bp):
AGTAAGACCACATTTTATACGTTGGCATCGATATGTGACTTCGATATATGTGTGTG
Found at i:18622657 original size:56 final size:56
Alignment explanation
Indices: 18622531--18622664 Score: 173
Period size: 56 Copynumber: 2.4 Consensus size: 56
18622521 ACCACATTTT
* * ***
18622531 ATACGTTGGCATCGATATGTGACTTCGATATATGTGTGTGAGTAAGACCATGTTTT
1 ATACGTTGGAATCGATATGTGACTTCGATATATGTGTGTGAGTAAGACCATCTGGG
*
18622587 ATACGTTGGCATCGATATGTGACTTCGATATATGTGTGTGAGTAAGACCCTATCTGGG
1 ATACGTTGGAATCGATATGTGACTTCGATATATGTGTGTGAGTAAGA-CC-ATCTGGG
*
18622645 ATA-G-TGGAATCGATTTGTGA
1 ATACGTTGGAATCGATATGTGA
18622665 TTACATGTAA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
56 61 0.87
57 3 0.04
58 6 0.09
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (56 bp):
ATACGTTGGAATCGATATGTGACTTCGATATATGTGTGTGAGTAAGACCATCTGGG
Found at i:18624723 original size:27 final size:27
Alignment explanation
Indices: 18624673--18625023 Score: 344
Period size: 27 Copynumber: 13.1 Consensus size: 27
18624663 CGTTAAGACA
*
18624673 CTCGGTTTGTAAAATTATCGAAATACC
1 CTCGATTTGTAAAATTATCGAAATACC
* * * *
18624700 CTCAAATTGTAAAATTACCAAAATACC
1 CTCGATTTGTAAAATTATCGAAATACC
18624727 CTCGATTTGTAAAATTATCGAAATACC
1 CTCGATTTGTAAAATTATCGAAATACC
18624754 CTCGGA-TTGTAAAATTAAT-GAAATACTC
1 CTC-GATTTGTAAAATT-ATCGAAATAC-C
* *
18624782 C-CGATTTTTAAAATTATTGAAATACC
1 CTCGATTTGTAAAATTATCGAAATACC
* *
18624808 CTCGAATTGTAAAATTATCGAAACACC
1 CTCGATTTGTAAAATTATCGAAATACC
* * *
18624835 CCCAATTTGTAAAATTATAGAAATACC
1 CTCGATTTGTAAAATTATCGAAATACC
* * *
18624862 CCCGATTTGTAAAATTATCAAAATACG
1 CTCGATTTGTAAAATTATCGAAATACC
*** *
18624889 AGGGATTT-TAAAATTACCGAAATACC
1 CTCGATTTGTAAAATTATCGAAATACC
18624915 C-C-AGTTTGTAAAATTATCGAAATACC
1 CTCGA-TTTGTAAAATTATCGAAATACC
* * *
18624941 CTCAAATTT-TAAAATTACCAAAATACC
1 CTC-GATTTGTAAAATTATCGAAATACC
* *
18624968 CCCAATTTGTAAAATTA-CTGAAATACC
1 CTCGATTTGTAAAATTATC-GAAATACC
18624995 AC-CGATTTGTAAAATTA-CTGAAATACC
1 -CTCGATTTGTAAAATTATC-GAAATACC
18625022 CT
1 CT
18625024 TGTAGTACAA
Statistics
Matches: 272, Mismatches: 37, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.00
25 3 0.01
26 46 0.17
27 211 0.78
28 10 0.04
29 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
CTCGATTTGTAAAATTATCGAAATACC
Found at i:18625545 original size:32 final size:32
Alignment explanation
Indices: 18625502--18625573 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
18625492 ATATTTACCC
* * ** *
18625502 ATGGCTGTGTGCGGATTATATTGCTGCTATTG
1 ATGGCTGTGTGCCGATTAAATTGCCACTACTG
*
18625534 ATGGCTTTGTGCCGATTAAATTGCCACTACTG
1 ATGGCTGTGTGCCGATTAAATTGCCACTACTG
18625566 ATGGCTGT
1 ATGGCTGT
18625574 AAGCCGTGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.38
Consensus pattern (32 bp):
ATGGCTGTGTGCCGATTAAATTGCCACTACTG
Found at i:18627576 original size:27 final size:27
Alignment explanation
Indices: 18627538--18627614 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
18627528 CAAATTGATG
* *
18627538 AAATGATTGTTATAGCCCTATGAAGTA
1 AAATGACTGTTATAACCCTATGAAGTA
* *
18627565 AAATGACTGTTATAACCCTCTGAGGTA
1 AAATGACTGTTATAACCCTATGAAGTA
** *
18627592 AAATGACTAATATACCCCTATGA
1 AAATGACTGTTATAACCCTATGA
18627615 TATGTATAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (27 bp):
AAATGACTGTTATAACCCTATGAAGTA
Found at i:18629165 original size:43 final size:43
Alignment explanation
Indices: 18629051--18629172 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 43
18629041 TGAATCATAT
* * * * **
18629051 ATCGATGCTAATGTCCCAGACATGGTC-TGACATGTAATCACTT
1 ATCGATGCCAATGTCCCAGACATGGTCTTG-CACGAAACCACGA
18629094 ATCGATGCCAATGTCCCAGACATGGTCTTGCACGAAACCACAGA
1 ATCGATGCCAATGTCCCAGACATGGTCTTGCACGAAACCAC-GA
*
18629138 AT-GATGCCAATGTCCCAGACATGGTCTTACACGAA
1 ATCGATGCCAATGTCCCAGACATGGTCTTGCACGAA
18629173 TCATGTACTA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 66 0.94
44 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
ATCGATGCCAATGTCCCAGACATGGTCTTGCACGAAACCACGA
Found at i:18639918 original size:27 final size:28
Alignment explanation
Indices: 18639858--18639920 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
18639848 ATTTCTCATG
** *
18639858 TCCTGGTGAACTTACCTTTTGTTTAATA
1 TCCTGGTGAACTTACCTCATCTTTAATA
* *
18639886 TTCTGGTGAACTTA-CTCATCTTTACTA
1 TCCTGGTGAACTTACCTCATCTTTAATA
18639913 TCCTGGTG
1 TCCTGGTG
18639921 GACTATCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (28 bp):
TCCTGGTGAACTTACCTCATCTTTAATA
Found at i:18639948 original size:33 final size:33
Alignment explanation
Indices: 18639906--18639977 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
18639896 CTTACTCATC
* * *
18639906 TTTACTATCCTGGTGGACTATCTTTTTTCTATG
1 TTTACTATCCTAGTGGACTATCTTTGTTCTATA
18639939 TTTACTATCCTAGTGGACTATCTTTGTTCTATA
1 TTTACTATCCTAGTGGACTATCTTTGTTCTATA
18639972 TTTACT
1 TTTACT
18639978 GTCCCAACAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.51
Consensus pattern (33 bp):
TTTACTATCCTAGTGGACTATCTTTGTTCTATA
Found at i:18655040 original size:46 final size:45
Alignment explanation
Indices: 18654973--18655147 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
18654963 TGTAACCCGC
* *
18654973 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTCAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * *
18655019 CCATAAGTCAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTCAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* **** **
18655065 ACATTTCACGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTC-AACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
*
18655112 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTCAACTCGGACTCAACTCAACGAGTTCGG
18655148 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.66
47 32 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTCAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCAT
Found at i:18655096 original size:93 final size:93
Alignment explanation
Indices: 18654981--18655151 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
18654971 GCCCATAAGT
** *
18654981 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTCAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTCAACTCGGACTCAACTCAA
18655046 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
18655074 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTCAACTCGGACTCAACTCAA
18655139 CGAGTTCGGATGC
66 CGAGTTCGGATGC
18655152 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTCAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:18656041 original size:45 final size:42
Alignment explanation
Indices: 18655979--18656103 Score: 146
Period size: 45 Copynumber: 2.9 Consensus size: 42
18655969 ATATTACAAT
*
18655979 TCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAGATACTAT-
1 TCGGGCC-TTGAGCCTAGCAGGCTA-AATGCCGGTGA-A-ACGATA
*
18656024 TCGGG-CTATCGAGCCTAGCAGGCTATAATGCCGGTGAAAGGATA
1 TCGGGCCT-T-GAGCCTAGCAGGCTA-AATGCCGGTGAAACGATA
*
18656068 TCGGGCCTTGAGCCTAGCAGGCGAAATGCCGGTGAA
1 TCGGGCCTTGAGCCTAGCAGGCTAAATGCCGGTGAA
18656104 TGAATTCGGG
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
42 12 0.17
43 18 0.25
44 9 0.12
45 33 0.46
ACGTcount: A:0.24, C:0.23, G:0.32, T:0.21
Consensus pattern (42 bp):
TCGGGCCTTGAGCCTAGCAGGCTAAATGCCGGTGAAACGATA
Found at i:18659496 original size:30 final size:31
Alignment explanation
Indices: 18659455--18659517 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
18659445 CAACCGACTA
* *
18659455 TCAAGCTAAGGCTATTTGGCCTCTCAAC-TG
1 TCAAGCCAAGGCAATTTGGCCTCTCAACATG
*
18659485 TCAAGCCAAGGCAATTTGGCCTCTGAACATG
1 TCAAGCCAAGGCAATTTGGCCTCTCAACATG
18659516 TC
1 TC
18659518 TTTAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (31 bp):
TCAAGCCAAGGCAATTTGGCCTCTCAACATG
Found at i:18673546 original size:40 final size:40
Alignment explanation
Indices: 18673467--18673634 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
18673457 CAGATGATAA
* * * *
18673467 CCGGACTAAGATCCGAAGGCATTTGTTCGAGTTGCTATAT
1 CCGGTCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
18673507 CCGGTCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGTCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
18673547 CCGGGT-TAAGACTCGAAGGCATTTGTGCGAGTTGCTATAT
1 CC-GGTCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
18673587 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGTCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
18673627 CCGG-CTAA
1 CCGGTCTAA
18673635 TTTCCGAAGA
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
39 8 0.07
40 94 0.88
41 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
CCGGTCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:18673606 original size:80 final size:80
Alignment explanation
Indices: 18673480--18673630 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
18673470 GACTAAGATC
* * * * *
18673480 CGAAGGCATTTGTTCGAGTTGCTATATCCGGTCTATGTCCCGAAGGCATTTATGCTAG-TGATTA
1 CGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTA
18673544 TATCCGGGTTAAGACT
65 TATCCGGGTTAAGACT
*
18673560 CGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTAT
1 CGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTAT
18673625 ATCCGG
66 ATCCGG
18673631 CTAATTTCCG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 62 0.97
81 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (80 bp):
CGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTAT
ATCCGGGTTAAGACT
Found at i:18673913 original size:22 final size:22
Alignment explanation
Indices: 18673871--18673914 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18673861 AGAATGTGCA
* *
18673871 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
18673893 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
18673915 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:18682416 original size:23 final size:23
Alignment explanation
Indices: 18682390--18682464 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
18682380 CAAATGGTCG
18682390 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* ***
18682413 ATGTG-TGATAAG-GCCAAA-TGGCCG
1 ATGTGATGA-ATGTG--AAAGT-GTAT
18682437 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
18682460 ATGTG
1 ATGTG
18682465 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 17 0.46
24 12 0.32
25 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:18682433 original size:47 final size:47
Alignment explanation
Indices: 18682374--18682893 Score: 776
Period size: 47 Copynumber: 11.1 Consensus size: 47
18682364 GAAATGATAG
* *
18682374 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
18682421 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
18682468 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
18682515 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTCTATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
18682562 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAG-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-GTGTGA
* *
18682609 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
18682656 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAG-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-GTGTGA
* * *
18682703 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
18682750 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
18682797 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * * * * * * * **
18682843 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
18682890 TAAG
1 TAAG
18682894 TCCCGAAGGG
Statistics
Matches: 442, Mismatches: 26, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
46 40 0.09
47 401 0.91
48 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:18683068 original size:37 final size:37
Alignment explanation
Indices: 18683012--18683090 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18683002 CTGAGCTCTA
* * *
18683012 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18683049 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18683086 AAGAC
1 AAGAC
18683091 TTCATAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18685865 original size:40 final size:40
Alignment explanation
Indices: 18685791--18685953 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
18685781 GATAACCAGA
*
18685791 CTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
* * * * *
18685831 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGG
*
18685871 CTAAGACTCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
* *
18685911 CTAAGACCCGAAGGCATTTGTGCGGGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
18685950 CTAA
1 CTAA
18685954 TTTCCGAAGA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 8 0.08
40 96 0.91
41 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
Found at i:18686232 original size:22 final size:22
Alignment explanation
Indices: 18686190--18686233 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18686180 AGAATGTGCA
* *
18686190 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
18686212 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
18686234 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:18690367 original size:40 final size:40
Alignment explanation
Indices: 18690263--18690407 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 40
18690253 TACTCGAATG
* ** *
18690263 ATATCCGGGCTAAGTCCCGAAGGTTTTTGTGCTAAGCAACT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
18690304 ACATCC-GAACTAAGAT-CTGAAGGCATTTGTGCTAGCGACT
1 ATATCCAG-GCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
18690344 ATATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
18690384 ATATCCAGGTTAAGACCCAAAGGC
1 ATATCCAGGCTAAGTCCCGAAGGC
18690408 CTTGTGCGAA
Statistics
Matches: 85, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
39 1 0.01
40 58 0.68
41 25 0.29
42 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (40 bp):
ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:18692552 original size:27 final size:26
Alignment explanation
Indices: 18692508--18692558 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
18692498 CTCGCTGCAA
*
18692508 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
18692535 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
18692559 GGTAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:18699874 original size:42 final size:42
Alignment explanation
Indices: 18699812--18699896 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
18699802 CAACTAAGGA
18699812 TCTTAAAGGCTAGCACAGTTGGGCATCAAGACTAGTCTATAT
1 TCTTAAAGGCTAGCACAGTTGGGCATCAAGACTAGTCTATAT
* *
18699854 TCTTAAAGGCTAGCATAGTTGGGCATCGAGACTAGTCTATAT
1 TCTTAAAGGCTAGCACAGTTGGGCATCAAGACTAGTCTATAT
18699896 T
1 T
18699897 TGGCAGAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (42 bp):
TCTTAAAGGCTAGCACAGTTGGGCATCAAGACTAGTCTATAT
Found at i:18700133 original size:10 final size:10
Alignment explanation
Indices: 18700109--18700139 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
18700099 AAGGCCGTAA
18700109 TGACCGAAGAG
1 TGACCGAA-AG
18700120 TGACCGAAAG
1 TGACCGAAAG
18700130 TGACCGAAAG
1 TGACCGAAAG
18700140 GTCAGCACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.39, C:0.19, G:0.32, T:0.10
Consensus pattern (10 bp):
TGACCGAAAG
Found at i:18700762 original size:27 final size:26
Alignment explanation
Indices: 18700718--18700769 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18700708 CTCGCTGCAA
*
18700718 TCTGGTGTCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
18700745 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
18700770 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:18712005 original size:46 final size:46
Alignment explanation
Indices: 18711927--18712045 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
18711917 GATGTTGGCT
* *
18711927 AGTGTAAGACATGTCTAGGACATGCATCTGGCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCA-CTGGCACATTGACGAGAGCC
* ** *
18711973 AGTGTAAGACCATGTCTGGGATATGGCA-TGGCATTTTGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCACTGGCACATTGACGAGAGCC
18712020 AGTGTAAGACATGTCTGGGACATGCA
1 AGTGTAAGACATGTCTGGGACATGCA
18712046 TCGGCCCAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
45 3 0.05
46 29 0.46
47 28 0.44
48 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCACTGGCACATTGACGAGAGCC
Found at i:18712150 original size:47 final size:47
Alignment explanation
Indices: 18712073--18712202 Score: 167
Period size: 47 Copynumber: 2.8 Consensus size: 47
18712063 GCCACGACAC
* * *
18712073 GTAAGCCAGTGTAAGA-CATGTGTGGGACAT-GCATCAGCTACGAGAT
1 GTAAGCCAATGTAAGACCATGTCTGGGACATGGCATCAACT-CGAGAT
* *
18712119 G-ATAGTCAATGTAAGACCATGTCTGGGACATGGCATCAACTTGAGAT
1 GTA-AGCCAATGTAAGACCATGTCTGGGACATGGCATCAACTCGAGAT
*
18712166 GTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTAAGCCAATGTAAGACCATGTCTGGGACATGGCATC
18712203 GACACCTTAC
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
45 1 0.01
46 12 0.16
47 51 0.70
48 9 0.12
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (47 bp):
GTAAGCCAATGTAAGACCATGTCTGGGACATGGCATCAACTCGAGAT
Found at i:18723305 original size:23 final size:22
Alignment explanation
Indices: 18723269--18723443 Score: 181
Period size: 23 Copynumber: 7.6 Consensus size: 22
18723259 GGAATCTATA
18723269 GGCTACAATACAGTGGTAGCTTC
1 GGCTAC-ATACAGTGGTAGCTTC
* * *
18723292 GGCTGCATCTCAGTGGTAGCTTT
1 GGCTACAT-ACAGTGGTAGCTTC
*
18723315 GGCTAAATACAGTGGTAGCTTC
1 GGCTACATACAGTGGTAGCTTC
*
18723337 -GCTTACATCTCAGTGGTAGCTTC
1 GGC-TACAT-ACAGTGGTAGCTTC
* *
18723360 GGCTACAATACAATGGTAGCTTT
1 GGCTAC-ATACAGTGGTAGCTTC
18723383 GGCTACAATACAGTGGTAGCTTC
1 GGCTAC-ATACAGTGGTAGCTTC
* *
18723406 GGCTACGTTACAGTGATAGCTTC
1 GGCTAC-ATACAGTGGTAGCTTC
*
18723429 GGCTATATTACAGTG
1 GGCTACA-TACAGTG
18723444 TGGCACTCTG
Statistics
Matches: 127, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
21 2 0.02
22 18 0.14
23 103 0.81
24 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (22 bp):
GGCTACATACAGTGGTAGCTTC
Found at i:18723397 original size:46 final size:46
Alignment explanation
Indices: 18723269--18723443 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
18723259 GGAATCTATA
* * *
18723269 GGCTACAATACAGTGGTAGCTTCGGCTGCATCTCAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTCGGCTACATCACAGTGGTAGCTTC
*
18723315 GGCTA-AATACAGTGGTAGCTTC-GCTTACATCTCAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTCGGC-TACATCACAGTGGTAGCTTC
* *
18723360 GGCTACAATACAATGGTAGCTTTGGCTACAAT-ACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTCGGCTAC-ATCACAGTGGTAGCTTC
** * * *
18723406 GGCTACGTTACAGTGATAGCTTCGGCTATATTACAGTG
1 GGCTACAATACAGTGGTAGCTTCGGCTACATCACAGTG
18723444 TGGCACTCTG
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
44 2 0.02
45 42 0.37
46 65 0.58
47 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
GGCTACAATACAGTGGTAGCTTCGGCTACATCACAGTGGTAGCTTC
Found at i:18723430 original size:69 final size:69
Alignment explanation
Indices: 18723277--18723433 Score: 214
Period size: 69 Copynumber: 2.3 Consensus size: 69
18723267 TAGGCTACAA
* * *
18723277 TACAGTGGTAGCTTCGGCTGCATCTCAGTGGTAGCTTTGGCTAAATACAGTGGTAGCTTCGCTTA
1 TACAGTGGTAGCTTCGGCTACATCACAATGGTAGCTTTGGCTAAATACAGTGGTAGCTTCGCTTA
18723342 CATC
66 CATC
18723346 T-CAGTGGTAGCTTCGGCTACAAT-ACAATGGTAGCTTTGGCTACAATACAGTGGTAGCTTCGGC
1 TACAGTGGTAGCTTCGGCTAC-ATCACAATGGTAGCTTTGGCTA-AATACAGTGGTAGCTTC-GC
*
18723409 -TACGT-
63 TTACATC
*
18723414 TACAGTGATAGCTTCGGCTA
1 TACAGTGGTAGCTTCGGCTA
18723434 TATTACAGTG
Statistics
Matches: 79, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
68 36 0.46
69 41 0.52
70 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (69 bp):
TACAGTGGTAGCTTCGGCTACATCACAATGGTAGCTTTGGCTAAATACAGTGGTAGCTTCGCTTA
CATC
Found at i:18725619 original size:27 final size:28
Alignment explanation
Indices: 18725490--18725620 Score: 171
Period size: 27 Copynumber: 4.8 Consensus size: 28
18725480 ATTATCAAAG
18725490 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTATAGAATTACTCGTTT
*
18725517 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTATAGAATTACTCGTTT
* *
18725544 TACCCTCGGTTTATAGAATTACT-ATTT
1 TACCCTCGATTTATAGAATTACTCGTTT
* * *
18725571 TACCCTTGATTTACAGAGTTACT-GTTT
1 TACCCTCGATTTATAGAATTACTCGTTT
*
18725598 TACCCTCGATTTATAAAATTACT
1 TACCCTCGATTTATAGAATTACT
18725621 AAAATACCCT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 89 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.43
Consensus pattern (28 bp):
TACCCTCGATTTATAGAATTACTCGTTT
Found at i:18725628 original size:27 final size:27
Alignment explanation
Indices: 18725598--18725954 Score: 262
Period size: 27 Copynumber: 13.2 Consensus size: 27
18725588 GTTACTGTTT
* *
18725598 TACCCTCGATTTATAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
18725625 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
18725652 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * *
18725679 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
18725705 TACCC-CTAGTTTGTAAAATTACCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
*
18725732 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
18725759 TACCCTAG-TTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
18725785 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
*
18725812 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
18725839 TAGCCCT-GA--TGTACAAAGTTA-CAGAAA
1 TA-CCCTCGATTTGTA-AAA-TTACCA-AAA
* * ***
18725866 TACCCTTGACTTTCTAAAAGTTATGGAAA
1 TACCCTCGA-TTTGTAAAA-TTACCAAAA
* * * ** *
18725895 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * *
18725922 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
18725949 CACCCT
1 TACCCT
18725955 TGTAGGATGA
Statistics
Matches: 267, Mismatches: 48, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
25 4 0.01
26 54 0.20
27 176 0.66
28 13 0.05
29 17 0.06
30 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:18725629 original size:54 final size:54
Alignment explanation
Indices: 18725517--18725645 Score: 161
Period size: 54 Copynumber: 2.4 Consensus size: 54
18725507 ATTATCGTTT
* * * ***
18725517 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGGTTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACTAAAA
*
18725571 TACCCTTGATTTACAGAGTTA-CTGTTTTACCCTCGATTTATAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTATC-GTTTTACCCTCGATTTATAAAATTACTAAAA
* *
18725625 TACCCTTGGTTTACAAAATTA
1 TACCCTTGATTTACAGAATTA
18725646 CCAAAATACC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 63 0.98
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.40
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACTAAAA
Found at i:18725721 original size:53 final size:52
Alignment explanation
Indices: 18725611--18725845 Score: 263
Period size: 53 Copynumber: 4.4 Consensus size: 52
18725601 CCTCGATTTA
* * ** * **
18725611 TAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAG
1 TAAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCTAG-TTTG
* * *
18725665 TAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATA-CCCTAGTTTG
* *
18725718 TAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTAGTTTG
1 TAAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCTAGTTTG
* * * *
18725771 TAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCT-AGTTTG
18725825 TAAAATTACCAAAATAGCCCT
1 TAAAATTACCAAAATA-CCCT
18725846 GATGTACAAA
Statistics
Matches: 155, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
53 87 0.56
54 66 0.43
55 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (52 bp):
TAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTAGTTTG
Found at i:18725723 original size:80 final size:80
Alignment explanation
Indices: 18725611--18725845 Score: 344
Period size: 80 Copynumber: 2.9 Consensus size: 80
18725601 CCTCGATTTA
* ** * * **
18725611 TAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 TAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
18725676 AAATACCCTAGTCTG
66 AAATACCCTAGTCTG
* *
18725691 TAAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 TAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
*
18725756 AAATACCCTAGTTTG
66 AAATACCCTAGTCTG
* * *
18725771 TAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 TAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
18725836 AAATAGCCCT
66 AAATA-CCCT
18725846 GATGTACAAA
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
80 135 0.97
81 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
TAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
AAATACCCTAGTCTG
Found at i:18726010 original size:27 final size:26
Alignment explanation
Indices: 18725978--18726073 Score: 122
Period size: 27 Copynumber: 3.5 Consensus size: 26
18725968 GACTAAAATA
18725978 CCCCTATTAGGTAAAGAGACCGTAAAG
1 CCCCTA-TAGGTAAAGAGACCGTAAAG
18726005 CCCCTATAGGTTAAAGAGACCGTAAAG
1 CCCCTATAGG-TAAAGAGACCGTAAAG
*
18726032 CCCCTATAGGGTAAAGTGACCGTAATA-
1 CCCCTATA-GGTAAAGAGACCGTAA-AG
*
18726059 CCCCTGTATGGTAAA
1 CCCCTATA-GGTAAA
18726074 ATGACGAATA
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 4 0.06
27 56 0.89
28 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (26 bp):
CCCCTATAGGTAAAGAGACCGTAAAG
Found at i:18729558 original size:30 final size:30
Alignment explanation
Indices: 18729524--18729580 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
18729514 TAACTCAAAA
18729524 TTTTGAAAAATTACAATTTTGCCCCTAAAC
1 TTTTGAAAAATTACAATTTTGCCCCTAAAC
* * * *
18729554 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
18729581 GGCTCGGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:18730696 original size:42 final size:42
Alignment explanation
Indices: 18730637--18730770 Score: 205
Period size: 42 Copynumber: 3.2 Consensus size: 42
18730627 TAGTGTCCCC
* ** * *
18730637 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACACGTGATATTG
*
18730679 AAATGGGCTTGCATACATCCATTGACATTACACGTGACATTG
1 AAATGGGCTTGCATACATCCATTGACATTACACGTGATATTG
*
18730721 AAATGGGCTTGCATACATCCATTAACATTACACGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACACGTGATATTG
18730763 AAATGGGC
1 AAATGGGC
18730771 CTAAAGGCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACACGTGATATTG
Found at i:18730829 original size:31 final size:31
Alignment explanation
Indices: 18730794--18730870 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
18730784 CATTTACAGT
18730794 AAAGGCTTCGACCCAATGATATGATTTATGA
1 AAAGGCTTCGACCCAATGATATGATTTATGA
* *
18730825 AAAGGCTTC-AGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGA-CCCAATGATATGATTTATGA
*
18730856 AAAGGCTTCGGCCCA
1 AAAGGCTTCGACCCA
18730871 GTAACCGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGACCCAATGATATGATTTATGA
Found at i:18733813 original size:37 final size:37
Alignment explanation
Indices: 18733754--18733862 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
18733744 AGCTCAAACG
* *
18733754 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
18733791 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
18733828 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
18733863 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:18734083 original size:96 final size:95
Alignment explanation
Indices: 18733968--18734180 Score: 232
Period size: 98 Copynumber: 2.2 Consensus size: 95
18733958 AATACACACC
** * * *
18733968 TTTCACATTGGTCGTTCGGC-CACAATATACGCACATCGCCTACATATTTCACACTAGCCATCCG
1 TTTCACATTGACCATTCGGCTCACAACATACGCACATCGCATACATATTTCACACTAGCCATCCG
**
18734032 GCTTTACCAAATATACACATCTCACATTTATA
66 GCTTTACCAAATATACACATCT--CATACATA
* * * * * * *
18734064 TTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTC
1 TTTCACATTGACCATTCGGC-TCACAACATACGCACATCGCATACATATTTCACACTAGCCATCC
* *
18734129 GGCTTTACCACATATACATATCTCATACATA
65 GGCTTTACCAAATATACACATCTCATACATA
18734160 TTTCACATT-AGCCATTCGGCT
1 TTTCACATTGA-CCATTCGGCT
18734181 TTACCAAATA
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
95 2 0.02
96 41 0.42
98 55 0.56
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (95 bp):
TTTCACATTGACCATTCGGCTCACAACATACGCACATCGCATACATATTTCACACTAGCCATCCG
GCTTTACCAAATATACACATCTCATACATA
Found at i:18734127 original size:48 final size:48
Alignment explanation
Indices: 18734008--18734192 Score: 264
Period size: 48 Copynumber: 3.8 Consensus size: 48
18733998 GCACATCGCC
* * *
18734008 TACATATTTCACACTAGCCATCCGGCTTTACCAAATATACACATCTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCT--CA
** * *
18734058 TTTATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCAAATATACATATCTCA
*
18734106 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCTCA
18734154 TACATATTTCACATTAGCCATTCGGCTTTACCAAATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCAAATATA
18734193 TGCATGTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
48 83 0.68
49 2 0.02
50 37 0.30
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCTCA
Found at i:18734197 original size:98 final size:97
Alignment explanation
Indices: 18734008--18734191 Score: 273
Period size: 98 Copynumber: 1.9 Consensus size: 97
18733998 GCACATCGCC
**
18734008 TACATATTTCACACTAGCCATCCGGCTTTACCAAATATACACATCTCACATTTATATTTCACATT
1 TACATATTTCACACTAGCCATCCGGCTTTACCAAATATACACATCT-ACATACATATTTCACATT
18734073 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
* * * *
18734106 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT-CATACATATTTCACATT-
1 TACATATTTCACACTAGCCATCCGGCTTTACCAAATATACACATCTACATACATATTTCACATTG
*
18734169 AGCCATTCGGCTTTACCAAATAT
66 A-CCATTCGGCTTTACCACATAT
18734192 ATGCATGTTC
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
95 1 0.01
96 35 0.45
98 42 0.54
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATCCGGCTTTACCAAATATACACATCTACATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:18742267 original size:40 final size:40
Alignment explanation
Indices: 18742185--18742368 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
18742175 TATTCGAATG
* * * * * *
18742185 ATATTCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTGACT
*
18742225 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAG-TGACT
* * * *
18742265 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * * * *
18742305 ATATCCGGGCTAAGTCCCGATGGCATTTATGCTAGTGACC
1 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTGACT
* *
18742345 ATATCCGGGCTAAGACTCGAAGGC
1 ATATCCGGACTAAGACCCGAAGGC
18742369 CTTGTGCAAG
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:18742330 original size:80 final size:79
Alignment explanation
Indices: 18742185--18742404 Score: 239
Period size: 80 Copynumber: 2.8 Consensus size: 79
18742175 TATTCGAATG
* * * * *
18742185 ATATTCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAG-TCCCGAAGGC
* *
18742249 ATTTGTGCGAGTTG-CT
64 ATTTATGCGAG-TGACC
* *
18742265 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGATGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
*
18742330 TTTATGCTAGTGACC
65 TTTATGCGAGTGACC
* * * * * *
18742345 ATATCCGGGCTAAGACTCGAAGGCCTTGTGCAAGTGGTTATATTC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAG
18742405 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 13 0.11
79 19 0.16
80 87 0.73
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCGAGTGACC
Found at i:18747553 original size:34 final size:34
Alignment explanation
Indices: 18747505--18747573 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
18747495 CTTGCGTGGG
*
18747505 AGCAGGCGCTACACTCTCAGCATCATTTGCTGCA
1 AGCAAGCGCTACACTCTCAGCATCATTTGCTGCA
18747539 AGCAAGCGCTACACTCTCAGCATCATTTGCTGCA
1 AGCAAGCGCTACACTCTCAGCATCATTTGCTGCA
18747573 A
1 A
18747574 CTCTATTAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (34 bp):
AGCAAGCGCTACACTCTCAGCATCATTTGCTGCA
Found at i:18752883 original size:21 final size:22
Alignment explanation
Indices: 18752859--18752899 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18752849 TATAAATTTA
*
18752859 TCAAATCCAAACATA-AGTCAT
1 TCAAATACAAACATATAGTCAT
*
18752880 TCAAATACAATCATATAGTC
1 TCAAATACAAACATATAGTC
18752900 CCTGATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (22 bp):
TCAAATACAAACATATAGTCAT
Found at i:18768984 original size:55 final size:55
Alignment explanation
Indices: 18768799--18769045 Score: 237
Period size: 55 Copynumber: 4.6 Consensus size: 55
18768789 ACACGGGTAC
* * * * *
18768799 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-T-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * * *
18768848 CTTTCCATTGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTAT-G-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * * *
18768901 CTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGAAA
* * *
18768956 CTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACC-T-TAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
*
18769009 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATG
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATG
18769046 ACATCTTTAA
Statistics
Matches: 164, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 35 0.21
50 1 0.01
52 2 0.01
53 49 0.30
54 11 0.07
55 64 0.39
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (55 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
Found at i:18771225 original size:24 final size:24
Alignment explanation
Indices: 18771193--18771239 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18771183 TTATAATATG
* * *
18771193 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
18771217 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
18771240 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:18771306 original size:20 final size:20
Alignment explanation
Indices: 18771283--18771321 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
18771273 TAAACATGGT
18771283 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
18771303 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
18771322 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:18771400 original size:24 final size:24
Alignment explanation
Indices: 18771372--18771587 Score: 362
Period size: 24 Copynumber: 9.0 Consensus size: 24
18771362 GAGGAAGTGA
*
18771372 AAAAGGGCTTATGCCCCAGTGATT
1 AAAAGGGCTTATGCCCCAGTTATT
18771396 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
18771420 AAAAGGGCTTATGCCCCAGTGATT
1 AAAAGGGCTTATGCCCCAGTTATT
18771444 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
18771468 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
18771492 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
18771516 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
18771540 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
18771564 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18771588 ATGATAAAGC
Statistics
Matches: 182, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
24 171 0.94
25 11 0.06
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:18774510 original size:48 final size:48
Alignment explanation
Indices: 18774452--18774838 Score: 701
Period size: 48 Copynumber: 8.1 Consensus size: 48
18774442 AATTCTAAAT
18774452 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
18774499 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
18774547 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
18774595 TGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
18774642 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
18774690 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
18774738 TATG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
18774787 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
18774834 TGTGA
1 TGTGA
18774839 CGGGGCCGAG
Statistics
Matches: 329, Mismatches: 6, Indels: 9
0.96 0.02 0.03
Matches are distributed among these distances:
47 96 0.29
48 187 0.57
49 46 0.14
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:18774598 original size:25 final size:25
Alignment explanation
Indices: 18774569--18774646 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
18774559 CTAATGGCCG
18774569 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ****
18774594 ATGTGAT-AAGGCT-TAA-TG-GCCG
1 ATGTGATGAATG-TGAAAGTGTATAT
18774616 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
18774641 ATGTGA
1 ATGTGA
18774647 ATAAGGCCTA
Statistics
Matches: 36, Mismatches: 12, Indels: 10
0.62 0.21 0.17
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 7 0.19
25 14 0.39
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:18774710 original size:143 final size:143
Alignment explanation
Indices: 18774452--18774889 Score: 736
Period size: 143 Copynumber: 3.1 Consensus size: 143
18774442 AATTCTAAAT
18774452 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAAGGCCTAATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAAGGCCTAATG
*
18774517 GCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAAGGCCTAATGGCCGATGTGATGAATGT
66 GCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGAATGT
18774582 GAAAGTGTATATA
131 GAAAGTGTATATA
*
18774595 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAAGGCCTAATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAAGGCCTAATG
18774660 GCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGAATGT
66 GCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGAATGT
18774725 GAAAGTGTATATA
131 GAAAGTGTATATA
*
18774738 TATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG-ATAAGGCCTAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAATAAGGCCTAA
** * * * * *
18774802 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ACGGGGCCGAGTGGCCAACGTGATGGAT
64 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGAAT
* *
18774866 GTGAAAGTGCATAAA
129 GTGAAAGTGTATATA
18774881 TGTGATAAG
1 TGTGATAAG
18774890 TCCCGAAGGG
Statistics
Matches: 279, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
143 222 0.80
144 47 0.17
145 10 0.04
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATA
Found at i:18774799 original size:96 final size:94
Alignment explanation
Indices: 18774452--18774889 Score: 705
Period size: 96 Copynumber: 4.6 Consensus size: 94
18774442 AATTCTAAAT
18774452 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAAGGCCTAATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAAGGCCTAATG
18774517 GCCGATGTGATGAATGTGAAAGTGTATATA
65 GCCGATGTGATGAATGTGAAAGTGTATATA
*
18774547 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18774612 GCCGATGTGATGAATGTGAAAGTGTATATA
65 GCCGATGTGATGAATGTGAAAGTGTATATA
*
18774642 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAAT
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAAGGCCTAAT
18774707 GGCCGATGTGATGAATGTGAAAGTGTATATA
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
*
18774738 TATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
18774803 GGCCGATGTGATGAATGTGAAAGTGTATATA
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
*** * * * * * * *
18774834 TGTGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
18774890 TCCCGAAGGG
Statistics
Matches: 323, Mismatches: 16, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
94 13 0.04
95 135 0.42
96 165 0.51
97 10 0.03
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:18775065 original size:38 final size:37
Alignment explanation
Indices: 18775008--18775086 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
18774998 CTGAGCTCTA
* *
18775008 AAGACCCGATGACTACGTGTGG-GAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-A-TTATGTCCGGGT
*
18775046 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18775083 AAGA
1 AAGA
18775087 TTTCGTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 15 0.41
38 21 0.57
39 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18776990 original size:43 final size:43
Alignment explanation
Indices: 18776942--18777087 Score: 265
Period size: 43 Copynumber: 3.4 Consensus size: 43
18776932 TTGGTTTTCA
*
18776942 GCACTAAGTGTGCGTGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
18776985 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
18777028 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGACTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
18777071 GCACTAAGTGTGTGGGC
1 GCACTAAGTGTGCGGGC
18777088 TTGAAATGCA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:18777104 original size:29 final size:29
Alignment explanation
Indices: 18777069--18777142 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
18777059 GTTGTGAGAC
* * *
18777069 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
18777098 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
18777127 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18777143 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:18777524 original size:40 final size:40
Alignment explanation
Indices: 18777437--18777527 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
18777427 TTTGAATGAT
* * *
18777437 ATCCGGGCTAAGTCCCGAAGGCAATTGAGCTAGTGAATAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGAGCGAGTGAATAA
* * * *
18777477 ATTCGGGCTAAGACCCGAAGGC-ATTGGTGCGAGTTACTAA
1 ATCCGGGCTAAGACCCGAAGGCAATT-GAGCGAGTGAATAA
18777517 ATCCGGGCTAA
1 ATCCGGGCTAA
18777528 ATTTTGAAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.07
40 39 0.93
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGAGCGAGTGAATAA
Found at i:18777615 original size:40 final size:40
Alignment explanation
Indices: 18777533--18777633 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
18777523 GCTAAATTTT
* * * *
18777533 GAAGAGCATTCGTGCTAGTGAGGTATCTGGACTAAGTTCC
1 GAAGAGCATTCGTGCTGGTGAGATATCCGGACTAAGTCCC
** * *
18777573 GAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCC
1 GAAGAGCATTCGTGCTGGTGAGATATCCGGACTAAGTCCC
* * *
18777613 GAAGAGAAATCATGCTGGTGA
1 GAAGAGCATTCGTGCTGGTGA
18777634 CATGTATTCG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.26
Consensus pattern (40 bp):
GAAGAGCATTCGTGCTGGTGAGATATCCGGACTAAGTCCC
Found at i:18778650 original size:46 final size:46
Alignment explanation
Indices: 18778599--18778726 Score: 211
Period size: 46 Copynumber: 2.8 Consensus size: 46
18778589 GGTTGAGCAT
* * *
18778599 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
18778645 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
18778691 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18778727 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:18785250 original size:53 final size:54
Alignment explanation
Indices: 18785160--18785375 Score: 215
Period size: 55 Copynumber: 4.0 Consensus size: 54
18785150 TACTTGGTAT
* * * * *
18785160 CCTTTTGAAGCTTACCATTGCCATGTCTCGACATGGTCTTACATAGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATAGTATCCTTG
* * * * *
18785214 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACGTGGGA-CCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATAGTATCC-TTG
* **
18785267 CCTTATAGAAACTTATCAATGCCATGTATTGACATGGTCTTACA-AGATATCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATAG-TATCCTTG
* * *
18785322 CCTTA-GAAACCTTACCAATCACCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAAT-GCCATGCCTTGACATGGTCTTACATAGTATCCTT
18785376 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.02
53 44 0.34
54 16 0.12
55 65 0.50
56 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATAGTATCCTTG
Found at i:18789492 original size:16 final size:16
Alignment explanation
Indices: 18789471--18789504 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
18789461 TTGGGCCCAT
18789471 TTGTACTGTTTGACTG
1 TTGTACTGTTTGACTG
18789487 TTGTACTGTTTGACTG
1 TTGTACTGTTTGACTG
18789503 TT
1 TT
18789505 AAGGTTGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.53
Consensus pattern (16 bp):
TTGTACTGTTTGACTG
Found at i:18789616 original size:27 final size:27
Alignment explanation
Indices: 18789580--18789731 Score: 182
Period size: 27 Copynumber: 5.7 Consensus size: 27
18789570 CCAGATTGAT
18789580 AAATGACTATTTTGCCCTCATGAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
18789607 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* * *
18789634 AAATGATTGTTTTGCCCT-ATGTGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
18789660 AAATGACTGTTTTGCCCTCATGAGGGA
1 AAATGACTATTTTGCCCTCATGAGGTA
*
18789687 AAATGACTATTTTGCCCTTAT-ATGGTA
1 AAATGACTATTTTGCCCTCATGA-GGTA
* * *
18789714 AGATGATTGTTTTGCCCT
1 AAATGACTATTTTGCCCT
18789732 ATGTGATGTA
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 26 0.24
27 84 0.76
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTCATGAGGTA
Found at i:18789673 original size:53 final size:53
Alignment explanation
Indices: 18789580--18789736 Score: 199
Period size: 53 Copynumber: 2.9 Consensus size: 53
18789570 CCAGATTGAT
* * *
18789580 AAATGACTATTTTGCCCTCATGAGGTAAAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCT-ATGTGGTAAAATGACTGTTTTGCCCTTATGTGGGA
* * * *
18789634 AAATGATTGTTTTGCCCTATGTGGTAAAATGACTGTTTTGCCCTCATGAGGGA
1 AAATGACTATTTTGCCCTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGGA
* * *
18789687 AAATGACTATTTTGCCCTTATATGGTAAGATGATTGTTTTGCCC-TATGTG
1 AAATGACTATTTTGCCC-TATGTGGTAAAATGACTGTTTTGCCCTTATGTG
18789737 ATGTATATAT
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
53 49 0.56
54 39 0.44
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (53 bp):
AAATGACTATTTTGCCCTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGGA
Found at i:18789713 original size:80 final size:80
Alignment explanation
Indices: 18789580--18789736 Score: 278
Period size: 80 Copynumber: 2.0 Consensus size: 80
18789570 CCAGATTGAT
* *
18789580 AAATGACTATTTTGCCCTCATGAGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATGATTGTT
1 AAATGACTATTTTGCCCTCATGAGGGAAAATGACTATTTTGCCCTTATATGGTAAAATGATTGTT
18789645 TTGCCCTATGTGGTA
66 TTGCCCTATGTGGTA
* *
18789660 AAATGACTGTTTTGCCCTCATGAGGGAAAATGACTATTTTGCCCTTATATGGTAAGATGATTGTT
1 AAATGACTATTTTGCCCTCATGAGGGAAAATGACTATTTTGCCCTTATATGGTAAAATGATTGTT
18789725 TTGCCCTATGTG
66 TTGCCCTATGTG
18789737 ATGTATATAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (80 bp):
AAATGACTATTTTGCCCTCATGAGGGAAAATGACTATTTTGCCCTTATATGGTAAAATGATTGTT
TTGCCCTATGTGGTA
Found at i:18789831 original size:24 final size:24
Alignment explanation
Indices: 18789803--18789850 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18789793 GATACATGTA
18789803 TGATTCTATGATATGACATGACAT
1 TGATTCTATGATATGACATGACAT
18789827 TGATTCTATGATATGACATGACAT
1 TGATTCTATGATATGACATGACAT
18789851 GACCGTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (24 bp):
TGATTCTATGATATGACATGACAT
Found at i:18799055 original size:32 final size:32
Alignment explanation
Indices: 18799019--18799080 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
18799009 CCGTATCTAG
*
18799019 ATAGGTTTGTAGTGGTATTTATTGATGATAAA
1 ATAGGTTTGTAGTGGTATTAATTGATGATAAA
18799051 ATAGGTTTGTAGTGGTATTAATTGATGATA
1 ATAGGTTTGTAGTGGTATTAATTGATGATA
18799081 TTCTGGTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.44
Consensus pattern (32 bp):
ATAGGTTTGTAGTGGTATTAATTGATGATAAA
Found at i:18802306 original size:21 final size:21
Alignment explanation
Indices: 18802282--18802321 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18802272 TGCCTAGGAC
*
18802282 ATGAAGTGAATTAAATTGAGT
1 ATGAAATGAATTAAATTGAGT
*
18802303 ATGAAATGGATTAAATTGA
1 ATGAAATGAATTAAATTGA
18802322 TGTTAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.33
Consensus pattern (21 bp):
ATGAAATGAATTAAATTGAGT
Found at i:18802775 original size:24 final size:24
Alignment explanation
Indices: 18802741--18802791 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
18802731 ACAAACTCAA
*
18802741 CTCTTCATGAGCGTCCTGATATAGG
1 CTCTTCATGAGCGTCCTGACAT-GG
*
18802766 CTCTT-ATGAGCTTCCTGACATGG
1 CTCTTCATGAGCGTCCTGACATGG
18802789 CTC
1 CTC
18802792 GCTTGAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (24 bp):
CTCTTCATGAGCGTCCTGACATGG
Found at i:18819219 original size:1 final size:1
Alignment explanation
Indices: 18819213--18819244 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
18819203 GTGTTATCGG
18819213 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18819245 GGTCGAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18820769 original size:28 final size:28
Alignment explanation
Indices: 18820729--18820798 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
18820719 ATAGTAAGTC
*
18820729 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
18820757 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
18820785 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18820799 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:18828630 original size:28 final size:28
Alignment explanation
Indices: 18828590--18828659 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
18828580 ATAGTAAGTC
*
18828590 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
18828618 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
18828646 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18828660 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:18833761 original size:37 final size:37
Alignment explanation
Indices: 18833702--18833796 Score: 154
Period size: 37 Copynumber: 2.6 Consensus size: 37
18833692 AGCTCAGACG
* *
18833702 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
18833739 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
18833776 TAATCTCCACACGTAGCCATC
1 AAATCTCCACACGTAGTCATC
18833797 CACACGTAGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:18833800 original size:14 final size:14
Alignment explanation
Indices: 18833781--18833810 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18833771 GGACATAATC
18833781 TCCACACGTAGCCA
1 TCCACACGTAGCCA
*
18833795 TCCACACGTAGTCA
1 TCCACACGTAGCCA
18833809 TC
1 TC
18833811 GGGTCTCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.40, G:0.13, T:0.20
Consensus pattern (14 bp):
TCCACACGTAGCCA
Found at i:18833822 original size:51 final size:51
Alignment explanation
Indices: 18833744--18833847 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
18833734 GGACAAAATC
*
18833744 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGCCA
1 TCCACACGTAGTCATCGGGTCTCACCCGGACATAATCTCCACACGTAGCCA
*
18833795 TCCACACGTAGTCATCGGGTCTCACCCGGACATAATCTCCACACGTAGTCA
1 TCCACACGTAGTCATCGGGTCTCACCCGGACATAATCTCCACACGTAGCCA
18833846 TC
1 TC
18833848 GGGTCTTACC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (51 bp):
TCCACACGTAGTCATCGGGTCTCACCCGGACATAATCTCCACACGTAGCCA
Found at i:18833845 original size:37 final size:37
Alignment explanation
Indices: 18833795--18833898 Score: 190
Period size: 37 Copynumber: 2.8 Consensus size: 37
18833785 CACGTAGCCA
*
18833795 TCCACACGTAGTCATCGGGTCTCACCCGGACATAATC
1 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATC
18833832 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATC
1 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATC
*
18833869 TCCACACGTAGTCATCAGGTCTTACCCGGA
1 TCCACACGTAGTCATCGGGTCTTACCCGGA
18833899 ATATATTTCC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (37 bp):
TCCACACGTAGTCATCGGGTCTTACCCGGACATAATC
Found at i:18833856 original size:88 final size:88
Alignment explanation
Indices: 18833707--18833884 Score: 311
Period size: 88 Copynumber: 2.0 Consensus size: 88
18833697 AGACGAAATC
* *
18833707 TCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCTCACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
18833772 GACATAATCTCCACACGTAGCCA
66 GACATAATCTCCACACGTAGCCA
* *
18833795 TCCACACGTAGTCATCGGGTCTCACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCTCACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
18833860 GACATAATCTCCACACGTAGTCA
66 GACATAATCTCCACACGTAGCCA
18833883 TC
1 TC
18833885 AGGTCTTACC
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.22
Consensus pattern (88 bp):
TCCACACGAAGTCATCGGGTCTCACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
GACATAATCTCCACACGTAGCCA
Found at i:18834102 original size:50 final size:48
Alignment explanation
Indices: 18834044--18834228 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
18834034 GCACATCGCC
*
18834044 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
18834094 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
18834142 TACATATTTCACATTAGCCATTCGACTTTACCACAGATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
18834190 TACATATTTCACATTAGCCATTCAGATTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
18834229 TGCATGTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
48 78 0.64
49 2 0.02
50 42 0.34
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:18834233 original size:98 final size:97
Alignment explanation
Indices: 18834044--18834227 Score: 282
Period size: 98 Copynumber: 1.9 Consensus size: 97
18834034 GCACATCGCC
* * *
18834044 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGACTTTACCACAGATACATATCTCA-ATACATATTTCACATT
* *
18834109 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCAGATTTACCACATATGCATATCTCA
*
18834142 TACATATTTCACATTAGCCATTCGACTTTACCACAGATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGACTTTACCACAGATACATATCTCAATACATATTTCACATTG
18834205 AGCCATTCAGATTTACCACATAT
66 A-CCATTCAGATTTACCACATAT
18834228 ATGCATGTTC
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 1 0.01
96 34 0.43
98 44 0.56
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGACTTTACCACAGATACATATCTCAATACATATTTCACATTG
ACCATTCAGATTTACCACATATGCATATCTCA
Found at i:18834277 original size:47 final size:47
Alignment explanation
Indices: 18834221--18834345 Score: 205
Period size: 47 Copynumber: 2.7 Consensus size: 47
18834211 TCAGATTTAC
* *
18834221 CACATATATGCATGTTCATATTCACCACATTGGACATTCGGCCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGACATTCGGCCTTAT
* * *
18834268 CACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGACATTCGGCCTTAT
18834315 CACATATATGCATGTTCACATTCATCACATT
1 CACATATATGCATGTTCACATTCATCACATT
18834346 AAATCCTAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (47 bp):
CACATATATGCATGTTCACATTCATCACATTGGACATTCGGCCTTAT
Found at i:18838409 original size:40 final size:40
Alignment explanation
Indices: 18838377--18838546 Score: 268
Period size: 40 Copynumber: 4.2 Consensus size: 40
18838367 CCAGCATGAT
* * * *
18838377 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
18838417 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
**
18838457 TGCTCTTCGGGACTTAGTTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
18838497 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
18838537 TGCTCTTCGG
1 TGCTCTTCGG
18838547 ACACGAATGC
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:18838553 original size:17 final size:17
Alignment explanation
Indices: 18838531--18838563 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18838521 ACATCACTAG
18838531 CACGAATGCTCTTCGGA
1 CACGAATGCTCTTCGGA
18838548 CACGAATGCTCTTCGG
1 CACGAATGCTCTTCGG
18838564 GACTTAGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.24
Consensus pattern (17 bp):
CACGAATGCTCTTCGGA
Found at i:18838579 original size:57 final size:57
Alignment explanation
Indices: 18838491--18838603 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
18838481 ACATCACTAG
18838491 CACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGA
1 CACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGA
*
18838548 CACGAATGCTCTTCGGGACTTAGTGCGGATACATCACTAGCACGAATGCTCTTCGG
1 CACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGG
18838604 GACTTAGTTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (57 bp):
CACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGA
Found at i:18838580 original size:97 final size:98
Alignment explanation
Indices: 18838451--18838646 Score: 367
Period size: 97 Copynumber: 2.0 Consensus size: 98
18838441 ACATCACTAG
*
18838451 CACGAATGCTCTTCGGGACTTAGTTCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTC
1 CACGAATGCTCTTCGGGACTTAGTGCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTC
18838516 CGGATACATCACTAGCACGAATGCTCTTC-GGA
66 CGGATACATCACTAGCACGAATGCTCTTCAGGA
*
18838548 CACGAATGCTCTTCGGGACTTAGTGCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTT
1 CACGAATGCTCTTCGGGACTTAGTGCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTC
18838613 CGGATACATCACTAGCACGAATGCTCTTCAGGA
66 CGGATACATCACTAGCACGAATGCTCTTCAGGA
18838646 C
1 C
18838647 TTAGCCCGGA
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 92 0.96
98 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (98 bp):
CACGAATGCTCTTCGGGACTTAGTGCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTC
CGGATACATCACTAGCACGAATGCTCTTCAGGA
Found at i:18838603 original size:40 final size:40
Alignment explanation
Indices: 18838548--18838865 Score: 519
Period size: 40 Copynumber: 8.0 Consensus size: 40
18838538 GCTCTTCGGA
**
18838548 CACGAATGCTCTTCGGGACTTAGTGCGGATACATCACTAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
**
18838588 CACGAATGCTCTTCGGGACTTAGTTCGGATACATCACTAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
* *
18838628 CACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
*
18838668 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACAAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
*
18838708 CACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
* *
18838748 CACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
* *
18838788 CACGAATGCTCTTTGGGACTTAGCCCGAATACATCACTAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
*
18838828 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
18838866 CTCAATTCTC
Statistics
Matches: 258, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 258 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
Found at i:18838636 original size:137 final size:137
Alignment explanation
Indices: 18838411--18838683 Score: 492
Period size: 137 Copynumber: 2.0 Consensus size: 137
18838401 ATAACACCAG
18838411 CACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTT
1 CACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTT
* *
18838476 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCT
66 CGGATACATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAATGCT
18838541 CTTCGGA
131 CTTCGGA
* **
18838548 CACGAATGCTCTTCGGGACTTAGTGCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTT
1 CACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTT
*
18838613 CGGATACATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCT
66 CGGATACATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAATGCT
18838678 CTTCGG
131 CTTCGG
18838684 GACTTAGCCC
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 130 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (137 bp):
CACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTT
CGGATACATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAATGCT
CTTCGGA
Found at i:18840194 original size:37 final size:37
Alignment explanation
Indices: 18840136--18840315 Score: 306
Period size: 37 Copynumber: 4.9 Consensus size: 37
18840126 GCTCAGACGA
* * *
18840136 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
18840173 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
18840210 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
18840247 AATCTCCACATGTAGTCATCGGGTCTTACCCGAACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
18840284 AATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AATCTCCACACGTAGTCATCGGGTCTTACCCG
18840316 TAATATATTT
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 135 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:18840587 original size:48 final size:48
Alignment explanation
Indices: 18840463--18840647 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
18840453 GCACATCGCC
* *
18840463 TACATATTTCACACTAGCCATTCGGCTTTATCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
18840513 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
18840561 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
18840609 TACATATTTCACATTAGCCATTCAGATTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
18840648 TGCATGTTCG
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
48 82 0.66
49 2 0.02
50 41 0.33
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:18840652 original size:98 final size:97
Alignment explanation
Indices: 18840463--18840646 Score: 291
Period size: 98 Copynumber: 1.9 Consensus size: 97
18840453 GCACATCGCC
* *
18840463 TACATATTTCACACTAGCCATTCGGCTTTATCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
* *
18840528 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCAGATTTACCACATATGCATATCTCA
*
18840561 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
18840624 AGCCATTCAGATTTACCACATAT
66 A-CCATTCAGATTTACCACATAT
18840647 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 34 0.43
98 45 0.56
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCAGATTTACCACATATGCATATCTCA
Found at i:18840696 original size:47 final size:47
Alignment explanation
Indices: 18840617--18840764 Score: 206
Period size: 47 Copynumber: 3.1 Consensus size: 47
18840607 CATACATATT
* * ** * **
18840617 TCACATTAGCCATTCAGATTTACCACATATATGCATGTTCGTATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
18840664 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
18840711 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
18840758 TCACATT
1 TCACATT
18840765 AAATCCTAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:18843473 original size:31 final size:31
Alignment explanation
Indices: 18843433--18843546 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
18843423 TCAGTCTCGA
* *
18843433 CATAT-ACTGGGTCGAAGCCTTTTCAGAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
18843463 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
18843494 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
18843525 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
18843547 ACTGTAAACG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 18 0.23
31 61 0.77
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:18843788 original size:24 final size:25
Alignment explanation
Indices: 18843761--18843838 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
18843751 GCCTAGCCTC
18843761 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
18843785 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*** *
18843810 TTTCGGTAAACTGGGGCATAG-CCT
1 TTTTAATAAACTGGGGCAAAGCCCT
18843834 TTTTA
1 TTTTA
18843839 GCACTTCCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 12 0.26
25 35 0.74
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:18843796 original size:25 final size:25
Alignment explanation
Indices: 18843768--18843837 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
18843758 CTCTTTTAAT
18843768 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
18843793 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
18843818 AACTGGGGCATAG-CCTTTTT
1 AACTGGGGCAAAGCCCTTTTT
18843838 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 6 0.15
25 35 0.85
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:18844710 original size:27 final size:27
Alignment explanation
Indices: 18844650--18844725 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
18844640 GCCTATTCGC
*
18844650 CATTTTACCATACAGGGGTATTACGGT
1 CATTTTACCATAAAGGGGTATTACGGT
* *
18844677 CACTTTACCCTAAAGGGGCT-TTACGGT
1 CATTTTACCATAAAGGGG-TATTACGGT
* *
18844704 CTTTTTACC-TATTAGGGGTATT
1 CATTTTACCATA-AAGGGGTATT
18844726 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 36 0.90
28 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
CATTTTACCATAAAGGGGTATTACGGT
Found at i:18844796 original size:27 final size:27
Alignment explanation
Indices: 18844766--18844851 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
18844756 GTAAATCTAC
18844766 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
18844793 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
18844819 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
18844849 AAA
1 AAA
18844852 TTGGGGGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 7 0.14
29 18 0.37
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Done.