Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008627.1 Hibiscus syriacus cultivar Beakdansim tig00111594_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1073793
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 2 of 6
Found at i:327067 original size:32 final size:32
Alignment explanation
Indices: 327031--327184 Score: 95
Period size: 32 Copynumber: 4.8 Consensus size: 32
327021 GTAGAGTCAA
*
327031 TATTGCATTTAGATAATGCACATCATAGTTAG
1 TATTGCATTCAGATAATGCACATCATAGTTAG
* * * *
327063 TATTGTATTCCA-ATAATGCACAAT-AGAGTCAA
1 TATTGCATT-CAGATAATGCAC-ATCATAGTTAG
* *
327095 TATTGCATTCACATAATGCAACA-CAGAGTTAG
1 TATTGCATTCAGATAATGC-ACATCATAGTTAG
* * *
327127 -AGTTG-ATTCAGAAAATACACATGAGT-GTTAG
1 TA-TTGCATTCAGATAATGCACATCA-TAGTTAG
** * *
327158 TATTATATTTAGATAATGAACATCATA
1 TATTGCATTCAGATAATGCACATCATA
327185 TACAATCAAT
Statistics
Matches: 92, Mismatches: 19, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
30 3 0.03
31 22 0.24
32 62 0.67
33 5 0.05
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (32 bp):
TATTGCATTCAGATAATGCACATCATAGTTAG
Found at i:328568 original size:30 final size:30
Alignment explanation
Indices: 328534--328590 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
328524 AGACTATTTT
* *
328534 TCAATAAAGATAAAGATGATGATGATCTTA
1 TCAATAAAGATAAACAAGATGATGATCTTA
* *
328564 TCAATCAAGATGAACAAGATGATGATC
1 TCAATAAAGATAAACAAGATGATGATC
328591 AAGATCCTCA
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:0.46, C:0.11, G:0.18, T:0.26
Consensus pattern (30 bp):
TCAATAAAGATAAACAAGATGATGATCTTA
Found at i:328834 original size:24 final size:25
Alignment explanation
Indices: 328805--328863 Score: 93
Period size: 24 Copynumber: 2.4 Consensus size: 25
328795 AACCGATTGG
*
328805 AGATGAAAAGTAGAAAAAAAA-CTT
1 AGATGAAAAGTAGAAAAAAAAGCTA
328829 AGATGAAAAGTAGAAAAAAAAGCTA
1 AGATGAAAAGTAGAAAAAAAAGCTA
328854 AGAATGAAAA
1 AG-ATGAAAA
328864 ACCGATTCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 21 0.66
25 4 0.12
26 7 0.22
ACGTcount: A:0.64, C:0.03, G:0.19, T:0.14
Consensus pattern (25 bp):
AGATGAAAAGTAGAAAAAAAAGCTA
Found at i:329544 original size:19 final size:18
Alignment explanation
Indices: 329522--329576 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
329512 AACTTTCTAT
329522 TATTTTATTATAAATCTAA
1 TATTTTATTATAAAT-TAA
*
329541 TATTTT-TAATAAATTATA
1 TATTTTATTATAAATTA-A
*
329559 AATTTTATT-TAAATTAA
1 TATTTTATTATAAATTAA
329576 T
1 T
329577 TTATTATTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 3 0.10
18 20 0.67
19 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTTATTATAAATTAA
Found at i:329554 original size:18 final size:19
Alignment explanation
Indices: 329517--329554 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
329507 TCTTAAACTT
* *
329517 TCTATTATTTTATTATAAA
1 TCTAATATTTTATAATAAA
329536 TCTAATATTTT-TAATAAA
1 TCTAATATTTTATAATAAA
329554 T
1 T
329555 TATAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
TCTAATATTTTATAATAAA
Found at i:329666 original size:33 final size:32
Alignment explanation
Indices: 329629--329710 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 32
329619 ATTTCAATAT
329629 GTTCGGGTTGCTTTCGGATCGGGTTAAAATTTG
1 GTTCGGGTTGCTTTCGGATCGGGTT-AAATTTG
* * *
329662 GTTCGGGTTGCTTTTGGTTCGGGTTAATTTTG
1 GTTCGGGTTGCTTTCGGATCGGGTTAAATTTG
** *
329694 GTTATGGTTGATTTCGG
1 GTTCGGGTTGCTTTCGG
329711 TTTCACTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 19 0.45
33 23 0.55
ACGTcount: A:0.11, C:0.10, G:0.34, T:0.45
Consensus pattern (32 bp):
GTTCGGGTTGCTTTCGGATCGGGTTAAATTTG
Found at i:329679 original size:16 final size:16
Alignment explanation
Indices: 329647--329696 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
329637 TGCTTTCGGA
*
329647 TCGGGTTAAAATTTGGT
1 TCGGGTT-AATTTTGGT
**
329664 TCGGGTTGCTTTTGGT
1 TCGGGTTAATTTTGGT
329680 TCGGGTTAATTTTGGT
1 TCGGGTTAATTTTGGT
329696 T
1 T
329697 ATGGTTGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 21 0.75
17 7 0.25
ACGTcount: A:0.12, C:0.08, G:0.32, T:0.48
Consensus pattern (16 bp):
TCGGGTTAATTTTGGT
Found at i:329703 original size:32 final size:33
Alignment explanation
Indices: 329633--329712 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 33
329623 CAATATGTTC
* *
329633 GGGTTGCTTTCGGATCGGGTTAAAATTTGGTTC
1 GGGTTGCTTTCGGTTCGGGTTAAAATTTGGTTA
* *
329666 GGGTTGCTTTTGGTTCGGGTT-AATTTTGGTTA
1 GGGTTGCTTTCGGTTCGGGTTAAAATTTGGTTA
* *
329698 TGGTTGATTTCGGTT
1 GGGTTGCTTTCGGTT
329713 TCACTAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 21 0.52
33 19 0.47
ACGTcount: A:0.11, C:0.09, G:0.34, T:0.46
Consensus pattern (33 bp):
GGGTTGCTTTCGGTTCGGGTTAAAATTTGGTTA
Found at i:330348 original size:17 final size:17
Alignment explanation
Indices: 330326--330359 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
330316 GATTTGTGCC
330326 CATCAAAACATATTTCT
1 CATCAAAACATATTTCT
*
330343 CATCAAAACTTATTTCT
1 CATCAAAACATATTTCT
330360 TGACAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (17 bp):
CATCAAAACATATTTCT
Found at i:335876 original size:3 final size:3
Alignment explanation
Indices: 335868--335937 Score: 113
Period size: 3 Copynumber: 23.3 Consensus size: 3
335858 TATTTAACAA
* * *
335868 AAT AAT AAT AAT AAT AAT AAT AAA AAT AAA AAT AAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
335916 AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
335938 GGGACGAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:336431 original size:42 final size:41
Alignment explanation
Indices: 336351--336454 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 41
336341 CCCGAAAGTT
* * * *
336351 TTACAGATGGCCCAAAGGACTAATCATCTTGCTTGAAAGAC
1 TTACAGATGACCCGAAGGACTAATCATCATGCTCGAAAGAC
*
336392 TTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGAC
1 TTACAGATGACCCGAAGGA-CTAATCATCATGCTCGAAAGAC
*
336434 TTACTGAT-AGCCCGAAGGACT
1 TTACAGATGA-CCCGAAGGACT
336455 TACCAATTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 19 0.35
42 35 0.65
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (41 bp):
TTACAGATGACCCGAAGGACTAATCATCATGCTCGAAAGAC
Found at i:336674 original size:258 final size:258
Alignment explanation
Indices: 336200--337349 Score: 1775
Period size: 258 Copynumber: 4.5 Consensus size: 258
336190 GTAATCAGAT
* * * *
336200 CAATTTTGGAAATAGTTTACTGGGTAAGAAACTTTTGAAATCGCTTTCTTACTTTTCAAAAAGTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
* * * *
336265 AATTTTCTGAAAACATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCTCAATTCATGTG
66 CATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCACAATTCATGTG
* * * * *
336330 AAAACATCCTACCCGAAAGTTTTACAGATGGCCCAAAGGACTAATCATCTTGCTTGAAAGACTTA
131 AAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTA
*
336395 CAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTAC
196 CAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* * * *
336458 CAATTTGGGAAATAATTTACTGGGTGAGAAACTTTTGTAACCAG-TTTCTTACTTTTCAAAAATT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATC-GCTTTCTTACTTTTCAAAAATT
* *
336522 TCATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCATAATTTATGT
65 TCATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCACAATTCATGT
** *
336587 GAAAACATCCTACCCGAAGGTCCTACGGATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTT
130 GAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTT
* * * * * *
336652 ACAGATGACTCAAAGAATTTAATCATCATGCTTGAAAGACTTACCGATGGCCCGAATGACTTAC
195 ACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* *
336716 CAATTTGGGAAATAGTTTACTGGATAAGAAACTTTGGTAATTGCTTTCTTACTTTTCAAAAATTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
*
336781 CATTTTCAAAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCACAATTCATGTG
66 CATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCACAATTCATGTG
* * *
336846 AAAACATCCTACCCAAAGGTTTTACGAATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTA
131 AAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTA
* * *
336911 CAGATGACCCGAAGGATTTAATCATTATGCTCAAAAGACTTACTGATGGCTCGAAGGACTTAC
196 CAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
*
336974 CAATTTGGGAAATAGTTTACTGTGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
* * *
337039 CATTTTCAAAAAAGATTTAACTGAGAAACTTTGGAAATCGCTTTCTCATTTTCACAATTCATGTA
66 CATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCACAATTCATGTG
* *
337104 AAAACATCCTACCTGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTA
131 AAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTA
* *
337169 CAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCAC-AGAGGACTTAT
196 CAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGA-AGGACTTAC
* * *
337232 CAATTTGGGAAATATTTTACT-GGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
* * * **
337296 AATTTTCAGAAAATATTTAAATGAGAAACTTTGAAAATCATTTTCTCATTTTCA
66 CATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCA
337350 AATCAACTTA
Statistics
Matches: 813, Mismatches: 76, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
257 89 0.11
258 723 0.89
259 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (258 bp):
CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
CATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCACAATTCATGTG
AAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTA
CAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
Found at i:336942 original size:42 final size:41
Alignment explanation
Indices: 336879--336972 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 41
336869 ACGAATGGCT
*
336879 CGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
1 CGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACC
* * * *
336920 CGAAGGATTTAATCAT-TATGCTCAAAAGACTTACTGATGGCT
1 CGAAGGACTT-ATCATCT-TGCTCAAAAGACTTACAGATGACC
336962 CGAAGGACTTA
1 CGAAGGACTTA
336973 CCAATTTGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 11 0.24
42 34 0.76
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (41 bp):
CGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACC
Found at i:337205 original size:42 final size:41
Alignment explanation
Indices: 337125--337233 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 41
337115 CCTGAAGGTT
* * * *
337125 TTACGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGAC
1 TTACAGATGACCCGAAGGACTTATCATCATGCTCGAAAGAC
*
337166 TTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGAC
1 TTACAGATGACCCGAAGGACTT-ATCATCATGCTCGAAAGAC
* * *
337208 TTACTGATGGCAC-AGAGGACTTATCA
1 TTACAGATGACCCGA-AGGACTTATCA
337234 ATTTGGGAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 24 0.42
42 33 0.58
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (41 bp):
TTACAGATGACCCGAAGGACTTATCATCATGCTCGAAAGAC
Found at i:339471 original size:8 final size:8
Alignment explanation
Indices: 339443--339504 Score: 70
Period size: 8 Copynumber: 7.6 Consensus size: 8
339433 TCTCTTGCTT
339443 TTTTTTTC
1 TTTTTTTC
**
339451 TTTTCCTC
1 TTTTTTTC
*
339459 ATTTTTTC
1 TTTTTTTC
339467 TTTTTTTC
1 TTTTTTTC
*
339475 TTTTTTTA
1 TTTTTTTC
*
339483 TTTTTTCTA
1 TTTTTT-TC
339492 TTTTTTTC
1 TTTTTTTC
339500 TTTTT
1 TTTTT
339505 ATATATTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
8 37 0.82
9 8 0.18
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:339475 original size:24 final size:24
Alignment explanation
Indices: 339443--339503 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
339433 TCTCTTGCTT
339443 TTTTTTTCTTTTCCTCATTTTTTC-
1 TTTTTTTCTTTT-CTCATTTTTTCA
* *
339467 TTTTTTTCTTTTTTTATTTTTTCTA
1 TTTTTTTCTTTTCTCATTTTTTC-A
339492 TTTTTTTCTTTT
1 TTTTTTTCTTTT
339504 TATATATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 9 0.27
24 12 0.36
25 12 0.36
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTTTCTTTTCTCATTTTTTCA
Found at i:339485 original size:23 final size:23
Alignment explanation
Indices: 339443--339527 Score: 89
Period size: 25 Copynumber: 3.6 Consensus size: 23
339433 TCTCTTGCTT
* *
339443 TTTTTTTCTTTTCCTCATTTTTTC
1 TTTTTTTCTTTT-TTTATTTTTTC
339467 TTTTTTTCTTTTTTTATTTTTTC
1 TTTTTTTCTTTTTTTATTTTTTC
* *
339490 TATTTTTTTCTTTTTATATATTTTC
1 --TTTTTTTCTTTTTTTATTTTTTC
* *
339515 TTTTCTCCTTTTT
1 TTTTTTTCTTTTT
339528 CTTTATTGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
23 20 0.38
24 12 0.23
25 21 0.40
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTTCTTTTTTTATTTTTTC
Found at i:339513 original size:16 final size:16
Alignment explanation
Indices: 339460--339518 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
339450 CTTTTCCTCA
* *
339460 TTTTTTCTTTTTTTCT
1 TTTTTTCTTTTTATAT
* *
339476 TTTTTTATTTTTTCTAT
1 TTTTTT-CTTTTTATAT
339493 TTTTTTCTTTTTATA-
1 TTTTTTCTTTTTATAT
*
339508 TATTTTCTTTT
1 TTTTTTCTTTT
339519 CTCCTTTTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
15 10 0.28
16 13 0.36
17 13 0.36
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTCTTTTTATAT
Found at i:344072 original size:283 final size:283
Alignment explanation
Indices: 343442--344267 Score: 1289
Period size: 283 Copynumber: 2.9 Consensus size: 283
343432 CATTTCTTTT
* * * * *
343442 GTATTTCCAGATAATTTGTTGATACGAATGGTGATCATGAGTGATCCCTCAGATTGACTGGGATC
1 GTATTTCTAGATAATTTGTTGATATGAATGGTGATCATGTGTGATCTCTCAGATTGACTAGGATC
* * *
343507 CACTTGTTCTACA-TCAATCCCTTATGCATTTGATATTGCAGGATTGTGTTTATCGAGCTCTTTC
66 CACTTGTTCTAAAGT-AATCCCTTATGCATATGACATTGCAGGATTGTGTTTATCGAGCTCTTTC
* * *
343571 TCTTCTTGTACAGAAGTATCTTTTCCTTTGGCCAAAAAAGATATTCTATCCATCATTTTGGACAT
130 TCTTCTTGTGCAGAAGTATCTTTTCCTTTGGCCAAAACAGATATTTTATCCATCATTTTGGACAT
* * * *
343636 TTGCCCTC-CATCTCTCATATCTCCTTTTGCTCTTCATCTGACATACGATCTTTGGGTTCATAGC
195 TTTCCCTCTCATATCTCTTATCTCCTTTTGCTCTTCATCTGACATACGATCTTTGGGTGCATAGC
* * * *
343700 TCTTCATCTGACATACGATCTTTG
260 TCTTCATCTAACAAACGATATTCG
* *
343724 GTATTTCTAGATAATTTGTTGATATGAATGATAATCATGTGTGATCTCTCAGATTGACTAGGATC
1 GTATTTCTAGATAATTTGTTGATATGAATGGTGATCATGTGTGATCTCTCAGATTGACTAGGATC
* * * *
343789 CATTTGTTCTAAAGTAACCCCTTATGCATCTGACATTGCAAGATTGTGTTTATCGAGCTCTTTCT
66 CACTTGTTCTAAAGTAATCCCTTATGCATATGACATTGCAGGATTGTGTTTATCGAGCTCTTTCT
* *
343854 CTTCTTGTGCAGAAGTATCTTTTCCTTTGGCCAAAGCAGATATTTTATCCATCATTTTAGACATT
131 CTTCTTGTGCAGAAGTATCTTTTCCTTTGGCCAAAACAGATATTTTATCCATCATTTTGGACATT
* *
343919 TTCCCTCTCATATCTCTTATTTCCTTTTGCTTTTCATCTGACATACGATCTTTGGGTGCATAGCT
196 TTCCCTCTCATATCTCTTATCTCCTTTTGCTCTTCATCTGACATACGATCTTTGGGTGCATAGCT
* *
343984 CTTCATTTAACAAATGATATTCG
261 CTTCATCTAACAAACGATATTCG
* *
344007 GTATTTCTAGATAATTTGTTGATATGAATGGTGATCGTGTGTGATCTCTCAGATTGAATAGGATC
1 GTATTTCTAGATAATTTGTTGATATGAATGGTGATCATGTGTGATCTCTCAGATTGACTAGGATC
*
344072 CACTTGTTCTAAAGTAATCCCTTATGCATATGACATTACAGGATTGTGTTTATCGAGCTCTTTCT
66 CACTTGTTCTAAAGTAATCCCTTATGCATATGACATTGCAGGATTGTGTTTATCGAGCTCTTTCT
* *
344137 CTTCTTGTGTAAAAGTATCTTTTCCTTTGGCCAAAACAGATATTTTATCCATCATTTTGGACA-T
131 CTTCTTGTGCAGAAGTATCTTTTCCTTTGGCCAAAACAGATATTTTATCCATCATTTTGGACATT
*
344201 TTGCCTCTCATATCTCTTATCTCCTTTTGCTCTTCATCTGACATACGATCTTTGGGTGCATAGCT
196 TTCCCTCTCATATCTCTTATCTCCTTTTGCTCTTCATCTGACATACGATCTTTGGGTGCATAGCT
344266 CT
261 CT
344268 CCATAATTTT
Statistics
Matches: 496, Mismatches: 46, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
282 246 0.50
283 250 0.50
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (283 bp):
GTATTTCTAGATAATTTGTTGATATGAATGGTGATCATGTGTGATCTCTCAGATTGACTAGGATC
CACTTGTTCTAAAGTAATCCCTTATGCATATGACATTGCAGGATTGTGTTTATCGAGCTCTTTCT
CTTCTTGTGCAGAAGTATCTTTTCCTTTGGCCAAAACAGATATTTTATCCATCATTTTGGACATT
TTCCCTCTCATATCTCTTATCTCCTTTTGCTCTTCATCTGACATACGATCTTTGGGTGCATAGCT
CTTCATCTAACAAACGATATTCG
Found at i:348941 original size:44 final size:46
Alignment explanation
Indices: 348891--349000 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 46
348881 GTAACCATGC
* *
348891 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTACAGAATTAAATGGCAAGTATATTGGAA
* * * *
348935 AAATAAGCTTACGAGCTTATAGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTACAGAA-TTAAATGGCAAGTATATTGGAA
348982 AAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTA
349001 TGGGATAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 21 0.37
46 1 0.02
47 35 0.61
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTACAGAATTAAATGGCAAGTATATTGGAA
Found at i:349691 original size:15 final size:15
Alignment explanation
Indices: 349671--349700 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
349661 GGATAACATC
349671 TATAATCTGTATAGG
1 TATAATCTGTATAGG
*
349686 TATAATCTGTCTAGG
1 TATAATCTGTATAGG
349701 ACTAAACCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (15 bp):
TATAATCTGTATAGG
Found at i:355852 original size:44 final size:46
Alignment explanation
Indices: 355802--355911 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 46
355792 GTAACCATGC
* *
355802 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTACAGAATTAAATGGCAAGTATATTGGAA
* * * *
355846 AAATAAGCTTACGAGCTTATAGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTACAGAA-TTAAATGGCAAGTATATTGGAA
355893 AAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTA
355912 TGGGATAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 21 0.37
46 1 0.02
47 35 0.61
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTACAGAATTAAATGGCAAGTATATTGGAA
Found at i:357114 original size:3 final size:3
Alignment explanation
Indices: 357108--357140 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
357098 ATTTATTATT
*
357108 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
357141 CAGTAGGGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:358959 original size:21 final size:21
Alignment explanation
Indices: 358926--358996 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
358916 TTAGTACTAA
*
358926 TATTACCATTACTTGTATTAC
1 TATTACCAGTACTTGTATTAC
* * * *
358947 TATTTCCAGTACTGGTACTGC
1 TATTACCAGTACTTGTATTAC
* * *
358968 TATTACTAGAACTTGTGTTAC
1 TATTACCAGTACTTGTATTAC
358989 TATTACCA
1 TATTACCA
358997 ATATCGGTAC
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (21 bp):
TATTACCAGTACTTGTATTAC
Found at i:358965 original size:42 final size:42
Alignment explanation
Indices: 358905--358992 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 42
358895 TCGATATTGT
* * **
358905 TATTTCTAGTATTAGTACTAATATTACCATTACTTGTATTAC
1 TATTTCCAGTACTAGTACTAATATTACCAGAACTTGTATTAC
* ** * *
358947 TATTTCCAGTACTGGTACTGCTATTACTAGAACTTGTGTTAC
1 TATTTCCAGTACTAGTACTAATATTACCAGAACTTGTATTAC
358989 TATT
1 TATT
358993 ACCAATATCG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.45
Consensus pattern (42 bp):
TATTTCCAGTACTAGTACTAATATTACCAGAACTTGTATTAC
Found at i:359006 original size:42 final size:42
Alignment explanation
Indices: 358936--359018 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
358926 TATTACCATT
* * * *
358936 ACTTGTATTACTATTTCCAGTACTGGTACTGCTATTACTAGA
1 ACTTGTATTACTATTACCAATACTGGTACTACAATTACTAGA
*
358978 ACTTGTGTTACTATTACCAATA-TCGGTACTACAATTACTAG
1 ACTTGTATTACTATTACCAATACT-GGTACTACAATTACTAG
359019 TATCGATCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (42 bp):
ACTTGTATTACTATTACCAATACTGGTACTACAATTACTAGA
Found at i:359465 original size:12 final size:12
Alignment explanation
Indices: 359448--359494 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
359438 TGCACTTGGA
359448 GAAGAAGAGAAG
1 GAAGAAGAGAAG
359460 GAAGAAGAGAAG
1 GAAGAAGAGAAG
*
359472 GAAGAAGTGAAG
1 GAAGAAGAGAAG
359484 GAAGAAGAGAA
1 GAAGAAGAGAA
359495 ATGAGAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.02
Consensus pattern (12 bp):
GAAGAAGAGAAG
Found at i:359531 original size:15 final size:14
Alignment explanation
Indices: 359446--359532 Score: 55
Period size: 12 Copynumber: 6.4 Consensus size: 14
359436 ATTGCACTTG
359446 GAGAAGAAGA-GAA
1 GAGAAGAAGATGAA
359459 G-GAAGAAGA-GAA
1 GAGAAGAAGATGAA
359471 G-GAAGAAG-TGAA
1 GAGAAGAAGATGAA
359483 G-GAAGAAGA-GAAA
1 GAGAAGAAGATG-AA
*
359496 TGAGAATAAAGAAAATGAA
1 -GAG----AAGAAGATGAA
359515 GAGAAGAAGATGAA
1 GAGAAGAAGATGAA
359529 -AGAA
1 GAGAA
359533 TATATAAAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
12 31 0.50
13 7 0.11
14 11 0.18
15 1 0.02
18 3 0.05
19 8 0.13
20 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.34, T:0.06
Consensus pattern (14 bp):
GAGAAGAAGATGAA
Found at i:360253 original size:13 final size:13
Alignment explanation
Indices: 360235--360261 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
360225 CATGGTTGAA
360235 CAGTCTTCATATG
1 CAGTCTTCATATG
360248 CAGTCTTCATATG
1 CAGTCTTCATATG
360261 C
1 C
360262 GAATCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:364108 original size:29 final size:28
Alignment explanation
Indices: 364050--364108 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
364040 TATATGATAA
**
364050 AATTTAATCATTAATTAGATTAAATTTT
1 AATTTAATCATTAATTAGATTAAAACTT
364078 AATTTAATCTATTAATTCA-ATTAAAACTT
1 AATTTAATC-ATTAATT-AGATTAAAACTT
364107 AA
1 AA
364109 CAATGAAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 9 0.33
29 17 0.63
30 1 0.04
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (28 bp):
AATTTAATCATTAATTAGATTAAAACTT
Found at i:364746 original size:36 final size:36
Alignment explanation
Indices: 364678--364977 Score: 264
Period size: 35 Copynumber: 8.3 Consensus size: 36
364668 ATATATATAT
* *
364678 ATATATATAATATAGTTTTTTCAAA-GGGTTTGAAAGA-
1 ATATA-AT-ATATAGTTTTTTAAAATGGTTTTGAAA-AC
* *
364715 ATATAATATATAGTTTTTTCAAAGGGTTTTGAAAGA-
1 ATATAATATATAGTTTTTTAAAATGGTTTTGAAA-AC
*
364751 ATATAATATATAGTTTTTTAAAATAGTTTTGAAAAC
1 ATATAATATATAGTTTTTTAAAATGGTTTTGAAAAC
364787 ATATAATATATAG-TTTTTAAAATGGTTTTGAAAAC
1 ATATAATATATAGTTTTTTAAAATGGTTTTGAAAAC
* *
364822 ATGT-ATAATATAG-TTTTTAAAACGG-TTTGAAAAC
1 ATATAAT-ATATAGTTTTTTAAAATGGTTTTGAAAAC
* * *
364856 GTATAATATATAGTTTTTAAAAAATGATTTTGAAAAC
1 ATATAATATATAGTTTTT-TAAAATGGTTTTGAAAAC
* **
364893 ATATAGTATATAG---TTTAAAACT--ACTTGAAAAC
1 ATATAATATATAGTTTTTTAAAA-TGGTTTTGAAAAC
* * *
364925 GTATAATATATAGTTTTTTACAAAACGATGTTTGAAAAC
1 ATATAATATATAGTTTTTT--AAAATGGT-TTTGAAAAC
364964 ATATATAATATATA
1 --ATATAATATATA
364978 ATATTTTTTA
Statistics
Matches: 222, Mismatches: 23, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
32 19 0.09
33 4 0.02
34 22 0.10
35 67 0.30
36 62 0.28
37 29 0.13
39 8 0.04
41 11 0.05
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.40
Consensus pattern (36 bp):
ATATAATATATAGTTTTTTAAAATGGTTTTGAAAAC
Found at i:364875 original size:69 final size:72
Alignment explanation
Indices: 364680--364975 Score: 308
Period size: 71 Copynumber: 4.2 Consensus size: 72
364670 ATATATATAT
* * * * *
364680 ATATATAATATAGTTTTTTCAAAGGGTTTGAAAGA-ATATAATATATAGTTTTTT-CAAAGGGTT
1 ATATATAATATAGTTTTTTAAAACGGTTTGAAA-ACATATAATATATAGTTTTTTAAAAATGATT
364743 TTGAAAGA-
65 TTGAAA-AC
* * *
364751 ATATA-ATATATAGTTTTTTAAAATAGTTTTGAAAACATATAATATATAG-TTTTT-AAAATGGT
1 ATATATA-ATATAGTTTTTTAAAA-CGGTTTGAAAACATATAATATATAGTTTTTTAAAAATGAT
364813 TTTGAAAAC
64 TTTGAAAAC
* * *
364822 ATGTATAATATAG-TTTTTAAAACGGTTTGAAAACGTATAATATATAGTTTTTAAAAAATGATTT
1 ATATATAATATAGTTTTTTAAAACGGTTTGAAAACATATAATATATAGTTTTTTAAAAATGATTT
364886 TGAAAAC
66 TGAAAAC
*** * *
364893 ATATAGT-ATATAG---TTTAAAACTACTTGAAAACGTATAATATATAGTTTTTTACAAAACGAT
1 ATATA-TAATATAGTTTTTTAAAACGGTTTGAAAACATATAATATATAGTTTTTTA-AAAATGAT
364954 GTTTGAAAAC
64 -TTTGAAAAC
364964 ATATATAATATA
1 ATATATAATATA
364976 TAATATTTTT
Statistics
Matches: 197, Mismatches: 17, Indels: 22
0.83 0.07 0.09
Matches are distributed among these distances:
69 57 0.29
70 23 0.12
71 94 0.48
72 23 0.12
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.40
Consensus pattern (72 bp):
ATATATAATATAGTTTTTTAAAACGGTTTGAAAACATATAATATATAGTTTTTTAAAAATGATTT
TGAAAAC
Found at i:365002 original size:2 final size:2
Alignment explanation
Indices: 364992--365095 Score: 89
Period size: 2 Copynumber: 54.0 Consensus size: 2
364982 TTTTTAAAAC
*
364992 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
365032 AT -T AT AT AGT AT AT -T GT AT AT AT AGT AT -T AT AT -T AT GAT
1 AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT -AT
*
365071 AT AGT AT AT AT AT -T AT TT AT -T AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT
365096 TTTTATTTAA
Statistics
Matches: 85, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
1 8 0.09
2 69 0.81
3 8 0.09
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (2 bp):
AT
Found at i:365038 original size:34 final size:33
Alignment explanation
Indices: 364999--365096 Score: 105
Period size: 36 Copynumber: 2.9 Consensus size: 33
364989 AACATATAAT
364999 ATATATATATATATATATATATATTATATGTAT-
1 ATATATATATATATATATATATATTATAT-TATG
*
365032 ATTATATAGTATATTGTATATATAGTATTATATTATG
1 A-TATATA-TATA-TATATATATA-TATTATATTATG
365069 ATATAGTATATATAT-TAT-T-TATTATATT
1 ATATA-TATATATATATATATATATTATATT
365097 TTTATTTAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
31 9 0.16
33 2 0.04
34 9 0.16
35 6 0.11
36 20 0.35
37 11 0.19
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (33 bp):
ATATATATATATATATATATATATTATATTATG
Found at i:365083 original size:50 final size:51
Alignment explanation
Indices: 364997--365096 Score: 125
Period size: 52 Copynumber: 2.0 Consensus size: 51
364987 AAAACATATA
*
364997 ATATATATATATATATATATATATATTATATGTATATTATATAGTATATTGT
1 ATATATATATATATATATATATATAGTATA-GTATATTATATAGTATATTGT
* *
365049 ATATATAGTAT-TATAT-TATGATATAGTATA-TATATTATTTATTATATT
1 ATATATA-TATATATATATAT-ATATAGTATAGTATATTATATAGTATATT
365097 TTTATTTAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
50 16 0.37
51 3 0.07
52 21 0.49
53 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (51 bp):
ATATATATATATATATATATATATAGTATAGTATATTATATAGTATATTGT
Found at i:367120 original size:3 final size:3
Alignment explanation
Indices: 367112--367150 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
367102 TTTTATTTTC
367112 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
367151 TTACTAACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:378701 original size:37 final size:36
Alignment explanation
Indices: 378578--378942 Score: 243
Period size: 37 Copynumber: 10.1 Consensus size: 36
378568 GCATAATATG
* * *
378578 TAAATATAGTTTTTGAGAATATATAATATATAGATTTT
1 TAAA-ATAG-TTTTGAAAACATATAATATATAGTTTTT
* **
378616 GAAAAT-GTTTTTTAAACATATATATAATATAGTTTTT
1 TAAAATAGTTTTGAAAACATATA-AT-ATATAGTTTTT
* **
378653 TCAAAGGGTTTT-AAAAGCATATAATATATAGTTTTTT
1 TAAAATAGTTTTGAAAA-CATATAATATATAG-TTTTT
378690 TAAAATAGTTTTGAAAACATATAATATATA-TTTTT
1 TAAAATAGTTTTGAAAACATATAATATATAGTTTTT
* * *
378725 TAAAACAGTTTTGAAAACTTGT-ATAATATAG-TTTT
1 TAAAATAGTTTTGAAAACATATAAT-ATATAGTTTTT
* * * *
378760 TAAAA-CGGTTTG-AAACGTACAATATATAG-TTTT
1 TAAAATAGTTTTGAAAACATATAATATATAGTTTTT
* * *
378793 TAAAAAATGACTTTGAAAACATATAGTATATAG---TT
1 TAAAATA-G-TTTTGAAAACATATAATATATAGTTTTT
* * * *
378828 TAAAA-AGATTTGAAAACATAAAATATATTGATTTT
1 TAAAATAGTTTTGAAAACATATAATATATAGTTTTT
* * * *
378863 AAAAAAATGATTTTGAAAACATATAGTATGTAG-TTTT
1 TAAAATA-G-TTTTGAAAACATATAATATATAGTTTTT
** *
378900 TAAAACGGTTTTTGGAAAACATATGATATATAGTTTTT
1 TAAAATAG-TTTT-GAAAACATATAATATATAGTTTTT
*
378938 GAAAA
1 TAAAA
378943 AAATGGTTTT
Statistics
Matches: 262, Mismatches: 44, Indels: 42
0.75 0.13 0.12
Matches are distributed among these distances:
32 19 0.07
33 21 0.08
34 10 0.04
35 63 0.24
36 19 0.07
37 86 0.33
38 44 0.17
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (36 bp):
TAAAATAGTTTTGAAAACATATAATATATAGTTTTT
Found at i:378717 original size:35 final size:35
Alignment explanation
Indices: 378637--378964 Score: 144
Period size: 35 Copynumber: 9.1 Consensus size: 35
378627 TTAAACATAT
* **
378637 ATATAATATAG-TTTTTTCAAAGGGTTTT-AAAAGC
1 ATATAATATAGTTTTTTTAAAATAGTTTTGAAAA-C
378671 ATATAATATATAGTTTTTTTAAAATAGTTTTGAAAAC
1 ATAT-A-ATATAGTTTTTTTAAAATAGTTTTGAAAAC
*
378708 ATATAATATA-TATTTTTTAAAACAGTTTTGAAAAC
1 ATATAATATAGT-TTTTTTAAAATAGTTTTGAAAAC
* * *
378743 TTGTATAATATAG--TTTTTAAAA-CGGTTTGAAACGTAC
1 --ATATAATATAGTTTTTTTAAAATAGTTTTGAAA---AC
** *
378780 A-AT-ATATAGTTTTTAAAAAAT-GACTTTGAAAAC
1 ATATAATATAGTTTTTTTAAAATAG-TTTTGAAAAC
* ** *
378813 ATATAGTATA--TAGTTTAAAA-AGATTTGAAAAC
1 ATATAATATAGTTTTTTTAAAATAGTTTTGAAAAC
* * *
378845 ATAAAATATA-TTGATTTTAAAAAAATGATTTTGAAAAC
1 ATATAATATAGTT--TTTTTAAAATA-G-TTTTGAAAAC
* * **
378883 ATATAGTAT-GTAGTTTTTAAAACGGTTTTTGGAAAAC
1 ATATAATATAGT-TTTTTTAAAATAG-TTTT-GAAAAC
** *
378920 ATATGATATATAGTTTTTGAAAAAAATGGTTTTTGAAAAC
1 ATAT-A-ATATAGTTTTT--TTAAAATAG-TTTTGAAAAC
378960 ATATA
1 ATATA
378965 TAATATATAA
Statistics
Matches: 227, Mismatches: 35, Indels: 59
0.71 0.11 0.18
Matches are distributed among these distances:
32 17 0.07
33 17 0.07
34 17 0.07
35 55 0.24
36 20 0.09
37 49 0.22
38 22 0.10
39 7 0.03
40 12 0.05
41 11 0.05
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (35 bp):
ATATAATATAGTTTTTTTAAAATAGTTTTGAAAAC
Found at i:378808 original size:70 final size:71
Alignment explanation
Indices: 378661--378964 Score: 280
Period size: 70 Copynumber: 4.2 Consensus size: 71
378651 TTTCAAAGGG
* * * * *
378661 TTTT-AAAAGCATATAATATATAGTTTTTTTAAAATAGTTTTGAAAACATATAATATATATTTTT
1 TTTTGAAAA-CATATAGTATATAG--TTTTTAAAA-CGGTTTGAAAACATAAAATATATAGTTTT
*
378725 TAAAACA-G-
62 TAAAAAATGA
* * * *
378733 TTTTGAAAACTTGTA-TAATATAGTTTTTAAAACGGTTTG-AAACGTACAATATATAGTTTTTAA
1 TTTTGAAAACATATAGT-ATATAGTTTTTAAAACGGTTTGAAAACATAAAATATATAGTTTTTAA
378796 AAAATGA
65 AAAATGA
* * * * *
378803 CTTTGAAAACATATAGTATATAG--TTTAAAAAGATTTGAAAACATAAAATATATTGATTTTAAA
1 TTTTGAAAACATATAGTATATAGTTTTTAAAACGGTTTGAAAACATAAAATATATAG-TTTTTAA
378866 AAAATGA
65 AAAATGA
* **
378873 TTTTGAAAACATATAGTATGTAGTTTTTAAAACGGTTTTTGGAAAACATATGATATATAGTTTTT
1 TTTTGAAAACATATAGTATATAGTTTTTAAAACGG--TTT-GAAAACATAAAATATATAGTTTTT
*
378938 GAAAAAAATGGT
63 --AAAAAAT-GA
378950 TTTTGAAAACATATA
1 TTTTGAAAACATATA
378965 TAATATATAA
Statistics
Matches: 191, Mismatches: 26, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
68 36 0.19
69 20 0.10
70 61 0.32
71 2 0.01
72 22 0.12
73 4 0.02
74 7 0.04
75 16 0.08
76 7 0.04
77 16 0.08
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (71 bp):
TTTTGAAAACATATAGTATATAGTTTTTAAAACGGTTTGAAAACATAAAATATATAGTTTTTAAA
AAATGA
Found at i:378808 original size:105 final size:105
Alignment explanation
Indices: 378638--378844 Score: 251
Period size: 105 Copynumber: 2.0 Consensus size: 105
378628 TAAACATATA
* * * ** *
378638 TATAATATAGTTTTTTCAAAGGGTTTTAAAAGCATATAATATATAGTTTTTTTAAAATAGTTTTG
1 TATAATATAGTTTTTTAAAACGGTTTTAAAAGCATACAATATATAGTTTTTAAAAAATAGCTTTG
* *
378703 AAAACATATAATATATATTTTTTAAAACAGTTTTGAAAACTTG
66 AAAACATATAATATATA--GTTTAAAA-AGATTTGAAAACTTG
* *
378746 TATAATATAG-TTTTTAAAACGG-TTTGAAA-CGTACAATATATAGTTTTTAAAAAAT-GACTTT
1 TATAATATAGTTTTTTAAAACGGTTTTAAAAGCATACAATATATAGTTTTTAAAAAATAG-CTTT
*
378807 GAAAACATATAGTATATAGTTTAAAAAGATTTGAAAAC
65 GAAAACATATAATATATAGTTTAAAAAGATTTGAAAAC
378845 ATAAAATATA
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
102 11 0.13
103 7 0.08
104 1 0.01
105 42 0.48
106 6 0.07
107 10 0.11
108 10 0.11
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (105 bp):
TATAATATAGTTTTTTAAAACGGTTTTAAAAGCATACAATATATAGTTTTTAAAAAATAGCTTTG
AAAACATATAATATATAGTTTAAAAAGATTTGAAAACTTG
Found at i:378966 original size:37 final size:37
Alignment explanation
Indices: 378780--378966 Score: 114
Period size: 37 Copynumber: 5.2 Consensus size: 37
378770 TGAAACGTAC
**
378780 AATATATAGTTTTT-AAAAAAT-GACTTTGAAAACAT
1 AATATATAGTTTTTAAAAAAATGGTTTTTGAAAACAT
*
378815 ATAGTATATAG--TTT--AAAAA--G-ATTTGAAAACAT
1 A-A-TATATAGTTTTTAAAAAAATGGTTTTTGAAAACAT
* * *
378847 AAAATATATTGATTTTAAAAAAAT-GATTTTGAAAACAT
1 --AATATATAGTTTTTAAAAAAATGGTTTTTGAAAACAT
* *
378885 ATAGTATGTAGTTTTT---AAAACGGTTTTTGGAAAACAT
1 A-A-TATATAGTTTTTAAAAAAATGGTTTTT-GAAAACAT
378922 ATGATATATAGTTTTTGAAAAAAATGGTTTTTGAAAACAT
1 A--ATATATAGTTTTT-AAAAAAATGGTTTTTGAAAACAT
378962 -ATATA
1 AATATA
378967 ATATATAATG
Statistics
Matches: 122, Mismatches: 11, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
32 17 0.14
33 2 0.02
34 9 0.07
35 8 0.07
36 12 0.10
37 34 0.28
38 21 0.17
40 8 0.07
41 11 0.09
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (37 bp):
AATATATAGTTTTTAAAAAAATGGTTTTTGAAAACAT
Found at i:378985 original size:28 final size:30
Alignment explanation
Indices: 378948--379003 Score: 98
Period size: 28 Copynumber: 1.9 Consensus size: 30
378938 GAAAAAAATG
378948 GTTTTTGAAAACATAT-ATA-ATATATAAT
1 GTTTTTGAAAACATATAATATATATATAAT
378976 GTTTTTGAAAACATATAATATATATATA
1 GTTTTTGAAAACATATAATATATATATA
379004 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 16 0.62
29 3 0.12
30 7 0.27
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (30 bp):
GTTTTTGAAAACATATAATATATATATAAT
Found at i:378998 original size:26 final size:27
Alignment explanation
Indices: 378948--378999 Score: 88
Period size: 26 Copynumber: 1.9 Consensus size: 27
378938 GAAAAAAATG
378948 GTTTTTGAAAACATATATAATATATAAT
1 GTTTTTGAAAACA-ATATAATATATAAT
378976 GTTTTTGAAAAC-ATATAATATATA
1 GTTTTTGAAAACAATATAATATATA
379000 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 12 0.50
28 12 0.50
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (27 bp):
GTTTTTGAAAACAATATAATATATAAT
Found at i:379000 original size:2 final size:2
Alignment explanation
Indices: 378988--379053 Score: 77
Period size: 2 Copynumber: 34.5 Consensus size: 2
378978 TTTTGAAAAC
378988 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
379028 GT AA AT -T AT AT -T AT AT AT AT AGT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT A
379054 GTAAATAGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
1 4 0.07
2 49 0.89
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:379093 original size:25 final size:24
Alignment explanation
Indices: 378993--379096 Score: 76
Period size: 25 Copynumber: 4.3 Consensus size: 24
378983 AAAACATATA
*
378993 ATATATATA-TATA-TATATA--T
1 ATATATATAGTATAGTAAATAGTT
* *
379013 ATATATATATTATATGTAAATTATATT
1 ATATATATAGTATA-GTAAA-TA-GTT
379040 ATATATATAGTATAGTAAATAG-T
1 ATATATATAGTATAGTAAATAGTT
*
379063 ATTATACTATGGTATAGTATAAT-GTT
1 A-TATA-TATAGTATAGTA-AATAGTT
379089 ATATATAT
1 ATATATAT
379097 TATTTATTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
20 9 0.13
21 4 0.06
23 5 0.07
24 9 0.13
25 18 0.26
26 10 0.14
27 14 0.20
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (24 bp):
ATATATATAGTATAGTAAATAGTT
Found at i:381251 original size:2 final size:2
Alignment explanation
Indices: 381244--381279 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
381234 TGAGGTAAGA
381244 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
381280 TTAAATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:381477 original size:119 final size:118
Alignment explanation
Indices: 381272--381584 Score: 406
Period size: 119 Copynumber: 2.6 Consensus size: 118
381262 ATATATATAT
381272 ATATATATTT-AAATATTTAAATTCTTAACTAT-AAAA-ATATATA-TTTA-TTTTTTAATTTAT
1 ATATATATTTAAAATATTTAAATTCTTAACTATAAAAATATATATATTTTATTTTTTTAATTTAT
* ** *
381332 CGAATATATATATTTTGGTTTAAAGTAGGCCAAGTTTATTATTTAAGTTAAGA
66 CGAATATATATATTTTGGTTTAAAGTACGCCAAGTTTACCATTTAAGTTAAAA
381385 ATATATATTTAAAATA-TTAAATTCTTAACTATAAAAATATATATATTATTATTTTTATTAATTT
1 ATATATATTTAAAATATTTAAATTCTTAACTATAAAAATATATATATT-TTATTTTT-TTAATTT
*
381449 ATCGAATATATATATTTTGGTTTAAAGTACGCCAAGTTTACCATTTAATTTAAAA
64 ATCGAATATATATATTTTGGTTTAAAGTACGCCAAGTTTACCATTTAAGTTAAAA
* * *
381504 ATATATTTTTAAAATATATTTTTAAATT-TGTAACTATAAAAATATTTATTTTTTATTTTTTTCT
1 ATATATATTT-AAA-ATA--TTTAAATTCT-TAACTATAAAAATATATATATTTTA--TTTTT-T
*
381568 TAATTTATTGAATATAT
58 TAATTTATCGAATATAT
381585 TGTAGACATC
Statistics
Matches: 175, Mismatches: 10, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
113 26 0.15
114 9 0.05
115 7 0.04
116 1 0.01
117 3 0.02
118 4 0.02
119 66 0.38
120 3 0.02
121 3 0.02
123 4 0.02
124 27 0.15
125 22 0.13
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (118 bp):
ATATATATTTAAAATATTTAAATTCTTAACTATAAAAATATATATATTTTATTTTTTTAATTTAT
CGAATATATATATTTTGGTTTAAAGTACGCCAAGTTTACCATTTAAGTTAAAA
Found at i:381519 original size:13 final size:13
Alignment explanation
Indices: 381501--381529 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
381491 ATTTAATTTA
381501 AAAATATATTTTT
1 AAAATATATTTTT
381514 AAAATATATTTTT
1 AAAATATATTTTT
381527 AAA
1 AAA
381530 TTTGTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATATATTTTT
Found at i:381623 original size:3 final size:3
Alignment explanation
Indices: 381609--381686 Score: 54
Period size: 3 Copynumber: 26.0 Consensus size: 3
381599 TTTCTCCATT
* *
381609 TTA TTCA TTA TTA TTA TTTA TTA TTA TT- CTA TCA TTA TTA TTA TT-
1 TTA TT-A TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
381654 TTAA TTA -TA ATA ATA ATA ATA TTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
381687 CAGGCCATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
2 5 0.08
3 51 0.80
4 8 0.12
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:381822 original size:15 final size:15
Alignment explanation
Indices: 381802--381833 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
381792 ATTAACCATC
*
381802 CACTATTGGATCTGG
1 CACTATTGGATATGG
381817 CACTATTGGATATGG
1 CACTATTGGATATGG
381832 CA
1 CA
381834 AGATCCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (15 bp):
CACTATTGGATATGG
Found at i:384783 original size:36 final size:36
Alignment explanation
Indices: 384736--384838 Score: 143
Period size: 36 Copynumber: 2.9 Consensus size: 36
384726 GAGCTATGCA
* *
384736 CACAAAGATCCTGTTATATTAATACCAAAAGTATTC
1 CACAAAGATCCTGTTAAATTGATACCAAAAGTATTC
*
384772 CACAAAGATCCTGTTAGATTGATACCAAAAGTATTC
1 CACAAAGATCCTGTTAAATTGATACCAAAAGTATTC
* * * *
384808 CACCAATATCCTATTAAATTGGTACCAAAAG
1 CACAAAGATCCTGTTAAATTGATACCAAAAG
384839 CAGTTTATGG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (36 bp):
CACAAAGATCCTGTTAAATTGATACCAAAAGTATTC
Found at i:385372 original size:43 final size:43
Alignment explanation
Indices: 385308--385393 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
385298 TGTCTTTAGA
* * *
385308 GAAGTTAAGAGTGAAAGTTATCCCTTATATGTAAAGTTTTGTT
1 GAAGTTAAGAGTGAAAATTATCCCCTATAAGTAAAGTTTTGTT
*
385351 GAAGTTAGGAGTGAAAATTATCCCCTATAAGTAAAGTTTTGTT
1 GAAGTTAAGAGTGAAAATTATCCCCTATAAGTAAAGTTTTGTT
385394 TGATGTACCG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (43 bp):
GAAGTTAAGAGTGAAAATTATCCCCTATAAGTAAAGTTTTGTT
Found at i:385574 original size:31 final size:31
Alignment explanation
Indices: 385538--385596 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
385528 ATATTCATAT
* *
385538 ATTTGCATCTGCATTCGCATGTTTGCATTAC
1 ATTTGCATCTACATTCGCATCTTTGCATTAC
* *
385569 ATTTGCATTTACATTTGCATCTTTGCAT
1 ATTTGCATCTACATTCGCATCTTTGCAT
385597 AATTACATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (31 bp):
ATTTGCATCTACATTCGCATCTTTGCATTAC
Found at i:385582 original size:12 final size:12
Alignment explanation
Indices: 385559--385588 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
385549 CATTCGCATG
385559 TTTGCA-TTACA
1 TTTGCATTTACA
385570 TTTGCATTTACA
1 TTTGCATTTACA
385582 TTTGCAT
1 TTTGCAT
385589 CTTTGCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (12 bp):
TTTGCATTTACA
Found at i:387483 original size:10 final size:10
Alignment explanation
Indices: 387468--387517 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
387458 ATTCATCATA
387468 AGAAAAAAAG
1 AGAAAAAAAG
387478 AGAAAAAAAG
1 AGAAAAAAAG
*
387488 GGAAAAAAAG
1 AGAAAAAAAG
*
387498 ATGAAAAAGAAA
1 A-GAAAAA-AAG
387510 AGAAAAAA
1 AGAAAAAA
387518 TTGAATCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 20 0.57
11 12 0.34
12 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:392055 original size:73 final size:73
Alignment explanation
Indices: 391927--392114 Score: 322
Period size: 73 Copynumber: 2.6 Consensus size: 73
391917 TTATGTTTTC
* * * * *
391927 AAATAGCAATTTATCTCACTTAAGATTGTTTTTCTTAAAACAAACTGTTTATCGCTGGAGAAAGT
1 AAATAACAATTTATCTCACTTGAGATTATTTTTCTTAAAACAAACCGTTTATCGCTAGAGAAAGT
391992 TTCACTTG
66 TTCACTTG
*
392000 AAATAACAATTTATCTCACTTGAGATTATTTTTCTTAAAACAAACCGTTTCTCGCTAGAGAAAGT
1 AAATAACAATTTATCTCACTTGAGATTATTTTTCTTAAAACAAACCGTTTATCGCTAGAGAAAGT
392065 TTCACTTG
66 TTCACTTG
392073 AAATAACAATTTATCTCACTTGAGATTATTTTTCTTAAAACA
1 AAATAACAATTTATCTCACTTGAGATTATTTTTCTTAAAACA
392115 TTTCCAGATA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 109 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (73 bp):
AAATAACAATTTATCTCACTTGAGATTATTTTTCTTAAAACAAACCGTTTATCGCTAGAGAAAGT
TTCACTTG
Found at i:392412 original size:121 final size:123
Alignment explanation
Indices: 392111--392439 Score: 554
Period size: 121 Copynumber: 2.7 Consensus size: 123
392101 TTTTTCTTAA
392111 AACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
1 AACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
*
392176 AGAAGAACTTGTTCAACCTTTTGCTCAATTCTATCACAGAAGGAGATAGACCAACATC
66 AGAAGAACTTGTTCAACCTTTTGCTCAATTCTATCACAGAAGGAGATAGACCAACACC
* *
392234 AACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTTATAATG
1 AACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
** * *
392299 AGAAGAACTTGTTCAA-CTTTTGCTTGATTCTATCACAGAATGAGATAGATC-ACACC
66 AGAAGAACTTGTTCAACCTTTTGCTCAATTCTATCACAGAAGGAGATAGACCAACACC
*
392355 AACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
1 AACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
* *
392420 AGAAGAATTTGTTCGACCTT
66 AGAAGAACTTGTTCAACCTT
392440 AGATTGATTC
Statistics
Matches: 193, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
121 80 0.41
122 34 0.18
123 79 0.41
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (123 bp):
AACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTTTGCTCAATTCTATCACAGAAGGAGATAGACCAACACC
Found at i:392688 original size:137 final size:139
Alignment explanation
Indices: 392354--392715 Score: 482
Period size: 139 Copynumber: 2.6 Consensus size: 139
392344 TAGATCACAC
*
392354 CAACATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
1 CAACATTTCCAGAAT-GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * * * * * *
392418 TGAGAAGAATTTGTTCGACCTTAGATTGATTCATCACCTATGGAGTTGAATGAAAGAAGAACCTC
65 TGAGAAGAACTTGTTCAACCTTAGATTAATTCATCACATATGAAGTTGAATCAAAGAAGAACCAC
*
392483 TCTTGAGGAT
130 TCTTGAGAAT
* * * * *
392493 CAACATTTTCAGAGA-AAGCTCATAATGAGAAGAACTCATCTGAAGAGGATGAAGAAGTTTATAA
1 CAACATTTCCAGA-ATGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
392557 TGAGAAGAACTTGTTCAACCTT-GCCTTAATTCATCACATATGAAGTTGAATCAACG-A-CACCA
65 TGAGAAGAACTTGTTCAACCTTAG-ATTAATTCATCACATATGAAGTTGAATCAAAGAAGAACCA
*
392619 CTTTTGAGAAT
129 CTCTTGAGAAT
* *
392630 CAACATTTCCAGAATGAGTTCATAAAGAGAAGAACTCATCTGAAGATGAAGAAGAAGTTCATAAT
1 CAACATTTCCAGAATGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
392695 GAGAAGAACTTGTTCAACCTT
66 GAGAAGAACTTGTTCAACCTT
392716 TAGCTAGATT
Statistics
Matches: 194, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
136 1 0.01
137 89 0.46
138 2 0.01
139 102 0.53
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (139 bp):
CAACATTTCCAGAATGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTAGATTAATTCATCACATATGAAGTTGAATCAAAGAAGAACCACT
CTTGAGAAT
Found at i:392935 original size:3 final size:3
Alignment explanation
Indices: 392927--393015 Score: 67
Period size: 3 Copynumber: 29.3 Consensus size: 3
392917 CATTTTATAC
* *
392927 ATT ATT ATT ATT TTT ATT ATT CCATT ATT ATT ATA ATT ATT -TT AATT
1 ATT ATT ATT ATT ATT ATT ATT --ATT ATT ATT ATT ATT ATT ATT -ATT
* * * *
392974 A-T AAT AAT AAT AAT ATT ATT ATT CA-T ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT A
393016 CAGGCCCAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
2 5 0.07
3 63 0.85
4 3 0.04
5 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:392965 original size:20 final size:20
Alignment explanation
Indices: 392930--392967 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
392920 TTTATACATT
* *
392930 ATTATTATTTTTATTATTCC
1 ATTATTATTATAATTATTCC
392950 ATTATTATTATAATTATT
1 ATTATTATTATAATTATT
392968 TTAATTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTATTATTATAATTATTCC
Found at i:397963 original size:87 final size:88
Alignment explanation
Indices: 397817--397981 Score: 296
Period size: 87 Copynumber: 1.9 Consensus size: 88
397807 GCAGGCAGGC
* *
397817 TTTATTTCTAATGAAGGTATAGAATTTTTCATCTTATTTCTTGCTAAACAAATTAAAGGAACACT
1 TTTATTTCTAATGAAGGTATAGAATTTTTCATCTTAATTCTTGCAAAACAAATTAAAGGAACACT
397882 T-AAATAAGAAACAGATATCAGT
66 TAAAATAAGAAACAGATATCAGT
*
397904 TTTATTTCTAATGGAGGTATAGAATTTTTCATCTTAATTCTTGCAAAACAAATTAAAGGAACACT
1 TTTATTTCTAATGAAGGTATAGAATTTTTCATCTTAATTCTTGCAAAACAAATTAAAGGAACACT
397969 TAAAATAAGAAAC
66 TAAAATAAGAAAC
397982 CCTGCCCCTA
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 63 0.85
88 11 0.15
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (88 bp):
TTTATTTCTAATGAAGGTATAGAATTTTTCATCTTAATTCTTGCAAAACAAATTAAAGGAACACT
TAAAATAAGAAACAGATATCAGT
Found at i:399766 original size:17 final size:16
Alignment explanation
Indices: 399725--399766 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
399715 AAATATTTTT
399725 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
399741 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
399758 TAAAA-AATT
1 TAAAATAATT
399767 GATATGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:401277 original size:17 final size:18
Alignment explanation
Indices: 401255--401289 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
401245 AGCGGTGAGT
401255 TGAT-AACCCTAGGGTTA
1 TGATAAACCCTAGGGTTA
401272 TGATAAAACCCTAGGGTT
1 TGAT-AAACCCTAGGGTT
401290 TCATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (18 bp):
TGATAAACCCTAGGGTTA
Found at i:401951 original size:183 final size:184
Alignment explanation
Indices: 401642--401992 Score: 510
Period size: 183 Copynumber: 1.9 Consensus size: 184
401632 GGGAAATCTG
* ** *
401642 CTCCACTCTTCTTTCAGGGGAGATCAGACTTGATATGTGCCTCTTTTTCGGGTAGTCAGATCAAT
1 CTCCACTCTTCTTTCAGGGGAGATAAGACTCAATATATGCCTCTTTTTCGGGTAGTCAGATCAAT
*
401707 TTTGGAAGACGGGACTACTCCACTATTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGTAAAAC
66 TTTGGAAGACGGAACTACTCCACTATTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGTAAAAC
* *
401772 GGATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCATGGAAAGACGTGTCTT
131 GAATCTGCTCCACTATTCTTTCAGGGAGATAAGATCCATGGAAAGACGTGTCTT
* * * * * *
401826 CTCCACTCTTCTTTCA-GGGATATAAGACTCAATCTATGCCTTTTTTTTGGGTATTCAGATCTAT
1 CTCCACTCTTCTTTCAGGGGAGATAAGACTCAATATATGCCTCTTTTTCGGGTAGTCAGATCAAT
* * * *
401890 TTTGGAAGA-TGAATCTATTCCACTCTT-TTTTCAGGGAGATAAGACTCTAGAAATCTTTGTAAA
66 TTTGGAAGACGGAA-CTACTCCACTATTCTTTT-AGGGAGATAAGACTCGAGAAATCTTTGTAAA
401953 ACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGATCCA
129 ACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGATCCA
401993 AGGGAAAACG
Statistics
Matches: 148, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
182 6 0.04
183 126 0.85
184 16 0.11
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (184 bp):
CTCCACTCTTCTTTCAGGGGAGATAAGACTCAATATATGCCTCTTTTTCGGGTAGTCAGATCAAT
TTTGGAAGACGGAACTACTCCACTATTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGTAAAAC
GAATCTGCTCCACTATTCTTTCAGGGAGATAAGATCCATGGAAAGACGTGTCTT
Found at i:401968 original size:55 final size:54
Alignment explanation
Indices: 401890--402193 Score: 242
Period size: 55 Copynumber: 5.8 Consensus size: 54
401880 TCAGATCTAT
* * ** *
401890 TTTGGAAGATGAATCTATTCCACTCTTTTTTCAGGGAGATAAGACTCTAGAAATC
1 TTTGGAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTC-AGAAATC
* * *
401945 TTTGTAAAACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGA-TC--CAA--
1 TTTGGAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAGAAATC
* * * * * * *
401994 --GGGAAAACGAATATGCTTCATTCTTCTTTTAGAGACATAAGACTCAAGAAATC
1 TTTGGAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTC-AGAAATC
* *
402047 TTTGGAAAAC-ATATCTGCTCCACTCTTCTTTCAAGGAGATAAGA-TC--CAA--
1 TTTGGAAAACGA-ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAGAAATC
* * * *
402096 --GGGAAGACGAATCTGCTCCACTCTTCATTCAGGGGAGATCAGACTCAAGAAATC
1 TTTGGAAAACGAATCTGCTCCACTCTTCTTTCA-GGGAGATAAGACTC-AGAAATC
* * *
402150 TTTGGAAAATGGACCTGCTCCACTCTTCTTTCAGGGAGATAAGA
1 TTTGGAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGA
402194 TAAAAGGGAA
Statistics
Matches: 190, Mismatches: 40, Indels: 38
0.71 0.15 0.14
Matches are distributed among these distances:
47 59 0.31
48 12 0.06
49 2 0.01
51 6 0.03
52 2 0.01
54 5 0.03
55 79 0.42
56 25 0.13
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (54 bp):
TTTGGAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAGAAATC
Found at i:402021 original size:47 final size:47
Alignment explanation
Indices: 401950--402237 Score: 188
Period size: 47 Copynumber: 5.7 Consensus size: 47
401940 AAATCTTTGT
*
401950 AAAACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGATCCAAGGG
1 AAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGG
* * * * * *
401997 AAAACGAATATGCTTCATTCTTCTTTTAGAGACATAAGA-CTCAAGAAATCTTTGG
1 AAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATC-CAAG--------GG
*
402052 AAAAC-ATATCTGCTCCACTCTTCTTTCAAGGAGATAAGATCCAAGGG
1 AAAACGA-ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGG
* * *
402099 AAGACGAATCTGCTCCACTCTTCATTCAGGGGAGATCAGA-CTCAAGAAATCTTTGG
1 AAAACGAATCTGCTCCACTCTTCTTTCA-GGGAGATAAGATC-CAAG--------GG
* * * **
402155 AAAATGGACCTGCTCCACTCTTCTTTCAGGGAGATAAGATAAAAGGG
1 AAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGG
* *
402202 AAGACGAATCTGCTACACTCTT-TATTCAGGGGAGAT
1 AAAACGAATCTGCTCCACTCTTCT-TTCA-GGGAGAT
402238 CAGGCTTGAT
Statistics
Matches: 185, Mismatches: 31, Indels: 49
0.70 0.12 0.18
Matches are distributed among these distances:
46 2 0.01
47 86 0.46
48 21 0.11
54 1 0.01
55 49 0.26
56 26 0.14
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (47 bp):
AAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAGGG
Found at i:402021 original size:183 final size:183
Alignment explanation
Indices: 401640--402040 Score: 493
Period size: 183 Copynumber: 2.2 Consensus size: 183
401630 ATGGGAAATC
* * * ** * *
401640 TGCTCCACTCTTCTTTCAGGGGAGATCAGACTTGATATGTGCCTCTTTTTCGGGTAGTCAGATCA
1 TGCTCCACTCTTCTTTCA-GAGACATAAGACTCAATCTATGCCTCTTTTTCGGGTAGTCAGATCA
*
401705 ATTTTGGAAGACGGGACTACTCCACTATTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGTAAA
65 ATTTTGGAAGACGGAACTACTCCACTATTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGTAAA
* * * ** *
401770 ACGGATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCATGGAAAGACGTGTC
130 ACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGATCCAGGGAAAGACGAATA
* * * * * * *
401824 TTCTCCACTCTTCTTTCAGGGATATAAGACTCAATCTATGCCTTTTTTTTGGGTATTCAGATCTA
1 TGCTCCACTCTTCTTTCAGAGACATAAGACTCAATCTATGCCTCTTTTTCGGGTAGTCAGATCAA
* * * *
401889 TTTTGGAAGA-TGAATCTATTCCACTCTT-TTTTCAGGGAGATAAGACTCTAGAAATCTTTGTAA
66 TTTTGGAAGACGGAA-CTACTCCACTATTCTTTT-AGGGAGATAAGACTCGAGAAATCTTTGTAA
401952 AACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGATCCAAGGGAAA-ACGAATA
129 AACGAATCTGCTCCACTATTCTTTCAGGGAGATAAGATCC-AGGGAAAGACGAATA
* * *
402007 TGCTTCATTCTTCTTTTAGAGACATAAGACTCAA
1 TGCTCCACTCTTCTTTCAGAGACATAAGACTCAA
402041 GAAATCTTTG
Statistics
Matches: 186, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
182 6 0.03
183 157 0.84
184 23 0.12
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (183 bp):
TGCTCCACTCTTCTTTCAGAGACATAAGACTCAATCTATGCCTCTTTTTCGGGTAGTCAGATCAA
TTTTGGAAGACGGAACTACTCCACTATTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGTAAAA
CGAATCTGCTCCACTATTCTTTCAGGGAGATAAGATCCAGGGAAAGACGAATA
Found at i:402179 original size:103 final size:102
Alignment explanation
Indices: 401893--402237 Score: 431
Period size: 102 Copynumber: 3.4 Consensus size: 102
401883 GATCTATTTT
* ** ** * *
401893 GGAAGATGAATCTATTCCACTCTTTTTTCAGGGAGATAAGACTCTAGAAATCTTTGTAAAACGAA
1 GGAAGACGAATCTGCTCCACTCTTCATTCAGGGAGATAAGACTCAAGAAATCTTTGGAAAACGAA
*
401958 TCTGCTCCACTATTCTTTCAGGGAGATAAGATCCAAG
66 TCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAG
* * * * * * * *
401995 GGAAAACGAATATGCTTCATTCTTCTTTTAGAGACATAAGACTCAAGAAATCTTTGGAAAAC-AT
1 GGAAGACGAATCTGCTCCACTCTTCATTCAGGGAGATAAGACTCAAGAAATCTTTGGAAAACGA-
*
402059 ATCTGCTCCACTCTTCTTTCAAGGAGATAAGATCCAAG
65 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAG
* * *
402097 GGAAGACGAATCTGCTCCACTCTTCATTCAGGGGAGATCAGACTCAAGAAATCTTTGGAAAATGG
1 GGAAGACGAATCTGCTCCACTCTTCATTCA-GGGAGATAAGACTCAAGAAATCTTTGGAAAACGA
* **
402162 ACCTGCTCCACTCTTCTTTCAGGGAGATAAGATAAAAG
65 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAG
* *
402200 GGAAGACGAATCTGCTACACTCTTTATTCAGGGGAGAT
1 GGAAGACGAATCTGCTCCACTCTTCATTCA-GGGAGAT
402238 CAGGCTTGAT
Statistics
Matches: 208, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
101 1 0.00
102 109 0.52
103 98 0.47
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (102 bp):
GGAAGACGAATCTGCTCCACTCTTCATTCAGGGAGATAAGACTCAAGAAATCTTTGGAAAACGAA
TCTGCTCCACTCTTCTTTCAGGGAGATAAGATCCAAG
Found at i:402240 original size:103 final size:102
Alignment explanation
Indices: 401910--402237 Score: 426
Period size: 103 Copynumber: 3.2 Consensus size: 102
401900 GAATCTATTC
* * * *
401910 CACTCTTTTTTCAGGGAGATAAGACTCTAGAAATCTTTGTAAAACGAATCTGCTCCACTATTCTT
1 CACTCTTTATTCAGGGAGATAAGACTCAAGAAATCTTTGGAAAACGAATCTGCTCCACTCTTCTT
* * *
401975 TCAGGGAGATAAGATCCAAGGGAAAACGAATATGCTT
66 TCAGGGAGATAAGATCCAAGGGAAGACGAATCTGCTA
* * * *
402012 CATTCTTCT-TTTAGAGACATAAGACTCAAGAAATCTTTGGAAAAC-ATATCTGCTCCACTCTTC
1 CACTCTT-TATTCAGGGAGATAAGACTCAAGAAATCTTTGGAAAACGA-ATCTGCTCCACTCTTC
* *
402075 TTTCAAGGAGATAAGATCCAAGGGAAGACGAATCTGCTC
64 TTTCAGGGAGATAAGATCCAAGGGAAGACGAATCTGCTA
* * * * *
402114 CACTCTTCATTCAGGGGAGATCAGACTCAAGAAATCTTTGGAAAATGGACCTGCTCCACTCTTCT
1 CACTCTTTATTCA-GGGAGATAAGACTCAAGAAATCTTTGGAAAACGAATCTGCTCCACTCTTCT
**
402179 TTCAGGGAGATAAGATAAAAGGGAAGACGAATCTGCTA
65 TTCAGGGAGATAAGATCCAAGGGAAGACGAATCTGCTA
402217 CACTCTTTATTCAGGGGAGAT
1 CACTCTTTATTCA-GGGAGAT
402238 CAGGCTTGAT
Statistics
Matches: 196, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
101 1 0.01
102 96 0.49
103 99 0.51
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (102 bp):
CACTCTTTATTCAGGGAGATAAGACTCAAGAAATCTTTGGAAAACGAATCTGCTCCACTCTTCTT
TCAGGGAGATAAGATCCAAGGGAAGACGAATCTGCTA
Found at i:402422 original size:73 final size:73
Alignment explanation
Indices: 402327--402482 Score: 231
Period size: 73 Copynumber: 2.1 Consensus size: 73
402317 TATCATACTT
** *
402327 GATTGATTTGCTTCACTACTCTTCTGTGAAGGGTGAGATTGATTTGCTTCACTACTCTTCCATGA
1 GATTGATTTGCTTCACTACTCTTCCATGAAGGCTGAGATTGATTTGCTTCACTACTCTTCCATGA
402392 AGGCTTAA
66 AGGCTTAA
* * * * *
402400 GATTGATTTGTTTCACTACTCTTCCATGAAGTCTTAGGTTGATTTGTTTCACTACTCTTCCATGA
1 GATTGATTTGCTTCACTACTCTTCCATGAAGGCTGAGATTGATTTGCTTCACTACTCTTCCATGA
*
402465 AGGCTTAG
66 AGGCTTAA
402473 GATTGATTTG
1 GATTGATTTG
402483 ATTCGCTGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (73 bp):
GATTGATTTGCTTCACTACTCTTCCATGAAGGCTGAGATTGATTTGCTTCACTACTCTTCCATGA
AGGCTTAA
Found at i:402498 original size:37 final size:37
Alignment explanation
Indices: 402327--402482 Score: 226
Period size: 36 Copynumber: 4.3 Consensus size: 37
402317 TATCATACTT
* ** * *
402327 GATTGATTTGCTTCACTACTCTTCTGTGAAGGGTGA-
1 GATTGATTTGTTTCACTACTCTTCCATGAAGGCTTAG
* *
402363 GATTGATTTGCTTCACTACTCTTCCATGAAGGCTTAA
1 GATTGATTTGTTTCACTACTCTTCCATGAAGGCTTAG
*
402400 GATTGATTTGTTTCACTACTCTTCCATGAAGTCTTAG
1 GATTGATTTGTTTCACTACTCTTCCATGAAGGCTTAG
402437 G-TTGATTTGTTTCACTACTCTTCCATGAAGGCTTAG
1 GATTGATTTGTTTCACTACTCTTCCATGAAGGCTTAG
402473 GATTGATTTG
1 GATTGATTTG
402483 ATTCGCTGCT
Statistics
Matches: 110, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
36 67 0.61
37 43 0.39
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (37 bp):
GATTGATTTGTTTCACTACTCTTCCATGAAGGCTTAG
Found at i:402498 original size:73 final size:73
Alignment explanation
Indices: 402327--402503 Score: 221
Period size: 73 Copynumber: 2.4 Consensus size: 73
402317 TATCATACTT
* * ** * *
402327 GATTGATTTGCTTCACTACTCTT-CTGTGAAGGGTGAGATTGATTTGCTTCACTACTCTTCCATG
1 GATTGATTTGATTCACTACTCTTCCAG-GAAGTCTTAGGTTGATTTGCTTCACTACTCTTCCATG
402391 AAGGCTTAA
65 AAGGCTTAA
* * *
402400 GATTGATTTGTTTCACTACTCTTCCATGAAGTCTTAGGTTGATTTGTTTCACTACTCTTCCATGA
1 GATTGATTTGATTCACTACTCTTCCAGGAAGTCTTAGGTTGATTTGCTTCACTACTCTTCCATGA
*
402465 AGGCTTAG
66 AGGCTTAA
* * *
402473 GATTGATTTGATTCGCTGCTTTTCCAGGAAG
1 GATTGATTTGATTCACTACTCTTCCAGGAAG
402504 ACCAAATCTG
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
73 88 0.99
74 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (73 bp):
GATTGATTTGATTCACTACTCTTCCAGGAAGTCTTAGGTTGATTTGCTTCACTACTCTTCCATGA
AGGCTTAA
Found at i:402595 original size:89 final size:88
Alignment explanation
Indices: 402475--402779 Score: 396
Period size: 89 Copynumber: 3.4 Consensus size: 88
402465 AGGCTTAGGA
* * *
402475 TTGATTTGATTCGCTGCTTTTCCAGGAAGACCAAATCTGGGATGAGAAGAATCTGTTCCACTACT
1 TTGATTTGATTCGCTACTTTTCCAGGAAGACCAAATCTGGGATGAGAAGAAT-TGTTTCACTATT
* *
402540 CCTCCGTGGAGATCAGACTCGAGG
65 CTTCCGTAGAGATCAGACTCGAGG
* * *
402564 TTGATTTGATTCGCTACTTTTCCAGGAAGACCAAATATGGGATGAGAAGAATATATTTCATTATT
1 TTGATTTGATTCGCTACTTTTCCAGGAAGACCAAATCTGGGATGAGAAGAAT-TGTTTCACTATT
*
402629 CTTCCATCA-AGATCAGACTCGAGG
65 CTTCCGT-AGAGATCAGACTCGAGG
** * * *
402653 TTGATTTGATTCATTACATTTCTAGTAAGACCAAATCTGGGATGAGAAGAAATTGTTTCACTATT
1 TTGATTTGATTCGCTACTTTTCCAGGAAGACCAAATCTGGGATGAGAAG-AATTGTTTCACTATT
* *
402718 CTTCCGTAGAGATCATACTCGAGT
65 CTTCCGTAGAGATCAGACTCGAGG
* * *
402742 TTGATTTGTTTCGCTGCTTTTCCAGGAAGATCAAATCT
1 TTGATTTGATTCGCTACTTTTCCAGGAAGACCAAATCT
402780 TCAATATTGA
Statistics
Matches: 184, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
88 1 0.01
89 180 0.98
90 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (88 bp):
TTGATTTGATTCGCTACTTTTCCAGGAAGACCAAATCTGGGATGAGAAGAATTGTTTCACTATTC
TTCCGTAGAGATCAGACTCGAGG
Found at i:402881 original size:38 final size:40
Alignment explanation
Indices: 402830--402923 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
402820 TCTACTAGGG
* **
402830 AGTCAAAAATAACAAAGGTTGAC-T-TCTCTTCAAGAGGC
1 AGTCAATAATAACAAAGACTGACTTCTCTCTTCAAGAGGC
* *
402868 AGTCAATAATAACAAAGACTGACTTCTCTCTTCACGAGGT
1 AGTCAATAATAACAAAGACTGACTTCTCTCTTCAAGAGGC
402908 AGTCAATAATAACAAA
1 AGTCAATAATAACAAA
402924 TAGTAAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
38 20 0.41
39 1 0.02
40 28 0.57
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.24
Consensus pattern (40 bp):
AGTCAATAATAACAAAGACTGACTTCTCTCTTCAAGAGGC
Found at i:403047 original size:42 final size:41
Alignment explanation
Indices: 402955--403055 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
402945 AGGTCTTACG
* **
402955 GATGGCCCAAAGTACTTATCATCTTGCTCGAAAGACTGACA
1 GATGGCCCAAAGGACTTATCATCAGGCTCGAAAGACTGACA
* * *
402996 GATGACCCAAAGGATTTAATCATCAGGCTCGAAAGACTTACTA
1 GATGGCCCAAAGGACTT-ATCATCAGGCTCGAAAGACTGAC-A
*
403039 -ATGGCCCAAAGAACTTA
1 GATGGCCCAAAGGACTTA
403056 CAAATTTTGG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 15 0.31
42 33 0.67
43 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (41 bp):
GATGGCCCAAAGGACTTATCATCAGGCTCGAAAGACTGACA
Found at i:403217 original size:20 final size:20
Alignment explanation
Indices: 403192--403243 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
403182 AACATCTTAT
*
403192 CCGAAGGTCTTAAAGATGGC
1 CCGAAGGACTTAAAGATGGC
403212 CCGAAGGACTTAAAGATGGC
1 CCGAAGGACTTAAAGATGGC
*
403232 CTGAAGGACTTA
1 CCGAAGGACTTA
403244 TCATCTTGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (20 bp):
CCGAAGGACTTAAAGATGGC
Found at i:403423 original size:271 final size:262
Alignment explanation
Indices: 402940--403697 Score: 1015
Period size: 251 Copynumber: 2.9 Consensus size: 262
402930 AAATATATTA
* * ** * * *
402940 CCCGAAGGTCTTACGGATGGCCCAAAGTACTTATCATCTTGCTCGAAAGACTGACAGATGACCCA
1 CCCGAAGGACTTA-AGATGGCCTGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCA
* * *
403005 AAGGATTTAATCATCAGGCTCGAAAGACTTACTAATGGCCCAAAGAACTTACAAATTTTGGGAAA
65 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCAAAGAACTTACAAATTTT-GGAAA
* * **
403070 TAATTTACTGGGTAAGAAACTTTGGTAACCGCTTTCTTACTTTTCAAGAATTTCAT-TTTTTGAA
129 TAATTTACTAGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAGAATTTCATATTCCTGAA
*
403134 AACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATCTTA-TCCGAAG
194 AACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATCCTACT-CGAAG
403198 GTCTTAAAGAT
258 GTC-T-----T
*
403209 GGCCCGAAGGACTTAAAGATGGCCTGAAGGACTTATCATCTTGCTCAAAAGACTTATAGATGACC
1 --CCCGAAGGACTT-AAGATGGCCTGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACC
* *
403274 CAAAGGATTTAAGCTTCATGCTTGAAAGACTTACTGATGGCCCAAAGAACTTACAAATTTTGGAA
63 CAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCAAAGAACTTACAAATTTTGGAA
*
403339 ATAATTTACTAGGTAAGAAACTTTGGTAATTGCTTTCTTACTTTTCAAGAATTTCATATTCCTGA
128 ATAATTTACTAGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAGAATTTCATATTCCTGA
403404 AAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATCCTACTCGAAG
193 AAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATCCTACTCGAAG
403469 GTCTT
258 GTCTT
* *
403474 --------AC---AGATGGCCTGAAGGACTTATCATCTTGTTCAAAAGACTTACAGATGGCCCAA
1 CCCGAAGGACTTAAGATGGCCTGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCAA
* * * *
403528 AAGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTACAAATTTTGGAAATA
66 AGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCAAAGAACTTACAAATTTTGGAAATA
* * **
403593 ATTTACTAGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAGAAATTCATA-ACACAAAAA
131 ATTTACTAGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAGAATTTCATATTC-CTGAAA
*
403657 AGATGT-AATGAGAAACTTTGGTAATCGCTTTCTCATTTTCA
195 ACAT-TAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCA
403698 AAACAACTTA
Statistics
Matches: 448, Mismatches: 34, Indels: 30
0.88 0.07 0.06
Matches are distributed among these distances:
250 1 0.00
251 203 0.45
252 1 0.00
255 2 0.00
265 1 0.00
270 59 0.13
271 179 0.40
272 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (262 bp):
CCCGAAGGACTTAAGATGGCCTGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCAA
AGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCAAAGAACTTACAAATTTTGGAAATA
ATTTACTAGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAGAATTTCATATTCCTGAAAA
CATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATCCTACTCGAAGGTC
TT
Found at i:404993 original size:44 final size:43
Alignment explanation
Indices: 404885--405017 Score: 144
Period size: 44 Copynumber: 3.1 Consensus size: 43
404875 CTTGTATTCC
* * * *
404885 GGATAATATAGGCCTTCAAAAATGCCCC-ACA-TTAATACTTCT
1 GGATAAAATGGGCCTTC-AAAATGCCCCAACATTTATTATTTCT
* * *
404927 GGATAATATGAGCCTTGAAAATGCCCCAACATTTATTATTTCT
1 GGATAAAATGGGCCTTCAAAATGCCCCAACATTTATTATTTCT
* * *
404970 TGCTGAAAATGGGCCTTCAAAATGCCCCAACATTTATTATTTTT
1 GGAT-AAAATGGGCCTTCAAAATGCCCCAACATTTATTATTTCT
405014 GGAT
1 GGAT
405018 GATCCAATAC
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 10 0.13
42 17 0.23
43 11 0.15
44 37 0.49
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (43 bp):
GGATAAAATGGGCCTTCAAAATGCCCCAACATTTATTATTTCT
Found at i:414190 original size:101 final size:101
Alignment explanation
Indices: 414008--414191 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 101
413998 TTTCAAACCA
* * * * * * *
414008 TTTATGTTATGACAAAATAAGACAAAAGAAGTTTATTGGTATAACATTATAGGTAGCGCCTTTTT
1 TTTATATTATGAAAAAATAAGACAAAACAAGTTTAATGGTATAACATTATAGGTAACACATTTTT
**
414073 AAATTATCAATTGTTTATGTTATACATTTGAAATCG
66 AAATTATCAACCGTTTATGTTATACATTTGAAATCG
* *
414109 TTTATATTATGAAAAAATAAGACAAAACAGGTTTAATGGTATAACATTGTAGGTAACACATTTTT
1 TTTATATTATGAAAAAATAAGACAAAACAAGTTTAATGGTATAACATTATAGGTAACACATTTTT
414174 AAATTATCAACCGTTTAT
66 AAATTATCAACCGTTTAT
414192 ATTTTGACAA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (101 bp):
TTTATATTATGAAAAAATAAGACAAAACAAGTTTAATGGTATAACATTATAGGTAACACATTTTT
AAATTATCAACCGTTTATGTTATACATTTGAAATCG
Found at i:414241 original size:78 final size:78
Alignment explanation
Indices: 414107--414266 Score: 223
Period size: 78 Copynumber: 2.1 Consensus size: 78
414097 CATTTGAAAT
*
414107 CGTTTATATTATGAAAAAATAAGACAAAACAGGTTTAATGGTATAACATTGTAGGTAACACATTT
1 CGTTTATATTATGAAAAAATAAGACAAAACAGGTTTAATGGTATAACATTGTAGGTAACACACTT
414172 TTAAATTATCAAC
66 TTAAATTATCAAC
* * * * * * *
414185 CGTTTATATTTTGACAAAATAAGATAAAACATGTTTATTGGTATAACATTAG-AGGTAGCACCCT
1 CGTTTATATTATGAAAAAATAAGACAAAACAGGTTTAATGGTATAACATT-GTAGGTAACACACT
*
414249 TTTAAATTGTCAAC
65 TTTAAATTATCAAC
414263 CGTT
1 CGTT
414267 AAGGTTATAT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 71 0.99
79 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (78 bp):
CGTTTATATTATGAAAAAATAAGACAAAACAGGTTTAATGGTATAACATTGTAGGTAACACACTT
TTAAATTATCAAC
Found at i:415369 original size:148 final size:148
Alignment explanation
Indices: 415101--415405 Score: 459
Period size: 148 Copynumber: 2.1 Consensus size: 148
415091 ATATAAATAG
* * * *
415101 AAAAGTATTGAACCTTTGAACACATGTATCAATATTTTAACCATCTCACATATTCATCAACTTGT
1 AAAAGTATCGAACCTTTGAACACATATATCAATATTTTAACCAACTAACATATTCATCAACTTGT
* * * *
415166 TCAATAGCCTTAGTATCAATCATCATTGTATAAGTATCGATATTTTAAATTTCAATCTTTTTATC
66 TCAATAGACTCAGTATCAATCATCATCGTATAAGTATCGATATTTTAAATTTCAATCTTCTTATC
415231 AACTTTACCAAAATTTAA
131 AACTTTACCAAAATTTAA
* * * * *
415249 AAAAGTATCGAACTTTTGAACATATATATCGATATTTTAACTAAC-AATCATATTCATCAACTTT
1 AAAAGTATCGAACCTTTGAACACATATATCAATATTTTAACCAACTAA-CATATTCATCAACTTG
*
415313 TTCAATAGACTCAGTATCAATCATCGTCGTATAAGTATCGATATTTTAAATTTCAATCTTCTTAT
65 TTCAATAGACTCAGTATCAATCATCATCGTATAAGTATCGATATTTTAAATTTCAATCTTCTTAT
*
415378 CAACTTTACCAAAATTTTA
130 CAACTTTACCAAAATTTAA
415397 AAAAGTATC
1 AAAAGTATC
415406 AAACATTATT
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
147 1 0.01
148 140 0.99
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (148 bp):
AAAAGTATCGAACCTTTGAACACATATATCAATATTTTAACCAACTAACATATTCATCAACTTGT
TCAATAGACTCAGTATCAATCATCATCGTATAAGTATCGATATTTTAAATTTCAATCTTCTTATC
AACTTTACCAAAATTTAA
Found at i:415370 original size:73 final size:73
Alignment explanation
Indices: 415149--415384 Score: 178
Period size: 73 Copynumber: 3.2 Consensus size: 73
415139 AACCATCTCA
* * * * *
415149 CATATTCATCAACTTGTTCAATAGCCTTAGTATCAATCATCATTGTATAAGTATCGATATTTTAA
1 CATATTCATCAACTTTTTCAATAGACTAAGTATCAATCATCGTCGTATAAGTATCGATATTTTAA
415214 ATTTCAAT
66 ATTTCAAT
* * ** ** * * * *
415222 C-TTTTTATCAACTTTACCAAAATTTA-AAAAAGTATCGAA-CTTTTGAACATAT-A-TATCGAT
1 CATATTCATCAACTTTTTC--AA--TAGACTAAGTATC-AATC-ATCG-TCGTATAAGTATCGAT
* **
415282 ATTTTAACTAACAAT
59 ATTTTAAATTTCAAT
*
415297 CATATTCATCAACTTTTTCAATAGACTCAGTATCAATCATCGTCGTATAAGTATCGATATTTTAA
1 CATATTCATCAACTTTTTCAATAGACTAAGTATCAATCATCGTCGTATAAGTATCGATATTTTAA
415362 ATTTCAAT
66 ATTTCAAT
* *
415370 CTTCTT-ATCAACTTT
1 CATATTCATCAACTTT
415385 ACCAAAATTT
Statistics
Matches: 117, Mismatches: 34, Indels: 25
0.66 0.19 0.14
Matches are distributed among these distances:
71 4 0.03
72 28 0.24
73 32 0.27
74 4 0.03
75 27 0.23
76 19 0.16
77 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (73 bp):
CATATTCATCAACTTTTTCAATAGACTAAGTATCAATCATCGTCGTATAAGTATCGATATTTTAA
ATTTCAAT
Found at i:415431 original size:148 final size:147
Alignment explanation
Indices: 415149--415438 Score: 447
Period size: 148 Copynumber: 2.0 Consensus size: 147
415139 AACCATCTCA
* * *
415149 CATATTCATCAACTTGTTCAATAGCCTTAGTATCAATCATCATTGTATAAGTATCGATATTTTAA
1 CATATTCATCAACTTGTTCAATAGACTCAGTATCAATCATCATCGTATAAGTATCGATATTTTAA
* * *
415214 ATTTCAATCTTTTTATCAACTTTACCAAAATTTAAAAAAGTATCGAACTTTTGAACATATATATC
66 ATTTCAATCTTCTTATCAACTTTACCAAAATTTAAAAAAGTATCAAACTTTTG-ACATAAATATC
415279 GATATTTTAACTAACAAT
130 GATATTTTAACTAACAAT
* *
415297 CATATTCATCAACTTTTTCAATAGACTCAGTATCAATCATCGTCGTATAAGTATCGATATTTTAA
1 CATATTCATCAACTTGTTCAATAGACTCAGTATCAATCATCATCGTATAAGTATCGATATTTTAA
* *
415362 ATTTCAATCTTCTTATCAACTTTACCAAAATTTTAAAAAGTATCAAACATTATTG-TATAAATAT
66 ATTTCAATCTTCTTATCAACTTTACCAAAATTTAAAAAAGTATCAAAC-TT-TTGACATAAATAT
*
415426 TGATATTTTAACT
129 CGATATTTTAACT
415439 TTTGAAGGTA
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
148 124 0.96
149 2 0.02
150 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.40
Consensus pattern (147 bp):
CATATTCATCAACTTGTTCAATAGACTCAGTATCAATCATCATCGTATAAGTATCGATATTTTAA
ATTTCAATCTTCTTATCAACTTTACCAAAATTTAAAAAAGTATCAAACTTTTGACATAAATATCG
ATATTTTAACTAACAAT
Found at i:416217 original size:263 final size:260
Alignment explanation
Indices: 415636--416198 Score: 675
Period size: 260 Copynumber: 2.2 Consensus size: 260
415626 ATTTGTTTGG
* * * ** ** *
415636 TTAAACTTTGTTAACATTTTAGGATCAACCCATTTTGTTAT-GAAAAATATTAACATTCAAGATT
1 TTAAACTATGATAACATTTTAAGCCCAACCCATAATGTTATAG-AAAATATTAACATTTAAGATT
* * *
415700 GAAACCTACTTTATTAGTAAACCGTGACATTCTTGGTGGCAACCTATTTTATTAATAAAAATATT
65 GAAACCAACTTTATTAGTAAACCATGACATTCTTGGTGGCAACCTATTTTATTAATAAAAATAGT
* * * * **
415765 AACACTACGATCACAACCTATTTCTTAGTAAACCATGATATTATTGGAGCAATTGTTTTTCTTAT
130 AACACTAAGAGCACAACATATTTCTTAGTAAACCATGACATTATTGGAGCAACCGTTTTTCTTAT
* *
415830 ATATATTCATACATTTTCAGCTTTTAATTTAAATTCTTATCTTGAGAAATCTAAGGCTCCATCAA
195 ATATATTCATACATTTTCAGCTTTTAACTTAAATTCTTATCGTGAGAAATCTAAGGCTCCATCAA
415895 C
260 C
* * * * ** *
415896 TTAAACTCTTATAACATTTTAGGCGCAACCCATTTTGTTATGGAAAATATTAACATTTAAGATTG
1 TTAAACTATGATAACATTTTAAGCCCAACCCATAATGTTATAGAAAATATTAACATTTAAGATTG
* * * *
415961 CAACCAACTTTATTAGTTAACCATGACATTCTTGGTGGCAACCTGTTTTATTAATAAAAGTAGTA
66 AAACCAACTTTATTAGTAAACCATGACATTCTTGGTGGCAACCTATTTTATTAATAAAAATAGTA
* * * *
416026 ACATTATAGAGCTCAATCATATTTTTTAGTGAACCATGACATTATTGG-GCACAACCGTTTTTC-
131 ACACTA-AGAGCACAA-CATATTTCTTAGTAAACCATGACATTATTGGAG--CAACCGTTTTTCT
* * * *
416089 T-TATATATTCATAACATTTTCGGTTTTTAACTTAAATTCTTATCGTGGGAAAATCTAAGGGTCC
192 TATATATATTCAT-ACATTTTCAGCTTTTAACTTAAATTCTTATCGTGAG-AAATCTAAGGCTCC
416153 ATCAAC
255 ATCAAC
* *
416159 TTAAATTATGATAACATTTTAAGCCCAACCTATAATGTTA
1 TTAAACTATGATAACATTTTAAGCCCAACCCATAATGTTA
416199 ATAGTATTTA
Statistics
Matches: 259, Mismatches: 37, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
260 120 0.46
261 19 0.07
262 59 0.23
263 61 0.24
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (260 bp):
TTAAACTATGATAACATTTTAAGCCCAACCCATAATGTTATAGAAAATATTAACATTTAAGATTG
AAACCAACTTTATTAGTAAACCATGACATTCTTGGTGGCAACCTATTTTATTAATAAAAATAGTA
ACACTAAGAGCACAACATATTTCTTAGTAAACCATGACATTATTGGAGCAACCGTTTTTCTTATA
TATATTCATACATTTTCAGCTTTTAACTTAAATTCTTATCGTGAGAAATCTAAGGCTCCATCAAC
Found at i:416255 original size:19 final size:21
Alignment explanation
Indices: 416214--416255 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
416204 ATTTATAACA
*
416214 TTTACCGTGTATAACTCATTT
1 TTTACCCTGTATAACTCATTT
416235 TTTACCCTGTATAA-T-ATTT
1 TTTACCCTGTATAACTCATTT
416254 TT
1 TT
416256 GTGCAACCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 13 0.65
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (21 bp):
TTTACCCTGTATAACTCATTT
Found at i:417000 original size:20 final size:19
Alignment explanation
Indices: 416977--417023 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
416967 CGATATACCA
416977 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
416997 GGTAAGAAAATGATAAAACT
1 GGTAA-AAAATGATAAAACC
417017 GGTAAAA
1 GGTAAAA
417024 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:417111 original size:181 final size:182
Alignment explanation
Indices: 416765--417237 Score: 691
Period size: 181 Copynumber: 2.6 Consensus size: 182
416755 GATCCAAATT
* * * *
416765 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATTG-AAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-TGAAAATGAT
* * * * *
416829 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
416894 CGTGAATTTAAAAGAGAAGCAGTTTTAAGTCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAGGCCTATAAAGTGTCGATACTTTAA
* *
416947 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAGAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
* * *
417012 AAACTGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
417076 GTTAATTTAAAAGAGAAGCAGTTTT-AGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAG-GCCTATAAAGTGTCGATACTTTAA
* * * *
417128 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACAGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
**
417193 AAACCGGTAAAATAATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
417238 CGTAAGTACG
Statistics
Matches: 262, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
180 2 0.01
181 164 0.63
182 96 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAGGCCTATAAAGTGTCGATACTTTAA
Found at i:417177 original size:20 final size:19
Alignment explanation
Indices: 417149--417204 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
417139 GATCCACAAC
*
417149 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
*
417169 GATAAAACAGGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
*
417189 GATAAAACCGGTAAAA
1 GATAAAACAGGTAAAA
417205 TAATACCGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:419414 original size:21 final size:21
Alignment explanation
Indices: 419390--419450 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 21
419380 GATATCATGC
419390 AAACAATCA-AGAGTCGAAGAG
1 AAAC-ATCATAGAGTCGAAGAG
* *
419411 AAACTTGATAGAGTCGAAGAG
1 AAACATCATAGAGTCGAAGAG
* * *
419432 -AACTTGAGAGAGTCGAAGA
1 AAACATCATAGAGTCGAAGA
419451 TACACTTGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 20 0.56
21 16 0.44
ACGTcount: A:0.46, C:0.11, G:0.28, T:0.15
Consensus pattern (21 bp):
AAACATCATAGAGTCGAAGAG
Found at i:419437 original size:20 final size:21
Alignment explanation
Indices: 419399--419462 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
419389 CAAACAATCA
*
419399 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
419420 AGAGTCGAAGAG-AACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
419440 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
419461 AG
1 AG
419463 GCATAAGGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.41, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:419538 original size:33 final size:33
Alignment explanation
Indices: 419496--419561 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
419486 AAATAGATGG
*
419496 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
419529 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
419562 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:421371 original size:19 final size:19
Alignment explanation
Indices: 421347--421395 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
421337 AATGTAGGGT
421347 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
421366 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
421385 TAATTTTGTAT
1 TAATTTTGTAT
421396 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:421860 original size:200 final size:200
Alignment explanation
Indices: 421514--422483 Score: 1710
Period size: 200 Copynumber: 4.9 Consensus size: 200
421504 CAATATGGCC
421514 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
421579 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
421644 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
421709 TGGAA
196 TGGAA
*
421714 AATAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
421779 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
421844 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
421909 TGGAA
196 TGGAA
* *
421914 AACAGGGTGCAACCATAAAGTGTTGATCCATATATAAAAAGTGTCGACCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
421979 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
422044 GAATATGTCTAAATAAGGTGTCAACAC-TTTTTATGTTTGTGTCGATA-------TCCAGAATGA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTA-GTTTGTGTCGATATTTTTGGTCCAGAATGA
422101 ATGGAA
195 ATGGAA
422107 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
422172 CCAAAAGTATAATGTAATATGTAACTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
422237 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
422302 TGGAA
196 TGGAA
*
422307 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAGAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
422372 CCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * * *
422437 GAAT-TGGTATATAAT-ATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 GAATAT-GTCTA-AATAATGTGTCGACACTTTTTTA-GTTTGTGTCGATA
422484 CTAATTTAAA
Statistics
Matches: 738, Mismatches: 20, Indels: 24
0.94 0.03 0.03
Matches are distributed among these distances:
193 180 0.24
194 6 0.01
199 7 0.01
200 538 0.73
201 7 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:422482 original size:393 final size:394
Alignment explanation
Indices: 421514--422483 Score: 1707
Period size: 393 Copynumber: 2.4 Consensus size: 394
421504 CAATATGGCC
421514 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
421579 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
421644 GAATATGTCTAAATAATGTGTCGACACTTTTT-TAGTTTGTGTCGATATTTTTGGTCCAGAATGA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTAT-GTTTGTGTCGATA----T--TCCAGAATGA
*
421708 ATGGAAAATAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
189 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
421773 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
254 CGAAAACCAAAAGTATAATGTAATATGTAACTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
421838 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
319 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
421903 AATGAATGGAA
384 AATGAATGGAA
* *
421914 AACAGGGTGCAACCATAAAGTGTTGATCCATATATAAAAAGTGTCGACCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
421979 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
422044 GAATATGTCTAAATAAGGTGTCAACACTTTTTATGTTTGTGTCGATA-TCCAGAATGAATGGAAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTATGTTTGTGTCGATATTCCAGAATGAATGGAAA
422108 ACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
196 ACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
422173 CAAAAGTATAATGTAATATGTAACTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
261 CAAAAGTATAATGTAATATGTAACTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
422238 AATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
326 AATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
422303 GGAA
391 GGAA
*
422307 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAGAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
422372 CCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
422437 GAAT-TGGTATATAAT-ATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 GAATAT-GTCTA-AATAATGTGTCGACACT-TTTTATGTTTGTGTCGATA
422484 CTAATTTAAA
Statistics
Matches: 549, Mismatches: 17, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
392 1 0.00
393 365 0.66
394 12 0.02
400 170 0.31
401 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (394 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTATGTTTGTGTCGATATTCCAGAATGAATGGAAA
ACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
CAAAAGTATAATGTAATATGTAACTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
GGAA
Found at i:423956 original size:6 final size:6
Alignment explanation
Indices: 423945--424032 Score: 68
Period size: 6 Copynumber: 14.7 Consensus size: 6
423935 CAAGCGGTCA
* * * * *
423945 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * *
423993 CTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
424033 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:423982 original size:3 final size:3
Alignment explanation
Indices: 423962--424036 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
423952 TGAAGCTGAC
* * * * * * *
423962 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
424010 GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
424037 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:423997 original size:36 final size:36
Alignment explanation
Indices: 423945--424026 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
423935 CAAGCGGTCA
*
423945 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
* *
423981 ATGACGATGAAGCTGACGATGAAGATGATGACGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
*
424017 ATGATGATGA
1 ATGAAGATGA
424027 TGATGATGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.21
Consensus pattern (36 bp):
ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
Found at i:424036 original size:12 final size:12
Alignment explanation
Indices: 423945--424032 Score: 95
Period size: 12 Copynumber: 7.3 Consensus size: 12
423935 CAAGCGGTCA
*
423945 ATGAAGATGAAG
1 ATGACGATGAAG
*
423957 CTGACGATGAAG
1 ATGACGATGAAG
*
423969 ATGACGATGATG
1 ATGACGATGAAG
423981 ATGACGATGAAG
1 ATGACGATGAAG
*
423993 CTGACGATGAAG
1 ATGACGATGAAG
* * *
424005 ATGATGACGATG
1 ATGACGATGAAG
* *
424017 ATGATGATGATG
1 ATGACGATGAAG
424029 ATGA
1 ATGA
424033 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:425823 original size:25 final size:25
Alignment explanation
Indices: 425786--425841 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
425776 TTATCATTAA
*
425786 ATTTAGGTGTGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
425811 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
425836 ATTTAG
1 ATTTAG
425842 ATATAAGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:426229 original size:23 final size:23
Alignment explanation
Indices: 426198--426323 Score: 225
Period size: 23 Copynumber: 5.5 Consensus size: 23
426188 ATAGGTAAAA
* * *
426198 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCGTTT
426221 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGTTT
426244 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGTTT
426267 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGTTT
426290 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGTTT
426313 ATATAATGTAA
1 ATATAATGTAA
426324 AGTATCTATC
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 100 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGTTT
Found at i:426765 original size:23 final size:23
Alignment explanation
Indices: 426734--426806 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
426724 ATAGGTAGAA
*
426734 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
426757 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
426780 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
426803 ATAT
1 ATAT
426807 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:426831 original size:46 final size:45
Alignment explanation
Indices: 426734--426831 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
426724 ATAGGTAGAA
* * *
426734 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATAGCTATCCTTT
* *
426780 ATATAATGTAATAGGTAGTGCTTATAT-TGTAAAGTATCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TAGCTATCCTTT
*
426826 TTATAA
1 ATATAA
426832 AAGTGTCCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATAGCTATCCTTT
Found at i:427486 original size:23 final size:23
Alignment explanation
Indices: 427456--427528 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
427446 ATACTTTACA
*
427456 ATATAAACACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
427479 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* * *
427502 AAATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
427525 ATAT
1 ATAT
427529 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:427961 original size:23 final size:23
Alignment explanation
Indices: 427926--427998 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
427916 ATACTTTACA
*
427926 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
427949 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
427972 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
427995 ATAT
1 ATAT
427999 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:428015 original size:470 final size:483
Alignment explanation
Indices: 427133--428389 Score: 2162
Period size: 470 Copynumber: 2.6 Consensus size: 483
427123 TTTTTTTAAC
427133 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
1 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
427198 TTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATA
66 TTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATA
* *
427263 ATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATACCGTAACATAAAAA
131 ATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAA
**** *
427328 ATAAATCATTAGATATATATAATTACTAAATTGATATCTTAAAACTCACTCAAAAGATAACCTTA
196 ATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTA
427393 AATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAAT
261 AATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAAT
427458 ATAAACACTACCTATTACATTATATAAACGCTACCTATTACATTAAATAAGCGCTACCTATTACA
326 ATAAACACTACCTATTACATTATATAAACGCTACCTATTACATTAAATAAGCGCTACCTATTACA
*
427523 TCATATTTTTACCTATTATATTGAAAGTGTCCATAC-TTTT-T-AAAA-AAATA-ATCGATA-TT
391 TCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGAAAAAGATCGATATTT
427582 TTTTT-TTA-AAGTTATG-T-AA-TTT-
456 TTTTTATTATAAGTTATGTTCAATTTTA
*
427604 A-TGTTTCATGTTTTCCACGTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
1 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
*
427668 TTGTTTTGATATTTTATAAATTATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATA
66 TTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATA
*
427733 ATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATACCGTAACGTAAAAA
131 ATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAA
*
427798 ATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAATATAACCTTA
196 ATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTA
427863 AATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAAT
261 AATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAAT
* *
427928 ATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACA
326 ATAAACACTACCTATTACATTATATAAACGCTACCTATTACATTAAATAAGCGCTACCTATTACA
427993 TCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGAAAAAGGATCGATATT
391 TCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGAAAAA-GATCGATATT
*
428058 TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAA
455 TTTTTT--A-TTA--TAAGTTATG-TTCAA---TTTT-A
*
428097 CAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACACAAAAAATTATTTG
1 -AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTG
428162 ATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAAT
65 ATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAAT
428227 AATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAA
130 AATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAA
428292 AATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTT
195 AATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTT
*
428357 AAATTAATGTTTTCCACAGTGAAAAAATTATGG
260 AAATTAATGTTTTCCACAGTGAAAAAAGTATGG
428390 GTTTCAATAT
Statistics
Matches: 740, Mismatches: 21, Indels: 26
0.94 0.03 0.03
Matches are distributed among these distances:
470 411 0.56
471 5 0.01
472 1 0.00
473 4 0.01
474 4 0.01
476 7 0.01
477 7 0.01
481 3 0.00
484 7 0.01
486 1 0.00
487 2 0.00
491 3 0.00
494 1 0.00
495 284 0.38
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.40
Consensus pattern (483 bp):
AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
TTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATA
ATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAA
ATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTA
AATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAAT
ATAAACACTACCTATTACATTATATAAACGCTACCTATTACATTAAATAAGCGCTACCTATTACA
TCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGAAAAAGATCGATATTT
TTTTTATTATAAGTTATGTTCAATTTTA
Found at i:429505 original size:16 final size:16
Alignment explanation
Indices: 429484--429516 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
429474 CAGCTCTTCT
429484 GTTTCGATGTTTATGG
1 GTTTCGATGTTTATGG
429500 GTTTCGATGTTTATGG
1 GTTTCGATGTTTATGG
429516 G
1 G
429517 ATCGGCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.33, T:0.48
Consensus pattern (16 bp):
GTTTCGATGTTTATGG
Found at i:429816 original size:18 final size:18
Alignment explanation
Indices: 429793--429853 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
429783 TCTCATTCAT
*
429793 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
429811 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
429830 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
429849 AATTA
1 AATTA
429854 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:429829 original size:19 final size:19
Alignment explanation
Indices: 429805--429853 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
429795 TTATATTCAC
429805 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
429824 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
429843 ATACAAAATTA
1 ATACAAAATTA
429854 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:431768 original size:21 final size:21
Alignment explanation
Indices: 431743--431807 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
431733 CCCCTTATGC
* *
431743 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
431764 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
431785 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
431806 CT
1 CT
431808 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:434092 original size:20 final size:19
Alignment explanation
Indices: 434038--434083 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
434028 TCCGGTATTA
434038 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
**
434057 TGATACCGGTTTTATCATAT
1 TTTTACCGGTTTTATCAT-T
434077 TTTTACC
1 TTTTACC
434084 TGTTATATCG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:434264 original size:20 final size:18
Alignment explanation
Indices: 434217--434264 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 18
434207 TCCGGTAACG
434217 TTTTTACCGGTTTTATCA
1 TTTTTACCGGTTTTATCA
434235 TTTTGATACCGGTTTTATCAAA
1 TTTT--TACCGGTTTTATC--A
434257 TTTTTACC
1 TTTTTACC
434265 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.15
20 17 0.65
22 5 0.19
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (18 bp):
TTTTTACCGGTTTTATCA
Found at i:434360 original size:182 final size:183
Alignment explanation
Indices: 434005--434476 Score: 677
Period size: 182 Copynumber: 2.6 Consensus size: 183
433995 CGTACTTACG
*
434005 AAAGTATCGACACTTTCAATATATCCGGT-A-TTATTTTACCGGTTTTATCA-TTTGATACCGGT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGT-TTTTACCGGTTTTATCATTTTGATACCGGT
* * *
434067 TTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATA-TTTTTTTTAAAGTATCGACACATT
65 TTTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATT
* *
434131 ATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
130 ATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
434184 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTTACCGGTTTTATCATTTTGATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTTACCGGTTTTATCATTTTGATACCGGTT
* * *
434249 TTATCAAATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
** *
434314 TAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * * **
434367 AAAGTACCGACACTTTAAATGTATCCTGTAGCG-CTTTACCGGTTTTATCATTTCAATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTTACCGGTTTTATCATTTTGATACCGGTT
* * * *
434431 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCAACACATTTTT
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
434477 AATTTGGATC
Statistics
Matches: 262, Mismatches: 26, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
179 29 0.11
180 18 0.07
181 50 0.19
182 136 0.52
183 29 0.11
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (183 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTTACCGGTTTTATCATTTTGATACCGGTT
TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:434782 original size:23 final size:23
Alignment explanation
Indices: 434747--434819 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
434737 ATACTTTACA
*
434747 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
434770 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
434793 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
434816 ATAT
1 ATAT
434820 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:435252 original size:23 final size:23
Alignment explanation
Indices: 435226--435298 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
435216 ATATTTTACA
*
435226 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
435249 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
435272 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
435295 ATAT
1 ATAT
435299 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:435761 original size:23 final size:23
Alignment explanation
Indices: 435702--435773 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
435692 ATACTTTACA
*
435702 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
435725 ATATAA-CGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
435747 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
435770 ATAT
1 ATAT
435774 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 21 0.46
23 25 0.54
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:436086 original size:475 final size:477
Alignment explanation
Indices: 434523--438100 Score: 6467
Period size: 476 Copynumber: 7.5 Consensus size: 477
434513 CGGTTGCACA
434523 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
1 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
434588 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
66 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
* * *
434653 TTATTAAATTAATATCCTAAAACTAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGAC
131 TTACTAAATTAATATCTTAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
434718 ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
196 ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
434783 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
261 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
* *
434848 ACTTTATATAAAAACGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAAT
326 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAAT
*
434913 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAACATTATTT
391 AGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAA-ATTATTT
* *
434978 CATTCTTTTGATATTTTATAAAAT
454 GATTGTTTTGATATTTTATAAAAT
435002 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
1 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
435067 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
66 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
* *
435132 TTACTAAATTAATATCTTAAAACTAACTTTAAATTAATGTTTTCCACAGTTAAAAAAGTATGGAC
131 TTACTAAATTAATATCTTAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
*
435197 ACTTTTATAAAAAGGATAGATATTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
196 ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
*
435262 CTATTACATTATATAAGTGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
261 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
*
435327 ACTTTTTATAAAAAGGATTGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTAAT
326 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAAT
435391 AGTGTTTCATGTTTTTCT-CCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTG
391 AGTGTTTCATG-TTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTG
435455 ATTGTTTTGATATTTTATAAAAT
455 ATTGTTTTGATATTTTATAAAAT
*
435478 ATTATTTAGAATTTAAATTTAACAATATGAACCAAAGATAATAATAAATATGTAATATATATGTT
1 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
* *
435543 AATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTTTAA
66 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
*
435608 TTACTAAATTAATATCTTAAAACTAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGAC
131 TTACTAAATTAATATCTTAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
435673 ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATAT-AACGCTAC
196 ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
*
435737 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTACAT
261 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
435802 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAAT
326 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAAT
435867 AGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
391 AGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
435932 TTGTTTTGATATTTTA-AAAAT
456 TTGTTTTGATATTTTATAAAAT
*
435953 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATTTAATATATATGTT
1 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
*
436018 TATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
66 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
* *
436083 TTACTAAATTAATATTTTAAAACTAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGAC
131 TTACTAAATTAATATCTTAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
436148 AC-TTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
196 ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
436212 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
261 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
436277 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTAAT
326 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAAT
*
436341 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAACATTATTT
391 AGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAA-ATTATTT
* *
436406 CATTCTTTTGATATTTTATAAAAT
454 GATTGTTTTGATATTTTATAAAAT
436430 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
1 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
436495 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
66 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
* *
436560 TTACTAAATTAATATCTTAAAACTAACTTTAAATTAATGTTTTCCACAGTTAAAAAAGTATGGAC
131 TTACTAAATTAATATCTTAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
* *
436625 ACTTTTATAAAAATGATAGATATTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
196 ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
436690 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
261 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
*
436755 ACTTTTTATAAAAAGGATTGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTAAT
326 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAAT
*
436819 AGTGTTTCATGTTTTTCT-CCTACAATATTAATTTAATAATTTCATTTACACAAAAAA-AATTTT
391 AGTGTTTCATG-TTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA-TTT
436882 GATTGTTTTGATATTTTATAAAAT
454 GATTGTTTTGATATTTTATAAAAT
*
436906 ATTATTTAGAATTTAAATTTAACAATATGAACCAAAGATAATAATAAATATGTAATATATATGTT
1 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
* * *
436971 AATTGTTTTTGATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTTTAA
66 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
*
437036 TTACTAAATTAATATCTTAAAACTAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGAC
131 TTACTAAATTAATATCTTAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
437101 ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
196 ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
437166 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
261 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
437231 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAAT
326 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAAT
437296 AGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
391 AGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
437361 TTGTTTTGATATTTTA-AAAAT
456 TTGTTTTGATATTTTATAAAAT
*
437382 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATTTAATATATATGTT
1 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
*
437447 TATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
66 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
* * *
437512 TTACTAAATTAATATTTTAAAACTAACCTTAAATTAATGTTTTCCACAATGAAAAATGTATGGAC
131 TTACTAAATTAATATCTTAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
*
437577 AC-TTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTAAATAAACGCTAC
196 ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
*
437641 CTATTACATTATATAAGCGCTATCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
261 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
437706 ACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAA
326 ACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAA
*
437771 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTG
390 TAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTG
437836 ATTGTTTTGATATTTTATAAAAT
455 ATTGTTTTGATATTTTATAAAAT
*
437859 ATTATTTAGAATTTAAAATTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
1 ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
*
437924 TATTGATTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
66 TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
*
437989 TTACTAAATTATTATCTTAAAACTCTCTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
131 TTACTAAATTA--A---T---A-TCT-T-AAAA-CTAACCTTAAATTAATGTTTTCCACAGTGAA
*
438054 AAAAGTATGGACACTTTTATAAAAAAGATAGATACTTTACAATATAA
184 AAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAA
438101 CAGGTAAAAA
Statistics
Matches: 2990, Mismatches: 81, Indels: 45
0.96 0.03 0.01
Matches are distributed among these distances:
474 112 0.04
475 607 0.20
476 1094 0.37
477 428 0.14
478 286 0.10
479 381 0.13
482 1 0.00
485 1 0.00
486 2 0.00
487 1 0.00
488 4 0.00
489 42 0.01
490 31 0.01
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (477 bp):
ATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
TATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
TTACTAAATTAATATCTTAAAACTAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
ACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTAC
CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAAT
AGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGA
TTGTTTTGATATTTTATAAAAT
Found at i:436211 original size:23 final size:23
Alignment explanation
Indices: 436176--436248 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
436166 ATACTTTACA
*
436176 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
436199 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
436222 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
436245 ATAT
1 ATAT
436249 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:436680 original size:23 final size:23
Alignment explanation
Indices: 436654--436726 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
436644 ATATTTTACA
*
436654 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
436677 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
436700 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
436723 ATAT
1 ATAT
436727 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:437165 original size:23 final size:23
Alignment explanation
Indices: 437130--437202 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
437120 ATACTTTACA
*
437130 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
437153 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
437176 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
437199 ATAT
1 ATAT
437203 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:437677 original size:23 final size:23
Alignment explanation
Indices: 437605--437677 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
437595 ATACTTTACA
*
437605 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
437628 AAATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
437651 ATATAAGCGCTATCTATTACATC
1 ATATAAGCGCTACCTATTACATT
437674 ATAT
1 ATAT
437678 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Done.