Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008492.1 Hibiscus syriacus cultivar Beakdansim tig00111334_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: 1113585
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:486205 original size:20 final size:20
Alignment explanation
Indices: 486182--486247 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
486172 ATTGAACAAG
486182 TTCTTCTCATTATGAACTTA
1 TTCTTCTCATTATGAACTTA
*
486202 TTCTTCCTTC-TTCA-G-A-TGA
1 TTCTT-C-TCATT-ATGAACTTA
486221 GTTCTTCTCATTATGAACTTA
1 -TTCTTCTCATTATGAACTTA
486242 TTCTTC
1 TTCTTC
486248 CTTCTTCAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 16
0.67 0.04 0.30
Matches are distributed among these distances:
18 3 0.08
19 6 0.17
20 18 0.50
21 6 0.17
22 3 0.08
ACGTcount: A:0.20, C:0.23, G:0.08, T:0.50
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTTA
Found at i:486224 original size:40 final size:40
Alignment explanation
Indices: 486180--486279 Score: 200
Period size: 40 Copynumber: 2.5 Consensus size: 40
486170 ATATTGAACA
486180 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
486220 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
486260 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
486280 CTTCTGGAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.47
Consensus pattern (40 bp):
AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
Found at i:486265 original size:20 final size:20
Alignment explanation
Indices: 486202--486267 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
486192 TATGAACTTA
486202 TTCTTCCTTCTTCAGATGAG
1 TTCTTCCTTCTTCAGATGAG
*
486222 TTCTT-C-TCATT-ATGAACTTA-
1 TTCTTCCTTC-TTCA-G-A-TGAG
486242 TTCTTCCTTCTTCAGATGAG
1 TTCTTCCTTCTTCAGATGAG
486262 TTCTTC
1 TTCTTC
486268 TCATTATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 16
0.67 0.04 0.30
Matches are distributed among these distances:
18 3 0.08
19 6 0.17
20 18 0.50
21 6 0.17
22 3 0.08
ACGTcount: A:0.17, C:0.24, G:0.11, T:0.48
Consensus pattern (20 bp):
TTCTTCCTTCTTCAGATGAG
Found at i:486346 original size:152 final size:153
Alignment explanation
Indices: 486069--486391 Score: 558
Period size: 152 Copynumber: 2.1 Consensus size: 153
486059 GTTGAACAAA
* *
486069 TTCTTCTCATTATGAATTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
1 TTCTTCTCATTATGAACTTATTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
* **
486134 GCAATGTTGATCCATCGTGTGATGAATTCAAGCAAAATATTGAACAAGTTCTTCTCATTATGAAC
66 GAAATGTTGATCCATCGAATGATGAATTCAAGCAAAATATTGAACAAGTTCTTCTCATTATGAAC
486199 TTATTCTTCCTTCTTCAGATGAG
131 TTATTCTTCCTTCTTCAGATGAG
* *
486222 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-TCTG
1 TTCTTCTCATTATGAACTTATTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
486286 GAAATGTTGATCCATCGAATGATGAATTCAAGCAAAATATTGAACAAGTTCTTCTCATTATGAAC
66 GAAATGTTGATCCATCGAATGATGAATTCAAGCAAAATATTGAACAAGTTCTTCTCATTATGAAC
*
486351 TTCTTCTTCCTTCTTCAGATGAG
131 TTATTCTTCCTTCTTCAGATGAG
*
486374 TTCTTCTCTTTATGAACT
1 TTCTTCTCATTATGAACT
486392 CTTCTGGAAA
Statistics
Matches: 161, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
152 104 0.65
153 57 0.35
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (153 bp):
TTCTTCTCATTATGAACTTATTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
GAAATGTTGATCCATCGAATGATGAATTCAAGCAAAATATTGAACAAGTTCTTCTCATTATGAAC
TTATTCTTCCTTCTTCAGATGAG
Found at i:486417 original size:112 final size:112
Alignment explanation
Indices: 486220--486740 Score: 918
Period size: 112 Copynumber: 4.6 Consensus size: 112
486210 TCTTCAGATG
*
486220 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
* *
486285 GGAAATGTTGATCCATCGAATGATGAATTCAAGCAAAATATTGAACA
66 GGAAATGCTAATCCATCGAATGATGAATTCAAGCAAAATATTGAACA
*
486332 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCTTTATGAACTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
* *
486397 GGAAATGCTGATCCATCGAATGATGAATTCAAGCAAAAGATTGAACA
66 GGAAATGCTAATCCATCGAATGATGAATTCAAGCAAAATATTGAACA
486444 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
* *
486509 GGAAATTCTAATCCATCGAATGATGAATTCAAGAAAAATATTGAACA
66 GGAAATGCTAATCCATCGAATGATGAATTCAAGCAAAATATTGAACA
486556 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
*
486621 GGAAATGCTAATCCATCGAATGATGAATTCAAGCAAAA-AGTTGAATA
66 GGAAATGCTAATCCATCGAATGATGAATTCAAGCAAAATA-TTGAACA
* *
486668 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGGTGAGTTCTTCTCATTATGAACTCTACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-TC
486733 TGGAAATG
65 TGGAAATG
486741 TTTTAAGAAA
Statistics
Matches: 393, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
111 1 0.00
112 383 0.97
113 9 0.02
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (112 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
GGAAATGCTAATCCATCGAATGATGAATTCAAGCAAAATATTGAACA
Found at i:486889 original size:76 final size:76
Alignment explanation
Indices: 486761--486928 Score: 239
Period size: 76 Copynumber: 2.2 Consensus size: 76
486751 AAAAATTCTG
* * *
486761 CACTGTAGGGCTTACAGCTGACCCGAAGGTTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTG
1 CACTGTAGGACTTACAACTGACCCGAAGGCTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTG
*
486826 GAAACTTCATC
66 GAAACATCATC
* * *
486837 CGCTGTAGGACTTACATAC-GACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTT
1 CACTGTAGGACTTACA-ACTGACCCGAAGGCTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTT
*
486901 GGAAACATCATG
65 GGAAACATCATC
*
486913 CATTGTAGGACTTACA
1 CACTGTAGGACTTACA
486929 GATGTGAGAA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
76 80 0.99
77 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (76 bp):
CACTGTAGGACTTACAACTGACCCGAAGGCTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTG
GAAACATCATC
Found at i:487222 original size:164 final size:164
Alignment explanation
Indices: 486946--487247 Score: 480
Period size: 164 Copynumber: 1.8 Consensus size: 164
486936 GAAATAGTTT
* * **
486946 ACTATGAAAATCGTCTTCTTACTATTCAACAATTTTATTTTTAGAAAAGATTGAATGAGAAACTA
1 ACTAAGAAAATCGTCTTCTTACTATTCAACAATTTCATTTTTAGAAAAGATAAAATGAGAAACTA
*
487011 TGAAAACCGTTTTCTCATTTTTTTCAAAATAACATGTTGATTGGGTAACATGCCCCAATCTCAAG
66 TGAAAACCGTTTTCTCATTTTTTTCAAAATAACATGTTGATTGGGTAACATGACCCAATCTCAAG
487076 ATAATGCTGTTGGAAATAGTTTACTAAGTAAAAA
131 ATAATGCTGTTGGAAATAGTTTACTAAGTAAAAA
* *
487110 ACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCA-TTTTAGAAAAGATAAAATGAGAAACTA
1 ACTAAGAAAATCGTCTTCTTACTATTCAACAATTTCATTTTTAGAAAAGATAAAATGAGAAACTA
* * ** *
487174 TGGAAATCGTTTTCTCATTATTTTTCAAAATCTCATGTTGATTGGGTAACATGACGCAATCTCAA
66 TGAAAACCGTTTTCTCATT-TTTTTCAAAATAACATGTTGATTGGGTAACATGACCCAATCTCAA
487239 GATAATGCT
130 GATAATGCT
487248 CATTTTCGTT
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
163 42 0.34
164 83 0.66
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (164 bp):
ACTAAGAAAATCGTCTTCTTACTATTCAACAATTTCATTTTTAGAAAAGATAAAATGAGAAACTA
TGAAAACCGTTTTCTCATTTTTTTCAAAATAACATGTTGATTGGGTAACATGACCCAATCTCAAG
ATAATGCTGTTGGAAATAGTTTACTAAGTAAAAA
Found at i:487785 original size:22 final size:22
Alignment explanation
Indices: 487760--487858 Score: 171
Period size: 22 Copynumber: 4.5 Consensus size: 22
487750 GATAAAGCTT
487760 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
487782 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
**
487804 TCATCTTTGAAGGGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
487826 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
487848 TCATCTTTGAA
1 TCATCTTTGAA
487859 GAATGTAGAT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:488319 original size:54 final size:54
Alignment explanation
Indices: 488233--488339 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
488223 GACTGGTTCA
* * * *
488233 TAAAACATTTGTCAATACATTCATCCTCTCATGTGGTTTATGCTCAGATGCTAG
1 TAAAACATTTGACAACACATTCATCCTCTCATGTGGCTTATGCACAGATGCTAG
* *
488287 TAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGATGCTA
1 TAAAACATTTGACAACACATTCATCCTCTCATGTGGCTTATGCACAGATGCTA
488340 TTTGACAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATCCTCTCATGTGGCTTATGCACAGATGCTAG
Found at i:488363 original size:46 final size:46
Alignment explanation
Indices: 488293--488381 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
488283 CTAGTAAAAC
* * *
488293 ATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGATGCT
1 ATTTGACAACACATTCATCATTTCATGTGACTTATGCACAGATGCT
*
488339 ATTTGACAACACATTCATTATTTCATGTGACTTATGCACAGAT
1 ATTTGACAACACATTCATCATTTCATGTGACTTATGCACAGAT
488382 TTCTGGTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (46 bp):
ATTTGACAACACATTCATCATTTCATGTGACTTATGCACAGATGCT
Found at i:490388 original size:114 final size:114
Alignment explanation
Indices: 490188--490411 Score: 349
Period size: 114 Copynumber: 2.0 Consensus size: 114
490178 TCATGCAATG
* * *
490188 CATCTTCCTAATCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGAAC
1 CATCTTCCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
*
490253 ACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGAAAATT
66 ACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTACGAGAAAATT
* * * *
490302 CATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACTAAATCAGATCAGATAACTCAAAGAAC
1 CATCTTCCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
* **
490367 ACTTCCAGAAGATGCTATTGGGTCTTTTTATTTCTACTACGAGAA
66 ACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTACGAGAA
490412 CGTGGCACTT
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (114 bp):
CATCTTCCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
ACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTACGAGAAAATT
Found at i:492483 original size:16 final size:16
Alignment explanation
Indices: 492462--492514 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
492452 TTGGTTCAAA
492462 TTTTTTTCCTTTTTTC
1 TTTTTTTCCTTTTTTC
*
492478 TTTTTTTCCTTTTTCC
1 TTTTTTTCCTTTTTTC
* *
492494 TTCTTTT--TTTCTTC
1 TTTTTTTCCTTTTTTC
492508 TTTTTTT
1 TTTTTTT
492515 TTCAAGCATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 11 0.34
16 21 0.66
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTCCTTTTTTC
Found at i:492505 original size:8 final size:8
Alignment explanation
Indices: 492462--492516 Score: 58
Period size: 8 Copynumber: 6.5 Consensus size: 8
492452 TTGGTTCAAA
492462 TTTTTTTC
1 TTTTTTTC
*
492470 CTTTTTTC
1 TTTTTTTC
492478 TTTTTTTCC
1 TTTTTTT-C
492487 TTTTTCCTTC
1 TTTTT--TTC
492497 TTTTTTTC
1 TTTTTTTC
492505 TTCTTTTT-
1 TT-TTTTTC
492513 TTTT
1 TTTT
492517 CAAGCATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
7 2 0.05
8 20 0.49
9 11 0.27
10 6 0.15
11 2 0.05
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:492515 original size:12 final size:11
Alignment explanation
Indices: 492462--492514 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
492452 TTGGTTCAAA
*
492462 TTTTTTTCCTTT
1 TTTTTTT-CTTC
*
492474 TTTCTTTTTTTC
1 TTT-TTTTCTTC
* *
492486 CTTTTTCCTTC
1 TTTTTTTCTTC
492497 TTTTTTTCTTC
1 TTTTTTTCTTC
492508 TTTTTTT
1 TTTTTTT
492515 TTCAAGCATA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
11 22 0.67
12 7 0.21
13 4 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:495308 original size:6 final size:6
Alignment explanation
Indices: 495297--495330 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
495287 ACAAACGAAA
* *
495297 AAATGC AAATGC AAATGT AAATGC AAATGT AAAT
1 AAATGC AAATGC AAATGC AAATGC AAATGC AAAT
495331 ATATGAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.24
Consensus pattern (6 bp):
AAATGC
Found at i:495318 original size:12 final size:12
Alignment explanation
Indices: 495273--495330 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
495263 TTATGGAAAT
495273 ATGCAAATGTAA
1 ATGCAAATGTAA
* *
495285 ATACAAACG-AA
1 ATGCAAATGTAA
*
495296 A---AAATGCAA
1 ATGCAAATGTAA
495305 ATGCAAATGTAA
1 ATGCAAATGTAA
495317 ATGCAAATGTAA
1 ATGCAAATGTAA
495329 AT
1 AT
495331 ATATGAATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 4 0.11
9 3 0.08
11 3 0.08
12 28 0.74
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (12 bp):
ATGCAAATGTAA
Found at i:495418 original size:8 final size:7
Alignment explanation
Indices: 495389--495430 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
495379 ATAAGAGTAT
495389 AAATGCA
1 AAATGCA
* *
495396 CAATGAA
1 AAATGCA
495403 AAATGCA
1 AAATGCA
495410 AAGATGCA
1 AA-ATGCA
495418 AAATG-A
1 AAATGCA
495424 AAATGCA
1 AAATGCA
495431 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.57, C:0.12, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:497519 original size:2 final size:2
Alignment explanation
Indices: 497512--497549 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
497502 AAAGATATTA
497512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
497550 TTAAATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:497797 original size:14 final size:15
Alignment explanation
Indices: 497743--497795 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
497733 TATTTTTATG
497743 ATTAAATAATAATAC-T
1 ATTAAA-AATAA-ACAT
* * *
497759 AATAATAATAAATAT
1 ATTAAAAATAAACAT
497774 ATTAAAAATAAACAT
1 ATTAAAAATAAACAT
497789 ATTAAAA
1 ATTAAAA
497796 TATATTTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 1 0.03
15 25 0.83
16 4 0.13
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAAATAAACAT
Found at i:499139 original size:21 final size:22
Alignment explanation
Indices: 499113--499167 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
499103 ATTAATTATT
* *
499113 TAATAATAATACAATATAAT-A
1 TAATAATAAAACAAAATAATAA
499134 TAATAATAAAACAAAATAATAA
1 TAATAATAAAACAAAATAATAA
499156 TAATAAATAAAA
1 TAAT-AATAAAA
499168 TAAATGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 18 0.60
22 5 0.17
23 7 0.23
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (22 bp):
TAATAATAAAACAAAATAATAA
Found at i:499170 original size:18 final size:18
Alignment explanation
Indices: 499113--499170 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
499103 ATTAATTATT
*
499113 TAATAATAATACAATATAA
1 TAATAATAATA-AATAAAA
*
499132 T-ATAATAATAAAACAAAA
1 TAATAATAAT-AAATAAAA
499150 TAATAATAATAAATAAAA
1 TAATAATAATAAATAAAA
499168 TAA
1 TAA
499171 ATGAAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 24 0.71
19 10 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
TAATAATAATAAATAAAA
Found at i:500860 original size:20 final size:20
Alignment explanation
Indices: 500837--500914 Score: 86
Period size: 20 Copynumber: 3.8 Consensus size: 20
500827 TACAAAAAAT
*
500837 AATAAAATATTAAATATAAA
1 AATAAAATAATAAATATAAA
*
500857 AATAAAATAATAAATAAAAA
1 AATAAAATAATAAATATAAA
* *
500877 AGAAAAATATAAAAAATATAAA
1 A-ATAAA-ATAATAAATATAAA
500899 AGA-AAAATAATAAATA
1 A-ATAAAATAATAAATA
500915 GTGAATGATG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 28 0.56
21 7 0.14
22 15 0.30
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (20 bp):
AATAAAATAATAAATATAAA
Found at i:500873 original size:7 final size:7
Alignment explanation
Indices: 500833--500989 Score: 51
Period size: 7 Copynumber: 22.1 Consensus size: 7
500823 TAATTACAAA
500833 AAATAAT
1 AAATAAT
*
500840 AAAATATT
1 -AAATAAT
500848 AAAT-AT
1 AAATAAT
500854 AAA-AAT
1 AAATAAT
500860 AAAATAAT
1 -AAATAAT
*
500868 AAATAAA
1 AAATAAT
*
500875 AAAGAA-
1 AAATAAT
500881 AAAT-AT
1 AAATAAT
*
500887 AAAAAAT
1 AAATAAT
* *
500894 ATAAAAGAA
1 A-AATA-AT
500903 AAATAAT
1 AAATAAT
*
500910 AAATAGT
1 AAATAAT
*
500917 GAATGATGAT
1 -AA--ATAAT
500927 AAATAA-
1 AAATAAT
500933 AAAGTAAAT
1 AAA-T-AAT
* *
500942 ATATATT
1 AAATAAT
*
500949 GAATAA-
1 AAATAAT
500955 AAATAAT
1 AAATAAT
*
500962 ATAT-AT
1 AAATAAT
500968 AAAT-AT
1 AAATAAT
500974 AAATACAT
1 AAATA-AT
*
500982 ATATAAT
1 AAATAAT
500989 A
1 A
500990 TATGATATGA
Statistics
Matches: 111, Mismatches: 22, Indels: 33
0.67 0.13 0.20
Matches are distributed among these distances:
5 1 0.01
6 31 0.28
7 43 0.39
8 27 0.24
9 6 0.05
10 3 0.03
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:500900 original size:22 final size:22
Alignment explanation
Indices: 500848--500912 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
500838 ATAAAATATT
* *
500848 AAATATAAAA-ATAAA-ATAAT
1 AAATATAAAAGAAAAATATAAA
*
500868 AAATAAAAAAGAAAAATATAAA
1 AAATATAAAAGAAAAATATAAA
500890 AAATATAAAAGAAAAATAATAAA
1 AAATATAAAAGAAAAAT-ATAAA
500913 TAGTGAATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 9 0.24
21 4 0.11
22 20 0.53
23 5 0.13
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (22 bp):
AAATATAAAAGAAAAATATAAA
Found at i:500964 original size:20 final size:19
Alignment explanation
Indices: 500925--500986 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
500915 GTGAATGATG
500925 ATAAATAAAAAGTAAATATAT
1 ATAAATAAAAA-T-AATATAT
*
500946 ATTGAATAAAAATAATATAT
1 A-TAAATAAAAATAATATAT
*
500966 ATAAATATAAATACATATAT
1 ATAAATAAAAATA-ATATAT
500986 A
1 A
500987 ATATATGATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.28
20 15 0.42
21 2 0.06
22 9 0.25
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (19 bp):
ATAAATAAAAATAATATAT
Found at i:500997 original size:5 final size:5
Alignment explanation
Indices: 500989--501126 Score: 276
Period size: 5 Copynumber: 27.6 Consensus size: 5
500979 CATATATAAT
500989 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
501039 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
501089 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATA
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATA
501127 CAATAATAAA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 133 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:504597 original size:131 final size:130
Alignment explanation
Indices: 504239--504607 Score: 474
Period size: 131 Copynumber: 2.8 Consensus size: 130
504229 ATATTTTTAA
* * * * * *
504239 GAAAGAAAACGACAATATCTAATTATTTTCAATTGAGAATAAATGACATCTCATGCCTTAAAACA
1 GAAAGAAAACAATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * *** * * **
504304 GCCATTTATTACTCCGATCAAAATGAGGGGATATCACTACTTCGTCTTAAAATTCAATATTGATT
66 GTCATTTATTACTCC-AACGAAATGAAAAGATATTACTATTTAATCTTAAAATTCAATATTGATT
504369 C
130 C
* * *
504370 GAAAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCGTTGAAGCA
1 GAAAGAAAACAATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTAAAGCA
*
504435 GTCATTTATTACTCCAACGGAA-GCAATAAGATATTACTATTTAATCTTAAAATTCAATATTGAT
66 GTCATTTATTACTCCAACGAAATG-AA-AAGATATTACTATTTAATCTTAAAATTCAATATTGAT
504499 TC
129 TC
*
504501 -AAACGAAAATC-ATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTTAAG
1 GAAA-GAAAA-CAATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTAAAG
504564 CAGTCATTTATTACTCCAACCGAAATGAAAAGATATTACTATTT
64 CAGTCATTTATTACTCCAA-CGAAATGAAAAGATATTACTATTT
504608 TCAATATTAA
Statistics
Matches: 209, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
129 1 0.00
130 8 0.04
131 192 0.92
132 7 0.03
133 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (130 bp):
GAAAGAAAACAATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTAAAGCA
GTCATTTATTACTCCAACGAAATGAAAAGATATTACTATTTAATCTTAAAATTCAATATTGATTC
Found at i:505306 original size:51 final size:51
Alignment explanation
Indices: 505251--505348 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
505241 AGATAAAAAG
* * *
505251 AAATAGCCAAATCCGAAATAGACAGTAACTAAAATGCAGAAAATAAAGGAA
1 AAATAGCCAAATCAGAAATAAAAAGTAACTAAAATGCAGAAAATAAAGGAA
* * * * *
505302 AAATAGCTAAATCATAAATAAAAAGTGACTAAAATGCATAAATTAAA
1 AAATAGCCAAATCAGAAATAAAAAGTAACTAAAATGCAGAAAATAAA
505349 AATACATCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.58, C:0.11, G:0.12, T:0.18
Consensus pattern (51 bp):
AAATAGCCAAATCAGAAATAAAAAGTAACTAAAATGCAGAAAATAAAGGAA
Found at i:508029 original size:17 final size:17
Alignment explanation
Indices: 508003--508037 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
507993 AAATGAAAAT
* *
508003 AAAATTAATAAAGATAA
1 AAAATAAATAAAAATAA
508020 AAAATAAATAAAAATAA
1 AAAATAAATAAAAATAA
508037 A
1 A
508038 TAACAACGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAATAAATAAAAATAA
Found at i:508135 original size:36 final size:35
Alignment explanation
Indices: 508095--508514 Score: 147
Period size: 36 Copynumber: 11.4 Consensus size: 35
508085 TCCAAAAACC
* *
508095 TATATAATATATATTTTCAAAAGTATTTTAAAATTA
1 TATATAATATATATTTTCAAAAAT-TTTTAAAACTA
* * *
508131 TATATTATATAT-TTTTAAAAAAATGTTTTCAAAATTA
1 TATATAATATATATTTT-CAAAAAT-TTTT-AAAACTA
* * *
508168 TATAGTTTTCAA-AAATGTTTTCAAAAATATTTTTAAA--A
1 TATA----T-AATATATATTTTCAAAAAT-TTTTAAAACTA
* * * *
508206 CTATATATTATATAAGCTTTC-AAAATGATTTCAAAAATA
1 -TATATAATATAT-A-TTTTCAAAAAT--TTTTAAAACTA
* ***
508245 TATAATATATATATGTTTTC-ATTTTTTTTAAAAC--
1 TAT-ATA-ATATATATTTTCAAAAATTTTTAAAACTA
508279 --TATA-TATAT-TT-TCA-AAATGTTTTGAAAACTA
1 TATATAATATATATTTTCAAAAAT-TTTT-AAAACTA
508310 TATA-ATATATATATTTTCAAAAATGTTTTAAAAACTA
1 TATATA-ATATATATTTTCAAAAAT-TTTT-AAAACTA
* *
508347 TATATTATATTTATTTTC-AAAATGTTTTAAAAACTA
1 TATATAATATATATTTTCAAAAAT-TTTT-AAAACTA
508383 TATAATATATATATATATATATCCAAAAATGTTTTAAAAACTA
1 TAT-ATA-ATATATAT-T-T-T-CAAAAAT-TTTT-AAAACTA
* *
508426 TATATTATATTTATTTTC-AAAATGTTTTAAAAACTA
1 TATATAATATATATTTTCAAAAAT-TTTT-AAAACTA
* * * *
508462 TATAATATATAAATGTTTTC-AAAATGTTTTCAAATTA
1 TAT-ATA-ATATATATTTTCAAAAAT-TTTTAAAACTA
508499 TATTATATATATATAT
1 TA-TATA-ATATATAT
508515 ATATATATAT
Statistics
Matches: 303, Mismatches: 41, Indels: 79
0.72 0.10 0.19
Matches are distributed among these distances:
27 3 0.01
28 6 0.02
29 10 0.03
31 3 0.01
32 2 0.01
33 2 0.01
34 6 0.02
35 10 0.03
36 77 0.25
37 75 0.25
38 38 0.13
39 10 0.03
40 10 0.03
41 22 0.07
42 8 0.03
43 21 0.07
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (35 bp):
TATATAATATATATTTTCAAAAATTTTTAAAACTA
Found at i:508189 original size:12 final size:12
Alignment explanation
Indices: 508149--508205 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 12
508139 ATATTTTTAA
508149 AAAAATGTTTTC
1 AAAAATGTTTTC
508161 AAAATTATATAGTTTTC
1 -AAA--A-AT-GTTTTC
508178 AAAAATGTTTTC
1 AAAAATGTTTTC
* *
508190 AAAAATATTTTT
1 AAAAATGTTTTC
508202 AAAA
1 AAAA
508206 CTATATATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
12 20 0.53
13 5 0.13
14 1 0.03
15 1 0.03
16 5 0.13
17 6 0.16
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (12 bp):
AAAAATGTTTTC
Found at i:508195 original size:30 final size:30
Alignment explanation
Indices: 508134--508193 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
508124 AAAATTATAT
*
508134 ATTATATATTTTTAAAAAAATGTTTTCAAA
1 ATTATATAGTTTTAAAAAAATGTTTTCAAA
*
508164 ATTATATAGTTTT-CAAAAATGTTTTCAAA
1 ATTATATAGTTTTAAAAAAATGTTTTCAAA
508193 A
1 A
508194 ATATTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (30 bp):
ATTATATAGTTTTAAAAAAATGTTTTCAAA
Found at i:508393 original size:43 final size:43
Alignment explanation
Indices: 508345--508516 Score: 165
Period size: 43 Copynumber: 4.3 Consensus size: 43
508335 TTTTAAAAAC
508345 TATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAA
1 TATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAA
* * *
508388 TATATA-TATATATATATCCAAAAATGTTTTAAAAAC-------
1 TATATATTATATTTATTTTC-AAAATGTTTTAAAAACTATATAA
508424 TATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAA
1 TATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAA
* * * *
508467 TATATA--A-A--TGTTTTCAAAATGTTTT-CAAATTATATTA
1 TATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAA
508504 TATATATATATAT
1 TATATAT-TATAT
508517 ATATATATAT
Statistics
Matches: 105, Mismatches: 10, Indels: 29
0.73 0.07 0.20
Matches are distributed among these distances:
36 22 0.21
37 25 0.24
38 16 0.15
40 2 0.02
41 2 0.02
42 10 0.10
43 28 0.27
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (43 bp):
TATATATTATATTTATTTTCAAAATGTTTTAAAAACTATATAA
Found at i:508509 original size:2 final size:2
Alignment explanation
Indices: 508497--508548 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
508487 GTTTTCAAAT
508497 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
508538 TA TA TA TA TA T
1 TA TA TA TA TA T
508549 TTTAAAATGT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:508514 original size:79 final size:75
Alignment explanation
Indices: 508279--508506 Score: 333
Period size: 79 Copynumber: 3.1 Consensus size: 75
508269 TTTTTAAAAC
* *
508279 TATATATATTTTCAAAATGTTTTGAAAACTATATAATATAT--ATATTTTCAAAAATGTTTTAAA
1 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATAAATATTTTCAAAAATGTTTTAAA
508342 AACTATATAT
66 AACTATATAT
*
508352 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATATATATATATATCCAAAAATGTTT
1 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATA-A-ATAT-T-TTCAAAAATGTTT
508417 TAAAAACTATATAT
62 TAAAAACTATATAT
* *
508431 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATAAATGTTTTC-AAAATGTTTT-CA
1 TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATAAATATTTTCAAAAATGTTTTAAA
508494 AA-T-TATAT
66 AACTATATAT
508502 TATAT
1 TATAT
508507 ATATATATAT
Statistics
Matches: 143, Mismatches: 6, Indels: 14
0.88 0.04 0.09
Matches are distributed among these distances:
71 10 0.07
72 1 0.01
73 42 0.29
74 10 0.07
75 2 0.01
76 1 0.01
77 7 0.05
78 2 0.01
79 68 0.48
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (75 bp):
TATATTTATTTTCAAAATGTTTTAAAAACTATATAATATATAAATATTTTCAAAAATGTTTTAAA
AACTATATAT
Found at i:509282 original size:84 final size:84
Alignment explanation
Indices: 509211--510253 Score: 1005
Period size: 84 Copynumber: 12.4 Consensus size: 84
509201 GCTATACAGT
* ** *
509211 AAATGAGGTGCCTTGGAGCTGAGCGTAGTCGAACTCTTAGGTCTTTGATTGGCAAATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTTC
* *
509276 TAGCCTTGAGTTATGCTG-
66 TAGACTTAAGTTATGCTGC
** * * * * * * * *
509294 AAATGATGTGCCCACGAAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGTTCGCATATAACCTTT
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTT
* * *
509359 CTCGACTTAAGCTATACTGC
65 CTAGACTTAAGTTATGCTGC
* * *
509379 AAATGATGTGCCTTTGAGTTGAGC-TAGACGAACTCGAAGGTCTTTG-TTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTTC
* *
509442 TAG-CTTTGAA-TTATTCTAC
66 TAGAC-TT-AAGTTATGCTGC
* * * * * * * *
509461 AAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTATGGTTGGTAGATAACCCTT
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTT
* **
509526 CTCGACTTAAACTATGCTGC
65 CTAGACTTAAGTTATGCTGC
** * *
509546 AAAAAATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG-TTGG-AAATTAACCCTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGA-TAACCCTT
* *
509609 CTAGACTTGAGTTATACTGC
65 CTAGACTTAAGTTATGCTGC
* * * * *
509629 AAATGATGTAACCTTGAAGCTAAGTGTAATCGAACTCGAAGGTCTTT-AGTTGGCAGATAACCCT
1 AAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGA-TTGGCAGATAACCCT
* * *
509693 TCTCGACTTAAGCTATGTTGC
64 TCTAGACTTAAGTTATGCTGC
* * *
509714 AAATGATGTGCCTTTGAGCTGAGCGTAGACGAACTCGTAGGTCTTTG-TTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTTC
* * *
509778 TAGCCTTGAGTTATGCTAC
66 TAGACTTAAGTTATGCTGC
* * * * * *
509797 AAATGATGTACCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
1 AAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTT
*
509862 CTCGACTTAAGTTATGCTGC
65 CTAGACTTAAGTTATGCTGC
* * * *
509882 AAATGATGTTCCTTTGAGCTGAGCGTAGTCGAACTCAAAGGT-TTTTATTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTTC
* *
509946 TAGCCTTGAGTTATGCTGC
66 TAGACTTAAGTTATGCTGC
* * * * * * *
509965 AAATGATATGACCTCGAAGTTGAGTGTATTCGAACTCGAAGGTCTTTGGTTGGCAGATAGA-CCT
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATA-ACCCT
* * *
510029 TTTCGACTTAAGTTATACTGC
64 TCTAGACTTAAGTTATGCTGC
* * *
510050 AAATGATGTGGCTTTGAGCTGAGCGTAGTCGAACTTGAAGGTCTTT-ATTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTTC
* *
510114 TA-ACCTTAAGTTATGTTGT
66 TAGA-CTTAAGTTATGCTGC
*** * * * * * *
510133 AAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTTGCAGATAGCCTTT
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTT
* * * *
510198 CTCGATTTAAGCTATGTTGC
65 CTAGACTTAAGTTATGCTGC
* *
510218 AAATGATGTGCCTTTGAGCTGAGCGTAGTCAAACTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
510254 TTCTAGCCTT
Statistics
Matches: 769, Mismatches: 166, Indels: 49
0.78 0.17 0.05
Matches are distributed among these distances:
81 1 0.00
82 38 0.05
83 193 0.25
84 333 0.43
85 199 0.26
86 5 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (84 bp):
AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTGGCAGATAACCCTTC
TAGACTTAAGTTATGCTGC
Found at i:509658 original size:168 final size:168
Alignment explanation
Indices: 509211--510253 Score: 1473
Period size: 168 Copynumber: 6.2 Consensus size: 168
509201 GCTATACAGT
* * ** *
509211 AAATGAGGTGCCTTGGAGCTGAGCGTAGTCGAACTCTTAGGTCTTTGATTGGCAAATAACCCTTC
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG-TTGGCAGATAACCCTTC
* *
509276 TAGCCTTGAGTTATGCTG-AAATGATGTGCCCACGAAGCTGAGTGTAATCGAACTCAAAGGTCTT
65 TAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTT
* * * *
509340 TGGTTCGCATATAACCTTTCTCGACTTAAGCTATACTGC
130 TGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
* *
509379 AAATGATGTGCCTTTGAGTTGAGC-TAGACGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * * * * *
509443 AGCTTTGAATTATTCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTAT
66 AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* *
509508 GGTTGGTAGATAACCCTTCTCGACTTAAACTATGCTGC
131 GGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
** *
509546 AAAAAATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGG-AAATTAACCCTTC
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGA-TAACCCTTC
* * ** * *
509610 TAGACTTGAGTTATACTGCAAATGATGTAACCTTGAAGCTAAGTGTAATCGAACTCGAAGGTCTT
65 TAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTT
* *
509675 TAGTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGC
130 TGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
* *
509714 AAATGATGTGCCTTTGAGCTGAGCGTAGACGAACTCGTAGGTCTTTGTTGGCAGATAACCCTTCT
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* *
509779 AGCCTTGAGTTATGCTACAAATGATGTACCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
66 AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
*
509844 GGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
131 GGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
* * * *
509882 AAATGATGTTCCTTTGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTATTGGCAGATAACCCTTCT
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * * *
509947 AGCCTTGAGTTATGCTGCAAATGATATGACCTCGAAGTTGAGTGTATTCGAACTCGAAGGTCTTT
66 AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* * *
510012 GGTTGGCAGATAGA-CCTTTTCGACTTAAGTTATACTGC
131 GGTTGGCAGATA-ACCCTTCTCGACTTAAGCTATGCTGC
* * *
510050 AAATGATGTGGCTTTGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTATTGGCAGATAACCCTTCT
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * * * *
510115 AACCTTAAGTTATGTTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
66 AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* * * * *
510180 GGTTTGCAGATAGCCTTTCTCGATTTAAGCTATGTTGC
131 GGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
*
510218 AAATGATGTGCCTTTGAGCTGAGCGTAGTCAAACTC
1 AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
510254 TTCTAGCCTT
Statistics
Matches: 775, Mismatches: 94, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
166 30 0.04
167 117 0.15
168 625 0.81
169 3 0.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (168 bp):
AAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
GGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGC
Found at i:510164 original size:504 final size:503
Alignment explanation
Indices: 509211--510510 Score: 1511
Period size: 504 Copynumber: 2.6 Consensus size: 503
509201 GCTATACAGT
* * * *
509211 AAATGAGGTGCCTTGGAGCTGAGCGTAGTCGAACTCTTAGGTCTTTGATTGGCAAATAACCCTTC
1 AAATGATGTGCCTTTGAGCTGAGCGTAGACGAACTCGTAGGTCTTTGATTGGCAAATAACCCTTC
* *
509276 TAGCCTTGAGTTATGCTGAAATGATGTGCCCACGAAGCTGAGTGTAATCGAACTCAAAGGTCTTT
66 TAGCCTTGAGTTATGCTCAAATGATGTACCCACGAAGCTGAGTGTAATCGAACTCAAAGGTCTTT
* * *
509341 GGTTCGCATATAACCTTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGAGTTGAGCTAG
131 GGTTCGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGCTAG
* * * * *
509406 ACGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCTTTGAATTATTCTACAAATGATGTG
196 ACGAACTCAAAGGTCTTTATTGGCAGATAACCCTTCTAGCCTTGAATTATGCTACAAATGATATG
* *
509471 CCCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTATGGTTGGTAGATAACCCTTCTCGACTTAA
261 ACCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTATGGTTGGCAGATAACCCTTCTCGACTTAA
* *
509536 ACTATGCTGCAAAAAATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGAAAT
326 ACTATACTGCAAAAAATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTATTGGAAAT
* **
509601 TAACCCTTCTAGACTTGAGTTATACTGCAAATGATGTAACCTTGAAGCTAAGTGTAATCGAACTC
391 TAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTAACCTCAAAGCTAAGTGTAATCGAACTC
509666 GAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGC
456 GAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGC
*
509714 AAATGATGTGCCTTTGAGCTGAGCGTAGACGAACTCGTAGGTCTTTG-TTGGCAGATAACCCTTC
1 AAATGATGTGCCTTTGAGCTGAGCGTAGACGAACTCGTAGGTCTTTGATTGGCAAATAACCCTTC
* *
509778 TAGCCTTGAGTTATGCTACAAATGATGTACCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTT
66 TAGCCTTGAGTTATGCT-CAAATGATGTACCCACGAAGCTGAGTGTAATCGAACTCAAAGGTCTT
* * * *
509843 TGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTTCCTTTGAGCTGAGCGT
130 TGGTTCGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGC-T
* * * *
509908 AGTCGAACTCAAAGGTTTTTATTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATA
194 AGACGAACTCAAAGGTCTTTATTGGCAGATAACCCTTCTAGCCTTGAATTATGCTACAAATGATA
* * * * *
509973 TGACCTCGAAGTTGAGTGTATTCGAACTCGAAGGTCTTTGGTTGGCAGATAGA-CCTTTTCGACT
259 TGACCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTATGGTTGGCAGATA-ACCCTTCTCGACT
** ** * *
510037 TAAGTTATACTGCAAATGATGTGGCTTTGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTATTGGC
323 TAAACTATACTGCAAAAAATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTATTGG-
* ** * ** *
510102 AGA-TAACCCTTCTA-ACCTTAAGTTATGTTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCG
387 AAATTAACCCTTCTAGA-CTTAAGTTATACTGCAAATGATGTAACCTCAAAGCTAAGTGTAATCG
* * * * *
510165 AACTCGAAGGTCTTTGGTTTGCAGATAGCCTTTCTCGATTTAAGCTATGTTGC
451 AACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGC
*
510218 AAATGATGTGCC-TT----TGAGC-T-GA-G----CGTA-------G--T--C--A-AACTCTTC
1 AAATGATGTGCCTTTGAGCTGAGCGTAGACGAACTCGTAGGTCTTTGATTGGCAAATAACCCTTC
** ** *
510257 TAGCCTTGAGTTATGCTGCAAATGATGGGCCCTCAAAGCTG-AG-T-A---TAATTAAACTCGAA
66 TAGCCTTGAGTTATGCT-CAAATGAT-GTACC-C--A-C-GAAGCTGAGTGTAATCGAACTCAAA
* * * *
510316 GGTATTTGGTTGGCAGATAACCCTTCTCAACTTAAGCTATATTGCAAATGATGTGCCTTTGAGCT
124 GGTCTTTGGTTCGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGAGCT
* * * * * * * * *
510381 GAGCGTAGTCAAACTCATAGGTCTTTGTTGGTAGATAACTCTTCTTGCCTTGAGTTATGCTGCAA
189 GAGC-TAGACGAACTCAAAGGTCTTTATTGGCAGATAACCCTTCTAGCCTTGAATTATGCTACAA
* * * * * *
510446 ATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGCTAACCCTTCT
253 ATGATATGACCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTATGGTTGGCAGATAACCCTTCT
510511 AGCCTTGAGT
Statistics
Matches: 703, Mismatches: 82, Indels: 48
0.84 0.10 0.06
Matches are distributed among these distances:
478 1 0.00
479 217 0.31
480 4 0.01
481 1 0.00
482 2 0.00
483 1 0.00
484 4 0.01
485 2 0.00
492 4 0.01
496 1 0.00
497 2 0.00
498 1 0.00
499 5 0.01
502 33 0.05
503 145 0.21
504 277 0.39
505 3 0.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (503 bp):
AAATGATGTGCCTTTGAGCTGAGCGTAGACGAACTCGTAGGTCTTTGATTGGCAAATAACCCTTC
TAGCCTTGAGTTATGCTCAAATGATGTACCCACGAAGCTGAGTGTAATCGAACTCAAAGGTCTTT
GGTTCGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGCTAG
ACGAACTCAAAGGTCTTTATTGGCAGATAACCCTTCTAGCCTTGAATTATGCTACAAATGATATG
ACCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTATGGTTGGCAGATAACCCTTCTCGACTTAA
ACTATACTGCAAAAAATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTATTGGAAAT
TAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTAACCTCAAAGCTAAGTGTAATCGAACTC
GAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGC
Found at i:510368 original size:143 final size:143
Alignment explanation
Indices: 510110--510396 Score: 439
Period size: 143 Copynumber: 2.0 Consensus size: 143
510100 GCAGATAACC
* * * * *
510110 CTTCTAACCTTAAGTTATGTTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGG
1 CTTCTAACCTTAAGTTATGCTGCAAATGATGGGCCCTCAAAGCTGAGTATAATCAAACTCGAAGG
* * * * * * *
510175 TCTTTGGTTTGCAGATAGCCTTTCTCGATTTAAGCTATGTTGCAAATGATGTGCCTTTGAGCTGA
66 TATTTGGTTGGCAGATAACCCTTCTCAACTTAAGCTATATTGCAAATGATGTGCCTTTGAGCTGA
510240 GCGTAGTCAAACT
131 GCGTAGTCAAACT
* * *
510253 CTTCTAGCCTTGAGTTATGCTGCAAATGATGGGCCCTCAAAGCTGAGTATAATTAAACTCGAAGG
1 CTTCTAACCTTAAGTTATGCTGCAAATGATGGGCCCTCAAAGCTGAGTATAATCAAACTCGAAGG
510318 TATTTGGTTGGCAGATAACCCTTCTCAACTTAAGCTATATTGCAAATGATGTGCCTTTGAGCTGA
66 TATTTGGTTGGCAGATAACCCTTCTCAACTTAAGCTATATTGCAAATGATGTGCCTTTGAGCTGA
510383 GCGTAGTCAAACT
131 GCGTAGTCAAACT
510396 C
1 C
510397 ATAGGTCTTT
Statistics
Matches: 129, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 129 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (143 bp):
CTTCTAACCTTAAGTTATGCTGCAAATGATGGGCCCTCAAAGCTGAGTATAATCAAACTCGAAGG
TATTTGGTTGGCAGATAACCCTTCTCAACTTAAGCTATATTGCAAATGATGTGCCTTTGAGCTGA
GCGTAGTCAAACT
Found at i:510425 original size:83 final size:84
Alignment explanation
Indices: 510272--510510 Score: 248
Period size: 84 Copynumber: 2.8 Consensus size: 84
510262 TTGAGTTATG
* * ** * *
510272 CTGCAAATGATGGGCCCTCAAAGCTGAGTATAATTAAACTCGAAGGTATTTGGTTGGCAGATAAC
1 CTGCAAATGATGTGCCCTCGAAGCTGAGCGTAATCAAACTCGAAGGTCTTT-GTTGGCAGATAAC
510337 CCTTCTCAACTTAAGCTATA
65 CCTTCTCAACTTAAGCTATA
* * * * *
510357 TTGCAAATGATGTGCCTTTG-AGCTGAGCGTAGTCAAACTC-ATAGGTCTTTGTTGGTAGATAAC
1 CTGCAAATGATGTGCCCTCGAAGCTGAGCGTAATCAAACTCGA-AGGTCTTTGTTGGCAGATAAC
* *** * * *
510420 TCTTCTTGCCTTGAGTTATG
65 CCTTCTCAACTTAAGCTATA
* * *
510440 CTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGCTAAC
1 CTGCAAATGATGTGCCCTCGAAGCTGAGCGTAATCAAACTCGAAGGTC-TTTGTTGGCAGATAAC
510505 CCTTCT
65 CCTTCT
510511 AGCCTTGAGT
Statistics
Matches: 123, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
83 43 0.35
84 45 0.37
85 35 0.28
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (84 bp):
CTGCAAATGATGTGCCCTCGAAGCTGAGCGTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACC
CTTCTCAACTTAAGCTATA
Found at i:510518 original size:85 final size:85
Alignment explanation
Indices: 510253--510532 Score: 325
Period size: 85 Copynumber: 3.3 Consensus size: 85
510243 TAGTCAAACT
* * * *
510253 CTTCTAGCCTTGAGTTATGCTGCAAATGATGGGCCCTCAAAGCTGAGTATAATTAAACTCGAAGG
1 CTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAAGG
* *
510318 TATTTGGTTGGCAGATAACC
66 TCTTTTGTTGGCAGATAACC
* * * ** * * * *
510338 CTTCTCA-ACTTAAGCTATATTGCAAATGATGTGCCTTTG-AGCTGAGCGTAGTCAAACTC-ATA
1 CTTCT-AGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGA-A
* *
510400 GGTC-TTTGTTGGTAGATAACT
64 GGTCTTTTGTTGGCAGATAACC
* *
510421 CTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGG
1 CTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAAGG
*
510486 TCTTTTGTTGGCAGCTAACC
66 TCTTTTGTTGGCAGATAACC
*
510506 CTTCTAGCCTTGAGTTATGCTGTAAAT
1 CTTCTAGCCTTGAGTTATGCTGCAAAT
510533 AAATGAAGAA
Statistics
Matches: 156, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
83 45 0.29
84 42 0.27
85 68 0.44
86 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (85 bp):
CTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAAGG
TCTTTTGTTGGCAGATAACC
Found at i:511801 original size:95 final size:95
Alignment explanation
Indices: 511674--511867 Score: 255
Period size: 95 Copynumber: 2.0 Consensus size: 95
511664 CATTGTAGAG
* *
511674 ATATTATAATCAACTTTATCAGGCTAGTTGAATATTATCCATAAAGCCGAGG-CGCTTAACCAAT
1 ATATTAAAATCAACTTTATCAGGCTAGCTGAATATTATCCATAAAGCCG-GGTCGCTTAACCAAT
* * *
511738 TGCTCTAGAGGGAGAAATCAAGCTTTATTGT
65 TGCTCTAAAGGGACAAAGCAAGCTTTATTGT
* * ** *
511769 ATATTAAAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTTGGGTCGTTTAACCAATT
1 ATATTAAAATCAACTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGTCGCTTAACCAATT
* **
511834 GCTTTAAAGGGACATCGCAAGCTTTATTGT
66 GCTCTAAAGGGACAAAGCAAGCTTTATTGT
511864 ATAT
1 ATAT
511868 ATATAATATT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 2 0.02
95 83 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (95 bp):
ATATTAAAATCAACTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGTCGCTTAACCAATT
GCTCTAAAGGGACAAAGCAAGCTTTATTGT
Found at i:514954 original size:37 final size:37
Alignment explanation
Indices: 514901--515006 Score: 149
Period size: 37 Copynumber: 2.9 Consensus size: 37
514891 CCTTTTCGTC
514901 CTACTAGGATTCAAACTCCTAAAAATAGGATCGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATCGAATT
* * * *
514938 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATCGAATT
* * *
514975 CTACTATGATTTAAACTCCTAAAGATAGGATC
1 CTACTAGGATTCAAACTCCTAAAAATAGGATC
515007 CACAAACACT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATCGAATT
Found at i:515556 original size:22 final size:22
Alignment explanation
Indices: 515505--515565 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
515495 TATACATATA
515505 TTTTTTATTTATTTATATTCAT
1 TTTTTTATTTATTTATATTCAT
**
515527 TTGGTTATTT-TTTAATATT-AT
1 TTTTTTATTTATTT-ATATTCAT
* *
515548 TATTTTTATATATATATA
1 T-TTTTTATTTATTTATA
515566 CTTTTTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
21 6 0.20
22 22 0.73
23 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (22 bp):
TTTTTTATTTATTTATATTCAT
Found at i:515900 original size:20 final size:18
Alignment explanation
Indices: 515869--515926 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
515859 ATATTTCATT
*
515869 TATTTATTTATTTATTTA
1 TATTTTTTTATTTATTTA
515887 TATTTCCTTTTATTT-TTTA
1 TATTT--TTTTATTTATTTA
* *
515906 T-TTTTTTTACTTATTTT
1 TATTTTTTTATTTATTTA
515923 TATT
1 TATT
515927 CTTCATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
16 7 0.21
17 4 0.12
18 10 0.30
19 5 0.15
20 7 0.21
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTTTTTATTTATTTA
Found at i:515945 original size:26 final size:26
Alignment explanation
Indices: 515894--515946 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
515884 TTATATTTCC
* * *
515894 TTTTATTTTTTATTTTTTTTACTTAT
1 TTTTATTCTTCATTTTTTTCACTTAT
*
515920 TTTTATTCTTCATTTTTTTCATTTAT
1 TTTTATTCTTCATTTTTTTCACTTAT
515946 T
1 T
515947 CATTTTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTATTCTTCATTTTTTTCACTTAT
Found at i:516895 original size:16 final size:16
Alignment explanation
Indices: 516862--516905 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
516852 TCCTCTTATG
* *
516862 TTTTTTTTCTTGCCAT
1 TTTTTTTTATTTCCAT
*
516878 TTTTTTTTATTTCTAT
1 TTTTTTTTATTTCCAT
*
516894 TTATTTTTATTT
1 TTTTTTTTATTT
516906 ACTAACTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTTTTATTTCCAT
Found at i:520325 original size:16 final size:17
Alignment explanation
Indices: 520269--520330 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 17
520259 AACAAAAAAG
* *
520269 AAAAGAAGCAAAAAAACA
1 AAAAGAAAC-AAAGAACA
520287 AAAA-AAACAAAGAA-A
1 AAAAGAAACAAAGAACA
520302 AAAGAGAAAC-AAGAACA
1 AAA-AGAAACAAAGAACA
520319 AAAAGAAA-AAAG
1 AAAAGAAACAAAG
520331 TAAAAGGGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 4 0.11
16 19 0.50
17 11 0.29
18 4 0.11
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (17 bp):
AAAAGAAACAAAGAACA
Found at i:521974 original size:106 final size:106
Alignment explanation
Indices: 521784--523137 Score: 1793
Period size: 106 Copynumber: 13.0 Consensus size: 106
521774 ATATCGTGCC
* * * * *
521784 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
521849 AATTTCAGAGCCAATTTCAACTTCACAACAAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
521890 ACTCCAGACAATGCAAGTTCAACTTCACGATGAAGGGACCGTTGGTTGTCCATAATCAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
521955 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
521996 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
522061 AATTTCAAAACCAATTTTAACTTCACAACGGAA-GATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGC-GAAGGATATTGG
* * * *
522102 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCACTGGTTGTCAATAAA-AATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
522166 AATTT-AGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
522206 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
522271 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
522312 ACTCCAGACAACGCAAGTTCAACTTAACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
522377 AATTTCAGAGCCAATTTCAA-TT-ACAACGAAGG--ATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
522414 ACT-CAGACAACGCAAGTTCAACTTCACGAC-AAGGGACCGCTGGTTGTCAACAAACAA-TTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
522476 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
522517 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTT--C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
522580 ----T------CAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
522611 ACTCCAGACAACGCAAGTTCAACTTCATGACAAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
522676 AATTTTAGATCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
522717 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
522782 AATTTCAGAG-CAATTTCAACTTCACAGCGTAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
522822 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
522887 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
522928 AC-CCAAGACAACACAAGCTCAACTTCACGACGAAGGTG--CGGTAGATTGTCAAC-AA-AA-TT
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGG-GACCGCT-GGTTGTCAACAAACAACTT
** * *
522987 --TTA-TTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTGG
63 CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
523028 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
523093 GGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
523134 ACTC
1 ACTC
523138 AGAACAATGC
Statistics
Matches: 1104, Mismatches: 107, Indels: 74
0.86 0.08 0.06
Matches are distributed among these distances:
94 87 0.08
96 1 0.00
99 25 0.02
100 105 0.10
101 41 0.04
102 9 0.01
103 14 0.01
104 117 0.11
105 156 0.14
106 545 0.49
107 4 0.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:522552 original size:43 final size:43
Alignment explanation
Indices: 522491--522637 Score: 116
Period size: 43 Copynumber: 3.2 Consensus size: 43
522481 CAGAGCCAAT
*
522491 TTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
*** ** * * *
522534 TTCAACTTCAC-GACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
1 TTCAACTTCACAG-CGAA-GGA-TATTGG-ACTC-A-AGACAA---CGCAAG
*
522585 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
522628 TTCAACTTCA
1 TTCAACTTCA
522638 TGACAAAGGG
Statistics
Matches: 76, Mismatches: 18, Indels: 20
0.67 0.16 0.18
Matches are distributed among these distances:
43 29 0.38
44 3 0.04
45 3 0.04
46 7 0.09
47 1 0.01
48 7 0.09
49 3 0.04
50 3 0.04
51 19 0.25
52 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
Found at i:522577 original size:311 final size:315
Alignment explanation
Indices: 521784--523138 Score: 1854
Period size: 311 Copynumber: 4.3 Consensus size: 315
521774 ATATCGTGCC
* * * * *
521784 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTC-AGACAACGCAAGTTCAACTTCACGA-CAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * * * *
521849 AATTTCAGAGCCAATTTCAACTTCACAACAAATGATATTGGACTCCAGACAATGCAAGTTCAACT
64 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
* * * * * *
521914 TCACGATGAAGGGACCGTTGGTTGTCCATAATCAATTTCCCAATTTTAGAGCCAATTTCAACTTC
129 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
*
521979 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTG
194 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * *
522044 TCAACAAACAACTTCTCAATTTCAAAACCAATTTTAACTTCACAACGGAA-GATATTGG
259 TCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC-GAAGGA-ATTGG
* * *
522102 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCACTGGTTGTCAATAAA-AATTTCCC
1 ACT-CAGACAACGCAAGTTCAACTTCACGA-CAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
522166 AATTT-AGAGCCAATTTCAACTTCACAGT-GAAGGATATTGGACTCAAGACAACGCAAGTTCAAC
64 AATTTCAGAGCCAATTTCAACTTCACA-TCGAAGGATATTGGACTCAAGACAACGCAAGTTCAAC
522229 TTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTT
128 TTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTT
*
522294 CACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTAACGACGAAGGGACCGCTGGTT
193 CACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
*
522359 GTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAA-TT-ACAACGAAGG-ATTAG
258 GTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAATTGG
522414 ACTCAGACAACGCAAGTTCAACTTCACGACAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCAA
1 ACTCAGACAACGCAAGTTCAACTTCACGACAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAA
522478 TTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTC
66 TTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTC
522543 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTT--C----T------CAATTTCAACTTCAC
131 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCAC
* *
522596 AGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACAAAGGGACCGCTGGTTGTC
196 AGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
* *
522661 AACAAACAACTTCTCAATTTTAGATCCAATTTCAACTTCACAACGAAGGATATTGG
261 AACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA-ATTGG
* * *
522717 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCA
1 ACT-CAGACAACGCAAGTTCAACTTCACGAC-AAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * *
522782 AATTTCAGAG-CAATTTCAACTTCACAGCGTAGGATATTAGACTCAAGACAACGCAAGTTCAACT
64 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
*
522846 TCACGACGAAGGGACCGATGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
129 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* * * * * *
522911 TCAGCGAAGGATCTTGGAC-CCAAGACAACACAAGCTCAACTTCACGACGAAGGTG--CGGTAGA
194 ACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGG-GACCGCT-GG
* * * *
522973 TTGTCAAC-AA-AA-TT-T-TA-TTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTGG
256 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA-ATTGG
* * * *
523028 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTC-AGACAACGCAAGTTCAACTTCACGAC-AAGGGACCGCTGGTTGTCAACAAACAATTTCCC
** * *
523093 GGTTCCAGAGCCAATTTCAACTTCACGA-CGGAGGATATTGGACTCA
64 AATTTCAGAGCCAATTTCAACTTCAC-ATCGAAGGATATTGGACTCA
523139 GAACAATGCT
Statistics
Matches: 941, Mismatches: 65, Indels: 68
0.88 0.06 0.06
Matches are distributed among these distances:
299 110 0.12
300 2 0.00
301 10 0.01
303 7 0.01
304 27 0.03
305 114 0.12
306 14 0.01
307 1 0.00
309 1 0.00
310 34 0.04
311 220 0.23
312 39 0.04
313 5 0.01
314 8 0.01
315 4 0.00
316 216 0.23
317 77 0.08
318 51 0.05
319 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (315 bp):
ACTCAGACAACGCAAGTTCAACTTCACGACAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAA
TTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTC
ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCAC
AGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
AACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAATTGG
Found at i:522734 original size:615 final size:617
Alignment explanation
Indices: 521784--523138 Score: 1946
Period size: 615 Copynumber: 2.2 Consensus size: 617
521774 ATATCGTGCC
* *
521784 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCAAGACAACACAAGTTCAACTTCACAA-CAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
521849 AATTTCAGAGCCAATTTCAACTTCACAACAAATGATATTGGACTCCAGACAATGCAAGTTCAACT
65 AATTTCAGAGCCAATTTCAACTTCAC-ACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
* * * * *
521914 TCACGATGAAGGGACCGTTGGTTGTCCATAATCAATTTCCCAATTTTAGAGCCAATTTCAACTTC
129 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAA--T--C-ATTCT--A--CAATTTCAACTTC
*
521979 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTG
185 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTG
*
522044 TCAACAAACAACTTCTCAATTTCAAAACCAATTTTAACTTCACAACGGAAGATATTGGACTCCAG
250 TCAACAAACAACTTCTCAATTTCAAAACCAATTTCAACTTCACAACGGAAGATATTGGACTCCAG
* *
522109 ACAACGCAAGTTCAACTTCACGATGAAGGGACCACTGGTTGTCAATAAA-AATTTCCCAATTT-A
315 ACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCAAATTTCA
* *
522172 GAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGAC
380 GAG-CAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACGCAAGTTCAACTTCACGAC
*
522237 GAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGA
444 GAAGGGACCGATGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGA
* * *
522302 AGGATATTGGACTCC-AGACAACGCAAGTTCAACTTAACGACGAAGG-GACCGCT-GGTTGTCAA
509 AGGATATTGGAC-CCAAGACAACACAAGCTCAACTTAACGACGAAGGTG--CGCTAGATTGTCAA
*
522364 CAAACAACTTCTCAATTTCAGAGCCAATTTCAA-TT-ACAACGAAGG-ATTAG
571 C-AA-AA-TT-T-AA-TTCAGAGCCAATTTCAACTTCACAACAAAGGAATTAG
* *
522414 ACTC-AGACAACGCAAGTTCAACTTCACGACAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCA
1 ACTCAAGACAACACAAGTTCAACTTCACAACAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
522477 ATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTT
66 ATTTCAGAGCCAATTTCAACTTCACA-CGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTT
522542 CACGACGAAGGGACCGCTGGTTGTCAATAAACAA-C-TTCT-CAATTTCAACTTCACAGCGAAGG
130 CACGACGAAGGGACCGCTGGTTGTCAATAAACAATCATTCTACAATTTCAACTTCACAGCGAAGG
**
522604 ATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACAAAGGGACCGCTGGTTGTCAACAAACA
195 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACA
* * *
522669 ACTTCTCAATTTTAGATCCAATTTCAACTTCACAAC-GAAGGATATTGGACTCCAGACAACGCAA
260 ACTTCTCAATTTCAAAACCAATTTCAACTTCACAACGGAA-GATATTGGACTCCAGACAACGCAA
**
522733 GTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCAAATTTCAGAGCAATTT
324 GTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCAAATTTCAGAGCAATTT
*
522798 CAACTTCACAGCGTAGGATATTAGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
389 CAACTTCACAGCGAAGGATATTAGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* *
522863 ATGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
454 ATGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
522928 ACCCAAGACAACACAAGCTCAACTTCACGACGAAGGTGCGGTAGATTGTCAACAAAATTTTATTC
519 ACCCAAGACAACACAAGCTCAACTTAACGACGAAGGTGCGCTAGATTGTCAACAAAATTTAATTC
* * *
522993 AGAGTCAATTTCAACTTCACAGCAAAGGATATTGG
584 AGAGCCAATTTCAACTTCACAACAAAGGA-ATTAG
* * * *
523028 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAAC-AAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
523093 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACTCA
65 AATTTCAGAGCCAATTTCAACTTCAC-ACGAAGGATATTGGACTCA
523139 GAACAATGCT
Statistics
Matches: 662, Mismatches: 48, Indels: 43
0.88 0.06 0.06
Matches are distributed among these distances:
610 16 0.02
611 3 0.00
612 9 0.01
613 2 0.00
614 13 0.02
615 209 0.32
616 206 0.31
617 50 0.08
618 1 0.00
620 3 0.00
622 1 0.00
626 1 0.00
627 94 0.14
628 27 0.04
629 23 0.03
630 4 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (617 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTC
ACGACGAAGGGACCGCTGGTTGTCAATAAACAATCATTCTACAATTTCAACTTCACAGCGAAGGA
TATTGGACTCCAGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAA
CTTCTCAATTTCAAAACCAATTTCAACTTCACAACGGAAGATATTGGACTCCAGACAACGCAAGT
TCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCAAATTTCAGAGCAATTTCA
ACTTCACAGCGAAGGATATTAGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGAT
GGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
CCAAGACAACACAAGCTCAACTTAACGACGAAGGTGCGCTAGATTGTCAACAAAATTTAATTCAG
AGCCAATTTCAACTTCACAACAAAGGAATTAG
Found at i:523918 original size:37 final size:37
Alignment explanation
Indices: 523865--523968 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
523855 CCTTTTCGTC
523865 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
523902 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
523939 CTACTATGATTTAAACTCCT-AAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
523969 CCACAAACAC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
36 9 0.15
37 50 0.85
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:524484 original size:2 final size:2
Alignment explanation
Indices: 524479--524510 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
524469 TTAATATTAT
524479 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
524511 CTTTTTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:524485 original size:10 final size:11
Alignment explanation
Indices: 524472--524508 Score: 58
Period size: 12 Copynumber: 3.4 Consensus size: 11
524462 TTATTTTTTA
524472 ATATTAT-TAT
1 ATATTATATAT
524482 ATATTATATAT
1 ATATTATATAT
524493 ATATATATATAT
1 ATAT-TATATAT
524505 ATAT
1 ATAT
524509 ATCTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 7 0.28
11 7 0.28
12 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATTATATAT
Found at i:524772 original size:2 final size:2
Alignment explanation
Indices: 524765--524799 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
524755 TATTTTACTC
524765 AT AT AT AT AT AT AT AT A- 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
524800 TTAATATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:524787 original size:15 final size:15
Alignment explanation
Indices: 524767--524796 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
524757 TTTTACTCAT
524767 ATATATATATATATA
1 ATATATATATATATA
524782 ATATATATATATATA
1 ATATATATATATATA
524797 TATTTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:524787 original size:17 final size:17
Alignment explanation
Indices: 524765--524798 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
524755 TATTTTACTC
524765 ATATATATATATATATA
1 ATATATATATATATATA
524782 ATATATATATATATATA
1 ATATATATATATATATA
524799 TTTAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:524791 original size:21 final size:21
Alignment explanation
Indices: 524765--524806 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
524755 TATTTTACTC
524765 ATATATATATATATATAATAT
1 ATATATATATATATATAATAT
*
524786 ATATATATATATATTTAATAT
1 ATATATATATATATATAATAT
524807 TTCATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATATATATATATATAATAT
Found at i:524848 original size:10 final size:10
Alignment explanation
Indices: 524835--524866 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
524825 TATATTACCT
524835 TTTATTTTTA
1 TTTATTTTTA
524845 TTTATTTTTA
1 TTTATTTTTA
*
524855 CTTATTTTTA
1 TTTATTTTTA
524865 TT
1 TT
524867 CTTCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:524853 original size:16 final size:15
Alignment explanation
Indices: 524834--524894 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 15
524824 TTATATTACC
524834 TTTTATTTTTATTTAT
1 TTTTATTTTT-TTTAT
*
524850 TTTTACTTATTTTTAT
1 TTTTA-TTTTTTTTAT
* *
524866 TCTTCATTTTTTTCAT
1 T-TTTATTTTTTTTAT
524882 TTATTCATTTTTT
1 TT-TT-ATTTTTT
524895 CCCTCTAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 1 0.03
16 21 0.58
17 14 0.39
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTATTTTTTTTAT
Found at i:524885 original size:26 final size:26
Alignment explanation
Indices: 524834--524886 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
524824 TTATATTACC
* *
524834 TTTTATTTTTATTTATTTTTACTTAT
1 TTTTATTTTCATTTATTTTCACTTAT
*
524860 TTTTATTCTTCATTT-TTTTCATTTAT
1 TTTTATT-TTCATTTATTTTCACTTAT
524886 T
1 T
524887 CATTTTTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTATTTTCATTTATTTTCACTTAT
Found at i:525940 original size:2 final size:2
Alignment explanation
Indices: 525933--525963 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
525923 TATTAAGAGA
*
525933 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
525964 AAACAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:526064 original size:15 final size:15
Alignment explanation
Indices: 526044--526072 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
526034 AGGAAAGAAA
526044 AATAAATAAAAATAG
1 AATAAATAAAAATAG
526059 AATAAATAAAAATA
1 AATAAATAAAAATA
526073 AAAAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAAATAAAAATAG
Found at i:526116 original size:15 final size:15
Alignment explanation
Indices: 526037--526118 Score: 53
Period size: 15 Copynumber: 5.2 Consensus size: 15
526027 ATGTCAAAGG
526037 AAAGAAAAATAAATAAA
1 AAAGAAAAAT--ATAAA
526054 AATAGAATAAATA-AAA
1 AA-AGAA-AAATATAAA
**
526070 ATAA-AAAATATATATC
1 A-AAGAAAA-ATATAAA
*
526086 AAAGAAAACA-AAAAA
1 AAAGAAAA-ATATAAA
526101 AAAGAAAAATATAAA
1 AAAGAAAAATATAAA
526116 AAA
1 AAA
526119 TATAATTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
14 3 0.06
15 24 0.47
16 12 0.24
17 4 0.08
18 4 0.08
19 4 0.08
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (15 bp):
AAAGAAAAATATAAA
Found at i:527283 original size:15 final size:14
Alignment explanation
Indices: 527260--527296 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
527250 CAATAAAATG
*
527260 AAAATAAAATTAAT
1 AAAATAAAAATAAT
527274 AAAGATAAAAATAAT
1 AAA-ATAAAAATAAT
527289 AAAATAAA
1 AAAATAAA
527297 TAACAACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (14 bp):
AAAATAAAAATAAT
Found at i:527460 original size:36 final size:36
Alignment explanation
Indices: 527420--527601 Score: 165
Period size: 36 Copynumber: 5.2 Consensus size: 36
527410 TGTTTTCAAA
527420 ATTATATA-GTTTTCAAAAATGTTTTTAAAACTATAT
1 ATTATATATGTTTTC-AAAATGTTTTTAAAACTATAT
* *
527456 ATTATATATGCTTTCAAAATGATTTCT-AAACTATAT
1 ATTATATATGTTTTCAAAATG-TTTTTAAAACTATAT
*
527492 AATATATATATGTTTTCAAAATGTTTTTAAAA--A-CT
1 -AT-TATATATGTTTTCAAAATGTTTTTAAAACTATAT
*
527527 A-TATATA---TTTC-AAATGTTTTAAAAACTATAT
1 ATTATATATGTTTTCAAAATGTTTTTAAAACTATAT
* *
527558 A-TATA-ATGTTTTTCAAACATG-TTTTCAAATTATAT
1 ATTATATATG-TTTTCAAA-ATGTTTTTAAAACTATAT
527593 ATTATATAT
1 ATTATATAT
527602 ATATATATTA
Statistics
Matches: 120, Mismatches: 10, Indels: 31
0.75 0.06 0.19
Matches are distributed among these distances:
28 13 0.11
29 4 0.03
30 2 0.02
31 6 0.05
32 6 0.05
34 5 0.04
35 15 0.12
36 31 0.26
37 17 0.14
38 21 0.17
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (36 bp):
ATTATATATGTTTTCAAAATGTTTTTAAAACTATAT
Found at i:527464 original size:38 final size:37
Alignment explanation
Indices: 527422--527640 Score: 155
Period size: 36 Copynumber: 6.1 Consensus size: 37
527412 TTTTCAAAAT
527422 TATATAGTTTTCAAAAATGTTTTTAAAACTATATATTA
1 TATATAGTTTTC-AAAATGTTTTTAAAACTATATATTA
* * *
527460 TATAT-GCTTTCAAAATGATTTCT-AAACTATATAATA
1 TATATAGTTTTCAAAATG-TTTTTAAAACTATATATTA
*
527496 TATATATGTTTTCAAAATGTTTTT--AA--A-A-ACTA
1 TATATA-GTTTTCAAAATGTTTTTAAAACTATATATTA
*
527528 TATATA--TTTC-AAATGTTTTAAAAACTATATA-TA
1 TATATAGTTTTCAAAATGTTTTTAAAACTATATATTA
* *
527561 TA-AT-GTTTTTCAAACATG-TTTTCAAATTATATATTA
1 TATATAG-TTTTCAAA-ATGTTTTTAAAACTATATATTA
* * *
527597 TATATATATATATTAAAAAT-TTTTTCAAACTATATATGTA
1 TATATA-GT-T-TTCAAAATGTTTTTAAAACTATATAT-TA
527637 TATA
1 TATA
527641 CATATATATA
Statistics
Matches: 146, Mismatches: 13, Indels: 42
0.73 0.06 0.21
Matches are distributed among these distances:
28 9 0.06
29 4 0.03
30 2 0.01
32 12 0.08
33 6 0.04
34 6 0.04
35 14 0.10
36 32 0.22
37 15 0.10
38 17 0.12
39 18 0.12
40 11 0.08
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (37 bp):
TATATAGTTTTCAAAATGTTTTTAAAACTATATATTA
Found at i:527554 original size:27 final size:29
Alignment explanation
Indices: 527496--527561 Score: 100
Period size: 27 Copynumber: 2.3 Consensus size: 29
527486 CTATATAATA
*
527496 TATATATGTTTTCAAAATGTTTTTAAAAAC
1 TATATAT-ATTTCAAAATGTTTTTAAAAAC
527526 TATATATATTTC-AAATG-TTTTAAAAAC
1 TATATATATTTCAAAATGTTTTTAAAAAC
527553 TATATATAT
1 TATATATAT
527562 AATGTTTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 19 0.54
28 5 0.14
29 4 0.11
30 7 0.20
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (29 bp):
TATATATATTTCAAAATGTTTTTAAAAAC
Found at i:527558 original size:29 final size:31
Alignment explanation
Indices: 527494--527562 Score: 92
Period size: 29 Copynumber: 2.3 Consensus size: 31
527484 AACTATATAA
*
527494 TATATATATGTTTTCAAAATGTTTTTAAAAAC
1 TATATATAT-ATTTCAAAATGTTTTTAAAAAC
527526 --TATATATATTTC-AAATG-TTTTAAAAAC
1 TATATATATATTTCAAAATGTTTTTAAAAAC
527553 TATATATATA
1 TATATATATA
527563 ATGTTTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
27 10 0.29
28 5 0.15
29 12 0.35
30 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.46
Consensus pattern (31 bp):
TATATATATATTTCAAAATGTTTTTAAAAAC
Found at i:527593 original size:101 final size:102
Alignment explanation
Indices: 527405--527633 Score: 263
Period size: 102 Copynumber: 2.2 Consensus size: 102
527395 TATTTTTATA
* * *
527405 AAAAATGTTTTCAAAATTATATAGTTTTCAAAAATGTTTTTAAAACTATATATTATATATGCTTT
1 AAAAATGTTTTTAAAACTATATA-TTTTC-AAAATGTTTTAAAAACTATATATTATATATGCTTT
* *
527470 CAAAATGATTTCTAAACTATATA-ATATATATATGTTTT
64 CAAAATGATTTCTAAACTATATATATATATATATATATT
* *
527508 CAAAATGTTTTTAAAAACTATATATATTTC-AAATGTTTTAAAAACTATATA-TATA-ATGTTTT
1 AAAAATGTTTTT-AAAACTATATAT-TTTCAAAATGTTTTAAAAACTATATATTATATATG-CTT
* *
527570 TCAAACATGTTTTC-AAATTATATATTATATATATATATATT
63 TCAAA-ATGATTTCTAAACTATATA-TATATATATATATATT
*
527611 AAAAAT-TTTTTCAAACTATATAT
1 AAAAATGTTTTTAAAACTATATAT
527634 GTATATACAT
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
100 3 0.03
101 31 0.28
102 32 0.29
103 29 0.27
104 14 0.13
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (102 bp):
AAAAATGTTTTTAAAACTATATATTTTCAAAATGTTTTAAAAACTATATATTATATATGCTTTCA
AAATGATTTCTAAACTATATATATATATATATATATT
Found at i:527616 original size:103 final size:102
Alignment explanation
Indices: 527364--527633 Score: 270
Period size: 103 Copynumber: 2.6 Consensus size: 102
527354 TAATTTATAT
* * * * * *
527364 TTTCAAAA-GTATTTTAAATTTATATATTATGTAT-T-TTTATAAAAAATGTTTTCAAAATTATA
1 TTTCAAAATGT-TTTCAAA-TTATATATTATATATATATATATTAAAAATGTTTTTAAAACTATA
*
527426 TAGTTTTCAAAAATGTTTTTAAAACTATATATTATATATGC
64 TA-TTTTC-AAAATGTTTTAAAAACTATATATTATATATGC
* * * * *
527467 TTTCAAAATGATTTCTAAACTATATA--ATATATATATGTTTTCAAAATGTTTTTAAAAACTATA
1 TTTCAAAATGTTTTC-AAATTATATATTATATATATATATATTAAAAATGTTTTT-AAAACTATA
*
527530 TATATTTC-AAATGTTTTAAAAACTATATA-TATA-ATGTT
64 TAT-TTTCAAAATGTTTTAAAAACTATATATTATATATG-C
*
527568 TTTCAAACATGTTTTCAAATTATATATTATATATATATATATTAAAAAT-TTTTTCAAACTATAT
1 TTTCAAA-ATGTTTTCAAATTATATATTATATATATATATATTAAAAATGTTTTTAAAACTATAT
527632 AT
65 AT
527634 GTATATACAT
Statistics
Matches: 139, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
100 3 0.02
101 36 0.26
102 33 0.24
103 49 0.35
104 18 0.13
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (102 bp):
TTTCAAAATGTTTTCAAATTATATATTATATATATATATATTAAAAATGTTTTTAAAACTATATA
TTTTCAAAATGTTTTAAAAACTATATATTATATATGC
Found at i:528253 original size:270 final size:275
Alignment explanation
Indices: 527772--528318 Score: 1032
Period size: 270 Copynumber: 2.0 Consensus size: 275
527762 TGTTGTGGCT
527772 CTATTGGCTGAGATGTGATTCGGTGGCACAATGAAGGTGGCGTGGAGCGTTACTGTAGAAGAAAT
1 CTATTGGCTGAGATGTGATTCGGTGGCACAATGAAGGTGGCGTGGAGCGTTACTGTAGAAGAAAT
527837 TAGTGGTGACGTGGAGTGCTGGCAGTGGACAACAAGAACGACGACAAGGGATTAGTGCGAGCGGC
66 TAGTGGTGACGTGGAGTGCTGGCAGTGGACAACAAGAACGACGACAAGGGATTAGTGCGAGCGGC
*
527902 GATGGCTGCAGATGATTGAAACACTAGGTTTTCAAACCCTAGTTAGGCTTGGGGTCTGTTGGGCC
131 GATGGCTGCAGATGATTGAAACACTAGGGTTTCAAACCCTAGTTAGGCTTGGGGTCTGTTGGGCC
527967 GATTGGGTGACTTGGTAGCTGGGCCC-GGTTGCTTCTGGGCCTTGGGTG-AAT-GGTTC-T-TAT
196 GATTGGGTGACTTGGTAGCTGGGCCCGGGTTGCTTCTGGGCCTTGGGTGTAATGGGTTCTTATAT
528027 ATCCTTTTTTCGTCC
261 ATCCTTTTTTCGTCC
528042 CTATTGGCTGAGATGTGATTCGGTGGCACAATGAAGGTGGCGTGGAGCGTTACTGTAGAAGAAAT
1 CTATTGGCTGAGATGTGATTCGGTGGCACAATGAAGGTGGCGTGGAGCGTTACTGTAGAAGAAAT
528107 TAGTGGTGACGTGGAGTGCTGGCAGTGGACAACAAGAACGACGACAAGGGATTAGTGCGAGCGGC
66 TAGTGGTGACGTGGAGTGCTGGCAGTGGACAACAAGAACGACGACAAGGGATTAGTGCGAGCGGC
528172 GATGGCTGCAGATGATTGAAACACTAGGGTTTCAAACCCTAGTTAGGCTTGGGGTCTGTTGGGCC
131 GATGGCTGCAGATGATTGAAACACTAGGGTTTCAAACCCTAGTTAGGCTTGGGGTCTGTTGGGCC
528237 GATTGGGTGACTTGGTAGCTGGGCCCGGGTTGCTTCTGGGCCTTGGGTGTAATGGGTTCTGTTAT
196 GATTGGGTGACTTGGTAGCTGGGCCCGGGTTGCTTCTGGGCCTTGGGTGTAATGGGTTC--TTAT
528302 ATATCCTTTTTTCGTCC
259 ATATCCTTTTTTCGTCC
528319 AATTGGGCCT
Statistics
Matches: 269, Mismatches: 1, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
270 220 0.82
271 22 0.08
272 3 0.01
273 5 0.02
276 1 0.00
277 18 0.07
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.28
Consensus pattern (275 bp):
CTATTGGCTGAGATGTGATTCGGTGGCACAATGAAGGTGGCGTGGAGCGTTACTGTAGAAGAAAT
TAGTGGTGACGTGGAGTGCTGGCAGTGGACAACAAGAACGACGACAAGGGATTAGTGCGAGCGGC
GATGGCTGCAGATGATTGAAACACTAGGGTTTCAAACCCTAGTTAGGCTTGGGGTCTGTTGGGCC
GATTGGGTGACTTGGTAGCTGGGCCCGGGTTGCTTCTGGGCCTTGGGTGTAATGGGTTCTTATAT
ATCCTTTTTTCGTCC
Found at i:528384 original size:4 final size:4
Alignment explanation
Indices: 528375--528411 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
528365 TGGCCTGCAC
528375 AATA AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA A
528412 TAATAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:528415 original size:3 final size:3
Alignment explanation
Indices: 528407--528466 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
528397 TAAATAAATA
*
528407 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- CAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
528454 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
528467 GTGATGGGAC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 1 0.02
3 53 0.98
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:533203 original size:47 final size:44
Alignment explanation
Indices: 533151--533246 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 44
533141 ATAAAAAATG
* * *
533151 ATTTTTTAGGATTTTTAAAAGATTTTATCAAATGAAAAGAGAAATTA
1 ATTTTTGAGGATTTCTAAAACA-TTTA-CAAA-GAAAAGAGAAATTA
* *
533198 ATTTTTGAGGATTTCTCAAACATTTACAGAGAAAAGAGAAATTA
1 ATTTTTGAGGATTTCTAAAACATTTACAAAGAAAAGAGAAATTA
533242 ATTTT
1 ATTTT
533247 CAAACAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
44 19 0.43
45 3 0.07
46 4 0.09
47 18 0.41
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.39
Consensus pattern (44 bp):
ATTTTTGAGGATTTCTAAAACATTTACAAAGAAAAGAGAAATTA
Found at i:534801 original size:2 final size:2
Alignment explanation
Indices: 534789--534838 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
534779 TCCATGAACC
*
534789 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
534831 AT AT AT AT
1 AT AT AT AT
534839 TGAAAATTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:539640 original size:8 final size:8
Alignment explanation
Indices: 539627--539657 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
539617 ATATTATATA
539627 CATACATG
1 CATACATG
539635 CATACATG
1 CATACATG
539643 CATACATG
1 CATACATG
539651 CATACAT
1 CATACAT
539658 ATACACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (8 bp):
CATACATG
Found at i:539665 original size:8 final size:8
Alignment explanation
Indices: 539654--539688 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
539644 ATACATGCAT
539654 ACATATAC
1 ACATATAC
539662 ACATATAC
1 ACATATAC
539670 ACATATAC
1 ACATATAC
*
539678 ACATAAAC
1 ACATATAC
539686 ACA
1 ACA
539689 CACACACACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (8 bp):
ACATATAC
Found at i:539665 original size:16 final size:16
Alignment explanation
Indices: 539630--539681 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
539620 TTATATACAT
** *
539630 ACATGCATACATGCAT
1 ACATGCATACATATAC
539646 ACATGCATACATATAC
1 ACATGCATACATATAC
** *
539662 ACATATACACATATAC
1 ACATGCATACATATAC
539678 ACAT
1 ACAT
539682 AAACACACAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (16 bp):
ACATGCATACATATAC
Found at i:553916 original size:28 final size:28
Alignment explanation
Indices: 553884--553978 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 28
553874 TTATCAAAGA
553884 AAGAAAAAAAAA-GAAATCAATCG-AATTT
1 AAGAAAAAAAAAGGAAAT-AA-CGTAATTT
*
553912 AAGAAAAAAAAAGGAAATTACGTAATTT
1 AAGAAAAAAAAAGGAAATAACGTAATTT
* * * *
553940 AAGAAATTAAAATGAAAACTAA-GAAATTT
1 AAGAAA-AAAAAAGGAAA-TAACGTAATTT
553969 AAGAAAAAAA
1 AAGAAAAAAA
553979 TTAAAATCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
27 2 0.04
28 27 0.48
29 25 0.45
30 2 0.04
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (28 bp):
AAGAAAAAAAAAGGAAATAACGTAATTT
Found at i:553919 original size:29 final size:28
Alignment explanation
Indices: 553887--553978 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 28
553877 TCAAAGAAAG
553887 AAAAAAAAAGAAATCAATCG-AATTTAAGA
1 AAAAAAAAAGAAAT-AA-CGTAATTTAAGA
* *
553916 AAAAAAAAGGAAATTACGTAATTTAAGA
1 AAAAAAAAAGAAATAACGTAATTTAAGA
** * *
553944 AATTAAAATGAAAACTAA-GAAATTTAAGA
1 AAAAAAAAAG-AAA-TAACGTAATTTAAGA
553973 AAAAAA
1 AAAAAA
553979 TTAAAATCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
27 2 0.04
28 17 0.33
29 30 0.59
30 2 0.04
ACGTcount: A:0.65, C:0.04, G:0.11, T:0.20
Consensus pattern (28 bp):
AAAAAAAAAGAAATAACGTAATTTAAGA
Found at i:554019 original size:23 final size:21
Alignment explanation
Indices: 553977--554020 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
553967 TTAAGAAAAA
553977 AATTAAAATCAATTAAAACAT
1 AATTAAAATCAATTAAAACAT
*
553998 AATTGAAATCCAACTTAAAACAT
1 AATTAAAAT-CAA-TTAAAACAT
554021 GGATCTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (21 bp):
AATTAAAATCAATTAAAACAT
Found at i:562699 original size:13 final size:14
Alignment explanation
Indices: 562681--562709 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
562671 ACACAAAAGT
562681 AAAAATAAA-ATAA
1 AAAAATAAAGATAA
562694 AAAAATAAAGATAA
1 AAAAATAAAGATAA
562708 AA
1 AA
562710 GAAAATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (14 bp):
AAAAATAAAGATAA
Found at i:562702 original size:19 final size:19
Alignment explanation
Indices: 562675--562714 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
562665 CAATAGACAC
* *
562675 AAAAGTAAAAATAAAATAA
1 AAAAATAAAAATAAAAGAA
*
562694 AAAAATAAAGATAAAAGAA
1 AAAAATAAAAATAAAAGAA
562713 AA
1 AA
562715 TTGTGGTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAATAAAAATAAAAGAA
Found at i:564703 original size:46 final size:46
Alignment explanation
Indices: 564632--564721 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
564622 TTAATACACC
* * *
564632 GTTATATAGTTTCATTTGTGGCATCCTTTCATGCCAATTATGCACT
1 GTTATACAGTTTCATTTATGGCATCCTTTCATGCCAACTATGCACT
* *
564678 GTTATACATTTTCATTTATGTCATCCTTTCATGCCAACTATGCA
1 GTTATACAGTTTCATTTATGGCATCCTTTCATGCCAACTATGCA
564722 TTATTCCTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.43
Consensus pattern (46 bp):
GTTATACAGTTTCATTTATGGCATCCTTTCATGCCAACTATGCACT
Found at i:565093 original size:82 final size:82
Alignment explanation
Indices: 564923--565466 Score: 723
Period size: 82 Copynumber: 6.6 Consensus size: 82
564913 AACCTAATTA
** * * * * *
564923 GCATTATTGGCACCTTTAAGCCAAATACACAGCTAAAGAATTTAGTTTTTTATCTCAAAGGCATT
1 GCATTATTGGCACCTTTCTGCCAAATGCACAACT-AGGCATTTAGTCTTTTATCTCAAAGGCATT
*
564988 TAACCTATCATCTAACT-
65 TAACCTTTCATCTAACTG
* * *
565005 GCATTATTCGCACCTTTCTGCCAAATGCACAACTAGGCATTTTGTCTTTTATCTCAAATGCATTT
1 GCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGCATTT
565070 AACCTTTCATCTAACTG
66 AACCTTTCATCTAACTG
* * * * * *
565087 GCATTATTGGCACCTTTCTGCGAAATACACTACAAGGCATTTAGT-TTTCTATCTTAATGGCATT
1 GCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTT-TATCTCAAAGGCATT
* *
565151 TTACCTTTCCTCTAACTG
65 TAACCTTTCATCTAACTG
* *
565169 GCTTTATTGGCACCTTTCTACCAAATGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGCATTT
1 GCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGCATTT
565234 AACCTTTCATCTAACTG
66 AACCTTTCATCTAACTG
** * *
565251 GCATTATTAACACCTTTCTGCCAAATGCACAGCTAGGCATTTAGTCTTTTATATCAAAGGCATTT
1 GCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGCATTT
*
565316 AACCTTTCGTCTAACTG
66 AACCTTTCATCTAACTG
* * * * * * *
565333 CCATTATTGGCACATTTATGTCAAATGCACAGCTAGGCATTTATTCTTTTATCTCGAAGGCATTT
1 GCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGCATTT
565398 AACCTTTCATCTAACTG
66 AACCTTTCATCTAACTG
* * * *
565415 ACATTATTGGCACCTTTATGCCAAATGCACAACTAGGAATTTAGTATTTTAT
1 GCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTAT
565467 TTAGAACAAT
Statistics
Matches: 403, Mismatches: 56, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
81 44 0.11
82 356 0.88
83 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (82 bp):
GCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGCATTT
AACCTTTCATCTAACTG
Found at i:565195 original size:164 final size:163
Alignment explanation
Indices: 564824--565466 Score: 795
Period size: 164 Copynumber: 4.0 Consensus size: 163
564814 ATGCACAGCT
* * * *
564824 AGGCATTTAACCTTTCAC-ATAAATGGCATTATTGGCACCTTTCTTCCAAATGCACAACTAGACA
1 AGGCATTTAACCTTTC-CTCTAACTGGCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCA
* *
564888 TTTAGTCTTTTATCTCAAAGG-ATTTAACC--TAAT-T-A---GCATTATTGGCACCTTTAAGCC
65 TTTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTTATGCC
*
564945 AAATACACAGCTAAAGAATTTAGTTTTTTATCTCAA
130 AAATACACAGC-AAGGAATTTAG-TTTTTATCTCAA
* * *
564981 AGGCATTTAACCTATCATCTAACT-GCATTATTCGCACCTTTCTGCCAAATGCACAACTAGGCAT
1 AGGCATTTAACCTTTCCTCTAACTGGCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCAT
* * * *
565045 TTTGTCTTTTATCTCAAATGCATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTTCTGCGA
66 TTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTTATGCCA
* *
565110 AATACACTA-CAAGGCATTTAGTTTTCTATCTTAA
131 AATACAC-AGCAAGGAATTTAGTTTT-TATCTCAA
* * * *
565144 TGGCATTTTACCTTTCCTCTAACTGGCTTTATTGGCACCTTTCTACCAAATGCACAACTAGGCAT
1 AGGCATTTAACCTTTCCTCTAACTGGCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCAT
** *
565209 TTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACTGGCATTATTAACACCTTTCTGCCA
66 TTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTTATGCCA
* * * *
565274 AATGCACAGCTAGGCATTTAGTCTTTTATATCAA
131 AATACACAGCAAGGAATTTAGT-TTTTATCTCAA
* * * * * *
565308 AGGCATTTAACCTTTCGTCTAACTGCCATTATTGGCACATTTATGTCAAATGCACAGCTAGGCAT
1 AGGCATTTAACCTTTCCTCTAACTGGCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCAT
* * *
565373 TTATTCTTTTATCTCGAAGGCATTTAACCTTTCATCTAACTGACATTATTGGCACCTTTATGCCA
66 TTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTTATGCCA
* * *
565438 AATGCACAACTAGGAATTTAGTATTTTAT
131 AATACACAGCAAGGAATTTAGT-TTTTAT
565467 TTAGAACAAT
Statistics
Matches: 421, Mismatches: 51, Indels: 21
0.85 0.10 0.04
Matches are distributed among these distances:
156 55 0.13
157 27 0.06
159 3 0.01
160 1 0.00
161 1 0.00
162 4 0.01
163 37 0.09
164 289 0.69
165 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (163 bp):
AGGCATTTAACCTTTCCTCTAACTGGCATTATTGGCACCTTTCTGCCAAATGCACAACTAGGCAT
TTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTTATGCCA
AATACACAGCAAGGAATTTAGTTTTTATCTCAA
Found at i:565289 original size:246 final size:244
Alignment explanation
Indices: 564824--565466 Score: 738
Period size: 246 Copynumber: 2.6 Consensus size: 244
564814 ATGCACAGCT
* * * * * * * *
564824 AGGCATTTAACCTTTCA-CATAAATGGCATTATTGGCACCTTTCT-TCCAAATGCACAACTAGAC
1 AGGCATTTAACCTTTCATC-TAACTGCCATTATTGGCACATTTATGT-CAAATACACAGCAAGGC
* * * * *
564887 ATTTAGTCTTTTATCTCAAAGG-ATTTAACC--TAAT-T-A--G-CATTATTGGCACCTTTAAGC
64 ATTTATTCTTCTATCTCGAAGGCATTTAACCTTTCATCTAACTGACATTATTGGCACCTTTTA-C
* * * *
564944 CAAATACACAGCTAAAGAATTTAGTTTTTTATCTCAAAGGCATTTAACCTATCATCTAACTGCAT
128 CAAATGCACAACT-AGGAATTTAGTATTTTATCTCAAAGGCATTTAACCTATCATCTAACTGCAT
** * *
565009 TATTCGCACCTTTCTGCCAAATGCACAACTAGGCATTTTGTCTTTTATCTCAA
192 TATTAACACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATATCAA
* * * *
565062 ATGCATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTTCTG-CGAAATACACTA-CAAGGC
1 AGGCATTTAACCTTTCATCTAACTGCCATTATTGGCACATTTATGTC-AAATACAC-AGCAAGGC
* * * * *
565125 ATTTAGTT-TTCTATCT-TAATGGCATTTTACCTTTCCTCTAACTGGCTTTATTGGCACCTTTCT
64 ATTTA-TTCTTCTATCTCGAA-GGCATTTAACCTTTCATCTAACTGACATTATTGGCACCTTT-T
* * *
565188 ACCAAATGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACTGGC
126 ACCAAATGCACAACTAGGAATTTAGTATTTTATCTCAAAGGCATTTAACCTATCATCTAACT-GC
*
565253 ATTATTAACACCTTTCTGCCAAATGCACAGCTAGGCATTTAGTCTTTTATATCAA
190 ATTATTAACACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATATCAA
* * *
565308 AGGCATTTAACCTTTCGTCTAACTGCCATTATTGGCACATTTATGTCAAATGCACAGCTAGGCAT
1 AGGCATTTAACCTTTCATCTAACTGCCATTATTGGCACATTTATGTCAAATACACAGCAAGGCAT
* *
565373 TTATTCTTTTATCTCGAAGGCATTTAACCTTTCATCTAACTGACATTATTGGCACCTTTATGCCA
66 TTATTCTTCTATCTCGAAGGCATTTAACCTTTCATCTAACTGACATTATTGGCACCTTT-TACCA
565438 AATGCACAACTAGGAATTTAGTATTTTAT
130 AATGCACAACTAGGAATTTAGTATTTTAT
565467 TTAGAACAAT
Statistics
Matches: 344, Mismatches: 41, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
237 3 0.01
238 65 0.19
239 10 0.03
241 2 0.01
242 1 0.00
243 1 0.00
245 47 0.14
246 211 0.61
247 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (244 bp):
AGGCATTTAACCTTTCATCTAACTGCCATTATTGGCACATTTATGTCAAATACACAGCAAGGCAT
TTATTCTTCTATCTCGAAGGCATTTAACCTTTCATCTAACTGACATTATTGGCACCTTTTACCAA
ATGCACAACTAGGAATTTAGTATTTTATCTCAAAGGCATTTAACCTATCATCTAACTGCATTATT
AACACCTTTCTGCCAAATGCACAACTAGGCATTTAGTCTTTTATATCAA
Found at i:565714 original size:54 final size:54
Alignment explanation
Indices: 565550--565715 Score: 181
Period size: 54 Copynumber: 3.1 Consensus size: 54
565540 TTACACACAT
* * * * * ** *
565550 AGTGTCAATACGGTAATTTA-AAACTTATTATGAATTACGTGGGGTTGCACACAC
1 AGTGTCAATACAGAAATTCATAAACTTATTACGAATTTC-TTAGGTTGCACAAAC
** * * * *
565604 AACGCCAATACAGAAATTTATAAACTTATTATGAATTTCTTAGGTTGCACACAC
1 AGTGTCAATACAGAAATTCATAAACTTATTACGAATTTCTTAGGTTGCACAAAC
*
565658 AGTGTCAATACAGAAATTCATAAACTTCTTACGAATTTCTTAGGTTGCACAAAC
1 AGTGTCAATACAGAAATTCATAAACTTATTACGAATTTCTTAGGTTGCACAAAC
565712 AGTG
1 AGTG
565716 CCATACGATA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 79 0.82
55 17 0.18
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (54 bp):
AGTGTCAATACAGAAATTCATAAACTTATTACGAATTTCTTAGGTTGCACAAAC
Found at i:570007 original size:70 final size:70
Alignment explanation
Indices: 569902--570118 Score: 220
Period size: 70 Copynumber: 2.9 Consensus size: 70
569892 TCTAACTGGC
* * *
569902 ATTATTGGCACCTTTCTGCCAAATGCATAGCTAGGCATTTAGTCTTTTATCTCAAAGGCATTTAA
1 ATTATTGGCACCTTTCTACCAAATGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGCATTTAA
569967 CTGAA
66 CTGAA
* *
569972 ATTATTGGCATCTTTCTACCAACTGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGCATTAAT
1 ATTATTGGCACCTTTCTACCAAATGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGC----A-
**
570037 CTTTCATCTAACTGGC
61 ---T--T-TAACTGAA
* * * *
570053 ATTATTGGCACCTTCCTGCCAAATGTA-AAGCTAGACATTTAGTCTTTTATCTCAAAGGCATTTA
1 ATTATTGGCACCTTTCTACCAAATGCACAA-CTAGGCATTTAGTCTTTTATCTCAAAGGCATTTA
570117 AC
65 AC
570119 CATTCATCTA
Statistics
Matches: 122, Mismatches: 13, Indels: 24
0.77 0.08 0.15
Matches are distributed among these distances:
70 58 0.48
71 1 0.01
73 1 0.01
74 1 0.01
77 1 0.01
78 1 0.01
80 3 0.02
81 56 0.46
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (70 bp):
ATTATTGGCACCTTTCTACCAAATGCACAACTAGGCATTTAGTCTTTTATCTCAAAGGCATTTAA
CTGAA
Found at i:570100 original size:81 final size:82
Alignment explanation
Indices: 569985--570184 Score: 271
Period size: 82 Copynumber: 2.5 Consensus size: 82
569975 ATTGGCATCT
* * *
569985 TTCTACCAACTGCACAA-CTAGGCATTTAGTCTTTTATCTCAAAGGCA-TTAATCTTTCATCTAA
1 TTCTACCAAATGCA-AAGCTAGGCATTTAGTCTTTTATCTCAAAGGCATTTAACCATTCATCTAA
*
570048 CTGGCATTATTGGC-ACC
65 CTGGCATTATTCGCAACC
* * *
570065 TTCCTGCCAAATGTAAAGCTAGACATTTAGTCTTTTATCTCAAAGGCATTTAACCATTCATCTAA
1 TT-CTACCAAATGCAAAGCTAGGCATTTAGTCTTTTATCTCAAAGGCATTTAACCATTCATCTAA
*
570130 TTGGCATTATTCGCAACC
65 CTGGCATTATTCGCAACC
* *
570148 TTCTACCGAATGCATAGCTAGGCATTTAGTCTTTTAT
1 TTCTACCAAATGCAAAGCTAGGCATTTAGTCTTTTAT
570185 TTTAGAACAA
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 4 0.04
81 38 0.37
82 56 0.54
83 5 0.05
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (82 bp):
TTCTACCAAATGCAAAGCTAGGCATTTAGTCTTTTATCTCAAAGGCATTTAACCATTCATCTAAC
TGGCATTATTCGCAACC
Found at i:570442 original size:54 final size:54
Alignment explanation
Indices: 570259--570448 Score: 213
Period size: 54 Copynumber: 3.5 Consensus size: 54
570249 ACTCTATAGT
** * * *** *
570259 TTGCACACGTAGTGCCAATAC-GATAATTCGT-CACTTATTATGAACAACATAGGG
1 TTGCACACACAGTGCCAATACAGA-AATTCATAAACTTATTATGAATTTCTTA-GG
*
570313 TTGCACACACAGTGCCAATATAGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACACAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGG
* * * *
570367 TTGAACACCCAGTGCCAATACAGAAATTTATAAACTTCTTATGAATTTCTTAGG
1 TTGCACACACAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGG
* *
570421 TTGCACACACAGTGCCCATACAGTAATT
1 TTGCACACACAGTGCCAATACAGAAATT
570449 ACAATATATA
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
54 99 0.85
55 17 0.15
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (54 bp):
TTGCACACACAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGG
Found at i:575799 original size:20 final size:21
Alignment explanation
Indices: 575773--575828 Score: 96
Period size: 20 Copynumber: 2.7 Consensus size: 21
575763 AGGAGAAGGT
575773 AAGAAAAAAGAAGAAACTTGG
1 AAGAAAAAAGAAGAAACTTGG
575794 AA-AAAAAAGAAGAAACTTGG
1 AAGAAAAAAGAAGAAACTTGG
575814 AAGAAAAAACGAAGA
1 AAGAAAAAA-GAAGA
575829 GCATTTGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.61
21 8 0.24
22 5 0.15
ACGTcount: A:0.66, C:0.05, G:0.21, T:0.07
Consensus pattern (21 bp):
AAGAAAAAAGAAGAAACTTGG
Found at i:613586 original size:31 final size:31
Alignment explanation
Indices: 613529--613601 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
613519 AAATCGGATC
* *
613529 AGTTGGCTTTCGGGTCGGGTTAATATCATATT
1 AGTTGG-TTTCGGGTCGGGTCAATATCAAATT
* *
613561 AGTTGGTTTTGGGTTGGGTCAATATCAAATT
1 AGTTGGTTTCGGGTCGGGTCAATATCAAATT
613592 -GATTGGTTTC
1 AG-TTGGTTTC
613602 AGTTTGGGTC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 1 0.03
31 28 0.80
32 6 0.17
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (31 bp):
AGTTGGTTTCGGGTCGGGTCAATATCAAATT
Found at i:615195 original size:16 final size:17
Alignment explanation
Indices: 615155--615195 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
615145 CTCACATTAT
615155 AGAACATCTAATATGAA
1 AGAACATCTAATATGAA
615172 AGAACATCTAATATGAA
1 AGAACATCTAATATGAA
615189 A-AACATC
1 AGAACATC
615196 ATGCCAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.22
Consensus pattern (17 bp):
AGAACATCTAATATGAA
Found at i:619000 original size:24 final size:22
Alignment explanation
Indices: 618981--619046 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 22
618971 AGTATTTTCA
*
618981 TTAAGAATTATCTCTTTA--TT
1 TTAAGAATTATATCTTTATTTT
619001 TTAAGAATTATATCTTTA--TT
1 TTAAGAATTATATCTTTATTTT
*
619021 TTAGGAATTATAT-TTTACTTATT
1 TTAAGAATTATATCTTTA-TT-TT
619044 TTA
1 TTA
619047 GGACTTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.10
20 31 0.77
23 5 0.12
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (22 bp):
TTAAGAATTATATCTTTATTTT
Found at i:619006 original size:20 final size:20
Alignment explanation
Indices: 618981--619037 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
618971 AGTATTTTCA
*
618981 TTAAGAATTATCTCTTTATT
1 TTAAGAATTATATCTTTATT
619001 TTAAGAATTATATCTTTATT
1 TTAAGAATTATATCTTTATT
*
619021 TTAGGAATTATAT-TTTA
1 TTAAGAATTATATCTTTA
619038 CTTATTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 4 0.11
20 31 0.89
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.54
Consensus pattern (20 bp):
TTAAGAATTATATCTTTATT
Found at i:619669 original size:33 final size:33
Alignment explanation
Indices: 619632--619742 Score: 100
Period size: 33 Copynumber: 3.4 Consensus size: 33
619622 ACTAAATAAG
* *
619632 TTTGTTACAATTTGTTATTGTGA-AAGAATATTA
1 TTTGTTACAATTTGTTATTATGAGAA-AATAATA
* * * *
619665 TTTGTCACAATTTTTTATAATGAGAAATTAATA
1 TTTGTTACAATTTGTTATTATGAGAAAATAATA
* * **
619698 TTTGTTATAATTTGTTATTTTGATTAAATAA-A
1 TTTGTTACAATTTGTTATTATGAGAAAATAATA
*
619730 TTTGTCACAATTT
1 TTTGTTACAATTT
619743 TACATTTTGA
Statistics
Matches: 61, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
32 12 0.20
33 47 0.77
34 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (33 bp):
TTTGTTACAATTTGTTATTATGAGAAAATAATA
Found at i:619931 original size:32 final size:31
Alignment explanation
Indices: 619894--620047 Score: 112
Period size: 33 Copynumber: 4.8 Consensus size: 31
619884 AGAAATTAAT
*
619894 ATTTGTTATAAATTATTATTTTGATTAAATAA
1 ATTTGTTATAAATTGTTATTTTGA-TAAATAA
* * * * *
619926 ATTTGTTACAATTTGTTATTGTGAAAGAATATT
1 ATTTGTTATAAATTGTTATTTTGATA-AATA-A
* * * * *
619959 ATTTGTCATAATTTTTTATTTTGAGGAATTAA
1 ATTTGTTATAAATTGTTATTTTGA-TAAATAA
* *
619991 TATTTATTATAAATTGTTATTATGACTAAATAA
1 -ATTTGTTATAAATTGTTATTTTGA-TAAATAA
*
620024 ATTTGTCA-AAAGTTGTTATTTTGA
1 ATTTGTTATAAA-TTGTTATTTTGA
620048 GAAAATATTG
Statistics
Matches: 93, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
31 4 0.04
32 41 0.44
33 47 0.51
34 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.51
Consensus pattern (31 bp):
ATTTGTTATAAATTGTTATTTTGATAAATAA
Found at i:619932 original size:98 final size:98
Alignment explanation
Indices: 619811--620056 Score: 296
Period size: 98 Copynumber: 2.5 Consensus size: 98
619801 ACTTAACGTG
* * * * * *
619811 TTATTGTGACTAAATCATTTTGTTACAATTTGTTATTGTGAAAGAATATTACTTGTCACAATTTT
1 TTATTATGACTAAATAAATTTGTCAAAAGTTGTTATTGTGAAAGAATATTACTTGTCACAATTTT
*
619876 TTAAAATGAGAAATTAATATTTGTTATAAATTA
66 TTAAAATGAGAAATTAATATTTATTATAAATTA
* * * * * * *
619909 TTATTTTGATTAAATAAATTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCATAATTTT
1 TTATTATGACTAAATAAATTTGTCAAAAGTTGTTATTGTGAAAGAATATTACTTGTCACAATTTT
*** * *
619974 TTATTTTGAGGAATTAATATTTATTATAAATTG
66 TTAAAATGAGAAATTAATATTTATTATAAATTA
*
620007 TTATTATGACTAAATAAATTTGTCAAAAGTTGTTATTTTGAGAA-AATATT
1 TTATTATGACTAAATAAATTTGTCAAAAGTTGTTATTGTGA-AAGAATATT
620057 GTGACGAAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
98 127 0.98
99 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (98 bp):
TTATTATGACTAAATAAATTTGTCAAAAGTTGTTATTGTGAAAGAATATTACTTGTCACAATTTT
TTAAAATGAGAAATTAATATTTATTATAAATTA
Found at i:619972 original size:33 final size:33
Alignment explanation
Indices: 619829--620056 Score: 104
Period size: 33 Copynumber: 7.0 Consensus size: 33
619819 ACTAAATCAT
*
619829 TTTGTTACAATTTGTTATTGTGA-AAGAATATTA
1 TTTGTCACAATTTGTTATTGTGAGAA-AATATTA
* * *** * *
619862 CTTGTCACAATTTTTTAAAATGAGAAATTAATA
1 TTTGTCACAATTTGTTATTGTGAGAAAATATTA
* * * * * ** *
619895 TTTGTTATAAATTATTATTTTGATTAAATA-AA
1 TTTGTCACAATTTGTTATTGTGAGAAAATATTA
*
619927 TTTGTTACAATTTGTTATTGTGA-AAGAATATTA
1 TTTGTCACAATTTGTTATTGTGAGAA-AATATTA
* * * * * *
619960 TTTGTCATAATTTTTTATTTTGAGGAATTAATA
1 TTTGTCACAATTTGTTATTGTGAGAAAATATTA
* * * * * ** *
619993 TTTATTATAAATTGTTATTATGACTAAATA-AA
1 TTTGTCACAATTTGTTATTGTGAGAAAATATTA
* * *
620025 TTTGTCAAAAGTTGTTATTTTGAGAAAATATT
1 TTTGTCACAATTTGTTATTGTGAGAAAATATT
620057 GTGACGAAAT
Statistics
Matches: 140, Mismatches: 50, Indels: 10
0.70 0.25 0.05
Matches are distributed among these distances:
31 1 0.01
32 48 0.34
33 88 0.63
34 3 0.02
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (33 bp):
TTTGTCACAATTTGTTATTGTGAGAAAATATTA
Found at i:620054 original size:32 final size:31
Alignment explanation
Indices: 619882--620054 Score: 105
Period size: 33 Copynumber: 5.3 Consensus size: 31
619872 TTTTTTAAAA
* *
619882 TGAGAAATTAATATTTGTTATAAATTATTATTT
1 TGAGAAAATAA-ATTTGTTA-AAATTGTTATTT
** * *
619915 TGATTAAATAAATTTGTTACAATTTGTTATTG
1 TGAGAAAATAAATTTGTTA-AAATTGTTATTT
* * * *
619947 TGA-AAGAATATTATTTGTCATAATTTTTTATTT
1 TGAGAA-AATA-AATTTGTTA-AAATTGTTATTT
* * * *
619980 TGAGGAATTAATATTTATTATAAATTGTTATTA
1 TGAGAAAATAA-ATTTGTTA-AAATTGTTATTT
** *
620013 TGACTAAATAAATTTGTCAAAAGTTGTTATTT
1 TGAGAAAATAAATTTGTTAAAA-TTGTTATTT
620045 TGAGAAAATA
1 TGAGAAAATA
620055 TTGTGACGAA
Statistics
Matches: 106, Mismatches: 29, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
31 4 0.04
32 46 0.43
33 55 0.52
34 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (31 bp):
TGAGAAAATAAATTTGTTAAAATTGTTATTT
Found at i:621377 original size:35 final size:34
Alignment explanation
Indices: 621309--621414 Score: 169
Period size: 35 Copynumber: 3.1 Consensus size: 34
621299 TAAAACTATT
621309 TAACTAACAAACTAATTAAAT-ATTTTTTATATA
1 TAACTAACAAACTAATTAAATAATTTTTTATATA
*
621342 TAACCAACAAACTAATTAAATAATTTTTTTATATA
1 TAACTAACAAACTAATTAAATAA-TTTTTTATATA
* *
621377 TAACTAACAAATTAATTAAATAATTTTTTATTTA
1 TAACTAACAAACTAATTAAATAATTTTTTATATA
621411 TAAC
1 TAAC
621415 ATCACTTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
33 20 0.30
34 15 0.22
35 32 0.48
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (34 bp):
TAACTAACAAACTAATTAAATAATTTTTTATATA
Found at i:621427 original size:33 final size:33
Alignment explanation
Indices: 621321--621428 Score: 123
Period size: 35 Copynumber: 3.2 Consensus size: 33
621311 ACTAACAAAC
621321 TAATTAAAT-ATTTTTTATATATAACCAACAAAC-
1 TAATTAAATAATTTTTTATATATAA-CAAC-AACT
*
621354 TAATTAAATAATTTTTTTATATATAACTAACAAAT
1 TAATTAAATAA-TTTTTTATATATAAC-AACAACT
* *
621389 TAATTAAATAATTTTTTATTTATAACATC-ACT
1 TAATTAAATAATTTTTTATATATAACAACAACT
621421 TAAATTAA
1 T-AATTAA
621429 CAAACCAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
32 3 0.05
33 17 0.26
34 18 0.27
35 28 0.42
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (33 bp):
TAATTAAATAATTTTTTATATATAACAACAACT
Found at i:623488 original size:23 final size:26
Alignment explanation
Indices: 623461--623508 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 26
623451 TAATATAGAT
623461 TAATAATTAT-A-TATT-TATTTTTG
1 TAATAATTATGAGTATTCTATTTTTG
623484 TAATAATTATGAGTATTCTATTTTT
1 TAATAATTATGAGTATTCTATTTTT
623509 TTCACAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 4 0.18
26 7 0.32
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.58
Consensus pattern (26 bp):
TAATAATTATGAGTATTCTATTTTTG
Found at i:627370 original size:21 final size:21
Alignment explanation
Indices: 627344--627402 Score: 91
Period size: 21 Copynumber: 2.7 Consensus size: 21
627334 CAGGGAATTG
627344 GAGGAATTAGAAAATGAAATC
1 GAGGAATTAGAAAATGAAATC
627365 GAGGAATTAGAAAATGAAATC
1 GAGGAATTAGAAAATGAAATC
*
627386 AAGGAATTCGAGAAAAT
1 GAGGAATT--AGAAAAT
627403 ATTTTCAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 28 0.80
23 7 0.20
ACGTcount: A:0.53, C:0.05, G:0.24, T:0.19
Consensus pattern (21 bp):
GAGGAATTAGAAAATGAAATC
Found at i:628385 original size:5 final size:5
Alignment explanation
Indices: 628375--628399 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
628365 GGGGTGTAAA
628375 CGAGT CGAGT CGAGT CGAGT CGAGT
1 CGAGT CGAGT CGAGT CGAGT CGAGT
628400 TCAAGTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (5 bp):
CGAGT
Found at i:628593 original size:6 final size:6
Alignment explanation
Indices: 628582--628608 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
628572 TCGATTGAAG
628582 ACTCAA ACTCAA ACTCAA ACTCAA ACT
1 ACTCAA ACTCAA ACTCAA ACTCAA ACT
628609 TGAACCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (6 bp):
ACTCAA
Found at i:630398 original size:20 final size:20
Alignment explanation
Indices: 630373--630413 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
630363 GATAGTGACC
*
630373 TTAGGTGGGTCAATGGAGGA
1 TTAGGTGGGTCAACGGAGGA
630393 TTAGGTGGGTCAACGGAGGA
1 TTAGGTGGGTCAACGGAGGA
630413 T
1 T
630414 ATGTTTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.44, T:0.24
Consensus pattern (20 bp):
TTAGGTGGGTCAACGGAGGA
Found at i:633651 original size:16 final size:17
Alignment explanation
Indices: 633617--633656 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
633607 TTATATAAAC
*
633617 TGATATGTGTTTATATG
1 TGATATGTGATTATATG
*
633634 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
633650 TGATATG
1 TGATATG
633657 CCATATGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:633808 original size:17 final size:16
Alignment explanation
Indices: 633786--633828 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
633776 ATTATCTACA
633786 TGATTACATGTAATATG
1 TGATTACATGTAAT-TG
*
633803 TGATTACATGTACTTG
1 TGATTACATGTAATTG
633819 TGA-TACATGT
1 TGATTACATGT
633829 TAAACGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.28
16 5 0.20
17 13 0.52
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (16 bp):
TGATTACATGTAATTG
Found at i:634312 original size:24 final size:24
Alignment explanation
Indices: 634275--634337 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
634265 GGTGCATTTT
634275 TACGTGGTCCTTCGGGACAAATTC
1 TACGTGGTCCTTCGGGACAAATTC
* *
634299 TTCGTGGTCTTTCGGGACAAATTC
1 TACGTGGTCCTTCGGGACAAATTC
634323 TACGTGG-CACTTCGG
1 TACGTGGTC-CTTCGG
634338 TGTAAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 1 0.03
24 33 0.97
ACGTcount: A:0.17, C:0.24, G:0.27, T:0.32
Consensus pattern (24 bp):
TACGTGGTCCTTCGGGACAAATTC
Found at i:639680 original size:21 final size:22
Alignment explanation
Indices: 639640--639681 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
639630 CAGAATGTGC
639640 AGGGGGTACAGATTCGCCCCCG
1 AGGGGGTACAGATTCGCCCCCG
639662 AGGGGGTATCA-ATTC-CCCCC
1 AGGGGGTA-CAGATTCGCCCCC
639682 TAAATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 12 0.63
23 2 0.11
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (22 bp):
AGGGGGTACAGATTCGCCCCCG
Found at i:640138 original size:16 final size:17
Alignment explanation
Indices: 640104--640143 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
640094 TTATATAAAC
*
640104 TGATATGTGTTTATATG
1 TGATATGTGATTATATG
*
640121 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
640137 TGATATG
1 TGATATG
640144 CCATATGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:643889 original size:3 final size:3
Alignment explanation
Indices: 643876--643939 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
643866 GTTTTTTCCG
** *
643876 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
643921 TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA
643940 CAATTTTTGC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 5 0.10
3 43 0.84
4 3 0.06
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:643917 original size:32 final size:32
Alignment explanation
Indices: 643874--643937 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
643864 GGGTTTTTTC
*
643874 CGTTATTTTATTATTATTATTATTA-TTATTAT
1 CGTTATCTTATTATT-TTATTATTATTTATTAT
643906 CGTTATCTTATTATTTTATTATTATTTATTAT
1 CGTTATCTTATTATTTTATTATTATTTATTAT
643938 TACAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 9 0.30
32 21 0.70
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.66
Consensus pattern (32 bp):
CGTTATCTTATTATTTTATTATTATTTATTAT
Found at i:645096 original size:19 final size:19
Alignment explanation
Indices: 645050--645096 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
645040 CATTAATTTG
*
645050 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
645070 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
645090 TATATTT
1 TATATTT
645097 ATTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:647822 original size:30 final size:32
Alignment explanation
Indices: 647787--647847 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 32
647777 ATTTTACATG
647787 TACTAACTTATTT-TTCTC-TTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
647817 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
647848 CATTTTGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 13 0.45
31 5 0.17
32 11 0.38
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:650937 original size:22 final size:22
Alignment explanation
Indices: 650910--651018 Score: 87
Period size: 22 Copynumber: 4.7 Consensus size: 22
650900 AAGATCCAAT
650910 CAAAAACAAAGAAAAATCAAAG
1 CAAAAACAAAGAAAAATCAAAG
* *
650932 AGAAAAGAGCAAAGAAAAAAACAAAGAG
1 -CAAAA-A-CAAAG-AAAAATC-AA-AG
* * *
650960 CAGAGA-GAA-AAAAATCAAAG
1 CAAAAACAAAGAAAAATCAAAG
650980 CAAAAACAAAGAAAAATCAAAG
1 CAAAAACAAAGAAAAATCAAAG
*
651002 CAAAAGTCAAAGAAAAA
1 CAAAA-ACAAAGAAAAA
651019 AGCAAAGAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
20 6 0.09
21 4 0.06
22 22 0.33
23 14 0.21
24 3 0.04
25 5 0.07
26 7 0.10
27 4 0.06
28 2 0.03
ACGTcount: A:0.71, C:0.11, G:0.15, T:0.04
Consensus pattern (22 bp):
CAAAAACAAAGAAAAATCAAAG
Done.