Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold458
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: 516756
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 3 of 3
Found at i:379475 original size:2 final size:2
Alignment explanation
Indices: 379468--379499 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
379458 CCGTCCATGC
379468 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
379500 TGGTTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:380221 original size:3 final size:3
Alignment explanation
Indices: 380213--380246 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
380203 TTTGCAAAGA
380213 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
380247 CACAAAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:381545 original size:22 final size:21
Alignment explanation
Indices: 381497--381557 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
381487 AACTAATAAA
*
381497 ATAAAATTATAACTA-T-TATT
1 ATAAAA-TATAAATATTATATT
* *
381517 ATGAAATATATATAGTTATATT
1 ATAAAATATAAATA-TTATATT
381539 ATAAAATATAAATATTATA
1 ATAAAATATAAATATTATA
381558 ATAAAAACCA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 6 0.18
20 5 0.15
21 6 0.18
22 16 0.48
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (21 bp):
ATAAAATATAAATATTATATT
Found at i:382547 original size:6 final size:6
Alignment explanation
Indices: 382528--382576 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
382518 CCTAAACATG
* * * * *
382528 ACATAT ACACAT ACATAT ACATAT ATATAT ATATAT ATATAC ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
382576 A
1 A
382577 ATTTCATGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (6 bp):
ACATAT
Found at i:384196 original size:16 final size:16
Alignment explanation
Indices: 384177--384234 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
384167 TATAATACGA
384177 ATATAAATTAAAATTT
1 ATATAAATTAAAATTT
* *
384193 ATATAAAATAAATTATT
1 ATATAAATTAAAAT-TT
* * *
384210 A-ATATATCAAAATCT
1 ATATAAATTAAAATTT
384225 ATATAAATTA
1 ATATAAATTA
384235 CTTTAAACAC
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
15 2 0.06
16 26 0.84
17 3 0.10
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAAATTAAAATTT
Found at i:385553 original size:13 final size:13
Alignment explanation
Indices: 385535--385566 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
385525 ATTAAAAAAT
385535 ATATTTATATTTA
1 ATATTTATATTTA
385548 ATATTTATATTTA
1 ATATTTATATTTA
385561 A-ATTTA
1 ATATTTA
385567 ATAACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTTATATTTA
Found at i:387131 original size:23 final size:24
Alignment explanation
Indices: 387078--387131 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 24
387068 TCTAATAACT
387078 ATATTATCAAATAATAATAATAAAA
1 ATATTATCAAATAATAAT-ATAAAA
*
387103 ATTATTATCAAATTATAAT-TAAAA
1 A-TATTATCAAATAATAATATAAAA
387127 ATATT
1 ATATT
387132 CGAAGAGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 4 0.15
24 6 0.22
25 1 0.04
26 16 0.59
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATTATCAAATAATAATATAAAA
Found at i:393481 original size:9 final size:9
Alignment explanation
Indices: 393469--393493 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
393459 AAAAATAAAA
393469 TTTAAATAT
1 TTTAAATAT
393478 TTTAAATAT
1 TTTAAATAT
393487 TTTAAAT
1 TTTAAAT
393494 CCAAACAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAAATAT
Found at i:394860 original size:19 final size:20
Alignment explanation
Indices: 394822--394862 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
394812 TATGATTAAA
394822 TTTAAATAAAAACTATATTAT
1 TTTAAATAAAAAC-ATATTAT
*
394843 TTTAATTAAAAA-ATATTAT
1 TTTAAATAAAAACATATTAT
394862 T
1 T
394863 CCAAATTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTAAATAAAAACATATTAT
Found at i:395389 original size:78 final size:78
Alignment explanation
Indices: 395260--395416 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
395250 CTTCTGTGAT
395260 TTTGACAATCATATTCAATGTTACTCTGTTACTCGACACTTTATTTTCTCTATGGTATTCGAATT
1 TTTGACAATCATATTCAATGTTACTCTGTTACTCGACACTTTATTTTCTCTATGGTATTCGAATT
395325 TAACACTCATGAC
66 TAACACTCATGAC
395338 TTTGACAATCATATTCAATGTTACTCTGTTACTCGACACTTTATTTTCTCTATGGTATTCGAATT
1 TTTGACAATCATATTCAATGTTACTCTGTTACTCGACACTTTATTTTCTCTATGGTATTCGAATT
395403 TAACACTCATGAC
66 TAACACTCATGAC
395416 T
1 T
395417 GATAAGTATT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (78 bp):
TTTGACAATCATATTCAATGTTACTCTGTTACTCGACACTTTATTTTCTCTATGGTATTCGAATT
TAACACTCATGAC
Found at i:398137 original size:28 final size:28
Alignment explanation
Indices: 398097--398152 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
398087 CGGATATGTT
*
398097 ACTTCGACTTTTTATTTTTCTTGAAATA
1 ACTTCGACTTTTTATTTTTCTTAAAATA
* *
398125 ACTTTGACTTTTTATTTTTTTTAAAATA
1 ACTTCGACTTTTTATTTTTCTTAAAATA
398153 TCTGTATCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (28 bp):
ACTTCGACTTTTTATTTTTCTTAAAATA
Found at i:399289 original size:96 final size:94
Alignment explanation
Indices: 399053--399402 Score: 443
Period size: 96 Copynumber: 3.7 Consensus size: 94
399043 AGCGAGTTAG
* * *
399053 CTGAGAAAGTGAAGACAACGCAGTTGCTGATTCACAATAACAAAGCAGTCTAGATGAAGAAAATC
1 CTGAGAAAGTGAAGACAACCCAGTTCCTGATTCACAATAACAAAGCAGTCTAGATGCAGAAAATC
* *
399118 GATAGAAACGACCGAAATTTTGTGAATTAT
66 GATAGAAATGACCGAAA-ATTGTGAATTAT
* *
399148 CTGAGAAAGTGAAGACAACCCAGTTCCTGATTCACAATAAAAAAGCAATCTAGATGCAGAAAATC
1 CTGAGAAAGTGAAGACAACCCAGTTCCTGATTCACAATAACAAAGCAGTCTAGATGCAGAAAATC
* * *
399213 GATTGAAATGACCGAAAAAGTTGTGAGTTTT
66 GATAGAAATGACCG-AAAA-TTGTGAATTAT
* * * * *
399244 CCGAGAAAGTGAAGACAACCCAGTTTCTGATTCACCACAACAAAGCAGTCTAGGTGCAGGAAAGA
1 CTGAGAAAGTGAAGACAACCCAGTTCCTGATTCACAATAACAAAGCAGTCTAGATGCA-GAAA-A
* * *
399309 TCGATAGAAATCACAGAAAA-TGTGAATTAAA
64 TCGATAGAAATGACCGAAAATTGTGAATT-AT
* *
399340 CTGAGAAAATGAAGACAACCCAGTTCCTGATTCACAA-AAGCAAAGCAGTCTAGAAGCAGAAAA
1 CTGAGAAAGTGAAGACAACCCAGTTCCTGATTCACAATAA-CAAAGCAGTCTAGATGCAGAAAA
399403 CAGATTGAAA
Statistics
Matches: 220, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
94 1 0.00
95 85 0.39
96 112 0.51
97 8 0.04
98 14 0.06
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (94 bp):
CTGAGAAAGTGAAGACAACCCAGTTCCTGATTCACAATAACAAAGCAGTCTAGATGCAGAAAATC
GATAGAAATGACCGAAAATTGTGAATTAT
Found at i:399411 original size:192 final size:190
Alignment explanation
Indices: 399055--399412 Score: 508
Period size: 192 Copynumber: 1.9 Consensus size: 190
399045 CGAGTTAGCT
* *
399055 GAGAAAGTGAAGACAACGCAGTTGCTGATTCACAATAACAAAGCAGTCTAGATGAAGAAAATCGA
1 GAGAAAGTGAAGACAACCCAGTTGCTGATTCACAACAACAAAGCAGTCTAGATGAAGAAAATCGA
* * * *
399120 TAGAAACGACCGAAATTTTGTGAATTATCTGAGAAAGTGAAGACAACCCAGTTCCTGATTCACAA
66 TAGAAACGACAGAAA-TATGTGAATTAACTGAGAAAATGAAGACAACCCAGTTCCTGATTCACAA
*
399185 TAAAAAAGCAATCTAGATGCAGAAAATCGATTGAAATGACCGAAAAAGTTGTGAGTTTTCC
130 TAAAAAAGCAATCTAGAAGCAGAAAATCGATTGAAATGACCGAAAAAGTTGTGAGTTTTCC
* * * *
399246 GAGAAAGTGAAGACAACCCAGTTTCTGATTCACCACAACAAAGCAGTCTAGGTGCAGGAAAGATC
1 GAGAAAGTGAAGACAACCCAGTTGCTGATTCACAACAACAAAGCAGTCTAGATG-AAGAAA-ATC
399311 GATAGAAATC-ACAGAAA-ATGTGAATTAAACTGAGAAAATGAAGACAACCCAGTTCCTGATTCA
64 GATAGAAA-CGACAGAAATATGTGAATT-AACTGAGAAAATGAAGACAACCCAGTTCCTGATTCA
* *
399374 CAA-AAGCAAAGCAGTCTAGAAGCAGAAAA-CAGATTGAAA
127 CAATAA-AAAAGCAATCTAGAAGCAGAAAATC-GATTGAAA
399413 AACTCTGATT
Statistics
Matches: 148, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
191 60 0.41
192 70 0.47
193 17 0.11
194 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (190 bp):
GAGAAAGTGAAGACAACCCAGTTGCTGATTCACAACAACAAAGCAGTCTAGATGAAGAAAATCGA
TAGAAACGACAGAAATATGTGAATTAACTGAGAAAATGAAGACAACCCAGTTCCTGATTCACAAT
AAAAAAGCAATCTAGAAGCAGAAAATCGATTGAAATGACCGAAAAAGTTGTGAGTTTTCC
Found at i:401877 original size:23 final size:23
Alignment explanation
Indices: 401842--401902 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
401832 AGTTCATTTC
*
401842 ATTATTTTTTATATTATTAAAAAT
1 ATTA-TTTTTATATTAATAAAAAT
**
401866 ATTATTTTTATATTAATAATTAT
1 ATTATTTTTATATTAATAAAAAT
401889 A-TATTTTTA-ATTAA
1 ATTATTTTTATATTAA
401903 ATTTAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.15
22 8 0.24
23 17 0.50
24 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTATTTTTATATTAATAAAAAT
Found at i:401881 original size:20 final size:21
Alignment explanation
Indices: 401856--401903 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
401846 TTTTTTATAT
401856 TATTAAAAATAT-TATTTTTA
1 TATTAAAAATATATATTTTTA
*
401876 TATTAATAATTATATATTTTTA
1 TATTAA-AAATATATATTTTTA
401898 -ATTAAA
1 TATTAAA
401904 TTTAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 10 0.40
22 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTAAAAATATATATTTTTA
Found at i:411362 original size:18 final size:18
Alignment explanation
Indices: 411310--411362 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 18
411300 CTTATTTTTA
*
411310 TATATT-TATATAAATTT
1 TATATTATATAAAAATTT
*
411327 TGATA-TAT-TAATAA-TT
1 T-ATATTATATAAAAATTT
411343 TATATTATATAAAAATTT
1 TATATTATATAAAAATTT
411361 TA
1 TA
411363 GTAAATTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 9
0.70 0.08 0.22
Matches are distributed among these distances:
15 3 0.11
16 6 0.21
17 11 0.39
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TATATTATATAAAAATTT
Found at i:412482 original size:14 final size:15
Alignment explanation
Indices: 412458--412493 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
412448 TTGAAAGCAT
412458 ATTAC-TTATAA-TA
1 ATTACATTATAATTA
412471 ATTACATTATAATTA
1 ATTACATTATAATTA
412486 ATTA-ATTA
1 ATTACATTA
412494 AAAATCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 10 0.48
15 6 0.29
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTACATTATAATTA
Found at i:417616 original size:22 final size:22
Alignment explanation
Indices: 417559--417616 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
417549 TCTTTTGGTT
*
417559 TGTAATAATAAGAATAATTTATA
1 TGTAATAA-AATAATAATTTATA
* * *
417582 TAT-ATATATATAATAATTTTTA
1 TGTAATA-AAATAATAATTTATA
417604 TGTAATAAAATAA
1 TGTAATAAAATAA
417617 AATAAAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TGTAATAAAATAATAATTTATA
Found at i:418244 original size:15 final size:14
Alignment explanation
Indices: 418226--418276 Score: 75
Period size: 15 Copynumber: 3.5 Consensus size: 14
418216 TGTTAATATT
418226 TTAAAAGTATAAAAA
1 TTAAAA-TATAAAAA
*
418241 TTAAAATATAAAAT
1 TTAAAATATAAAAA
418255 TTAATAATATAAAAA
1 TTAA-AATATAAAAA
418270 TTAAAAT
1 TTAAAAT
418277 GCTTTATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 14 0.42
15 19 0.58
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:419941 original size:22 final size:22
Alignment explanation
Indices: 419891--419944 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
419881 TAGATGAAGC
* *
419891 TTAAGTTTAAGTTTCGATGGGT
1 TTAAGTTTAAGTTTAGATGGGA
* * *
419913 TTTAGTTTAGGTTTAGATGTGA
1 TTAAGTTTAAGTTTAGATGGGA
419935 TTAAGTTTAA
1 TTAAGTTTAA
419945 AATTATATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (22 bp):
TTAAGTTTAAGTTTAGATGGGA
Found at i:420505 original size:18 final size:19
Alignment explanation
Indices: 420476--420530 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 19
420466 AATGTTAAAT
420476 ATAATA-AATATTTAATAA
1 ATAATATAATATTTAATAA
420494 A-AATATAATATTTAATTAA
1 ATAATATAATATTTAA-TAA
*
420513 ATAATAT-AGATTTAATAA
1 ATAATATAATATTTAATAA
420531 GTTAAAACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.12
18 13 0.39
19 11 0.33
20 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
ATAATATAATATTTAATAA
Found at i:420879 original size:13 final size:13
Alignment explanation
Indices: 420861--420885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
420851 TTATTACTTT
420861 TTAAAAAATATAA
1 TTAAAAAATATAA
420874 TTAAAAAATATA
1 TTAAAAAATATA
420886 TAAAGTATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAAAATATAA
Found at i:427872 original size:27 final size:30
Alignment explanation
Indices: 427842--427896 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
427832 TTTTTTTAAT
427842 ATTTTA-TT-TAAATTAAAATT-TTATTTC
1 ATTTTATTTATAAATTAAAATTATTATTTC
*
427869 ATTTTATTTATAAATTTAAATTATTATT
1 ATTTTATTTATAAATTAAAATTATTATT
427897 AAAAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 2 0.08
29 11 0.46
30 5 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
ATTTTATTTATAAATTAAAATTATTATTTC
Found at i:433972 original size:88 final size:88
Alignment explanation
Indices: 433874--434061 Score: 308
Period size: 88 Copynumber: 2.1 Consensus size: 88
433864 TCAATAATAA
433874 AAATATTTATAATAACAATTTAAGAATATAAGAAATAATAATAATAATTATTTTCGTTAGTTTAA
1 AAATATTTATAATAACAATTTAAGAATATAAGAAATAATAATAATAATTATTTTCGTT--TTTAA
*
433939 ATTTTTTTTATATTCGCACA-TTAT
64 AATTTTTTTATATTCGCACATTTAT
* *
433963 -AATATTTATAATAATAATTTAAGAATATAAGAAATAATAATAATTATTATTTTCGTTTTTAAAA
1 AAATATTTATAATAACAATTTAAGAATATAAGAAATAATAATAATAATTATTTTCGTTTTTAAAA
434027 TTTTTTTATATTCGCACATTTAT
66 TTTTTTTATATTCGCACATTTAT
434050 AAATATTATATA
1 AAATATT-TATA
434062 TATATTTATG
Statistics
Matches: 93, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
86 24 0.26
87 4 0.04
88 61 0.66
89 4 0.04
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (88 bp):
AAATATTTATAATAACAATTTAAGAATATAAGAAATAATAATAATAATTATTTTCGTTTTTAAAA
TTTTTTTATATTCGCACATTTAT
Found at i:435769 original size:14 final size:16
Alignment explanation
Indices: 435737--435770 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
435727 ATTTAAATTG
435737 TATTAATTATAACAAA
1 TATTAATTATAACAAA
435753 TATTAATT-TAA-AAA
1 TATTAATTATAACAAA
435767 TATT
1 TATT
435771 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 3 0.17
16 8 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TATTAATTATAACAAA
Found at i:437461 original size:79 final size:79
Alignment explanation
Indices: 437235--437740 Score: 517
Period size: 79 Copynumber: 6.4 Consensus size: 79
437225 TGAAGTATCG
* * ** *
437235 GTGTTTTGAAAATAAAACTGGGGTTAGAGTATCTTATCGGAAATAACGGGGTTGGAGTATCCCCG
1 GTGTTTTGGAAATAAAACTGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCCG
*
437300 ATTATGAAAAATCA
66 ATTGTGAAAAATCA
* ** * * * * * * *
437314 GGGTTTTAAAAATAAAATCAGGGGTTGAAGTATCTTCTCGAAAATAACGAGATTGAAGTATCCTC
1 GTGTTTTGGAAATAAAA-CTGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCC
*
437379 GATTGTGAAAAATCG
65 GATTGTGAAAAATCA
* * *
437394 GTGTTTTGGAAATAAAA-TCGGGGTTGGAGTAT-TCCCTCGAAAAAAATGGGGTTAGAGTATCCC
1 GTGTTTTGGAAATAAAACT-GGGGTTGGAGTATCT-CCTCGAAAATAACGGGGTTGGAGTATCCC
437457 CGATTGTG-AAAATCA
64 CGATTGTGAAAAATCA
* * * *
437472 ATGTTTTGGAAATAAAAAC-GAGGTTGGAGTATC-CTCTCG-AAATAACAGGGTTGGAGTACCCC
1 GTGTTTTGGAAAT-AAAACTGGGGTTGGAGTATCTC-CTCGAAAATAACGGGGTTGGAGTATCCC
437534 CGATTGTGAAAAATCA
64 CGATTGTGAAAAATCA
** * * *
437550 GTGTTTT-GAAATAAAACTAAGGTTGGAGTATC-CTCTTGGAAATAACGGGGTTGGAGTATCCCT
1 GTGTTTTGGAAATAAAACTGGGGTTGGAGTATCTC-CTCGAAAATAACGGGGTTGGAGTATCCCC
*
437613 GATTATGAAAAATCA
65 GATTGTGAAAAATCA
* ** * ** *
437628 GTGTTTTAGAAATAAAACTGAAGTTGGAGTATCTCCTTGGCAATAACGGGGTTAGAGTATCCCCG
1 GTGTTTTGGAAATAAAACTGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCCG
*
437693 ATTGTGGAAAATCA
66 ATTGTGAAAAATCA
* * *
437707 ATGTTTTGAAAATAAAA-TCGGGGTTAGAGTATCT
1 GTGTTTTGGAAATAAAACT-GGGGTTGGAGTATCT
437741 TCGATTGTGA
Statistics
Matches: 360, Mismatches: 54, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
76 5 0.01
77 50 0.14
78 91 0.25
79 148 0.41
80 66 0.18
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
GTGTTTTGGAAATAAAACTGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCCG
ATTGTGAAAAATCA
Found at i:437656 original size:234 final size:238
Alignment explanation
Indices: 437236--437739 Score: 639
Period size: 234 Copynumber: 2.1 Consensus size: 238
437226 GAAGTATCGG
* * *
437236 TGTTTTGAAAAT-AAAACTGGGGTTAGAGTATCTTATCGGAAATAACGGGGTTGGAGTATCCCCG
1 TGTTTTGAAAATAAAAAC-GGGGTTAGAGTATCCTATCGGAAATAACAGGGTTGGAGTACCCCCG
* *
437300 ATTATGAAAAATCAGGGTTTTAAAAATAAAATCAGGGGTTGAAGTATCTTCTCGAAAATAACGAG
65 ATTATGAAAAATCAGGGTTTTAAAAATAAAATCAGAGGTTGAAGTATCCTCTCGAAAATAACGAG
* * * **
437365 ATTGAAGTATCCTCGATTGTGAAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTAT-TCC
130 ATTGAAGTATCCTCGATTATGAAAAATCAGTGTTTTAGAAATAAAATCGAAGTTGGAGTATCT-C
*
437429 CTCGAAAAAAATGGGGTTAGAGTATCCCCGATTGT-GAAAATCAA
194 CTCGAAAAAAACGGGGTTAGAGTATCCCCGATTGTGGAAAATCAA
* * * *
437473 TGTTTTGGAAATAAAAACGAGGTTGGAGTATCCTCTC-GAAATAACAGGGTTGGAGTACCCCCGA
1 TGTTTTGAAAATAAAAACGGGGTTAGAGTATCCTATCGGAAATAACAGGGTTGGAGTACCCCCGA
* * * * * * *
437537 TTGTGAAAAATCAGTGTTTT-GAAATAAAA-CTA-AGGTTGGAGTATCCTCTTGGAAATAACGGG
66 TTATGAAAAATCAGGGTTTTAAAAATAAAATC-AGAGGTTGAAGTATCCTCTCGAAAATAACGAG
* *
437599 GTTGGAGTATCC-CTGATTATGAAAAATCAGTGTTTTAGAAATAAAA-CTGAAGTTGGAGTATCT
130 ATTGAAGTATCCTC-GATTATGAAAAATCAGTGTTTTAGAAATAAAATC-GAAGTTGGAGTATCT
* ** *
437662 CCTTGGCAATAACGGGGTTAGAGTATCCCCGATTGTGGAAAATCAA
193 CCTCGAAAAAAACGGGGTTAGAGTATCCCCGATTGTGGAAAATCAA
*
437708 TGTTTTGAAAATAAAATCGGGGTTAGAGTATC
1 TGTTTTGAAAATAAAAACGGGGTTAGAGTATC
437740 TTCGATTGTG
Statistics
Matches: 229, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
233 2 0.01
234 106 0.46
235 47 0.21
236 43 0.19
237 26 0.11
238 5 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (238 bp):
TGTTTTGAAAATAAAAACGGGGTTAGAGTATCCTATCGGAAATAACAGGGTTGGAGTACCCCCGA
TTATGAAAAATCAGGGTTTTAAAAATAAAATCAGAGGTTGAAGTATCCTCTCGAAAATAACGAGA
TTGAAGTATCCTCGATTATGAAAAATCAGTGTTTTAGAAATAAAATCGAAGTTGGAGTATCTCCT
CGAAAAAAACGGGGTTAGAGTATCCCCGATTGTGGAAAATCAA
Found at i:437746 original size:51 final size:51
Alignment explanation
Indices: 437674--437841 Score: 185
Period size: 51 Copynumber: 3.3 Consensus size: 51
437664 TTGGCAATAA
** * *
437674 CGGGGTTAGAGTATCCCCGATTGTGGAAAATCAATGTTTTGAAAATAAAAT
1 CGGGGTTAGAGTATCTTCGATTGTGAAAAATCAGTGTTTTGAAAATAAAAT
*
437725 CGGGGTTAGAGTATCTTCGATTGTGAAAAATTAGTGTTTT-AGAAATAAAAT
1 CGGGGTTAGAGTATCTTCGATTGTGAAAAATCAGTGTTTTGA-AAATAAAAT
* * * * * * * * *
437776 CGGAGTTGGAGTATCTTTGATTATGCAAAATCGGTGTTTTGTAAGTAAAAC
1 CGGGGTTAGAGTATCTTCGATTGTGAAAAATCAGTGTTTTGAAAATAAAAT
*
437827 CGGGGTTGGAGTATC
1 CGGGGTTAGAGTATC
437842 CTCTTAAAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
50 1 0.01
51 98 0.99
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.33
Consensus pattern (51 bp):
CGGGGTTAGAGTATCTTCGATTGTGAAAAATCAGTGTTTTGAAAATAAAAT
Found at i:437869 original size:80 final size:79
Alignment explanation
Indices: 437780--438002 Score: 259
Period size: 80 Copynumber: 2.8 Consensus size: 79
437770 TAAAATCGGA
** * * * *
437780 GTTGGAGTATCTTTGATTATGCAAAATCGGTGTTTT-GTAAGTAAAACCGGGGTTGGAGTATCCT
1 GTTGGAGTATCACTGATTGTGAAAAATTGGTGTTTTAG-AAATAAAACCGGGGTTGGAGTATCCT
* *
437844 CTTAAAAATTACGGG
65 CTCAAAAATAACGGG
* * * * *
437859 GTTGGAAGTATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAACTGGGGCTGGAGTATCCC
1 GTTGG-AGTATCACTGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCT
* *
437924 CTCGAAAATAATGGG
65 CTCAAAAATAACGGG
* * *
437939 GTTGGAGTATCACCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGAAGTATCCT
1 GTTGGAGTATCACTGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCT
438003 TGATTGTGAA
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 56 0.46
80 64 0.53
81 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (79 bp):
GTTGGAGTATCACTGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTC
TCAAAAATAACGGG
Found at i:437978 original size:210 final size:211
Alignment explanation
Indices: 437715--438208 Score: 577
Period size: 210 Copynumber: 2.4 Consensus size: 211
437705 CAATGTTTTG
* * **
437715 AAAATAAAATCGGGGTTAGAGTATCTTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
1 AAAATAACAT-GGGGTTGGAGTATCACCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
* * * * ** * *
437780 GTTGGAGTATCTTTGATTATGCAAAATCGGTGTTTTGTAAGTAAAACCGGGGTTGGAGTATCCTC
65 GTTGAAGTATCCTTGATTATGAAAAATCGATGTTTTAAAAATAAAACCGAGGTTGGAGTATCCTC
* * * ** *
437845 TTAAAAATTACGGGGTTGGAAGTATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAA-CTG
130 TCAAAAATAACAGGGTTGG-AGTATCCCCAATTGTGAAAAATTGGTGTTTTAGAAATAAAATC-G
* * *
437909 GGGCTGGAGTATCCCCTCG
193 AGACTGGAGTATCCCCTCA
* *
437928 AAAAT-A-ATGGGGTTGGAGTATCACCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGG
1 AAAATAACATGGGGTTGGAGTATCACCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGAG
* *
437991 TTGAAGTATCCTTGATTGTGAAAAATCGATGTTTTAAAAATAAAACCGAGGTTGGAGTATCTTCT
66 TTGAAGTATCCTTGATTATGAAAAATCGATGTTTTAAAAATAAAACCGAGGTTGGAGTATCCTCT
* *
438056 CGAAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGAGA
131 CAAAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGAGA
* *
438121 TTGGAGTATCCTCTCA
196 CTGGAGTATCCCCTCA
* * * * * * * *
438137 AAAATAACAT-GGGTTGGAGTATC-CACGATTAT-AGAAATCAATATTTTGGAAATAAAACCGGG
1 AAAATAACATGGGGTTGGAGTATCAC-CGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGA
438199 GTTGAAGTAT
65 GTTGAAGTAT
438209 TATCTCGGAA
Statistics
Matches: 241, Mismatches: 36, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
209 91 0.38
210 140 0.58
211 4 0.02
212 1 0.00
213 5 0.02
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (211 bp):
AAAATAACATGGGGTTGGAGTATCACCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGAG
TTGAAGTATCCTTGATTATGAAAAATCGATGTTTTAAAAATAAAACCGAGGTTGGAGTATCCTCT
CAAAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGAGA
CTGGAGTATCCCCTCA
Found at i:438008 original size:51 final size:51
Alignment explanation
Indices: 437936--438051 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
437926 CGAAAATAAT
* * * *
437936 GGGGTTGGAGTATCACCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATC
1 GGGGTTGGAGTATCACCGATTGTGAAAAATCGATGTTTTAAAAATAAAACC
* *
437987 GGGGTTGAAGTATC-CTTGATTGTGAAAAATCGATGTTTTAAAAATAAAACC
1 GGGGTTGGAGTATCAC-CGATTGTGAAAAATCGATGTTTTAAAAATAAAACC
*
438038 GAGGTTGGAGTATC
1 GGGGTTGGAGTATC
438052 TTCTCGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 1 0.02
51 55 0.98
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.31
Consensus pattern (51 bp):
GGGGTTGGAGTATCACCGATTGTGAAAAATCGATGTTTTAAAAATAAAACC
Found at i:438032 original size:130 final size:130
Alignment explanation
Indices: 437855--438132 Score: 385
Period size: 130 Copynumber: 2.1 Consensus size: 130
437845 TTAAAAATTA
* * * * * * *
437855 CGGGGTTGGAAGTATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAACTGGGGCTGGAGTA
1 CGGGGTT-GAAGTATCCTTGATTGTGAAAAATCGATGTTTTAAAAATAAAACCGAGGCTGGAGTA
** *
437920 TCCCCTCGAAAATAATGGGGTTGGAGTATCACCGATTGTGAAAAATTGGTGTTTTAGAAATAAAA
65 TCCCCTCGAAAATAACAGGGTTGGAGTATCACCAATTGTGAAAAATTGGTGTTTTAGAAATAAAA
437985 T
130 T
*
437986 CGGGGTTGAAGTATCCTTGATTGTGAAAAATCGATGTTTTAAAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGAAGTATCCTTGATTGTGAAAAATCGATGTTTTAAAAATAAAACCGAGGCTGGAGTAT
** * *
438051 CTTCTCGAAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAAT
66 CCCCTCGAAAATAACAGGGTTGGAGTATCACCAATTGTGAAAAATTGGTGTTTTAGAAATAAAAT
* * *
438116 CGAGATTGGAGTATCCT
1 CGGGGTTGAAGTATCCT
438133 CTCAAAAATA
Statistics
Matches: 129, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
130 122 0.95
131 7 0.05
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (130 bp):
CGGGGTTGAAGTATCCTTGATTGTGAAAAATCGATGTTTTAAAAATAAAACCGAGGCTGGAGTAT
CCCCTCGAAAATAACAGGGTTGGAGTATCACCAATTGTGAAAAATTGGTGTTTTAGAAATAAAAT
Found at i:438034 original size:261 final size:259
Alignment explanation
Indices: 437543--438053 Score: 663
Period size: 261 Copynumber: 2.0 Consensus size: 259
437533 CCGATTGTGA
* **
437543 AAAATCAGTGTTTTGAAATAAAACTAAGGTTGGAGTATCCTCTTGGAAATAACGGGGTTGGAGTA
1 AAAATCAGTGTTTTGAAATAAAACCAAGGTTGGAGTATCCTCTTAAAAATAACGGGGTTGGAGTA
* * * **
437608 TCCCTGATTATGAAAAATCAGTGTTTTAGAAATAAAACTGAAGTTGGAGTATCTCCTTGGCAATA
66 TCCCTGATTATGAAAAATCAGTGTTTTAGAAATAAAACTGAAGCTGGAGTATCCCCTCGAAAATA
* *
437673 ACGGGGTTAGAGTATCCCCGATTGTGGAAAATCAATGTTTTGAAAATAAAATCGGGGTTAGAGTA
131 ACGGGGTTAGAGTATCACCGATTGTGAAAAATCAATGTTTTGAAAATAAAATCGGGGTTAGAGTA
* * *
437738 TCTTCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCG-GAGTTGGAGTATCTTTGATTATGC
196 TCTTCGATTGTGAAAAATGAGTGTTTTAAAAATAAAACCGAG-GTTGGAGTATCTTTGATTATGC
* * ** *
437802 AAAATCGGTGTTTTGTAAGTAAAACCGGGGTTGGAGTATCCTCTTAAAAATTACGGGGTTGGAAG
1 AAAATCAGTGTTTTG-AAATAAAACCAAGGTTGGAGTATCCTCTTAAAAATAACGGGGTTGG-AG
* * ** **
437867 TATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAACTGGGGCTGGAGTATCCCCTCGAAAA
64 TATCCCTGATTATGAAAAATCAGTGTTTTAGAAATAAAACTGAAGCTGGAGTATCCCCTCGAAAA
* * ***
437932 TAATGGGGTTGGAGTATCACCGATTGTGAAAAATTGGTGTTTT-AGAAATAAAATCGGGGTT-GA
129 TAACGGGGTTAGAGTATCACCGATTGTGAAAAATCAATGTTTTGA-AAATAAAATCGGGGTTAG-
437995 AGTATCCTT-GATTGTGAAAAATCGA-TGTTTTAAAAATAAAACCGAGGTTGGAGTATCTT
192 AGTAT-CTTCGATTGTGAAAAAT-GAGTGTTTTAAAAATAAAACCGAGGTTGGAGTATCTT
438054 CTCGAAAATA
Statistics
Matches: 216, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
259 14 0.06
260 41 0.19
261 156 0.72
262 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (259 bp):
AAAATCAGTGTTTTGAAATAAAACCAAGGTTGGAGTATCCTCTTAAAAATAACGGGGTTGGAGTA
TCCCTGATTATGAAAAATCAGTGTTTTAGAAATAAAACTGAAGCTGGAGTATCCCCTCGAAAATA
ACGGGGTTAGAGTATCACCGATTGTGAAAAATCAATGTTTTGAAAATAAAATCGGGGTTAGAGTA
TCTTCGATTGTGAAAAATGAGTGTTTTAAAAATAAAACCGAGGTTGGAGTATCTTTGATTATGC
Found at i:438071 original size:79 final size:80
Alignment explanation
Indices: 437988--438222 Score: 260
Period size: 79 Copynumber: 3.0 Consensus size: 80
437978 AATAAAATCG
* ** **
437988 GGGTTGAAGTATCCTTGATTGTGAAAAATCGATGTTTTAAAAATAAAACCGAGGTTGGAGTATCT
1 GGGTTGGAGTATCCACGATTGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCT
438053 TCTCGAAAATAACA-
66 TCTCGAAAATAACAT
* * * * * * *
438067 GGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGAGATTGGAGTATCC
1 GGGTTGGAGTATCCACGATTGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCT
*
438132 TCTCAAAAATAACAT
66 TCTCGAAAATAACAT
* * * * * *
438147 GGGTTGGAGTATCCACGATTAT-AGAAATCAATATTTTGGAAATAAAACCGGGGTTGAAGTAT-T
1 GGGTTGGAGTATCCACGATTGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCT
*
438210 ATCTCGGAAATAA
66 -TCTCGAAAATAA
438223 AAACATGAAT
Statistics
Matches: 127, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
79 108 0.85
80 19 0.15
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (80 bp):
GGGTTGGAGTATCCACGATTGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCT
TCTCGAAAATAACAT
Found at i:440658 original size:50 final size:50
Alignment explanation
Indices: 440597--440710 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 50
440587 TAAATTTCTC
*
440597 AATGTATCGATACATTTAGGTAAAA-CCAAGAATCTATCGATACAATGAAA-
1 AATGTATCGATACATCTAGGTAAAACCCAA-AATCTATCGATACAAT-AAAG
* * * *
440647 AATGTAACGATACATCTGGGTAAAACCCAAACTGTATCGATACAATAAAG
1 AATGTATCGATACATCTAGGTAAAACCCAAAATCTATCGATACAATAAAG
440697 AATGTATCGATACA
1 AATGTATCGATACA
440711 AATTGTAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
49 3 0.05
50 49 0.88
51 4 0.07
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.25
Consensus pattern (50 bp):
AATGTATCGATACATCTAGGTAAAACCCAAAATCTATCGATACAATAAAG
Found at i:442224 original size:20 final size:21
Alignment explanation
Indices: 442194--442234 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
442184 CAAATATATC
442194 GATACATTGTATCGATACATG
1 GATACATTGTATCGATACATG
442215 GATA-ATTGTATCGATACATG
1 GATACATTGTATCGATACATG
442235 AAACTGGCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (21 bp):
GATACATTGTATCGATACATG
Found at i:442306 original size:33 final size:34
Alignment explanation
Indices: 442264--442327 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
442254 TACCACTATT
*
442264 TGTATCGATACATGGT-ATATTGT-ATCGATATAA
1 TGTATCGATACATGATGA-ATTGTAATCGATATAA
442297 TGTATCGATACATGATGAATTGTAATCGATA
1 TGTATCGATACATGATGAATTGTAATCGATA
442328 CATTGCTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (34 bp):
TGTATCGATACATGATGAATTGTAATCGATATAA
Found at i:448478 original size:13 final size:13
Alignment explanation
Indices: 448460--448486 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
448450 ACAACATTCC
448460 TTGTATCGATACA
1 TTGTATCGATACA
448473 TTGTATCGATACA
1 TTGTATCGATACA
448486 T
1 T
448487 AAGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:450366 original size:22 final size:22
Alignment explanation
Indices: 450341--450382 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
450331 TTTTTTAAGA
*
450341 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAAGGGGAGAAATGC
*
450363 TTTGATAAAAGGGGAGAAAT
1 TTTGACAAAAGGGGAGAAAT
450383 ATGTTTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.21
Consensus pattern (22 bp):
TTTGACAAAAGGGGAGAAATGC
Found at i:452786 original size:22 final size:23
Alignment explanation
Indices: 452741--452787 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
452731 AAATTTTTCA
*
452741 TTGATTTATTTTATTATTATAAT
1 TTGATTTAGTTTATTATTATAAT
452764 TTGAGTTTAGTTT-TTA-TATAAT
1 TTGA-TTTAGTTTATTATTATAAT
452786 TT
1 TT
452788 TTGTTGCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 7 0.32
24 7 0.32
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (23 bp):
TTGATTTAGTTTATTATTATAAT
Found at i:452907 original size:20 final size:19
Alignment explanation
Indices: 452882--452939 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
452872 CACTTAAAAT
452882 TAATATTTTAATAGAAATA-A
1 TAATATTTTAA-A-AAATAGA
452902 TAATATTTTAAAAAATATGGA
1 TAATATTTTAAAAAATA--GA
*
452923 TAATATTTTAAGAAATA
1 TAATATTTTAAAAAATA
452940 TTAAGAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 5 0.15
19 1 0.03
20 11 0.32
21 17 0.50
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (19 bp):
TAATATTTTAAAAAATAGA
Found at i:452927 original size:21 final size:21
Alignment explanation
Indices: 452901--452940 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
452891 AATAGAAATA
452901 ATAATATTTTAAAAAATATGG
1 ATAATATTTTAAAAAATATGG
*
452922 ATAATATTTTAAGAAATAT
1 ATAATATTTTAAAAAATAT
452941 TAAGAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
ATAATATTTTAAAAAATATGG
Found at i:457918 original size:29 final size:29
Alignment explanation
Indices: 457884--457941 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
457874 TCTGAAAAGT
457884 AAAGATATTTGAACCAATTCTTATCTCCA
1 AAAGATATTTGAACCAATTCTTATCTCCA
457913 AAAGATATTTGAACCAATTCTTATCTCCA
1 AAAGATATTTGAACCAATTCTTATCTCCA
457942 TTTTTCCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (29 bp):
AAAGATATTTGAACCAATTCTTATCTCCA
Found at i:464461 original size:28 final size:28
Alignment explanation
Indices: 464405--464481 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
464395 GAAATAAAGC
*
464405 CGGGGTTGGAGTATCCCCTCG--GAAGTAA
1 CGGGGTTGGAGTAT-CCCT-GATGAAATAA
464433 CGGGGTTGGAGTATCCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCTGATGAAATAA
** *
464461 CAAGGTTGGAGTATCCTTGAT
1 CGGGGTTGGAGTATCCCTGAT
464482 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 38 0.88
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCTGATGAAATAA
Found at i:464554 original size:52 final size:52
Alignment explanation
Indices: 464498--464799 Score: 154
Period size: 52 Copynumber: 5.7 Consensus size: 52
464488 AAATCGGTAT
*
464498 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCG
1 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
* * * ** *
464550 TTTTGAAAATAAAACCAGGA-TTGGAGTATCCTCGATT-GTGGAAAAATTAGTG
1 TTTTGGAAATAAAATC-GGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGTG
* ** * * * * ** *
464602 TTTTAGCGATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGG--GGTTGGAG
1 TTTTGGAAATAAAATCGGAGTTGGAGTAT-CCC-C-G-ATTAAAGGAAAATTGGTG
*** * * * *
464656 TATCCCCGATGAT-TAA-CGGGGTTGGAGTATCCCCGATTGTGAA-G-AAATTGGTG
1 T-T-TTGGA-AATAAAATCGGAGTTGGAGTATCCCCGA-T-TAAAGGAAAATTGGTG
* * *
464709 TTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATA-GAAAATTAGTG
1 ---TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
* *
464763 TTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
1 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATT
464800 GTGGAGAATT
Statistics
Matches: 186, Mismatches: 44, Indels: 41
0.69 0.16 0.15
Matches are distributed among these distances:
51 39 0.21
52 61 0.33
53 18 0.10
54 22 0.12
55 35 0.19
56 6 0.03
57 5 0.03
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (52 bp):
TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
Found at i:464680 original size:27 final size:28
Alignment explanation
Indices: 464617--464692 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
464607 GCGATAAAAC
***
464617 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
464645 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
464672 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
464693 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:467178 original size:13 final size:13
Alignment explanation
Indices: 467160--467185 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
467150 ACAAAGATCC
467160 ATGTATCGATACA
1 ATGTATCGATACA
467173 ATGTATCGATACA
1 ATGTATCGATACA
467186 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:467181 original size:33 final size:33
Alignment explanation
Indices: 467139--467205 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
467129 AAAATTTCCA
***
467139 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
467172 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
467205 A
1 A
467206 TTTCCTTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:467249 original size:19 final size:19
Alignment explanation
Indices: 467225--467279 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
467215 TAGTAGCTAA
*
467225 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
467244 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
467263 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
467280 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:467341 original size:21 final size:21
Alignment explanation
Indices: 467315--467392 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
467305 GTTGGGACCC
467315 TGTATCGATACATTTGTAGGA
1 TGTATCGATACATTTGTAGGA
467336 TGTATCGATACATTTGTAGGA
1 TGTATCGATACATTTGTAGGA
* **
467357 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTA-GGA
467378 TGTATCGATACATTT
1 TGTATCGATACATTT
467393 ATTTATTTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.08
21 46 0.88
22 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGGA
Found at i:468311 original size:55 final size:55
Alignment explanation
Indices: 468227--469021 Score: 1193
Period size: 55 Copynumber: 14.4 Consensus size: 55
468217 ATAAATTGTA
* * * * * *
468227 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
468282 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
468337 TCCTGCTCTTTGAGGACT-AGAAGGCGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
468392 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
468448 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
468503 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
468558 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
468613 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
468668 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
468723 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
468778 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGCGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
468833 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
468888 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
468943 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
468998 TCCTGCTCTTTGAGGACTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
469022 CGGAAGGAGA
Statistics
Matches: 700, Mismatches: 26, Indels: 28
0.93 0.03 0.04
Matches are distributed among these distances:
54 16 0.02
55 621 0.89
56 61 0.09
57 2 0.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:468660 original size:165 final size:165
Alignment explanation
Indices: 468227--469021 Score: 1316
Period size: 165 Copynumber: 4.8 Consensus size: 165
468217 ATAAATTGTA
* * * * *
468227 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
*
468291 TTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACT
*
468355 -AGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
129 GA-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
468392 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
*
468457 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
468522 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
468558 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
468623 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGA
468688 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
468723 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * *
468788 TGAGGACTGGAAA-ATGCCACCAACTTGCGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT-
*
468852 GAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
129 GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
468888 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
468953 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
469017 AAAGG
130 AAAGG
469022 CGGAAGGAGA
Statistics
Matches: 600, Mismatches: 22, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
164 4 0.01
165 429 0.71
166 166 0.28
167 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGA
AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:470289 original size:55 final size:55
Alignment explanation
Indices: 470204--471327 Score: 1706
Period size: 55 Copynumber: 20.4 Consensus size: 55
470194 ATAAATTGTA
* * ** * *
470204 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
470259 TCCTGCTCTTTGAGGACT-GAAAGGTTCCACCCACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
470314 TCCTGCTCTTTGAGGACTAGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
470369 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
470425 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
470480 TTCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
470535 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
470590 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
470645 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
470700 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
470755 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
470810 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
470865 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
470920 TCCTGCTCTTTGAGGACTGGAAAATGCCATCAACTTGCGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
470975 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
471030 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
471085 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
471140 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
471195 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
471250 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
471305 TCCTGCTCTTTGAGGACT-GAAAG
1 TCCTGCTCTTTGAGGACTGGAAAG
471328 GCGGAAGGAG
Statistics
Matches: 1012, Mismatches: 38, Indels: 39
0.93 0.03 0.04
Matches are distributed among these distances:
54 27 0.03
55 912 0.90
56 73 0.07
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:472596 original size:55 final size:55
Alignment explanation
Indices: 472511--473469 Score: 1446
Period size: 55 Copynumber: 17.4 Consensus size: 55
472501 ATAAATTGTA
* * * * * *
472511 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
472566 TCCTGCTCTTTGAGGACTGAAAGGTTCCACCCACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
472621 TCCTGCTCTTTGAGGACT-AGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
472676 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
472732 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
472787 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
472842 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
472897 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
472952 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
473007 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
473062 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
473116 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
473171 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
473226 TCCTGCTCTTTGAGGACTGGAAA-ATGCCATCAACTTGCGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
473281 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
473336 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
473391 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
473446 TCCTGCTCTTTGGGGACTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
473470 CGGAAGGAGA
Statistics
Matches: 852, Mismatches: 33, Indels: 38
0.92 0.04 0.04
Matches are distributed among these distances:
53 2 0.00
54 71 0.08
55 707 0.83
56 71 0.08
57 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:472944 original size:165 final size:165
Alignment explanation
Indices: 472511--473469 Score: 1628
Period size: 165 Copynumber: 5.8 Consensus size: 165
472501 ATAAATTGTA
* * * * *
472511 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* * *
472575 TTGAGGACTGAAAGGTTCCACCCACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACT
*
472639 -AGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
129 GA-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
472676 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
472741 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
472806 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
472842 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
472907 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
472972 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
473007 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
473072 TGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
473136 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
473171 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * * *
473236 TGAGGACTGGAAA-ATGCCATCAACTTGCGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACT-
*
473300 GAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
129 GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
473336 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
473401 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
473465 AAAGG
130 AAAGG
473470 CGGAAGGAGA
Statistics
Matches: 761, Mismatches: 24, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
164 159 0.21
165 440 0.58
166 161 0.21
167 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:474736 original size:55 final size:55
Alignment explanation
Indices: 474652--475611 Score: 1412
Period size: 55 Copynumber: 17.4 Consensus size: 55
474642 ATAAATTGTA
* * * * * *
474652 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
474707 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
474762 TTCTGCTCTTTGAGGACT-AGAAGGCGCCACCTACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
474817 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
474873 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
474928 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
474983 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
475038 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
475093 TCCTGCTCTTTG-GGAACTGAAAGGTGCCACCAACTTGGGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGG-ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
475148 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
475203 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
475258 TCCTGCTTTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * *
475313 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGTTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
475368 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGCGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
475423 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
475478 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
475533 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
475588 TCCTGCTCTTTGGGGACTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
475612 CGGAAGGAGA
Statistics
Matches: 847, Mismatches: 38, Indels: 40
0.92 0.04 0.04
Matches are distributed among these distances:
54 25 0.03
55 749 0.88
56 72 0.09
57 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:475078 original size:165 final size:165
Alignment explanation
Indices: 474652--475611 Score: 1592
Period size: 165 Copynumber: 5.8 Consensus size: 165
474642 ATAAATTGTA
* * * * *
474652 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* * *
474716 TTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AGGTGTTCTGCTCTTTGAGGACT
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACT
* *
474780 -AGAAGGCGCCACCTACTTGTGTGGGCTTTAAGAGGTG
129 GA-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
474817 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
474882 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
474947 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
474983 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
475048 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGAACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
*
475113 AAGGTGCCACCAACTTGGGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
475148 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
475213 TAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTTTTTGGGGACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
475278 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
475313 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGTTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * *
475378 TGAGGACTGGAAA-ATGCCACCAACTTGCGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACT-
*
475442 GAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
129 GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
475478 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
475543 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
475607 AAAGG
130 AAAGG
475612 CGGAAGGAGA
Statistics
Matches: 754, Mismatches: 33, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
164 4 0.01
165 585 0.78
166 164 0.22
167 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:475500 original size:27 final size:27
Alignment explanation
Indices: 475418--475555 Score: 68
Period size: 27 Copynumber: 5.0 Consensus size: 27
475408 GGGCTTTAAG
475418 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
475445 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
475473 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
475500 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
475528 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
475555 A
1 A
475556 ATGCCACCAA
Statistics
Matches: 73, Mismatches: 28, Indels: 20
0.60 0.23 0.17
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 21 0.29
28 20 0.27
29 10 0.14
30 6 0.08
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:476879 original size:55 final size:55
Alignment explanation
Indices: 476795--477589 Score: 1166
Period size: 55 Copynumber: 14.4 Consensus size: 55
476785 ATAAATTGTA
* * * * * *
476795 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
476850 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGTTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
476905 TCCTGCTCTTTGAGGACT-AGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
476960 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
477016 TCCTGCTCTTTGAGGACTGAAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
477071 TCCTGCTTTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
477126 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
477181 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
477236 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
477291 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
477346 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGCGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
477401 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
477456 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
477511 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
477566 TCCTGCTCTTTGGGGACTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
477590 CGGAAGGAGA
Statistics
Matches: 695, Mismatches: 31, Indels: 28
0.92 0.04 0.04
Matches are distributed among these distances:
54 17 0.02
55 612 0.88
56 65 0.09
57 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:477201 original size:26 final size:26
Alignment explanation
Indices: 477172--477261 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
477162 GTGTGGGCTT
477172 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
477198 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
* *
477225 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
477253 TGAAAGGTG
1 TGAAAGGTG
477262 CCACCAACTT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:477224 original size:165 final size:165
Alignment explanation
Indices: 476795--477589 Score: 1298
Period size: 165 Copynumber: 4.8 Consensus size: 165
476785 ATAAATTGTA
* * * * *
476795 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* * *
476859 TTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGTTTTGAA-AGGTGTCCTGCTCTTTGAGGACT
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACT
*
476923 -AGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
129 GA-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
476960 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* *
477025 TTGAGGACTGAAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTTTTTGGGGACTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
477090 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 AAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
477126 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
477191 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
477256 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
477291 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * *
477356 TGAGGACTGGAAA-ATGCCACCAACTTGCGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACT-
*
477420 GAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
129 GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
477456 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
477521 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
477585 AAAGG
130 AAAGG
477590 CGGAAGGAGA
Statistics
Matches: 596, Mismatches: 26, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
164 4 0.01
165 428 0.72
166 163 0.27
167 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:477478 original size:27 final size:27
Alignment explanation
Indices: 477396--477533 Score: 68
Period size: 27 Copynumber: 5.0 Consensus size: 27
477386 GGGCTTTAAG
477396 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
477423 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
477451 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
477478 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
477506 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
477533 A
1 A
477534 ATGCCACCAA
Statistics
Matches: 73, Mismatches: 28, Indels: 20
0.60 0.23 0.17
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 21 0.29
28 20 0.27
29 10 0.14
30 6 0.08
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:479839 original size:33 final size:33
Alignment explanation
Indices: 479767--479842 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
479757 GTATCAACAA
* *
479767 TAGGTTCGCACTGAGGTTGAGTGGGCTGTATTT
1 TAGGTTGGGACTGAGGTTGAGTGGGCTGTATTT
*
479800 TAGGTTGGGACTGAGGTTGAGTGGGTTGTATTT
1 TAGGTTGGGACTGAGGTTGAGTGGGCTGTATTT
479833 TAGGTTGGGA
1 TAGGTTGGGA
479843 TTGTTCCTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.16, C:0.07, G:0.41, T:0.37
Consensus pattern (33 bp):
TAGGTTGGGACTGAGGTTGAGTGGGCTGTATTT
Found at i:501348 original size:17 final size:17
Alignment explanation
Indices: 501315--501348 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
501305 AAATAATAAG
*
501315 CATATTTATGTTGGATA
1 CATATTTATATTGGATA
*
501332 CATATTTATATTTGATA
1 CATATTTATATTGGATA
501349 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (17 bp):
CATATTTATATTGGATA
Found at i:506362 original size:36 final size:36
Alignment explanation
Indices: 506315--506390 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
506305 AGATTTGTTC
* *
506315 AATC-TTTTAATCAATTACACATAGATATCATATAA
1 AATCTTTTTAATCAATTACACATAAATATAATATAA
* * * *
506350 AATCTTTTTAATCTATTGCATATAAATATAATATAT
1 AATCTTTTTAATCAATTACACATAAATATAATATAA
506386 AATCT
1 AATCT
506391 ATGTTTGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 4 0.12
36 30 0.88
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (36 bp):
AATCTTTTTAATCAATTACACATAAATATAATATAA
Found at i:507276 original size:23 final size:20
Alignment explanation
Indices: 507242--507283 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
507232 TTGATTGTAA
507242 AAATTATAATTTTTCATCCAAC
1 AAATTATAA--TTTCATCCAAC
507264 AAATATATAATTTCATCCAA
1 AAAT-TATAATTTCATCCAA
507284 ATACATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTATAATTTCATCCAAC
Found at i:509169 original size:14 final size:14
Alignment explanation
Indices: 509150--509180 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
509140 GTAATTTAAT
*
509150 AAATTGGTAAAAAG
1 AAATTGGAAAAAAG
509164 AAATTGGAAAAAAG
1 AAATTGGAAAAAAG
509178 AAA
1 AAA
509181 AAATATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (14 bp):
AAATTGGAAAAAAG
Done.