Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 156 of 172
Found at i:51122429 original size:3 final size:3
Alignment explanation
Indices: 51122413--51122454 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
51122403 TTAAATACAT
* *
51122413 TTA TT- TTA -TA TTA TTA TTA TTA TCA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
51122455 TTCATCTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:51122442 original size:12 final size:12
Alignment explanation
Indices: 51122425--51122454 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
51122415 ATTTTATATT
51122425 ATTATTATTATC
1 ATTATTATTATC
51122437 ATTATTATTATC
1 ATTATTATTATC
51122449 ATTATT
1 ATTATT
51122455 TTCATCTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:51125881 original size:29 final size:27
Alignment explanation
Indices: 51125857--51125913 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 27
51125847 AATTTTAATG
51125857 ATTTTTATTTTTTAAATATTTTTTTTCAA
1 ATTTTTATTTTTTAAATA-TTTTTTT-AA
*
51125886 ATTTTTGAATTTTTAAA-ATTTTTTTAA
1 ATTTTT-ATTTTTTAAATATTTTTTTAA
51125913 A
1 A
51125914 AAAATTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 7 0.27
29 7 0.27
30 9 0.35
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
ATTTTTATTTTTTAAATATTTTTTTAA
Found at i:51133413 original size:26 final size:26
Alignment explanation
Indices: 51133384--51133492 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
51133374 TTGATACAAA
51133384 ATGATAATGGGTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTCC
* * *
51133410 ATGACAATGGATTAGGTAAATATTCC
1 ATGATAATGGGTTAGGTAAATGTTCC
51133436 ATGATAATGGGTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTCC
*
51133462 ATGATAATGGTTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTCC
51133488 ATGAT
1 ATGAT
51133493 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
ATGATAATGGGTTAGGTAAATGTTCC
Found at i:51137091 original size:24 final size:24
Alignment explanation
Indices: 51137049--51137111 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
51137039 TACGTACTAT
* *
51137049 TATATAAAAACATTTAAATGAGATAA
1 TATAT-AAAACA-TAAAATAAGATAA
*
51137075 TATATAAAACATAAAATAATATAA
1 TATATAAAACATAAAATAAGATAA
*
51137099 TATAAAGAAACAT
1 TATATA-AAACAT
51137112 TCCAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 15 0.47
25 12 0.38
26 5 0.16
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (24 bp):
TATATAAAACATAAAATAAGATAA
Found at i:51142701 original size:40 final size:40
Alignment explanation
Indices: 51142646--51142726 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
51142636 ATACAAAGCG
*
51142646 TCGATTTCAGTGTGATTTATTTCACAAATAAATTCTATTT
1 TCGATTTCAGTGTGATTTATTCCACAAATAAATTCTATTT
51142686 TCGATTTCAGTGTGATTTATTCCACAAATAAATTCTATTT
1 TCGATTTCAGTGTGATTTATTCCACAAATAAATTCTATTT
51142726 T
1 T
51142727 TGAGAGAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.47
Consensus pattern (40 bp):
TCGATTTCAGTGTGATTTATTCCACAAATAAATTCTATTT
Found at i:51144785 original size:39 final size:39
Alignment explanation
Indices: 51144731--51144808 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
51144721 AGAATAAAAC
51144731 TTTTGCAAATCTCCATCTATAATACCCCAAAGTATTTGG
1 TTTTGCAAATCTCCATCTATAATACCCCAAAGTATTTGG
51144770 TTTTGCAAATCTCCATCTATAATACCCCAAAGTATTTGG
1 TTTTGCAAATCTCCATCTATAATACCCCAAAGTATTTGG
51144809 AAATTATACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (39 bp):
TTTTGCAAATCTCCATCTATAATACCCCAAAGTATTTGG
Found at i:51150065 original size:18 final size:19
Alignment explanation
Indices: 51150044--51150080 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
51150034 GCATTTTAAA
51150044 AATTTGT-AAGTATTTACT
1 AATTTGTAAAGTATTTACT
*
51150062 AATTTGTAAAGTTTTTACT
1 AATTTGTAAAGTATTTACT
51150081 TATATATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (19 bp):
AATTTGTAAAGTATTTACT
Found at i:51158444 original size:88 final size:88
Alignment explanation
Indices: 51158295--51158491 Score: 394
Period size: 88 Copynumber: 2.2 Consensus size: 88
51158285 AGAGAGGAGG
51158295 AGGAGGAAAATATATATGAATATTCAGTTAGCATGGCTAATTTGCATGTTTTAGGCTTAAGGACT
1 AGGAGGAAAATATATATGAATATTCAGTTAGCATGGCTAATTTGCATGTTTTAGGCTTAAGGACT
51158360 AAATTGAATAAAAGTAAAACTTC
66 AAATTGAATAAAAGTAAAACTTC
51158383 AGGAGGAAAATATATATGAATATTCAGTTAGCATGGCTAATTTGCATGTTTTAGGCTTAAGGACT
1 AGGAGGAAAATATATATGAATATTCAGTTAGCATGGCTAATTTGCATGTTTTAGGCTTAAGGACT
51158448 AAATTGAATAAAAGTAAAACTTC
66 AAATTGAATAAAAGTAAAACTTC
51158471 AGGAGGAAAATATATATGAAT
1 AGGAGGAAAATATATATGAAT
51158492 TGTTTTATTA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 109 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (88 bp):
AGGAGGAAAATATATATGAATATTCAGTTAGCATGGCTAATTTGCATGTTTTAGGCTTAAGGACT
AAATTGAATAAAAGTAAAACTTC
Found at i:51159106 original size:46 final size:46
Alignment explanation
Indices: 51158980--51159112 Score: 185
Period size: 46 Copynumber: 2.9 Consensus size: 46
51158970 CTTTGAAATG
* * * * *
51158980 AAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACATGACGGG
1 AAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACATGACAGA
*
51159026 AAATGAATAAGACCATAGTTGAAAGATACCATGGCAACATGACAGA
1 AAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACATGACAGA
* * *
51159072 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACATG
51159113 TCGATAAATA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
AAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACATGACAGA
Found at i:51159411 original size:16 final size:17
Alignment explanation
Indices: 51159390--51159422 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51159380 ATGATGGAGC
51159390 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
51159406 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
51159423 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:51170672 original size:62 final size:62
Alignment explanation
Indices: 51170598--51170721 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
51170588 TCTCATGTCT
*
51170598 TTTCATAGGGACATAACGACCAAATGAATAGTCATATTTTTAGCGATAAACATAATTATTCA
1 TTTCATAGGGACATAACGACCAAATGAATAGTCATATTTTTAGCAATAAACATAATTATTCA
51170660 TTTCATAGGGACATAACGACCAAATGAATAGTCATATTTTTAGCAATAAACATAATTATTCA
1 TTTCATAGGGACATAACGACCAAATGAATAGTCATATTTTTAGCAATAAACATAATTATTCA
51170722 ATAGATATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (62 bp):
TTTCATAGGGACATAACGACCAAATGAATAGTCATATTTTTAGCAATAAACATAATTATTCA
Found at i:51178592 original size:49 final size:51
Alignment explanation
Indices: 51178498--51178595 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 51
51178488 TATAGTTATA
* * *
51178498 TTTGGGCCACTGTTTTTTCACGCATAGAAAGATTAATGTTGACTCCAACAC
1 TTTGGCCCACTGTTTTTTCACACATAGAAAGATTAATGTTAACTCCAACAC
* *
51178549 TTTGGCCCTCTGTTTTTTCATACA-A-AAAGATTAATGTTAACTCCAAC
1 TTTGGCCCACTGTTTTTTCACACATAGAAAGATTAATGTTAACTCCAAC
51178596 TATATCCAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 21 0.50
50 1 0.02
51 20 0.48
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (51 bp):
TTTGGCCCACTGTTTTTTCACACATAGAAAGATTAATGTTAACTCCAACAC
Found at i:51179965 original size:44 final size:44
Alignment explanation
Indices: 51179902--51179990 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
51179892 TTGGAATACT
*
51179902 AACAGTGCTAAATGTGACAAGTACAAAAAAAAAAAAAAAAAAGA
1 AACAGTGCTAAATGTGACAAGTAAAAAAAAAAAAAAAAAAAAGA
51179946 AACAGTGCTAAATGTGACAAGTAAAAAAAAAAAAAAAAAAAAGA
1 AACAGTGCTAAATGTGACAAGTAAAAAAAAAAAAAAAAAAAAGA
51179990 A
1 A
51179991 GAAGAAGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.67, C:0.08, G:0.13, T:0.11
Consensus pattern (44 bp):
AACAGTGCTAAATGTGACAAGTAAAAAAAAAAAAAAAAAAAAGA
Found at i:51182137 original size:17 final size:18
Alignment explanation
Indices: 51182099--51182137 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
51182089 TATATTTCAA
*
51182099 TAATTATTAATATTTTTG
1 TAATTATTAATATTTTAG
51182117 -AATTATTAA-ATTTTAG
1 TAATTATTAATATTTTAG
51182133 TAATT
1 TAATT
51182138 GATTCGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAATTATTAATATTTTAG
Found at i:51182739 original size:18 final size:17
Alignment explanation
Indices: 51182716--51182761 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
51182706 ATTTAAATTG
51182716 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCG-TTT
*
51182734 CGGTCGC-GTTGCGTTT
1 CGGTCGCGGTCGCGTTT
51182750 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
51182762 GACATAACGG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 3 0.12
17 5 0.20
18 7 0.28
ACGTcount: A:0.00, C:0.28, G:0.41, T:0.30
Consensus pattern (17 bp):
CGGTCGCGGTCGCGTTT
Found at i:51183261 original size:11 final size:11
Alignment explanation
Indices: 51183245--51183270 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51183235 TATGCATATT
51183245 TTTTAAATTTA
1 TTTTAAATTTA
51183256 TTTTAAATTTA
1 TTTTAAATTTA
51183267 TTTT
1 TTTT
51183271 TTGATGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:51184672 original size:3 final size:3
Alignment explanation
Indices: 51184666--51184697 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
51184656 TGATGATGTT
*
51184666 GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
51184698 GGATTTTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:51185336 original size:20 final size:20
Alignment explanation
Indices: 51185311--51185353 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
51185301 TAGATGGGTT
51185311 AGGCACCGAGCTAAGGCTGG
1 AGGCACCGAGCTAAGGCTGG
51185331 AGGCACCGAGCTAAGGCTGG
1 AGGCACCGAGCTAAGGCTGG
51185351 AGG
1 AGG
51185354 GGCACCCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.42, T:0.09
Consensus pattern (20 bp):
AGGCACCGAGCTAAGGCTGG
Found at i:51204421 original size:15 final size:15
Alignment explanation
Indices: 51204401--51204430 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51204391 AAAGTGTGGA
51204401 GGATGTCTTAAAACC
1 GGATGTCTTAAAACC
51204416 GGATGTCTTAAAACC
1 GGATGTCTTAAAACC
51204431 AGACAATTTT
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:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
GGATGTCTTAAAACC
Found at i:51206545 original size:5 final size:5
Alignment explanation
Indices: 51206537--51206563 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
51206527 ATCATATAAT
51206537 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
51206564 ATTTATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:51207981 original size:19 final size:18
Alignment explanation
Indices: 51207944--51207985 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
51207934 GGAGAGAGTG
*
51207944 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
51207962 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
51207981 TTATT
1 TTATT
51207986 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:51208044 original size:33 final size:39
Alignment explanation
Indices: 51207970--51208051 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 39
51207960 TATTATTTTC
*
51207970 TATTATTATTATTATTACTAATACCACTATTATCATCAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
*
51208009 TATTACTATTA-TATTA-TAATA-C-CT-TT-TCATTAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
51208042 TATTACTATT
1 TATTACTATT
51208052 GTGTTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 2 0.05
36 1 0.02
37 5 0.12
38 5 0.12
39 10 0.24
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (39 bp):
TATTACTATTATTATTACTAATACCACTATTATCATCAT
Found at i:51208081 original size:23 final size:23
Alignment explanation
Indices: 51207997--51208081 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
51207987 CTAATACCAC
* *
51207997 TATTATCATCATTATTACTATTA-
1 TATTATTAT-ATTTTTACTATTAT
* * *
51208020 TATTATAATACCTTTTCATTATTAT
1 TATTATTATA--TTTTTACTATTAT
* * *
51208045 TACTATTGTGTTTTTACTATTAT
1 TATTATTATATTTTTACTATTAT
51208068 TATTATTATATTTT
1 TATTATTATATTTT
51208082 CTTTTTTTGT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
22 1 0.02
23 30 0.65
24 9 0.20
25 6 0.13
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTATATTTTTACTATTAT
Found at i:51208403 original size:54 final size:54
Alignment explanation
Indices: 51208344--51208450 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
51208334 CTTGTTATAG
51208344 TTATTGATTTTTATTTGTTATGCGTTCTTTATTATCTCATTCCATCACGAATTA
1 TTATTGATTTTTATTTGTTATGCGTTCTTTATTATCTCATTCCATCACGAATTA
* *
51208398 TTATTGATTTTTATTTGTTATGTGTTCTTTATTATCTCGTTCCATCACGAATT
1 TTATTGATTTTTATTTGTTATGCGTTCTTTATTATCTCATTCCATCACGAATT
51208451 TAGGTTTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.55
Consensus pattern (54 bp):
TTATTGATTTTTATTTGTTATGCGTTCTTTATTATCTCATTCCATCACGAATTA
Found at i:51221450 original size:16 final size:17
Alignment explanation
Indices: 51221418--51221450 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51221408 TTTATAAGTA
*
51221418 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
51221435 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
51221451 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:51222002 original size:46 final size:46
Alignment explanation
Indices: 51221731--51221994 Score: 348
Period size: 46 Copynumber: 5.7 Consensus size: 46
51221721 TTATCTTTGA
* * * * * *
51221731 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
51221777 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * * * *
51221823 CACGCTCCCACGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
51221869 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * * * *
51221915 CACGCTCCCACGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
51221961 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
51221995 CACATTTCAT
Statistics
Matches: 185, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 185 1.00
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
Found at i:51222004 original size:92 final size:92
Alignment explanation
Indices: 51221746--51221994 Score: 462
Period size: 92 Copynumber: 2.7 Consensus size: 92
51221736 TGCCATAGTG
* * * *
51221746 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
51221811 TTCTTTTCATGTCACGCTCCCACGGTA
66 TTCTTTTCATGTCACGCTCCCACGGTA
51221838 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
51221903 TTCTTTTCATGTCACGCTCCCACGGTA
66 TTCTTTTCATGTCACGCTCCCACGGTA
51221930 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
51221995 CACATTTCAT
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 153 1.00
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCTTTTCATGTCACGCTCCCACGGTA
Found at i:51226801 original size:43 final size:43
Alignment explanation
Indices: 51226726--51226841 Score: 150
Period size: 41 Copynumber: 2.8 Consensus size: 43
51226716 GATAAATCCC
* * *
51226726 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
51226767 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTTGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
51226810 GCAGGCTT--CGCCGGTGATGTGTATTCAGGCCT
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCT
51226842 AGCAGGCGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 37 0.55
42 2 0.03
43 28 0.42
ACGTcount: A:0.13, C:0.23, G:0.33, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:51227245 original size:45 final size:43
Alignment explanation
Indices: 51227178--51227285 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 43
51227168 TTGACTTGAT
* * *
51227178 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAAATAC
1 TATTCAGGCCTTCGAGCCTAGCAAACTATAATGCCGGT-AAAT-C
** *
51227223 TATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTAAATT
1 TATTCAGGCCTTCGAGCCTAGCAAACTATAATGCCGGTAAATC
*
51227266 TATATCAGGAC-TCGAGCCTA
1 TAT-TCAGGCCTTCGAGCCTA
51227286 ACAGGCGAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 12 0.22
44 10 0.18
45 33 0.60
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
TATTCAGGCCTTCGAGCCTAGCAAACTATAATGCCGGTAAATC
Found at i:51227291 original size:43 final size:45
Alignment explanation
Indices: 51227203--51227304 Score: 122
Period size: 43 Copynumber: 2.3 Consensus size: 45
51227193 GCTTAGCAAA
* *
51227203 CTATAATGCCGGTGAAATACTATTCAGGCCTTCGAGCCTAGCAGG
1 CTATAATGCCGGTGAAATACTATTCAGGACTTCGAGCCTAACAGG
*
51227248 CTATAATGCCGGT-AAAT-TTATATCAGGAC-TCGAGCCTAACAGG
1 CTATAATGCCGGTGAAATACTAT-TCAGGACTTCGAGCCTAACAGG
* *
51227291 CGA-AATACCGGTGA
1 CTATAATGCCGGTGA
51227305 TTTGAGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 8 0.16
43 19 0.38
44 10 0.20
45 13 0.26
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (45 bp):
CTATAATGCCGGTGAAATACTATTCAGGACTTCGAGCCTAACAGG
Found at i:51237403 original size:34 final size:34
Alignment explanation
Indices: 51237357--51237426 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
51237347 TTGTTGCACA
*
51237357 AGGGAAAAAGGACTATGTGTGCAGATTGAAGAAG
1 AGGGAAAAAGGACTATGTGTGCAAATTGAAGAAG
*
51237391 AGGGAAAGAGGACTATGTGTGCAAATTGAAGAAG
1 AGGGAAAAAGGACTATGTGTGCAAATTGAAGAAG
51237425 AG
1 AG
51237427 CTTGTATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.36, T:0.17
Consensus pattern (34 bp):
AGGGAAAAAGGACTATGTGTGCAAATTGAAGAAG
Found at i:51243902 original size:31 final size:31
Alignment explanation
Indices: 51243862--51243927 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
51243852 AACATTTCCT
* *
51243862 GCATTAAATCCAACCAAAAGCAGCAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
* *
51243893 GCATGAAATCCAACTAAAAACAGCAAATGTA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
51243924 GCAT
1 GCAT
51243928 AAAAAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.21, G:0.12, T:0.17
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:51244203 original size:21 final size:21
Alignment explanation
Indices: 51244179--51244233 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
51244169 TCTACTGCAA
51244179 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
* *
51244200 TCGCTGCTGCCGCTGTCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
* *
51244221 TCTCTACTGCCTC
1 TCGCTGCTGCCTC
51244234 CGCTCTAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.02, C:0.49, G:0.18, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:51244642 original size:13 final size:14
Alignment explanation
Indices: 51244616--51244644 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
51244606 ACTAACGATG
51244616 AATTAAACCATTAT
1 AATTAAACCATTAT
51244630 AATTAAA-CATTAT
1 AATTAAACCATTAT
51244643 AA
1 AA
51244645 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:51249728 original size:9 final size:9
Alignment explanation
Indices: 51249707--51249827 Score: 65
Period size: 9 Copynumber: 13.6 Consensus size: 9
51249697 TATGGATTAC
*
51249707 GTAAGTTAA
1 GTAAGTTAT
51249716 GTAAGCTT-T
1 GTAAG-TTAT
51249725 GTAAGTTAT
1 GTAAGTTAT
51249734 GTAAGTTAT
1 GTAAGTTAT
* *
51249743 GTTA-TGA-
1 GTAAGTTAT
*
51249750 GATACATTTAT
1 G-TA-AGTTAT
*
51249761 GTAAGGTAT
1 GTAAGTTAT
51249770 GTAAGTTAT
1 GTAAGTTAT
* *
51249779 GATATGATAT
1 G-TAAGTTAT
* *
51249789 AT-ATTTAT
1 GTAAGTTAT
51249797 GT-A-TTAT
1 GTAAGTTAT
*
51249804 GTAAGTTGT
1 GTAAGTTAT
51249813 GTAAGTTAT
1 GTAAGTTAT
51249822 GATAAG
1 G-TAAG
51249828 ATATATATTT
Statistics
Matches: 85, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
7 7 0.08
8 11 0.13
9 50 0.59
10 16 0.19
11 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:51249764 original size:36 final size:36
Alignment explanation
Indices: 51249724--51249810 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
51249714 AAGTAAGCTT
*
51249724 TGTAAGTTATGTAAGTTATGTTATGAGATACATTTA
1 TGTAAGTTATGTAAGTTATGATATGAGATACATTTA
* * *
51249760 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGAGATACATTTA
51249796 TGT-A-TTATGTAAGTT
1 TGTAAGTTATGTAAGTT
51249811 GTGTAAGTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 10 0.22
35 1 0.02
36 35 0.76
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (36 bp):
TGTAAGTTATGTAAGTTATGATATGAGATACATTTA
Found at i:51249816 original size:43 final size:43
Alignment explanation
Indices: 51249757--51249838 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
51249747 TGAGATACAT
*
51249757 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATAAGATATATATTTATGTA
* *
51249800 TTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTA
1 TTATGTAAGGTATGTAAGTTATGATAAGATATATATTTA
51249839 CGATATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.46
Consensus pattern (43 bp):
TTATGTAAGGTATGTAAGTTATGATAAGATATATATTTATGTA
Found at i:51249845 original size:13 final size:13
Alignment explanation
Indices: 51249827--51249851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51249817 GTTATGATAA
51249827 GATATATATTTAC
1 GATATATATTTAC
51249840 GATATATATTTA
1 GATATATATTTA
51249852 TGTATTATGT
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
GATATATATTTAC
Found at i:51249850 original size:56 final size:56
Alignment explanation
Indices: 51249781--51250011 Score: 364
Period size: 56 Copynumber: 4.2 Consensus size: 56
51249771 TAAGTTATGA
51249781 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* *
51249837 TACGATATATATTTATGTATTATGTAAGTTGTGTAAGTTA-GTATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATG-ATAAGATATATATT
* *
51249893 TATGATATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* *
51249949 TATGATATATATTTATGTATTATGTAAGTTTTGTAAGTTATG-TAAG-T-TAT-TA
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
51250001 TATGATATATA
1 TATGATATATA
51250012 ATAAACATTA
Statistics
Matches: 165, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
52 12 0.07
53 3 0.02
54 1 0.01
55 4 0.02
56 144 0.87
57 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (56 bp):
TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
Found at i:51249898 original size:13 final size:13
Alignment explanation
Indices: 51249880--51249965 Score: 70
Period size: 13 Copynumber: 6.3 Consensus size: 13
51249870 TAAGTTAGTA
51249880 TATGATATATATT
1 TATGATATATATT
51249893 TATGATATATATT
1 TATGATATATATT
51249906 TATG-TAT-TATGT
1 TATGATATATAT-T
* *
51249918 TAGTTG-TGTAAGTTATGA
1 TA--TGATAT-A--TAT-T
51249936 TATGATATATATT
1 TATGATATATATT
51249949 TATGATATATATT
1 TATGATATATATT
51249962 TATG
1 TATG
51249966 TATTATGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
11 3 0.05
12 6 0.10
13 34 0.56
14 7 0.11
16 3 0.05
17 2 0.03
18 6 0.10
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (13 bp):
TATGATATATATT
Found at i:51249985 original size:9 final size:9
Alignment explanation
Indices: 51249968--51249998 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
51249958 TATTTATGTA
51249968 TTATGTAAG
1 TTATGTAAG
*
51249977 TTTTGTAAG
1 TTATGTAAG
51249986 TTATGTAAG
1 TTATGTAAG
51249995 TTAT
1 TTAT
51249999 TATATGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (9 bp):
TTATGTAAG
Found at i:51250473 original size:10 final size:9
Alignment explanation
Indices: 51250427--51250473 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
51250417 AATTATATTA
51250427 ATTGATAAAT
1 ATTGA-AAAT
51250437 ATTG-AAAT
1 ATTGAAAAT
51250445 ATTGAAATAT
1 ATTGAAA-AT
*
51250455 ATTTAAAAT
1 ATTGAAAAT
51250464 ATTGATAAAT
1 ATTGA-AAAT
51250474 TAAATATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 8 0.25
9 8 0.25
10 16 0.50
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (9 bp):
ATTGAAAAT
Found at i:51251735 original size:35 final size:37
Alignment explanation
Indices: 51251664--51251761 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
51251654 ATAATCTTCA
51251664 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
51251702 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
51251737 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
51251762 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:51251761 original size:17 final size:19
Alignment explanation
Indices: 51251664--51251754 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
51251654 ATAATCTTCA
51251664 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
51251683 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
51251702 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
51251719 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
51251737 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
51251755 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:51251780 original size:22 final size:22
Alignment explanation
Indices: 51251664--51251777 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
51251654 ATAATCTTCA
51251664 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
51251683 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
51251702 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
51251719 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
51251737 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
51251759 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
51251778 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:51252069 original size:18 final size:19
Alignment explanation
Indices: 51252046--51252081 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
51252036 TTCCCTGATT
*
51252046 TTTTTTTATAT-ATTTTAA
1 TTTTTTTAAATAATTTTAA
51252064 TTTTTTTAAATAATTTTA
1 TTTTTTTAAATAATTTTA
51252082 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAAATAATTTTAA
Found at i:51255014 original size:101 final size:97
Alignment explanation
Indices: 51254829--51255022 Score: 237
Period size: 101 Copynumber: 2.0 Consensus size: 97
51254819 TGTTTTCTCT
* * *
51254829 TAGCGCCGCTAAAGGCAAACCAATTACGGCATTTTAACATAAACGCCACTAAAAACCAAACAAAA
1 TAGCGCCGCTAAAGGCAAACCAATTACGGCAGTTTAACATAAACACCACTAAAAACCAAAAAAAA
* *
51254894 CGACGCCGTTTTGATATAAACAAAATAAACCC
66 CGACGCCGTTTTCACATAAACAAAATAAACCC
* * * *
51254926 TAGCGCCGCTAAAGGCAAATCTATTGCGGC-GTTTAACCCTAAAACACCACTAAAAATCCAAAAA
1 TAGCGCCGCTAAAGGCAAACCAATTACGGCAGTTTAA-CAT-AAACACCACTAAAAA-CC--AAA
* *
51254990 AAAAACGACGGCGTTTTCACATAAACAGAATAA
61 AAAAACGACGCCGTTTTCACATAAACAAAATAA
51255023 CATTTAGTGG
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
96 5 0.06
97 29 0.36
98 14 0.17
99 2 0.02
101 31 0.38
ACGTcount: A:0.44, C:0.25, G:0.13, T:0.18
Consensus pattern (97 bp):
TAGCGCCGCTAAAGGCAAACCAATTACGGCAGTTTAACATAAACACCACTAAAAACCAAAAAAAA
CGACGCCGTTTTCACATAAACAAAATAAACCC
Found at i:51255224 original size:114 final size:114
Alignment explanation
Indices: 51254922--51255400 Score: 504
Period size: 114 Copynumber: 4.2 Consensus size: 114
51254912 AACAAAATAA
* * *
51254922 ACCCTAGCGCCGCTAAAGGCAAATCTATTGCGGCG-TTTAACCCTAAAACACCACTAAAAATCCA
1 ACCCTAGCGCCGCTAAA-TCAAACCTATTGCGGCGTTTTAA-CCTAAAACGCCACTAAAAATCCA
** * * *
51254986 AAAAAAAAACGACGGCGTTTTCACATAAACAGAATAA-CATTTAGTGGCGTTT-T
64 AAAAAACTAC-AC--CATTTTGATATAAACAGAATAACCA-TTAGTGGCGTTTAT
* ** * * * * *
51255039 ATCTCCAAGCGCCGCTAAGGGCAAAACTATTACGGCATTTTACCCTAAAATG-CACTAAAAATCC
1 A-C-CCTAGCGCCGCTAA-ATCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCC
* *
51255103 AATAAAACTACACCATTTTGATATAAACATAATAACCATTAGTGGCGTTTAT
63 AAAAAAACTACACCATTTTGATATAAACAGAATAACCATTAGTGGCGTTTAT
* *
51255155 ACCCTAGCGCCGCTAAATCAAACCTATTGCGGCGTTTTAACCAAAAACGCCACTAAAAATCCATA
1 ACCCTAGCGCCGCTAAATCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAA
*
51255220 AAAACTACACCGTTTTGATATAAACA-AGATAACCATTAGTGGCGTTTAT
66 AAAACTACACCATTTTGATATAAACAGA-ATAACCATTAGTGGCGTTTAT
* * *
51255269 AACCTAGCGCCACTAAATCAAACCTATTGCGGCGATTTAACCTAAAACGCCACTAAAAATCCAAA
1 ACCCTAGCGCCGCTAAATCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCC-AA
* *** * * * * *
51255334 AAAAACGATGTCATCTAG-TAT-AATAGAATAACCTTTAGCGGCGTTTAT
65 AAAAACTACACCATTTTGATATAAACAGAATAACCATTAGTGGCGTTTAT
*
51255382 ACCCTAGCGCCGTTAAATC
1 ACCCTAGCGCCGCTAAATC
51255401 CAATGTTTTT
Statistics
Matches: 307, Mismatches: 45, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
113 64 0.21
114 134 0.44
115 43 0.14
116 4 0.01
117 3 0.01
118 21 0.07
119 34 0.11
120 4 0.01
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (114 bp):
ACCCTAGCGCCGCTAAATCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAA
AAAACTACACCATTTTGATATAAACAGAATAACCATTAGTGGCGTTTAT
Found at i:51255386 original size:227 final size:231
Alignment explanation
Indices: 51254922--51255400 Score: 537
Period size: 227 Copynumber: 2.1 Consensus size: 231
51254912 AACAAAATAA
* * *
51254922 ACCCTAGCGCCGCTAAAGGCAAATCTATTGCGGCGTTTAACCCTAAAACACCACTAAAAATCCAA
1 ACCCTAGCGCCGCTAAA-TCAAACCTATTGCGGCGTTTAACCCAAAAACACCACTAAAAATCCAA
**
51254987 AAAAAAAACGACGGCGTTTTCACATAAACAGAATAACATTTAGTGGCGTTTTATCTCCAAGCGCC
65 AAAAAAAACGAC-GCGTTTTCACATAAACAGAATAACATTTAGTGGCGTTTTATAACCAAGCGCC
* * * * * *
51255052 GCTAAGGGCAAAACTATTACGGCATTTTACCCTAAAATGCACTAAAAATCCAATAAAACTACACC
129 ACTAAGAGCAAAACTATTACGGCATTTTAACCTAAAACGCACTAAAAATCCAAAAAAACGACACC
* * * *
51255117 ATTTTGATATAAACATAATAACCATTAGTGGCGTTTAT
194 ATCTAGATATAAACAGAATAACCATTAGCGGCGTTTAT
* *
51255155 ACCCTAGCGCCGCTAAATCAAACCTATTGCGGCGTTTTAA-CCAAAAACGCCACTAAAAATCCAT
1 ACCCTAGCGCCGCTAAATCAAACCTATTGCGGCG-TTTAACCCAAAAACACCACTAAAAATCCAA
** * * *
51255219 AAAAACTAC-AC-CGTTTTGATATAAACA-AGATAACCA-TTAGTGGCG-TTTATAACCTAGCGC
65 AAAAAAAACGACGCGTTTTCACATAAACAGA-ATAA-CATTTAGTGGCGTTTTATAACCAAGCGC
* * *
51255279 CACTAA-ATCAAACCTATTGCGGCGA-TTTAACCTAAAACGCCACTAAAAATCCAAAAAAAACGA
128 CACTAAGAGCAAAACTATTACGGC-ATTTTAACCTAAAACG-CACTAAAAATCC-AAAAAAACGA
*** * *
51255342 TGTCATCTAG-TAT-AATAGAATAACCTTTAGCGGCGTTTAT
190 CACCATCTAGATATAAACAGAATAACCATTAGCGGCGTTTAT
*
51255382 ACCCTAGCGCCGTTAAATC
1 ACCCTAGCGCCGCTAAATC
51255401 CAATGTTTTT
Statistics
Matches: 209, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
227 66 0.32
228 34 0.16
229 40 0.19
230 2 0.01
231 2 0.01
232 43 0.21
233 22 0.11
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (231 bp):
ACCCTAGCGCCGCTAAATCAAACCTATTGCGGCGTTTAACCCAAAAACACCACTAAAAATCCAAA
AAAAAAACGACGCGTTTTCACATAAACAGAATAACATTTAGTGGCGTTTTATAACCAAGCGCCAC
TAAGAGCAAAACTATTACGGCATTTTAACCTAAAACGCACTAAAAATCCAAAAAAACGACACCAT
CTAGATATAAACAGAATAACCATTAGCGGCGTTTAT
Found at i:51255826 original size:22 final size:21
Alignment explanation
Indices: 51255794--51255843 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
51255784 AAACTCCAAC
51255794 CCTTAAACCAT-ACACCATAAA
1 CCTTAAACCATGA-ACCATAAA
*
51255815 CCTTAAACCCATGATCCATAAA
1 CCTTAAA-CCATGAACCATAAA
51255837 CCTTAAA
1 CCTTAAA
51255844 ATAGTAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 7 0.27
22 18 0.69
23 1 0.04
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.22
Consensus pattern (21 bp):
CCTTAAACCATGAACCATAAA
Found at i:51256233 original size:7 final size:7
Alignment explanation
Indices: 51256200--51256334 Score: 53
Period size: 7 Copynumber: 19.4 Consensus size: 7
51256190 TATTTATCCT
51256200 TAAACCC
1 TAAACCC
51256207 T-AACCC
1 TAAACCC
*
51256213 TAAA-TC
1 TAAACCC
51256219 TCAAACCC
1 T-AAACCC
51256227 TAAACCC
1 TAAACCC
*
51256234 TAAACCA
1 TAAACCC
*
51256241 TAAA-TC
1 TAAACCC
**
51256247 TCAAACTA
1 T-AAACCC
**
51256255 TAAACTA
1 TAAACCC
*
51256262 TAAACCA
1 TAAACCC
51256269 TAAACCC
1 TAAACCC
*
51256276 TAAACTC
1 TAAACCC
* *
51256283 TAAGCTC
1 TAAACCC
**
51256290 TAAACTA
1 TAAACCC
* **
51256297 TTAACTA
1 TAAACCC
51256304 TAAACCC
1 TAAACCC
*
51256311 TAAACCA
1 TAAACCC
51256318 T-AACCC
1 TAAACCC
*
51256324 ATAAACTC
1 -TAAACCC
51256332 TAA
1 TAA
51256335 TGACAATAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
6 13 0.13
7 81 0.79
8 8 0.08
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:51256246 original size:28 final size:28
Alignment explanation
Indices: 51256200--51256272 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
51256190 TATTTATCCT
* *
51256200 TAAACCCT-AACCCTAAATCTCAAACCC
1 TAAACCCTAAACCATAAATCTCAAACCA
*
51256227 TAAACCCTAAACCATAAATCTCAAACTA
1 TAAACCCTAAACCATAAATCTCAAACCA
**
51256255 TAAACTATAAACCATAAA
1 TAAACCCTAAACCATAAA
51256273 CCCTAAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (28 bp):
TAAACCCTAAACCATAAATCTCAAACCA
Found at i:51256252 original size:21 final size:21
Alignment explanation
Indices: 51256221--51256334 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
51256211 CCTAAATCTC
*
51256221 AAACCCTAAACCCTAAACCAT
1 AAACCCTAAACCATAAACCAT
* * *
51256242 AAATCTC-AAACTATAAACTAT
1 AAA-CCCTAAACCATAAACCAT
* *
51256263 AAACCATAAACCCTAAACTC-T
1 AAACCCTAAACCATAAAC-CAT
* * * * *
51256284 AAGCTCTAAACTATTAACTAT
1 AAACCCTAAACCATAAACCAT
*
51256305 AAACCCTAAACCATAACCCAT
1 AAACCCTAAACCATAAACCAT
*
51256326 AAACTCTAA
1 AAACCCTAA
51256335 TGACAATAAT
Statistics
Matches: 66, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
20 1 0.02
21 63 0.95
22 2 0.03
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (21 bp):
AAACCCTAAACCATAAACCAT
Found at i:51256273 original size:14 final size:14
Alignment explanation
Indices: 51256234--51256330 Score: 63
Period size: 14 Copynumber: 6.9 Consensus size: 14
51256224 CCCTAAACCC
51256234 TAAACCATAAATCT-
1 TAAACCATAAA-CTA
* *
51256248 CAAACTATAAACTA
1 TAAACCATAAACTA
**
51256262 TAAACCATAAACCC
1 TAAACCATAAACTA
* *
51256276 TAAACTC-TAAGCTC
1 TAAAC-CATAAACTA
* *
51256290 TAAACTATTAACTA
1 TAAACCATAAACTA
* *
51256304 TAAACCCTAAACCA
1 TAAACCATAAACTA
*
51256318 TAACCCATAAACT
1 TAAACCATAAACT
51256331 CTAATGACAA
Statistics
Matches: 61, Mismatches: 19, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
13 2 0.03
14 58 0.95
15 1 0.02
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (14 bp):
TAAACCATAAACTA
Found at i:51256329 original size:35 final size:36
Alignment explanation
Indices: 51256254--51256330 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 36
51256244 ATCTCAAACT
*
51256254 ATAAACTATAAACCATAAACCCTAAACTCTAAGCTC
1 ATAAACTATAAACCATAAACCCTAAACTCTAAGCCC
* *
51256290 -TAAACTATTAACTATAAACCCTAAAC-CATAA-CCC
1 ATAAACTATAAACCATAAACCCTAAACTC-TAAGCCC
51256324 ATAAACT
1 ATAAACT
51256331 CTAATGACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 3 0.08
35 33 0.92
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.23
Consensus pattern (36 bp):
ATAAACTATAAACCATAAACCCTAAACTCTAAGCCC
Found at i:51256333 original size:42 final size:42
Alignment explanation
Indices: 51256221--51256334 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
51256211 CCTAAATCTC
*
51256221 AAACCCTAAACCCTAAACCATAAA-TCTCAAACTATAAACTAT
1 AAACCCTAAACCCTAACCCATAAACTCT-AAACTATAAACTAT
* * * *
51256263 AAACCATAAACCCTAAACTC-TAAGCTCTAAACTATTAACTAT
1 AAACCCTAAACCCT-AACCCATAAACTCTAAACTATAAACTAT
*
51256305 AAACCCTAAACCATAACCCATAAACTCTAA
1 AAACCCTAAACCCTAACCCATAAACTCTAA
51256335 TGACAATAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 4 0.07
42 50 0.83
43 6 0.10
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (42 bp):
AAACCCTAAACCCTAACCCATAAACTCTAAACTATAAACTAT
Found at i:51256432 original size:40 final size:38
Alignment explanation
Indices: 51256387--51256490 Score: 147
Period size: 38 Copynumber: 2.7 Consensus size: 38
51256377 CTTTTTGCGA
51256387 CGTTTTTCAAAAAGCGCCGCTAATGCTTAATCTATAGCGG
1 CGTTTTTCAAAAAGCGCCGCTAATGC-T-ATCTATAGCGG
51256427 CGTTTTT-ATAAAAGCGCCGCTAATGCTATCTATAGCGG
1 CGTTTTTCA-AAAAGCGCCGCTAATGCTATCTATAGCGG
* * *
51256465 AGTTTTTCCAAAAGCGTCGCTAATGC
1 CGTTTTTCAAAAAGCGCCGCTAATGC
51256491 CATTAAAGCT
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
38 33 0.56
39 2 0.03
40 24 0.41
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (38 bp):
CGTTTTTCAAAAAGCGCCGCTAATGCTATCTATAGCGG
Found at i:51256620 original size:40 final size:40
Alignment explanation
Indices: 51256533--51256626 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
51256523 GCTTATTTTA
* *
51256533 TTTGCGGCGTTTTTCATAATGCACCGCTAATGGTCGACCT
1 TTTGCGGCGTTTTTCATAAAGCACCGCTAATGCTCGACCT
* * * * *
51256573 ATAGCGGCGTTTTTCA-AGAAGCGCCGCTAATGCTTGATCT
1 TTTGCGGCGTTTTTCATA-AAGCACCGCTAATGCTCGACCT
51256613 TTTGCGGCGTTTTT
1 TTTGCGGCGTTTTT
51256627 TACATATGTG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (40 bp):
TTTGCGGCGTTTTTCATAAAGCACCGCTAATGCTCGACCT
Found at i:51259320 original size:11 final size:12
Alignment explanation
Indices: 51259300--51259331 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
51259290 TTTTCTATTG
51259300 TTCTTCTTTTCT
1 TTCTTCTTTTCT
51259312 TTCTT-TTTTCT
1 TTCTTCTTTTCT
51259323 TT-TTCTTTT
1 TTCTTCTTTT
51259332 TCAATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 12 0.63
12 5 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTCTTCTTTTCT
Found at i:51259340 original size:33 final size:32
Alignment explanation
Indices: 51259272--51259348 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 32
51259262 CCTTCTTCTT
51259272 ATTCTTTT-TTTTTTATTTTTTTCTATTGTTC
1 ATTCTTTTCTTTTTTATTTTTTTCTATTGTTC
*
51259303 -TTCTTTTCTTTCTTTTTTCTTTTTCT-TT-TTC
1 ATTCTTTTCTTT-TTTATT-TTTTTCTATTGTTC
51259334 AATTCTTTTACTTTT
1 -ATTCTTTT-CTTTT
51259349 GCTTCATTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 7 0.18
31 6 0.15
32 7 0.18
33 15 0.38
34 4 0.10
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (32 bp):
ATTCTTTTCTTTTTTATTTTTTTCTATTGTTC
Found at i:51259348 original size:39 final size:39
Alignment explanation
Indices: 51259273--51259348 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
51259263 CTTCTTCTTA
* * *
51259273 TTCTTTTTTTTTTATTTTTTTCTATTGTTCTTCTTTTCT
1 TTCTTTTTTTTTTATCTTTTTCAATTCTTCTTCTTTTCT
51259312 TTCTTTTTTCTTTT-TCTTTTTCAATTCTT-TTACTTTT
1 TTCTTTTTT-TTTTATCTTTTTCAATTCTTCTT-CTTTT
51259349 GCTTCATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.06
39 26 0.81
40 4 0.12
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.78
Consensus pattern (39 bp):
TTCTTTTTTTTTTATCTTTTTCAATTCTTCTTCTTTTCT
Found at i:51261526 original size:862 final size:862
Alignment explanation
Indices: 51259868--51262448 Score: 4707
Period size: 862 Copynumber: 3.0 Consensus size: 862
51259858 GCCCAGGCCA
*
51259868 TGTGTGGCCATGTTAATGTAGGGTTCATATAGGCAACGGACACGAGCATCTTTCTA-G----G--
1 TGTGTGGCCATGTTAGTGTAGGGTTCATATAGGCAACGGACACGAGCATCTTTCTAGGCCATGTA
* *
51259926 -C-CA-TGTTTGTGATTTAAGACCATGCGGTTAGGGACATGGGCATGTGCCCAGGCCGTGTAAGG
66 ACTCACTGTTTGTGATTTAAAAGCATGCGGTTAGGGACATGGGCATGTGCCCAGGCCGTGTAAGG
* * * * *
51259988 CACATGGGCAAGGACATGTGTAACAGTCCGGTTTTGACCCTAGTCGGAATAATAGTTTCGGGACC
131 CACATGGGCAAGGACATGTGTAACAGTCTGGTTTTAACCCTAGTCAGAATAGTAGATTCGGGACC
* * * *
51260053 ACATATAC-GAATTAGAAAAAAATATTTTAATATTATTTTCCATGCCTATTATATGTGAATGAAC
196 ACATAT-CTGAATTAGAAAAAAATATTTTAATACTATTTTTCGTGCCTATTATATGTGAATGAGC
51260117 ATGTGTGAAAGTCTCGTATGAAAATTTGATGTTTGTGTGCTTAATTTTGAAAAAGGACCTAATCG
260 ATGTGTGAAAGTCTCGTATGAAAATTTGATGTTTGTGTGCTTAATTTTGAAAAAGGACCTAATCG
51260182 CGTAAAATGTAAAAGTCGCCTGCTACTTGTTAAAGTGTCTATTTGATATGGCTTTGTAAATGAGA
325 CGTAAAATGTAAAAGTCGCCTGCTACTTGTTAAAGTGTCTATTTGATATGGCTTTGTAAATGAGA
51260247 GATCCTTATGTGGTTCTTTGACCATTGGAATTTTGAATGGACATTAGTAACCATCCATTATGTGA
390 GATCCTTATGTGGTTCTTTGACCATTGGAATTTTGAATGGACATTAGTAACCATCCATTATGTGA
51260312 TTTTATAATGGTTTAACAAAGGTTAAAATGGTAAAATATTTATTATGTAAATATTATTATAACAA
455 TTTTATAATGGTTTAACAAAGGTTAAAATGGTAAAATATTTATTATGTAAATATTATTATAACAA
*
51260377 AACATGAAAAATAAGGCCATTATCTATGTTCATCCACCGAAAATAGAAAATAAAACCTATGTTTG
520 AACATGAAAAATAAGGCCATTATGTATGTTCATCCACCGAAAATAGAAAATAAAACCTATGTTTG
* * * *
51260442 AAGAGCTTTAAGTTTCGACACACACAAGGTTTAATTAAGGTATGAGTTTTGATCGATTTTTGATA
585 AAGTGCTTTAAATTTCAACACATACAAGGTTTAATTAAGGTATGAGTTTTGATCGATTTTTGATA
51260507 ATTTCTACGTTTTTGTGATCATTGTTAAGTATTGTAACTAGCCCATGCCTCAATTTTTTATTTTG
650 ATTTCTACGTTTTTGTGATCATTGTTAAGTATTGTAACTAGCCCATGCCTCAATTTTTTATTTTG
51260572 TTGATGATTTGAAAATGTGCCATGGATGAATTCATGAGCTTTTTGATGTTATATAATGAATTAAG
715 TTGATGATTTGAAAATGTGCCATGGATGAATTCATGAGCTTTTTGATGTTATATAATGAATTAAG
51260637 AAAGCTTGATGTTGGGTTTGAATGTTTTGTTTTTGGATTTTCAATTAATTTGAGCAATTTGGGCT
780 AAAGCTTGATGTTGGGTTTGAATGTTTTGTTTTTGGATTTTCAATTAATTTGAGCAATTTGGGCT
51260702 AAATTGTAAAAATGTTAT
845 AAATTGTAAAAATGTTAT
51260720 TGTGTGGCCATGTTAGTGTAGGGTTCATATAGGCAACGGACACGAGCATCTTTCTAGGCCATGTA
1 TGTGTGGCCATGTTAGTGTAGGGTTCATATAGGCAACGGACACGAGCATCTTTCTAGGCCATGTA
51260785 ACTCACTGTTTGTGATTTAAAAGCATGCGGTTAGGGACATGGGCATGTGCCCAGGCCGTGTAAGG
66 ACTCACTGTTTGTGATTTAAAAGCATGCGGTTAGGGACATGGGCATGTGCCCAGGCCGTGTAAGG
51260850 CACATGGGCAAGGACATGTGTAACAGTCTGGTTTTAACCCTAGTCAGAATAGTAGATTCGGGACC
131 CACATGGGCAAGGACATGTGTAACAGTCTGGTTTTAACCCTAGTCAGAATAGTAGATTCGGGACC
51260915 ACATATCTGAATTAGAAAAAAATATTTTAATACTATTTTTCGTGCCTATTATATGTGAATGAGCA
196 ACATATCTGAATTAGAAAAAAATATTTTAATACTATTTTTCGTGCCTATTATATGTGAATGAGCA
51260980 TGTGTGAAAGTCTCGTATGAAAATTTGATGTTTGTGTGCTTAATTTTGAAAAAGGACCTAATCGC
261 TGTGTGAAAGTCTCGTATGAAAATTTGATGTTTGTGTGCTTAATTTTGAAAAAGGACCTAATCGC
51261045 GTAAAATGTAAAAGTCGCCTGCTACTTGTTAAAGTGTCTATTTGATATGGCTTTGTAAATGAGAG
326 GTAAAATGTAAAAGTCGCCTGCTACTTGTTAAAGTGTCTATTTGATATGGCTTTGTAAATGAGAG
51261110 ATCCTTATGTGGTTCTTTGACCATTGGAATTTTGAATGGACATTAGTAACCATCCATTATGTGAT
391 ATCCTTATGTGGTTCTTTGACCATTGGAATTTTGAATGGACATTAGTAACCATCCATTATGTGAT
51261175 TTTATAATGGTTTAACAAAGGTTAAAATGGTAAAATATTTATTATGTAAATATTATTATAACAAA
456 TTTATAATGGTTTAACAAAGGTTAAAATGGTAAAATATTTATTATGTAAATATTATTATAACAAA
51261240 ACATGAAAAATAAGGCCATTATGTATGTTCATCCACCGAAAATAGAAAATAAAACCTATGTTTGA
521 ACATGAAAAATAAGGCCATTATGTATGTTCATCCACCGAAAATAGAAAATAAAACCTATGTTTGA
51261305 AGTGCTTTAAATTTCAACACATACAAGGTTTAATTAAGGTATGAGTTTTGATCGATTTTTGATAA
586 AGTGCTTTAAATTTCAACACATACAAGGTTTAATTAAGGTATGAGTTTTGATCGATTTTTGATAA
51261370 TTTCTACGTTTTTGTGATCATTGTTAAGTATTGTAACTAGCCCATGCCTCAATTTTTTATTTTGT
651 TTTCTACGTTTTTGTGATCATTGTTAAGTATTGTAACTAGCCCATGCCTCAATTTTTTATTTTGT
51261435 TGATGATTTGAAAATGTGCCATGGATGAATTCATGAGCTTTTTGATGTTATATAATGAATTAAGA
716 TGATGATTTGAAAATGTGCCATGGATGAATTCATGAGCTTTTTGATGTTATATAATGAATTAAGA
51261500 AAGCTTGATGTTGGGTTTGAATGTTTTGTTTTTGGATTTTCAATTAATTTGAGCAATTTGGGCTA
781 AAGCTTGATGTTGGGTTTGAATGTTTTGTTTTTGGATTTTCAATTAATTTGAGCAATTTGGGCTA
51261565 AATTGTAAAAATGTTAT
846 AATTGTAAAAATGTTAT
51261582 TGTGTGGCCATGTTAGTGTAGGGTTCATATAGGCAACGGACACGAGCATCTTTCTAGGCCATGTA
1 TGTGTGGCCATGTTAGTGTAGGGTTCATATAGGCAACGGACACGAGCATCTTTCTAGGCCATGTA
51261647 ACTCACTGTTTGTGATTTAAAAGCATGCGGTTAGGGACATGGGCATGTGCCCAGGCCGTGTAAGG
66 ACTCACTGTTTGTGATTTAAAAGCATGCGGTTAGGGACATGGGCATGTGCCCAGGCCGTGTAAGG
51261712 CACATGGGCAAGGACATGTGTAACAGTCTGGTTTTAACCCTAGTCAGAATAGTAGATTCGGGACC
131 CACATGGGCAAGGACATGTGTAACAGTCTGGTTTTAACCCTAGTCAGAATAGTAGATTCGGGACC
51261777 ACATATCTGAATTAGAAAAAAATATTTTAATACTATTTTTCGTGCCTATTATATGTGAATGAGCA
196 ACATATCTGAATTAGAAAAAAATATTTTAATACTATTTTTCGTGCCTATTATATGTGAATGAGCA
* *
51261842 TGTGTGAAAGTCTCGTATGAAAATTTGAATATTTGTGTGCTTAATTTTGAAAAAAGACCTAATCG
261 TGTGTGAAAGTCTCGTATGAAAATTTG-ATGTTTGTGTGCTTAATTTTGAAAAAGGACCTAATCG
* * *
51261907 TGTAAAATGTAAAAGTTGTCTGCTACTTGTTAAAGTGTCTATTTGATATGGCTTTGTAAATGAGA
325 CGTAAAATGTAAAAGTCGCCTGCTACTTGTTAAAGTGTCTATTTGATATGGCTTTGTAAATGAGA
* * *
51261972 GATCCTTATGTGGTTATTTTACCATTGGAAGTTTGAATGGACATTAGTAACCATCCATTATGTGA
390 GATCCTTATGTGGTTCTTTGACCATTGGAATTTTGAATGGACATTAGTAACCATCCATTATGTGA
*
51262037 TTTTATAATGGTTTAACAAAGGTTATAATGGTAAAATATTTATTATGTAAATATTATTATAACAA
455 TTTTATAATGGTTTAACAAAGGTTAAAATGGTAAAATATTTATTATGTAAATATTATTATAACAA
51262102 AACATGAAAAATAAGGCCATTATGTATGTTCATCCACCGAAAATAGAAAATAAAACCTATGTTTG
520 AACATGAAAAATAAGGCCATTATGTATGTTCATCCACCGAAAATAGAAAATAAAACCTATGTTTG
* *
51262167 AAGTGCTTTAAATTTCAACACATACAAGGTTTAATTAAGGTATGAGTTTTGATCGGTTTTTTATA
585 AAGTGCTTTAAATTTCAACACATACAAGGTTTAATTAAGGTATGAGTTTTGATCGATTTTTGATA
* *
51262232 ATTTCTACGTTTTTGTGATCGTTGTTAAGTATTATTGTAACTAGCCCATGCCTCAATTTTTGATT
650 ATTTCTACGTTTTTGTGATCATTGTTAAG---TATTGTAACTAGCCCATGCCTCAATTTTTTATT
* * *
51262297 TTGTTAATGATTTGAAAATGTGCCATGGATGAATTCATGAGCTTTGTGATGTTATATGATGAATT
712 TTGTTGATGATTTGAAAATGTGCCATGGATGAATTCATGAGCTTTTTGATGTTATATAATGAATT
* * *
51262362 AAGAAAGCTTGATGTTGGGTTTGAATGTTTTGTTATTGGATTTTCGATGAATTTGAGCAATTTGG
777 AAGAAAGCTTGATGTTGGGTTTGAATGTTTTGTTTTTGGATTTTCAATTAATTTGAGCAATTTGG
*
51262427 GCTAAATTATAAAAATGTTAT
842 GCTAAATTGTAAAAATGTTAT
51262448 T
1 T
51262449 TTGAGGGACT
Statistics
Matches: 1677, Mismatches: 37, Indels: 16
0.97 0.02 0.01
Matches are distributed among these distances:
852 55 0.03
853 1 0.00
857 1 0.00
860 1 0.00
861 3 0.00
862 1060 0.63
863 379 0.23
866 177 0.11
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (862 bp):
TGTGTGGCCATGTTAGTGTAGGGTTCATATAGGCAACGGACACGAGCATCTTTCTAGGCCATGTA
ACTCACTGTTTGTGATTTAAAAGCATGCGGTTAGGGACATGGGCATGTGCCCAGGCCGTGTAAGG
CACATGGGCAAGGACATGTGTAACAGTCTGGTTTTAACCCTAGTCAGAATAGTAGATTCGGGACC
ACATATCTGAATTAGAAAAAAATATTTTAATACTATTTTTCGTGCCTATTATATGTGAATGAGCA
TGTGTGAAAGTCTCGTATGAAAATTTGATGTTTGTGTGCTTAATTTTGAAAAAGGACCTAATCGC
GTAAAATGTAAAAGTCGCCTGCTACTTGTTAAAGTGTCTATTTGATATGGCTTTGTAAATGAGAG
ATCCTTATGTGGTTCTTTGACCATTGGAATTTTGAATGGACATTAGTAACCATCCATTATGTGAT
TTTATAATGGTTTAACAAAGGTTAAAATGGTAAAATATTTATTATGTAAATATTATTATAACAAA
ACATGAAAAATAAGGCCATTATGTATGTTCATCCACCGAAAATAGAAAATAAAACCTATGTTTGA
AGTGCTTTAAATTTCAACACATACAAGGTTTAATTAAGGTATGAGTTTTGATCGATTTTTGATAA
TTTCTACGTTTTTGTGATCATTGTTAAGTATTGTAACTAGCCCATGCCTCAATTTTTTATTTTGT
TGATGATTTGAAAATGTGCCATGGATGAATTCATGAGCTTTTTGATGTTATATAATGAATTAAGA
AAGCTTGATGTTGGGTTTGAATGTTTTGTTTTTGGATTTTCAATTAATTTGAGCAATTTGGGCTA
AATTGTAAAAATGTTAT
Found at i:51266765 original size:55 final size:55
Alignment explanation
Indices: 51266681--51266791 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
51266671 GCCAGCCCGC
*
51266681 ATTTCTGTATTAGCTTTACTCTTAAACTCATAAGTACATCGGAATGCACTATTAA
1 ATTTCTGTATTAGCTTTACTCTTAAACTCAGAAGTACATCGGAATGCACTATTAA
*
51266736 ATTTCTGTATTAGCTTTACTCTTAAACTCAGAAGTACATCGGAATGCACTTTTAA
1 ATTTCTGTATTAGCTTTACTCTTAAACTCAGAAGTACATCGGAATGCACTATTAA
51266791 A
1 A
51266792 GGTGCTAAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (55 bp):
ATTTCTGTATTAGCTTTACTCTTAAACTCAGAAGTACATCGGAATGCACTATTAA
Found at i:51272751 original size:46 final size:46
Alignment explanation
Indices: 51272684--51272976 Score: 269
Period size: 46 Copynumber: 6.7 Consensus size: 46
51272674 ATTATACAGG
51272684 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
51272730 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* * * * *
51272776 TCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAGGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAT-TTCAGA
* * * * * **
51272820 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-------GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* * * * *
51272859 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--A-CA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGACCAAAGAATTTCAGA
51272900 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* *
51272946 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGA
51272977 TCGAAGACAC
Statistics
Matches: 203, Mismatches: 27, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.11
40 1 0.00
41 27 0.13
42 1 0.00
43 1 0.00
44 29 0.14
45 9 0.04
46 110 0.54
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
Found at i:51273010 original size:43 final size:43
Alignment explanation
Indices: 51272900--51273103 Score: 173
Period size: 43 Copynumber: 4.7 Consensus size: 43
51272890 TCACATCAGG
* * * * *
51272900 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---C-TA
51272946 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
* * * * * * **
51272989 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGA-CA-CTA
51273033 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
* *
51273076 TCTTATCTCCCCGA-AGTTACAGTGGAGC
1 TCTTATCTCCCTGAGA-TTACAGCGGAGC
51273104 GGATTAAAGG
Statistics
Matches: 128, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
42 5 0.04
43 54 0.42
44 30 0.23
45 4 0.03
46 34 0.27
47 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
Found at i:51273046 original size:44 final size:42
Alignment explanation
Indices: 51272943--51273136 Score: 128
Period size: 43 Copynumber: 4.6 Consensus size: 42
51272933 AAAGAATTTC
* * * * *
51272943 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGCGGAT-TAAAAAA
** *
51272986 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA-AA
* * * * *
51273029 GAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA
1 -AGATCTTATCTCCCTGAAG-TTACAGTGGAGCGGAT-TAAAAAA
** *
51273073 CTATCTTATCTCCCCGAAGTTACAGTGGAGCGGATT---AAA
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAA
* * *
51273112 GGATCTTATCTCTCTGAGGTTACAG
1 AGATCTTATCTCCCTGAAGTTACAG
51273137 CAGAGTAGAT
Statistics
Matches: 117, Mismatches: 28, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
39 22 0.19
42 3 0.03
43 57 0.49
44 32 0.27
45 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (42 bp):
AGATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAA
Found at i:51273147 original size:82 final size:85
Alignment explanation
Indices: 51272943--51273148 Score: 319
Period size: 87 Copynumber: 2.4 Consensus size: 85
51272933 AAAGAATTTC
*
51272943 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
51273008 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATT--AATAAG
*
51273030 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
51273095 CAGTGGAGCGGATT-A-AAG
66 CAGTGGAGCGGATTAATAAG
* * * *
51273113 -GATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
51273149 CATCAAGTCT
Statistics
Matches: 113, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
82 32 0.28
83 3 0.03
84 1 0.01
87 77 0.68
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (85 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
CAGTGGAGCGGATTAATAAG
Found at i:51274746 original size:3 final size:3
Alignment explanation
Indices: 51274738--51275137 Score: 800
Period size: 3 Copynumber: 133.3 Consensus size: 3
51274728 GTACTTTTGC
51274738 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51274786 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51274834 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51274882 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51274930 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51274978 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51275026 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51275074 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51275122 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
51275138 TTTACACTTT
Statistics
Matches: 397, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 397 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:51283822 original size:16 final size:17
Alignment explanation
Indices: 51283801--51283833 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
51283791 TTAATTCATC
51283801 TTTTTAATTA-ATAAAT
1 TTTTTAATTATATAAAT
*
51283817 TTTTTATTTATATAAAT
1 TTTTTAATTATATAAAT
51283834 AAAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTAATTATATAAAT
Found at i:51284050 original size:18 final size:18
Alignment explanation
Indices: 51284029--51284088 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
51284019 AAATTAAATA
51284029 ATTATTTTAAATATCATT
1 ATTATTTTAAATATCATT
* *
51284047 ATTATTTT-TATAT-ATAA
1 ATTATTTTAAATATCAT-T
*
51284064 ATTATTTCAAATATCATT
1 ATTATTTTAAATATCATT
51284082 A-TATTTT
1 ATTATTTT
51284089 TACCTACATT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 2 0.06
17 16 0.48
18 13 0.39
19 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATTTTAAATATCATT
Found at i:51284194 original size:107 final size:108
Alignment explanation
Indices: 51283949--51284198 Score: 260
Period size: 107 Copynumber: 2.3 Consensus size: 108
51283939 TTTCTTTATG
* * * * * * *
51283949 TATAATTTTTATATGTCAAATATTTATTTTCTCCACTTATATTGTGGGTATGGTGATTTTTAATA
1 TATAATTTTTATATGTAAAATATTTATTTT-T-CACCTACATTGTGGGTATGATAAATTATAATA
* ** * *
51284014 TTATAAAATTAAATAATTATTTTAAATATCATTATTATTTTTATA
64 TTATAAAATCAAATAATTATTCCAAATATCATTATTATTTATAAA
*
51284059 TATAA--ATTAT-T-TCAAATATCATTATATTTTT-ACCTACATTGTGGGTATGATAAATTATAA
1 TATAATTTTTATATGT-AAA-AT-ATT-TATTTTTCACCTACATTGTGGGTATGATAAATTATAA
*
51284119 TATTATAAAATCAATTAATTATTCCAAATATCATTATT-TTTAATAAA
62 TATTATAAAATCAAATAATTATTCCAAATATCATTATTATTT-ATAAA
*
51284166 TATAATTTTTATATGTGAAATATTTATTTTTCA
1 TATAATTTTTATATGTAAAATATTTATTTTTCA
51284199 ATCCATATTA
Statistics
Matches: 114, Mismatches: 16, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
106 4 0.04
107 75 0.66
108 10 0.09
109 10 0.09
110 14 0.12
111 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (108 bp):
TATAATTTTTATATGTAAAATATTTATTTTTCACCTACATTGTGGGTATGATAAATTATAATATT
ATAAAATCAAATAATTATTCCAAATATCATTATTATTTATAAA
Found at i:51284467 original size:99 final size:100
Alignment explanation
Indices: 51284354--51284551 Score: 245
Period size: 101 Copynumber: 2.0 Consensus size: 100
51284344 TTAAAAAATA
* * *
51284354 AAATATATTTAACATAATAATAAATATAAAAATA-TATATTTATTATATAATTGCAAATTTATTA
1 AAATATATTTAACATAATAATAAACATAAAAATATTATATTTATTATAGAATTACAAATTTATTA
51284418 ATTTATTTATATAAATAAAAGAGTTATTAATTATG
66 ATTTATTTATATAAATAAAAGAGTTATTAATTATG
* ** * * * * ** *
51284453 AAATATTTTTAACATAATGGTATACATAAAAATATTTTTTTTTATTTTAGAATTACATGTTTGTT
1 AAATATATTTAACATAATAATAAACATAAAAATA-TTATATTTATTATAGAATTACAAATTTATT
* *
51284518 ATTTTATTTATATAAGTAAAAGAGTTATTAATTA
65 AATTTATTTATATAAATAAAAGAGTTATTAATTA
51284552 AAAAGATGAA
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 29 0.35
101 53 0.65
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (100 bp):
AAATATATTTAACATAATAATAAACATAAAAATATTATATTTATTATAGAATTACAAATTTATTA
ATTTATTTATATAAATAAAAGAGTTATTAATTATG
Found at i:51285155 original size:21 final size:20
Alignment explanation
Indices: 51285122--51285165 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
51285112 TATATATTTT
*
51285122 AAAATTAAAAAAATTCTTTAA
1 AAAATTAAAAAAA-TCATTAA
**
51285143 AAAATTATTAAAATCATTAA
1 AAAATTAAAAAAATCATTAA
51285163 AAA
1 AAA
51285166 GTGTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTAAAAAAATCATTAA
Found at i:51289800 original size:12 final size:13
Alignment explanation
Indices: 51289783--51289832 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 13
51289773 ACCAACCCAA
51289783 TTCATA-TTTTAG
1 TTCATACTTTTAG
51289795 TTCATACATTCTTTA-
1 TTCATAC--T-TTTAG
51289810 TTCATA-TTTTAG
1 TTCATACTTTTAG
51289822 TTCATACTTTT
1 TTCATACTTTT
51289833 CAATAGTGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
11 4 0.12
12 13 0.41
13 4 0.12
15 7 0.22
16 4 0.12
ACGTcount: A:0.24, C:0.14, G:0.04, T:0.58
Consensus pattern (13 bp):
TTCATACTTTTAG
Found at i:51294411 original size:36 final size:36
Alignment explanation
Indices: 51294366--51294445 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
51294356 AATTTTTACA
51294366 ATTTAGTCCCTAATCAATTAACCCATCAATTAATTTT
1 ATTT-GTCCCTAATCAATTAACCCATCAATTAATTTT
51294403 ATTTGTCCCTAATCAATTAACCCATCAATTAATTTT
1 ATTTGTCCCTAATCAATTAACCCATCAATTAATTTT
51294439 ATTTGTC
1 ATTTGTC
51294446 TCAGTTAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 39 0.91
37 4 0.09
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (36 bp):
ATTTGTCCCTAATCAATTAACCCATCAATTAATTTT
Found at i:51301413 original size:10 final size:9
Alignment explanation
Indices: 51301400--51301454 Score: 74
Period size: 10 Copynumber: 5.8 Consensus size: 9
51301390 ATATGATAAT
51301400 ATAATATTAA
1 ATAA-ATTAA
51301410 ATAAATTAA
1 ATAAATTAA
51301419 ATTAAATTAA
1 A-TAAATTAA
51301429 ATAAATTAA
1 ATAAATTAA
51301438 ATTAAATTAA
1 A-TAAATTAA
*
51301448 ATTAATT
1 ATAAATT
51301455 GAAAATATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
9 20 0.48
10 22 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAAATTAA
Found at i:51301419 original size:5 final size:5
Alignment explanation
Indices: 51301405--51301452 Score: 82
Period size: 5 Copynumber: 10.0 Consensus size: 5
51301395 ATAATATAAT
51301405 ATTAA A-TAA ATTAA ATTAA ATTAA A-TAA ATTAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
51301453 TTGAAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 8 0.20
5 33 0.80
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTAA
Found at i:51301429 original size:19 final size:19
Alignment explanation
Indices: 51301405--51301454 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
51301395 ATAATATAAT
51301405 ATTAAATAAATTAAATTAA
1 ATTAAATAAATTAAATTAA
51301424 ATTAAATAAATTAAATTAA
1 ATTAAATAAATTAAATTAA
*
51301443 ATTAAATTAATT
1 ATTAAATAAATT
51301455 GAAAATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAAATAAATTAAATTAA
Found at i:51302018 original size:20 final size:20
Alignment explanation
Indices: 51301993--51302032 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51301983 TTGATCCCTC
51301993 TCAAAAAAATTATAAAATAT
1 TCAAAAAAATTATAAAATAT
***
51302013 TCAAAATGTTTATAAAATAT
1 TCAAAAAAATTATAAAATAT
51302033 GTTTCCCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
TCAAAAAAATTATAAAATAT
Found at i:51302332 original size:18 final size:19
Alignment explanation
Indices: 51302305--51302345 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
51302295 ATATGTTTAG
*
51302305 TTAAAAAAA-TTATTTGAC
1 TTAAAAAAATTTATTCGAC
*
51302323 TTAAATAAATTTATTCGAC
1 TTAAAAAAATTTATTCGAC
51302342 TTAA
1 TTAA
51302346 TTTAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (19 bp):
TTAAAAAAATTTATTCGAC
Found at i:51302936 original size:19 final size:19
Alignment explanation
Indices: 51302905--51302942 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
51302895 ATAATAATTT
51302905 TTTAAAAAAATTA-TAAAA
1 TTTAAAAAAATTATTAAAA
*
51302923 TTTAAAAGATATTATTAAAA
1 TTTAAAA-AAATTATTAAAA
51302943 GTTATCAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
TTTAAAAAAATTATTAAAA
Found at i:51314129 original size:35 final size:35
Alignment explanation
Indices: 51314089--51314156 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
51314079 AAAACTCAAA
51314089 ACCTCAATTTCTTAAGTTTTAATGGATTCAAAAAT
1 ACCTCAATTTCTTAAGTTTTAATGGATTCAAAAAT
* *
51314124 ACCTCAATTTCTTGAGTTTTAATGGATTTAAAA
1 ACCTCAATTTCTTAAGTTTTAATGGATTCAAAA
51314157 TTTAAGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.41
Consensus pattern (35 bp):
ACCTCAATTTCTTAAGTTTTAATGGATTCAAAAAT
Found at i:51316358 original size:32 final size:32
Alignment explanation
Indices: 51316297--51316387 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 32
51316287 GCTAAGTGTG
**
51316297 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
51316329 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * * *
51316361 TATCTAGGTGTAGTTTGATATAGCCGA
1 TATATATGTGTAGTTGGATAAAGCCGA
51316388 TTGATGTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 43 0.90
33 3 0.06
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:51316555 original size:27 final size:26
Alignment explanation
Indices: 51316524--51316669 Score: 89
Period size: 27 Copynumber: 5.5 Consensus size: 26
51316514 TTTGAGGGAT
51316524 GCACTAAGTGTGCGAATTTGATACTGA
1 GCACTAAGTGTGCGAATTTGAT-CTGA
* * * *
51316551 GCACTAAGTGTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAATTTGATCTGA
* * *
51316577 GCACTATGTGTGTGAATTAAT-TTCTGA
1 GCACTAAGTGTGCGAATT--TGATCTGA
* * * * *
51316604 GCACTAAGTGTGTGAGTTGGATTTAA
1 GCACTAAGTGTGCGAATTTGATCTGA
* * *
51316630 GCACTATGTGTGTGAATTAAT-TTCTGA
1 GCACTAAGTGTGCGAATT--TGATCTGA
*
51316657 GCACTAAATGTGC
1 GCACTAAGTGTGC
51316670 AAAATCAGAT
Statistics
Matches: 88, Mismatches: 26, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
26 36 0.41
27 52 0.59
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.34
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTTGATCTGA
Found at i:51316587 original size:26 final size:26
Alignment explanation
Indices: 51316550--51316644 Score: 111
Period size: 26 Copynumber: 3.6 Consensus size: 26
51316540 TTTGATACTG
*
51316550 AGCACTAAGTGTGCGAGTTGGATTTA
1 AGCACTAAGTGTGTGAGTTGGATTTA
* * * *
51316576 AGCACTATGTGTGTGAATT-AATTTCTG
1 AGCACTAAGTGTGTGAGTTGGA-TT-TA
51316603 AGCACTAAGTGTGTGAGTTGGATTTA
1 AGCACTAAGTGTGTGAGTTGGATTTA
*
51316629 AGCACTATGTGTGTGA
1 AGCACTAAGTGTGTGA
51316645 ATTAATTTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.02
26 34 0.61
27 20 0.36
28 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (26 bp):
AGCACTAAGTGTGTGAGTTGGATTTA
Found at i:51316604 original size:53 final size:53
Alignment explanation
Indices: 51316547--51316669 Score: 228
Period size: 53 Copynumber: 2.3 Consensus size: 53
51316537 GAATTTGATA
51316547 CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
1 CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
*
51316600 CTGAGCACTAAGTGTGTGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
1 CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
*
51316653 CTGAGCACTAAATGTGC
1 CTGAGCACTAAGTGTGC
51316670 AAAATCAGAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 67 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (53 bp):
CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
Found at i:51322120 original size:3 final size:3
Alignment explanation
Indices: 51322112--51322147 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
51322102 TTTCCTCTCT
51322112 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
51322148 GAAAAACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:51324369 original size:46 final size:46
Alignment explanation
Indices: 51324316--51324407 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
51324306 AATATGTTTG
51324316 ACAACTTTCTTATATATAGATGACAAAATGCGATCTATTGTGTGTT
1 ACAACTTTCTTATATATAGATGACAAAATGCGATCTATTGTGTGTT
*
51324362 ACAACTTTCTTATATATAGATGATAAAATGCGATCTATTGTGTGTT
1 ACAACTTTCTTATATATAGATGACAAAATGCGATCTATTGTGTGTT
51324408 TTATGGGTGC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (46 bp):
ACAACTTTCTTATATATAGATGACAAAATGCGATCTATTGTGTGTT
Found at i:51334245 original size:25 final size:24
Alignment explanation
Indices: 51334200--51334246 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
51334190 GTATTAGAAT
* **
51334200 ATAATATTATAATAATTTAATTTA
1 ATAATATTAAAATAAACTAATTTA
51334224 ATAATTATTAAAATAAACTAATT
1 ATAA-TATTAAAATAAACTAATT
51334247 AAAATAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATATTAAAATAAACTAATTTA
Found at i:51343069 original size:21 final size:21
Alignment explanation
Indices: 51343031--51343071 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
51343021 TTTTTTTTTT
*
51343031 CTTTTTCTTTCAACTTTTCAC
1 CTTTTTCTTCCAACTTTTCAC
* *
51343052 CTTTTTCTTCCCATTTTTCA
1 CTTTTTCTTCCAACTTTTCA
51343072 TTGCTTAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.59
Consensus pattern (21 bp):
CTTTTTCTTCCAACTTTTCAC
Found at i:51358443 original size:21 final size:18
Alignment explanation
Indices: 51358419--51358467 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
51358409 CATCTAAAAA
51358419 TTTAAATATATATTAAATTTT
1 TTTAAATATATA-T-AA-TTT
*
51358440 TTTAAAAATATATAATTT
1 TTTAAATATATATAATTT
51358458 TTTAAATATA
1 TTTAAATATA
51358468 AAAAAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 12 0.46
19 2 0.08
20 1 0.04
21 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATATATATAATTT
Found at i:51358845 original size:17 final size:17
Alignment explanation
Indices: 51358814--51358873 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 17
51358804 CCCTAGATTA
51358814 TATATATTTGAATTTTCTT
1 TATATATTT--ATTTTCTT
51358833 TATATATTTA-TTTCTAT
1 TATATATTTATTTTCT-T
* * *
51358850 TTTATATTTTTTTATATT
1 TATATATTTATTT-TCTT
51358868 TATATA
1 TATATA
51358874 CATATGATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
16 5 0.15
17 10 0.29
18 8 0.24
19 11 0.32
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (17 bp):
TATATATTTATTTTCTT
Found at i:51359141 original size:15 final size:17
Alignment explanation
Indices: 51359110--51359146 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
51359100 ATAACTTATA
51359110 AAAAATAATATAAAAAT
1 AAAAATAATATAAAAAT
51359127 AAAAA-AATA-AAAAAT
1 AAAAATAATATAAAAAT
51359142 AAAAA
1 AAAAA
51359147 GCAGTAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
16 4 0.20
17 5 0.25
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAATATAAAAAT
Found at i:51361515 original size:13 final size:13
Alignment explanation
Indices: 51361499--51361523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51361489 AAATTAAATT
51361499 TTTATAATTTTAG
1 TTTATAATTTTAG
51361512 TTTATAATTTTA
1 TTTATAATTTTA
51361524 AGGGGCAAAG
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTATAATTTTAG
Found at i:51361998 original size:25 final size:25
Alignment explanation
Indices: 51361930--51361987 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
51361920 TGATGCATGG
* *
51361930 AATATAAA-TTTA-AAATAGTAATT
1 AATATAAATTTTATAAAAAATAATT
51361953 AATATAAATTTTATAAAAAATAATT
1 AATATAAATTTTATAAAAAATAATT
51361978 AATATAAATT
1 AATATAAATT
51361988 ATTTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 8 0.26
24 4 0.13
25 19 0.61
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
AATATAAATTTTATAAAAAATAATT
Found at i:51362110 original size:33 final size:33
Alignment explanation
Indices: 51362044--51362111 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
51362034 AATAAATAAA
* *
51362044 ATTTAAATAATTTAATATAAAGAGATATGAAAT
1 ATTTAAATAATTTAATATAAAGAGACATAAAAT
* *
51362077 ATTTAAATAATTTAATATAATGATACATAAAAT
1 ATTTAAATAATTTAATATAAAGAGACATAAAAT
51362110 AT
1 AT
51362112 AGAATTAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.38
Consensus pattern (33 bp):
ATTTAAATAATTTAATATAAAGAGACATAAAAT
Found at i:51366249 original size:25 final size:24
Alignment explanation
Indices: 51366191--51366238 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
51366181 AGCCCTCCCA
51366191 AAAAAAAAAAGAAAAAACCTAACC
1 AAAAAAAAAAGAAAAAACCTAACC
*
51366215 AAAAAAAAAAGGAAAAACCTAACC
1 AAAAAAAAAAGAAAAAACCTAACC
51366239 CCCCAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.73, C:0.17, G:0.06, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAAGAAAAAACCTAACC
Found at i:51383559 original size:11 final size:12
Alignment explanation
Indices: 51383537--51383587 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
51383527 TATATACATC
51383537 ATAATAAAAAAT
1 ATAATAAAAAAT
51383549 ATAATAAAAATAT
1 ATAATAAAAA-AT
*
51383562 ATATACAAAACAAAT
1 ATA-A-TAAA-AAAT
51383577 ATAA-AAAAAAT
1 ATAATAAAAAAT
51383588 TACCTTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
11 4 0.12
12 13 0.38
13 5 0.15
14 2 0.06
15 8 0.24
16 2 0.06
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAATAAAAAAT
Found at i:51384066 original size:21 final size:23
Alignment explanation
Indices: 51384040--51384082 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
51384030 ATACTTCTTG
*
51384040 TATATT-TCT-ATGTATATACTT
1 TATATTGTCTCATGTACATACTT
51384061 TATATTGTCTCATGTACATACT
1 TATATTGTCTCATGTACATACT
51384083 CCGAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (23 bp):
TATATTGTCTCATGTACATACTT
Found at i:51384422 original size:16 final size:15
Alignment explanation
Indices: 51384398--51384432 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
51384388 TAATTATTAT
51384398 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
51384414 TATTTTAATATTTTA
1 TATTCTAATATTTTA
51384429 TATT
1 TATT
51384433 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:51389222 original size:27 final size:27
Alignment explanation
Indices: 51389191--51389242 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
51389181 CTCAACATGC
*
51389191 TAAAAATATATTTTTTAAAAAGATAGT
1 TAAAAATATATTTTGTAAAAAGATAGT
* * *
51389218 TAAAATTTTATTTTGTAAAGAGATA
1 TAAAAATATATTTTGTAAAAAGATA
51389243 TTTTTCTCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (27 bp):
TAAAAATATATTTTGTAAAAAGATAGT
Found at i:51392780 original size:17 final size:17
Alignment explanation
Indices: 51392758--51392792 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51392748 CAAACATTAT
* *
51392758 AAAGGAAGAAGGAAAAA
1 AAAGGAAAAAAGAAAAA
51392775 AAAGGAAAAAAGAAAAA
1 AAAGGAAAAAAGAAAAA
51392792 A
1 A
51392793 GAGAGAGAGA
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:0.23, T:0.00
Consensus pattern (17 bp):
AAAGGAAAAAAGAAAAA
Found at i:51393132 original size:28 final size:27
Alignment explanation
Indices: 51393071--51393160 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 27
51393061 ATCAACTTGG
* *
51393071 GAAAAAAGTAGTTTAGGTACAAATTGT
1 GAAAAAAGAAGTTTAGGTACAAATGGT
*
51393098 GATAAAAAAAAGTTTAGGTACCAAGATGGT
1 GA-AAAAAGAAGTTTAGGTA-CAA-ATGGT
** *
51393128 GAAAAGGGTATAGTTTAGGTACCAATGTGT
1 GAAAAAAG-A-AGTTTAGGTACAAATG-GT
51393158 GAA
1 GAA
51393161 TTATAAGCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
27 2 0.04
28 15 0.30
29 9 0.18
30 14 0.28
31 10 0.20
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.27
Consensus pattern (27 bp):
GAAAAAAGAAGTTTAGGTACAAATGGT
Found at i:51393189 original size:2 final size:2
Alignment explanation
Indices: 51393179--51393230 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
51393169 CTTTTTTTAA
51393179 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
51393220 TC TC TC TC TC T
1 TC TC TC TC TC T
51393231 TTGGATAAAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:51394459 original size:26 final size:26
Alignment explanation
Indices: 51394411--51394461 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 26
51394401 TTTAGTATTA
51394411 AAAAAATGATAGTAAAATAATAATAGG
1 AAAAAAT-ATAGTAAAATAATAATAGG
*
51394438 AAAAAAT-TAGTAAAAGTGATAATA
1 AAAAAATATAGTAAAA-TAATAATA
51394462 ACAGAAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 7 0.32
27 7 0.32
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.24
Consensus pattern (26 bp):
AAAAAATATAGTAAAATAATAATAGG
Found at i:51394482 original size:21 final size:21
Alignment explanation
Indices: 51394456--51394528 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 21
51394446 AGTAAAAGTG
51394456 ATAATAAC-AGAAATAGTAATA
1 ATAATAACGA-AAATAGTAATA
* *
51394477 ATAATAATGTAAATAGTAATAAGA
1 ATAATAACGAAAATAGTAAT---A
*
51394501 ATAATAACGAAAATAGTAATG
1 ATAATAACGAAAATAGTAATA
51394522 ATAATAA
1 ATAATAA
51394529 TAATATCTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 24 0.56
24 19 0.44
ACGTcount: A:0.60, C:0.03, G:0.11, T:0.26
Consensus pattern (21 bp):
ATAATAACGAAAATAGTAATA
Found at i:51394483 original size:24 final size:24
Alignment explanation
Indices: 51394456--51394531 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
51394446 AGTAAAAGTG
51394456 ATAATAAC-AGAAATAGTAATAATA
1 ATAATAACGA-AAATAGTAATAATA
* *
51394480 ATAAT---GTAAATAGTAATAAGA
1 ATAATAACGAAAATAGTAATAATA
*
51394501 ATAATAACGAAAATAGTAATGATA
1 ATAATAACGAAAATAGTAATAATA
51394525 ATAATAA
1 ATAATAA
51394532 TATCTGATAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 18 0.42
24 25 0.58
ACGTcount: A:0.61, C:0.03, G:0.11, T:0.26
Consensus pattern (24 bp):
ATAATAACGAAAATAGTAATAATA
Found at i:51398874 original size:21 final size:22
Alignment explanation
Indices: 51398831--51398872 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
51398821 ATTTTGAAGT
* * *
51398831 AAAAAAAGTTGTGCTCACTTTA
1 AAAAAAAATTATGCTAACTTTA
51398853 AAAAAAAATTATGCTAACTT
1 AAAAAAAATTATGCTAACTT
51398873 AATTGATGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.31
Consensus pattern (22 bp):
AAAAAAAATTATGCTAACTTTA
Found at i:51400565 original size:6 final size:6
Alignment explanation
Indices: 51400554--51400580 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
51400544 CCCCGGTGGC
51400554 GGGTAA GGGTAA GGGTAA GGGTAA GGG
1 GGGTAA GGGTAA GGGTAA GGGTAA GGG
51400581 CCGTATCCGC
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:0.30, C:0.00, G:0.56, T:0.15
Consensus pattern (6 bp):
GGGTAA
Found at i:51402333 original size:6 final size:6
Alignment explanation
Indices: 51402322--51402347 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51402312 TGAGGGAAAT
51402322 GAAAAA GAAAAA GAAAAA GAAAAA GA
1 GAAAAA GAAAAA GAAAAA GAAAAA GA
51402348 TGTACAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:51410794 original size:31 final size:32
Alignment explanation
Indices: 51410712--51410794 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 32
51410702 TATTTTGATA
*
51410712 TGTTATTTTGAG-TTTTTTTTATTTATAATGT
1 TGTTATTTTGAGATTTTTTTTATTTATAATAT
* * *
51410743 TGTTAAATCTCA-ATTTTTTTTATTTA-AATAT
1 TGTT-ATTTTGAGATTTTTTTTATTTATAATAT
*
51410774 TGTTATTTTGAGATTATTTTT
1 TGTTATTTTGAGATTTTTTTT
51410795 CATAATAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
30 4 0.10
31 20 0.49
32 17 0.41
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.64
Consensus pattern (32 bp):
TGTTATTTTGAGATTTTTTTTATTTATAATAT
Found at i:51411502 original size:41 final size:41
Alignment explanation
Indices: 51411304--51411513 Score: 194
Period size: 41 Copynumber: 5.1 Consensus size: 41
51411294 ATTATACATT
* * * * *
51411304 AACGCCGCAAAAAACTGAACAATAACAGCGTTTTTGG-CCTA
1 AACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTCC-A
* * * *
51411345 AATGCCACTAAAAACTGTTCAATAGCGGCGTTTTTAG-CTAA
1 AACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTC-CA
* * * *
51411386 AACGCCACTAAAAATTGATCAATAGCTGCGTTTTT-ATCTAA
1 AACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTC-CA
* **
51411427 AACGCCACTAAAAACTAAGAAATAGCGGCGTTTTTGGTCCA
1 AACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTCCA
* * *
51411468 AATGCCACT-AATACTGATCAATAGCGGCGTTTTTTGTCCA
1 AACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTCCA
51411508 AACGCC
1 AACGCC
51411514 GAAAATAGTT
Statistics
Matches: 138, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
40 31 0.22
41 105 0.76
42 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (41 bp):
AACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTCCA
Found at i:51412062 original size:34 final size:36
Alignment explanation
Indices: 51411987--51412067 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 36
51411977 GTTTAAGGCC
* *
51411987 TATGGTTTAGGGTTCAAATGGTAGTATATATTTTAAGTT
1 TATGGTTTAGGGATCAAATGGTAG---ATATGTTAAGTT
51412026 TATGGTTTAGGGATC-AATGGTAG-TATGTTAAGTT
1 TATGGTTTAGGGATCAAATGGTAGATATGTTAAGTT
51412060 TATGGTTT
1 TATGGTTT
51412068 GGGGTTTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
34 18 0.45
38 8 0.20
39 14 0.35
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (36 bp):
TATGGTTTAGGGATCAAATGGTAGATATGTTAAGTT
Found at i:51419038 original size:22 final size:23
Alignment explanation
Indices: 51418990--51419040 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
51418980 TAGAACTTTA
* *
51418990 TAATAACATACATACTACATGTT
1 TAATAACATAAATACTACATGCT
51419013 TAATACACATAAATA-TA-ATGCT
1 TAATA-ACATAAATACTACATGCT
51419035 TAATAA
1 TAATAA
51419041 TAATTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (23 bp):
TAATAACATAAATACTACATGCT
Found at i:51419093 original size:19 final size:19
Alignment explanation
Indices: 51419066--51419107 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
51419056 ATAATAGTGT
51419066 AATACTATAT-TAATAATATA
1 AATACTATATAT-ATAATA-A
51419086 AATA-TATATATATAATAA
1 AATACTATATATATAATAA
51419104 AATA
1 AATA
51419108 ACATATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.24
19 11 0.52
20 5 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AATACTATATATATAATAA
Found at i:51419107 original size:27 final size:25
Alignment explanation
Indices: 51419077--51419136 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
51419067 ATACTATATT
* *
51419077 AATAATATAAATATATATATATAATAA
1 AATAATATAAA-ATATA-AAAGAATAA
51419104 AATAACATATAAAATATAAAAGAATAA
1 AAT-A-ATATAAAATATAAAAGAATAA
51419131 AATAAT
1 AATAAT
51419137 GTAATGATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 2 0.07
26 1 0.03
27 13 0.45
28 6 0.21
29 7 0.24
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
AATAATATAAAATATAAAAGAATAA
Found at i:51419113 original size:17 final size:19
Alignment explanation
Indices: 51419078--51419123 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
51419068 TACTATATTA
*
51419078 ATAATATAAATATATATAT
1 ATAATATAAATATACATAT
51419097 ATAATA-AAATA-ACATAT
1 ATAATATAAATATACATAT
*
51419114 AAAATATAAA
1 ATAATATAAA
51419124 AGAATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
18 8 0.33
19 6 0.25
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATATAAATATACATAT
Found at i:51419113 original size:19 final size:19
Alignment explanation
Indices: 51419078--51419123 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
51419068 TACTATATTA
*
51419078 ATAATATAAATATATATAT
1 ATAATATAAATACATATAT
51419097 ATAATA-AAATAACATATA-
1 ATAATATAAAT-ACATATAT
51419115 A-AATATAAA
1 ATAATATAAA
51419124 AGAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 8 0.33
19 12 0.50
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATATAAATACATATAT
Found at i:51419243 original size:7 final size:7
Alignment explanation
Indices: 51419230--51419306 Score: 56
Period size: 7 Copynumber: 11.4 Consensus size: 7
51419220 ATTATACATG
51419230 ATAATAT
1 ATAATAT
*
51419237 GTAATAT
1 ATAATAT
*
51419244 ATAATGT
1 ATAATAT
51419251 ATAAT-T
1 ATAATAT
* *
51419257 TTAAAAT
1 ATAATAT
51419264 ATAA-A-
1 ATAATAT
51419269 ATAATAT
1 ATAATAT
*
51419276 ATATTA-
1 ATAATAT
51419282 ATAAATAAT
1 AT-AAT-AT
51419291 ATAATAT
1 ATAATAT
51419298 ATAA-AT
1 ATAATAT
51419304 ATA
1 ATA
51419307 CTTGAAAATA
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
5 4 0.07
6 13 0.23
7 33 0.59
8 4 0.07
9 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (7 bp):
ATAATAT
Done.