Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 98 of 221
Found at i:29931149 original size:16 final size:16
Alignment explanation
Indices: 29931128--29931179 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
29931118 TTTGGTTCGC
*
29931128 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
*
29931144 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
29931160 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
29931176 TGTA
1 TGTA
29931180 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:29931435 original size:16 final size:16
Alignment explanation
Indices: 29931395--29931449 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
29931385 TTAATCATAT
*
29931395 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
29931411 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
29931426 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
29931444 -TAAAAT
1 TTAAAAT
29931450 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:29931442 original size:18 final size:17
Alignment explanation
Indices: 29931415--29931449 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29931405 TTTTTATTAA
*
29931415 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
29931433 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
29931450 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:29931562 original size:18 final size:17
Alignment explanation
Indices: 29931535--29931569 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29931525 TTACTATTAA
*
29931535 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
29931553 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
29931570 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:29931615 original size:61 final size:60
Alignment explanation
Indices: 29931430--29931620 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
29931420 TTTTAATTAA
* *
29931430 AATATATAATTTAATAAAATTCTTAATAATT-AATATTCTTATATTAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATAAATTTTCT-AAATCAT
* * * * * *
29931491 AATATATGATACT-GTAAAA-T-ATAA-ATTAACATAATTAC-TAT-TAAATATATT-TTAATTA
1 AATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATT-CTTATATAAAT-T-TTCTAAATCA
*
29931549 A
60 T
*
29931550 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCT-AAATCAT
29931611 AATATATAAT
1 AATATATAAT
29931621 ACTATGAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 30
0.68 0.12 0.21
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.31
60 18 0.18
61 39 0.40
62 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCTAAATCAT
Found at i:29931698 original size:120 final size:120
Alignment explanation
Indices: 29931393--29931676 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
29931383 ATTTAATCAT
*
29931393 ATTTAAACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * *
29931458 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
29931514 AATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
29931579 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
29931634 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
29931677 TTTTCAATTA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 133 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:29933601 original size:19 final size:19
Alignment explanation
Indices: 29933577--29933613 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
29933567 ATAAAATATT
29933577 ATCGTTCAGGTACATATAC
1 ATCGTTCAGGTACATATAC
*
29933596 ATCGTTCAGGTGCATATA
1 ATCGTTCAGGTACATATA
29933614 GAGGTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
ATCGTTCAGGTACATATAC
Found at i:29934667 original size:15 final size:15
Alignment explanation
Indices: 29934643--29934672 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29934633 GGAGGGTAAA
*
29934643 ACAGAGAGCAAATCG
1 ACAGAAAGCAAATCG
29934658 ACAGAAAGCAAATCG
1 ACAGAAAGCAAATCG
29934673 GCCAAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.20, G:0.23, T:0.07
Consensus pattern (15 bp):
ACAGAAAGCAAATCG
Found at i:29935035 original size:28 final size:28
Alignment explanation
Indices: 29935003--29935102 Score: 175
Period size: 28 Copynumber: 3.6 Consensus size: 28
29934993 CTATAATCAC
29935003 TTAATATTTATATTACAATTATTTTCAA
1 TTAATATTTATATTACAATTATTTTCAA
*
29935031 TTAATATTTATATTACAATTATTTTAAA
1 TTAATATTTATATTACAATTATTTTCAA
29935059 TTAATATTTATATTACAATTATTTTCAA
1 TTAATATTTATATTACAATTATTTTCAA
*
29935087 -AAATATTTATATTACA
1 TTAATATTTATATTACA
29935103 CTAAGGCATT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 15 0.22
28 54 0.78
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (28 bp):
TTAATATTTATATTACAATTATTTTCAA
Found at i:29938432 original size:27 final size:25
Alignment explanation
Indices: 29938402--29938451 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
29938392 TTATATATAC
*
29938402 TAAATAATAAAATAATAAAATATTATT
1 TAAAAAATAAAAT--TAAAATATTATT
*
29938429 TAAAAAATCAAATTAAAATATTA
1 TAAAAAATAAAATTAAAATATTA
29938452 ATAAACTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
27 11 0.52
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAAAAATAAAATTAAAATATTATT
Found at i:29945028 original size:37 final size:37
Alignment explanation
Indices: 29944978--29945056 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
29944968 TTATTACGAA
* ** * *
29944978 GTCTTACCCGGACATAATCTTCACATGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
29945015 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
29945052 GTCTT
1 GTCTT
29945057 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:29945297 original size:47 final size:47
Alignment explanation
Indices: 29945178--29945555 Score: 585
Period size: 47 Copynumber: 8.0 Consensus size: 47
29945168 TCGGGACTTG
* * * * * * * *
29945178 TCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
29945225 TCACATATATATACACTTCCACATTCACCACATCGGCCATTAGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
29945274 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
29945321 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* * *
29945368 TCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
29945415 TCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
29945462 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
29945509 TCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
29945556 CTATCATTTC
Statistics
Matches: 310, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 273 0.88
49 37 0.12
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:29949049 original size:40 final size:40
Alignment explanation
Indices: 29948999--29949234 Score: 391
Period size: 40 Copynumber: 5.9 Consensus size: 40
29948989 CGAATACACG
* * * *
29948999 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
29949039 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
29949079 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
29949119 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
29949159 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
29949199 TCACTAGCACGAACGCTCTTCGGGACTTAGCCCGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
29949235 CATCATTCAA
Statistics
Matches: 185, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 185 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:29949579 original size:29 final size:29
Alignment explanation
Indices: 29949540--29949618 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
29949530 CTTAATAATC
*
29949540 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
29949570 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
29949599 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
29949619 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:29951547 original size:37 final size:37
Alignment explanation
Indices: 29951497--29951575 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
29951487 TTATTACGAA
* ** *
29951497 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
29951534 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
29951571 GTCTT
1 GTCTT
29951576 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:29951774 original size:49 final size:48
Alignment explanation
Indices: 29951699--29952134 Score: 558
Period size: 49 Copynumber: 8.9 Consensus size: 48
29951689 TGGGACTTAT
* * * * * * *
29951699 CATATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCA
1 CATATATAT-CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
* *
29951748 CATATATATCCACTTCCACATTCATCACATCGGCCATTAGGCCTTA-CA
1 CATATATAT-CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
*
29951796 CATATATA-CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATATATCACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
*
29951843 CATATATA-CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATATATCACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
29951890 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
1 CATATATAT-CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
*
29951939 CCTATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
1 CATATATAT-CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
* *
29951988 CGTATATA-CACTTTCACATTCATCACATCGGCCATTCGGCCCTACATTATCCA
1 CATATATATCACTTTCACATTCATCACATCGGCCATTAGG-CC--C--TAT-CA
* *
29952041 TCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCT
1 -CAT---ATATAT-CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
29952094 CATATATA-CACTTTCACATTCATCACATCGGCCATTAGGCC
1 CATATATATCACTTTCACATTCATCACATCGGCCATTAGGCC
29952135 TTACTATCAT
Statistics
Matches: 353, Mismatches: 19, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
46 35 0.10
47 120 0.34
48 12 0.03
49 134 0.38
50 1 0.00
52 6 0.02
53 3 0.01
54 5 0.01
57 5 0.01
58 2 0.01
59 30 0.08
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (48 bp):
CATATATATCACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
Found at i:29951863 original size:47 final size:47
Alignment explanation
Indices: 29951694--29952137 Score: 584
Period size: 47 Copynumber: 9.1 Consensus size: 47
29951684 CCCTTTGGGA
* * * * * * *
29951694 CTTATCATATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29951741 CCTGTCACATATATATCCACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA--CACTTTCACATTCATCACATCGGCCATTAGGC
29951790 CTTA-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29951836 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29951883 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29951932 CCTATCACCTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCA-C-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29951981 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG--C
29952030 TACATTATCCATCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 --C----T---T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29952087 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29952134 CTTA
1 CTTA
29952138 CTATCATTTC
Statistics
Matches: 359, Mismatches: 20, Indels: 36
0.87 0.05 0.09
Matches are distributed among these distances:
46 35 0.10
47 144 0.40
48 12 0.03
49 121 0.34
50 1 0.00
51 2 0.01
55 1 0.00
57 1 0.00
58 1 0.00
59 41 0.11
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29952063 original size:106 final size:100
Alignment explanation
Indices: 29951694--29952134 Score: 570
Period size: 106 Copynumber: 4.5 Consensus size: 100
29951684 CCCTTTGGGA
* * * * * * * *
29951694 CTTATCATATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CCCTGTCACAT---ATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCCTATCACATCACATAT
* *
29951755 ATCCACTTCCACATTCATCACATCGGCCATTAGGC
66 ATACACTTTCACATTCATCACATCGGCCATTAGGC
29951790 CTTA-CACATATATACACTTTCACATTCATCACATCGGCCATTAGG--CCT-T---ATCACATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCCTATCACATCACATAT
29951848 ATACACTTTCACATTCATCACATCGGCCATTAGGC
66 ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29951883 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCCTATCAC--C-TAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCCTATCACATCACAT
29951944 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
64 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29951981 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTACATTATCCATCATC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC--C--TAT-CA-CATC
29952046 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29952087 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
29952135 TTACTATCAT
Statistics
Matches: 306, Mismatches: 18, Indels: 32
0.86 0.05 0.09
Matches are distributed among these distances:
90 2 0.01
93 42 0.14
94 6 0.02
95 34 0.11
96 78 0.25
97 5 0.02
98 47 0.15
99 2 0.01
101 3 0.01
102 2 0.01
103 1 0.00
105 1 0.00
106 83 0.27
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (100 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCCTATCACATCACATAT
ATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29958327 original size:7 final size:8
Alignment explanation
Indices: 29958310--29958343 Score: 54
Period size: 7 Copynumber: 4.5 Consensus size: 8
29958300 TTTTAGTCAA
29958310 AAAAATGG
1 AAAAATGG
29958318 AAAAAT-G
1 AAAAATGG
29958325 AAAAAT-G
1 AAAAATGG
29958332 AAAAATGG
1 AAAAATGG
29958340 AAAA
1 AAAA
29958344 GTAAAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.56
8 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (8 bp):
AAAAATGG
Found at i:29958349 original size:13 final size:14
Alignment explanation
Indices: 29958311--29958353 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
29958301 TTTAGTCAAA
*
29958311 AAAATGGAAAAATGA
1 AAAAT-GAAAAATGG
29958326 AAAATGAAAAATGG
1 AAAATGAAAAATGG
*
29958340 AAAA-GTAAAATGG
1 AAAATGAAAAATGG
29958353 A
1 A
29958354 GAGGCTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 9 0.35
14 12 0.46
15 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (14 bp):
AAAATGAAAAATGG
Found at i:29959769 original size:44 final size:44
Alignment explanation
Indices: 29959710--29959996 Score: 210
Period size: 44 Copynumber: 6.5 Consensus size: 44
29959700 AGAATTTCAG
*
29959710 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
* * * * ** *
29959754 ATCCTATCTCGCTGAGATTAAAGTGGAGCGGATT-AAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTA
* * * * * * *
29959798 ATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATC-A--A
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTA
* * ** * * *
29959839 GTCTTATCTCCTTGAGATTACAGTGGAATAGATCGAAG-AATTTCAA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT--A
* *
29959885 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCTAGAA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
* * *
29959929 ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCCAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
* *
29959973 ATCCTATTTCCCTGAGATTACAGT
1 ATCTTATCTCCCTGAGATTACAGT
29959997 CGAACGGATT
Statistics
Matches: 186, Mismatches: 45, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
41 29 0.16
42 2 0.01
43 4 0.02
44 114 0.61
45 3 0.02
46 33 0.18
47 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
Found at i:29960007 original size:219 final size:219
Alignment explanation
Indices: 29959710--29960109 Score: 649
Period size: 219 Copynumber: 1.8 Consensus size: 219
29959700 AGAATTTCAG
* * *
29959710 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCGCTGAGATTAA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAGATTAA
* * * * *
29959775 AGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAAG
66 AGTCGAACGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCAAG
* * *
29959840 TCTTATCTCCTTGAGATTACA-GTGGAATAGATCGAAGAATTTCAAATCTTATCTCCCTGAGGTT
131 TCTTATCTCCCTGAGATTACAGGT-GAATAGACCAAAGAATTTCAAATCTTATCTCCCTGAGGTT
29959904 ACAGTGGAGCAGATTGAAGCTAGAA
195 ACAGTGGAGCAGATTGAAGCTAGAA
* *
29959929 ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAGATTAA
* *
29959994 AGTCGAACGGATTAAAATAAAGGATATTGTCTCTCTGAAATTACAGTAGAGTAGATAGCATCAGG
66 AGTCGAACGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCAAG
29960059 TCTTATCTCCCTGAGATTACAGGTGAATAGACCAAAGAATTTCAAATCTTA
131 TCTTATCTCCCTGAGATTACAGGTGAATAGACCAAAGAATTTCAAATCTTA
29960110 CTTCCTAGGC
Statistics
Matches: 165, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
219 163 0.99
220 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (219 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAGATTAA
AGTCGAACGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCAAG
TCTTATCTCCCTGAGATTACAGGTGAATAGACCAAAGAATTTCAAATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCTAGAA
Found at i:29960187 original size:50 final size:50
Alignment explanation
Indices: 29960133--29961297 Score: 639
Period size: 50 Copynumber: 23.3 Consensus size: 50
29960123 GCAGTGGAAC
* * *
29960133 AGATTAAATCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** *
29960183 AGATTAAAGCTACAGCAGCGAATCTTAC-TCCCCAGGCGA-TGCAGTGGAAT
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCC-GAC-ATTGCAGTTAAAA
* * * * *
29960233 AGATTAAAACCACATCGGTGAATCTTGCTTCCTCGACATTACAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** ** *
29960283 AGATTAAAGCTACAACAGTGAATCTTAC-TCCCC-AGGTGATGCAGTGGAAC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACAT--TGCAGTTAAAA
* * *
29960333 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCAACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * ** ** *
29960383 AGATTAAAGCTACAACAGCGAATCTTACTGCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* ** * *
29960433 AGATTAAAGCCACATCGGTGAATCTTGTTTCCCCAACATTGTAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* ** * * ** ** *
29960483 AGATTAAAGCTACAAT-AACAAATCTTAC-TCCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCC-GACATTGCAGTTAAAA
* * * *
29960533 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCTGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** * ** *
29960583 AGACTAAAGCCACAGT-GGCGAGTGC-TACTTCCCTGGCGGTGCGGTGGAAT
1 AGATTAAAGCCACA-TCGGCGAAT-CTTACTTCCCCGACATTGCAGTTAAAA
** * *
29960633 AGATTAAAGCCACATCGATGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * *** ** **
29960683 AAATTAAAGCCACAGCGACGAATCCTACTTCCCTGGCGGCGCAGTGGAGC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
29960733 AGATTAAGGCCACGA-CGGCGTATCTTGCTTCCCCGATATTGCAGTTAAAA
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * * ** **
29960783 AGACTAAAGCCATAGCGGCAAATCCTACTTCCCTGGCGA-TGCAGTGGAGC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGAC-ATTGCAGTTAAAA
* ** *
29960833 AGATTAAAGCCACATCGGTGAATCTCGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * **
29960883 AGATTAAAGCCACATCGGCTAATCTTACTTCCCTGGCGA-TACAG-TAGAGC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGAC-ATTGCAGTTA-AAA
* * * *
29960933 AGATTAAACCCACGAT-GGTGTATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
29960983 AGATTAAAGCCACATCGGCGAATCTTACTTCCCTGGCGA-TACAG--AAGAGC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGAC-ATTGCAGTTAA-A-A
* * * *
29961033 AGATTAAAGCCACGA-CAGCGTATCTTGCTTCCCCGACATTGCAATTAAAAA
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCCGACATTGCAGTT-AAAA
* * * ** * **
29961084 AGACTAAAGCCACAGT-GGCGAGTGTTACTTCCTTGGCGA-TGCAG-TAGAGC
1 AGATTAAAGCCACA-TCGGCGAATCTTACTTCCCCGAC-ATTGCAGTTA-AAA
* * *
29961134 AGATTAAGGCCACGA-CGGCGTATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * * ** **
29961184 AGACTAAAGCCACAGCGGTGAGTGTTACTTCCCTGGAGA-TGCAGTGGAGC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCC-CGACATTGCAGTTAAAA
* *
29961234 AGATTAAAGCCACAAT-GGCGTATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
*
29961284 AGACTAAAGCCACA
1 AGATTAAAGCCACA
29961298 GCATCGAGTG
Statistics
Matches: 804, Mismatches: 265, Indels: 93
0.69 0.23 0.08
Matches are distributed among these distances:
48 4 0.00
49 35 0.04
50 696 0.87
51 63 0.08
52 4 0.00
53 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:29960278 original size:100 final size:100
Alignment explanation
Indices: 29960103--29961393 Score: 1453
Period size: 100 Copynumber: 12.9 Consensus size: 100
29960093 AAGAATTTCA
* *
29960103 AATCTTACTT-CCTAGGCGATGCAGTGGAACAGATTAAATCCACATCGGTGAATCTTGCTTCCCC
1 AATCTTACTTCCCT-GGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* *
29960167 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * ** * *
29960203 AATCTTACTCCCCAGGCGATGCAGTGGAATAGATTAAAACCACATCGGTGAATCTTGCTTCCTCG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * * *
29960268 ACATTACAGTTAAAAAGATTAAAGCTACAACAGTG
66 ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * * * * *
29960303 AATCTTACTCCCCAGGTGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTACTTCCCCA
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * *
29960368 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * * * *
29960403 AATCTTACTGCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGTTTCCCCA
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * **** *
29960468 ACATTGTAGTTAAAAAGATTAAAGCTACAATAACA
66 ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * * *
29960503 AATCTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * *
29960568 ACATTGCTGTTAAAAAGACTAAAGCCACAGTGGCG
66 ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * ** *
29960603 AGTGC-TACTTCCCTGGCGGTGCGGTGGAATAGATTAAAGCCACATCGATGAATCTTGCTTCCCC
1 AAT-CTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* * *
29960667 GACATTACAGTTAAAAAAATTAAAGCCACAGCGACG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* ** * * *
29960703 AATCCTACTTCCCTGGCGGCGCAGTGGAGCAGATTAAGGCCACGA-CGGCGTATCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* * * *
29960767 GATATTGCAGTTAAAAAGACTAAAGCCATAGCGGCA
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * *
29960803 AATCCTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCTG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
29960868 ACATTGCAGTTAAAAAGATTAAAGCCACATCGGCT
66 ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * *
29960903 AATCTTACTTCCCTGGCGATACAGTAGAGCAGATTAAACCCACGAT-GGTGTATCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
*
29960967 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* ** * * *
29961003 AATCTTACTTCCCTGGCGATACAGAAGAGCAGATTAAAGCCACGA-CAGCGTATCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* * *
29961067 GACATTGCAATTAAAAAAGACTAAAGCCACAGTGGCG
65 GACATTGCAGTT-AAAAAGATTAAAGCCACAGCGGCG
* * * * * * *
29961104 AGTGTTACTTCCTTGGCGATGCAGTAGAGCAGATTAAGGCCACGA-CGGCGTATCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* *
29961168 GACATTGCAGTTAAAAAGACTAAAGCCACAGCGGTG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * * *
29961204 AGTGTTACTTCCCTGGAGATGCAGTGGAGCAGATTAAAGCCACAAT-GGCGTATCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* **
29961268 GACATTGCAGTTAAAAAGACTAAAGCCACAGCATCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * * * * *
29961304 AGTGTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACAGCGAATCTTGCTTCCCCA
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
** **
29961369 ACATCACAGTTAAGCAGATTAAAGC
66 ACATTGCAGTTAAAAAGATTAAAGC
29961394 TACAAGGTAC
Statistics
Matches: 1056, Mismatches: 125, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
99 3 0.00
100 958 0.91
101 95 0.09
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (100 bp):
AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
Found at i:29961315 original size:50 final size:50
Alignment explanation
Indices: 29961161--29961316 Score: 142
Period size: 50 Copynumber: 3.1 Consensus size: 50
29961151 GCGTATCTTG
*
29961161 CTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACAGCGGT-GAGTGTTA
1 CTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACAGC-ATCGAGTGTTA
* * ** ** * * *
29961211 CTTCCCTGGAGA-TGCAGTGGAGCAGATTAAAGCCACA--ATGGCGTA-TCTTG
1 CTTCCC-CGACATTGCAGTTAAAAAGACTAAAGCCACAGCAT--CG-AGTGTTA
29961261 CTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACAGCATCGAGTGTTA
1 CTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACAGCATCGAGTGTTA
29961311 CTTCCC
1 CTTCCC
29961317 TGGCGATGCA
Statistics
Matches: 78, Mismatches: 19, Indels: 18
0.68 0.17 0.16
Matches are distributed among these distances:
47 1 0.01
49 4 0.05
50 67 0.86
51 4 0.05
52 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (50 bp):
CTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACAGCATCGAGTGTTA
Found at i:29961342 original size:50 final size:50
Alignment explanation
Indices: 29961188--29961343 Score: 133
Period size: 50 Copynumber: 3.1 Consensus size: 50
29961178 TTAAAAAGAC
* *
29961188 TAAAGCCACAGCGGT-GAGTGTTACTTCCCTGGAGATGCAGTGGAGCAGAT
1 TAAAGCCACAGC-ATCGAGTGTTACTTCCCTGGCGATGCAGTGGAGCAGAT
* * * * ** ** *
29961238 TAAAGCCACA--ATGGCGTA-TCTTGCTTCCCCGAC-ATTGCAGTTAAAAAGAC
1 TAAAGCCACAGCAT--CG-AGTGTTACTTCCCTGGCGA-TGCAGTGGAGCAGAT
29961288 TAAAGCCACAGCATCGAGTGTTACTTCCCTGGCGATGCAGTGGAGCAGAT
1 TAAAGCCACAGCATCGAGTGTTACTTCCCTGGCGATGCAGTGGAGCAGAT
29961338 TAAAGC
1 TAAAGC
29961344 TACAACAGCG
Statistics
Matches: 77, Mismatches: 20, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
47 1 0.01
49 2 0.03
50 70 0.91
51 2 0.03
52 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (50 bp):
TAAAGCCACAGCATCGAGTGTTACTTCCCTGGCGATGCAGTGGAGCAGAT
Found at i:29979685 original size:44 final size:42
Alignment explanation
Indices: 29979531--29979688 Score: 113
Period size: 43 Copynumber: 3.7 Consensus size: 42
29979521 AGCTTGTACA
* * ** * * *
29979531 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATTAAATATCG
1 ATGCCAACGTCCCAAACACGGTCTTACACGAAATCAAATAT-G
* * *
29979574 ATGCC-ACTATCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAAC-GTCCCAAACACGGTCTTACACGAAATCAAATATG
* * * * *
29979616 ATGTCGACGTCCCAGACATGATCTTACACGTAAATCATAAGT-TG
1 ATGCCAACGTCCCAAACACGGTCTTACACG-AAATCA-AA-TATG
*
29979660 ATGCCAACGTCCCAAACCCGGTCTTACAC
1 ATGCCAACGTCCCAAACACGGTCTTACAC
29979689 AAAAACACAT
Statistics
Matches: 93, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 26 0.28
43 39 0.42
44 27 0.29
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAAACACGGTCTTACACGAAATCAAATATG
Found at i:29984190 original size:28 final size:29
Alignment explanation
Indices: 29984159--29984219 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
29984149 GTGAGCATGA
29984159 ATAT-AAGGTGATTTGGGCCTAACAGGCC
1 ATATAAAGGTGATTTGGGCCTAACAGGCC
**
29984187 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAACAGGCC
29984216 ATAT
1 ATAT
29984220 GAATATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAACAGGCC
Found at i:29984232 original size:29 final size:29
Alignment explanation
Indices: 29984171--29984332 Score: 163
Period size: 28 Copynumber: 5.7 Consensus size: 29
29984161 ATAAGGTGAT
** * ** *
29984171 TTGGGCCTAACAGGCCATATAAAGGTGAT
1 TTGGGCCTAATGGGCCATATGAATATGAA
29984200 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
*
29984229 TTGGG-CTGATGGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* *
29984257 TTGGG-CTGATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * *
29984285 TTGGGTCTGATGGGCGATAT-AA-ATGAGA
1 TTGGGCCTAATGGGCCATATGAATATGA-A
29984313 TTGGGCC-AAGTGGGCCATAT
1 TTGGGCCTAA-TGGGCCATAT
29984333 ACATGTATGT
Statistics
Matches: 117, Mismatches: 13, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
27 4 0.03
28 72 0.62
29 41 0.35
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:29984246 original size:57 final size:57
Alignment explanation
Indices: 29984183--29984332 Score: 189
Period size: 57 Copynumber: 2.6 Consensus size: 57
29984173 GGGCCTAACA
*
29984183 GGCCATATAAAGGTGATTTGGGCCTAATGGGCCATATGAATATGAATTGGG-CTGATG
1 GGCCATATAAATGTGA-TTGGGCCTAATGGGCCATATGAATATGAATTGGGTCTGATG
* * * *
29984240 GGCCATATGAATATGAATTGGG-CTGATGGGCCATATGAATGTGAATTGGGTCTGATG
1 GGCCATATAAATGTG-ATTGGGCCTAATGGGCCATATGAATATGAATTGGGTCTGATG
* *
29984297 GGCGATATAAATGAGATTGGGCC-AAGTGGGCCATAT
1 GGCCATATAAATGTGATTGGGCCTAA-TGGGCCATAT
29984333 ACATGTATGT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
56 33 0.42
57 45 0.57
58 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (57 bp):
GGCCATATAAATGTGATTGGGCCTAATGGGCCATATGAATATGAATTGGGTCTGATG
Found at i:29984248 original size:28 final size:28
Alignment explanation
Indices: 29984200--29984332 Score: 171
Period size: 28 Copynumber: 4.7 Consensus size: 28
29984190 TAAAGGTGAT
*
29984200 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGG-CTGATGGGCCATATGAATATGAA
29984229 TTGGGCTGATGGGCCATATGAATATGAA
1 TTGGGCTGATGGGCCATATGAATATGAA
*
29984257 TTGGGCTGATGGGCCATATGAATGTGAA
1 TTGGGCTGATGGGCCATATGAATATGAA
*
29984285 TTGGGTCTGATGGGCGATAT-AA-ATGAGA
1 TTGGG-CTGATGGGCCATATGAATATGA-A
**
29984313 TTGGGCCAAGTGGGCCATAT
1 TTGGGCTGA-TGGGCCATAT
29984333 ACATGTATGT
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
27 5 0.05
28 71 0.76
29 18 0.19
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.28
Consensus pattern (28 bp):
TTGGGCTGATGGGCCATATGAATATGAA
Found at i:29984278 original size:56 final size:56
Alignment explanation
Indices: 29984183--29984332 Score: 187
Period size: 56 Copynumber: 2.6 Consensus size: 56
29984173 GGGCCTAACA
* *
29984183 GGCCATATAAAGGTGATTTGGGCCTAATGGGCCATATGAATATGAATTGGG-CTGATG
1 GGCCATATAAATGAGA-TTGGG-CTAATGGGCCATATGAATATGAATTGGGTCTGATG
* *
29984240 GGCCATATGAATATGA-ATTGGGCTGATGGGCCATATGAATGTGAATTGGGTCTGATG
1 GGCCATAT-AA-ATGAGATTGGGCTAATGGGCCATATGAATATGAATTGGGTCTGATG
* *
29984297 GGCGATATAAATGAGATTGGGCCAAGTGGGCCATAT
1 GGCCATATAAATGAGATTGGGCTAA-TGGGCCATAT
29984333 ACATGTATGT
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
55 4 0.05
56 36 0.44
57 36 0.44
58 3 0.04
59 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (56 bp):
GGCCATATAAATGAGATTGGGCTAATGGGCCATATGAATATGAATTGGGTCTGATG
Found at i:29986281 original size:42 final size:42
Alignment explanation
Indices: 29986230--29986320 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
29986220 TATGATACTA
*
29986230 GTGT-TATTGCTTTGATAGACCCTGGCTCTACTCGTTCGTAT
1 GTGTGTATTGCTTTGATAGACCCCGGCTCTACTCGTTCGTAT
29986271 GTGTGTATTGCTTTGATAGACCCCGGCTCTACTCGTTCGTAT
1 GTGTGTATTGCTTTGATAGACCCCGGCTCTACTCGTTCGTAT
29986313 GTGTGTAT
1 GTGTGTAT
29986321 GAAATTGGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 4 0.08
42 44 0.92
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.41
Consensus pattern (42 bp):
GTGTGTATTGCTTTGATAGACCCCGGCTCTACTCGTTCGTAT
Found at i:29998089 original size:18 final size:18
Alignment explanation
Indices: 29998066--29998105 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29998056 GAGGATACTT
29998066 CAAGGTCCACAAAGAAAC
1 CAAGGTCCACAAAGAAAC
** *
29998084 CAAGGTCGGCAAAGAATC
1 CAAGGTCCACAAAGAAAC
29998102 CAAG
1 CAAG
29998106 AAGATGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.25, G:0.23, T:0.07
Consensus pattern (18 bp):
CAAGGTCCACAAAGAAAC
Found at i:29999647 original size:13 final size:14
Alignment explanation
Indices: 29999628--29999669 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
29999618 TAAAAGAGAG
*
29999628 TGAAAAGAAAATGA
1 TGAAAAGAAAAAGA
29999642 -GAAAAGAAAAAGA
1 TGAAAAGAAAAAGA
29999655 TGAAAAAGAAAAAGA
1 TG-AAAAGAAAAAGA
29999670 GGGTGAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 12 0.48
14 1 0.04
15 12 0.48
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (14 bp):
TGAAAAGAAAAAGA
Found at i:30003404 original size:29 final size:28
Alignment explanation
Indices: 30003368--30003445 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
30003358 TCATGAGATT
30003368 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
30003398 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
30003425 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
30003446 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:30005182 original size:38 final size:38
Alignment explanation
Indices: 30005135--30005212 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
30005125 TCATATCGAA
*
30005135 TTTGCCTATAATGGATTAGTCCACTCGGCAACTAAATT
1 TTTGCCTATAATCGATTAGTCCACTCGGCAACTAAATT
30005173 TTTGCCTATAATCGATTAGTCCACTCGGCAACTAAATT
1 TTTGCCTATAATCGATTAGTCCACTCGGCAACTAAATT
30005211 TT
1 TT
30005213 CTCCTTTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (38 bp):
TTTGCCTATAATCGATTAGTCCACTCGGCAACTAAATT
Found at i:30009001 original size:50 final size:50
Alignment explanation
Indices: 30008882--30009265 Score: 374
Period size: 50 Copynumber: 7.6 Consensus size: 50
30008872 ATTGTAAGAA
* * * *** *
30008882 CACATGTGTAGTACTATGTGCAGGTTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT--TGTTAGGT
* *
30008934 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGCT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * ** * * *
30008984 CGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCA-ATATCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGAT-TGTTAGGT
* * * *
30009035 CACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * * *
30009085 CGCATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * * *
30009136 CACGTGTGTAGTAATAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
***
30009186 CATGGGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* *
30009236 CGCATGTGTAGCACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
30009266 TGCATACCAG
Statistics
Matches: 268, Mismatches: 60, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
50 154 0.57
51 79 0.29
52 35 0.13
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:30009223 original size:101 final size:100
Alignment explanation
Indices: 30008933--30009265 Score: 427
Period size: 101 Copynumber: 3.3 Consensus size: 100
30008923 TGGTTTTAGG
*
30008933 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGCTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC-CATGTGTAGTAC
* * * *
30008998 TAAGTGTAGGCTACTATGCATACCCAATATCTTCGA
65 TAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
* * *
30009034 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC-CATGTGTAGTAC
*
30009099 TAAGTGCAGACTACTATGCGTACCCGATAGCTTCGA
65 TAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
* * *
30009135 TCACGTGTGTAGTAATAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT-CATGGGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCCAT--GTGTAGTA
* * * * * *
30009199 CTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGG
64 CTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
* * *
30009235 TCGCATGTGTAGCACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
30009266 TGCATACCAG
Statistics
Matches: 204, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
99 3 0.01
100 30 0.15
101 171 0.84
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
Found at i:30013463 original size:39 final size:39
Alignment explanation
Indices: 30013409--30013539 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
30013399 GCATGATATT
30013409 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
* *
30013448 TGGAAACATATCCGGACTTGAGGTCTGCAGGCTATGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
* * * *
30013487 TGGAAACATATCCGGACTTAAGGTCCGTAGGCTACCTAC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
30013526 TGG-AATATATCCGG
1 TGGAAACATATCCGG
30013540 GCCTAAAGTC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 10 0.12
39 73 0.88
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:30013556 original size:78 final size:78
Alignment explanation
Indices: 30013409--30013565 Score: 199
Period size: 78 Copynumber: 2.0 Consensus size: 78
30013399 GCATGATATT
* * * * * * *
30013409 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACTTGAGGTCT
1 TGGAAACATATCCGGACTTAAGGTCCGCAGGCTACCTACTGGAAACATATCCGGACCTAAAGTCC
30013474 GCAGGCTATGTGC
66 GCAGGCTATGTGC
* * *
30013487 TGGAAACATATCCGGACTTAAGGTCCGTAGGCTACCTACTGG-AATATATCCGGGCCTAAAGTCC
1 TGGAAACATATCCGGACTTAAGGTCCGCAGGCTACCTACTGGAAACATATCCGGACCTAAAGT-C
*
30013551 CGCAGGCTTTGTGC
65 CGCAGGCTATGTGC
30013565 T
1 T
30013566 AGTAACTGGA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
77 15 0.22
78 52 0.78
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (78 bp):
TGGAAACATATCCGGACTTAAGGTCCGCAGGCTACCTACTGGAAACATATCCGGACCTAAAGTCC
GCAGGCTATGTGC
Found at i:30017240 original size:46 final size:46
Alignment explanation
Indices: 30017167--30017342 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
30017157 TATTTGGGCA
*
30017167 TCCGAACTCATTGAGTT-ATGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGA-GTCCGAGTTCACTTATGGATGCGAACG
* * * * * * *
30017213 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGAAATGTA-ACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
*
30017260 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
30017306 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
30017343 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
45 3 0.03
46 63 0.61
47 37 0.36
48 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:30017268 original size:93 final size:93
Alignment explanation
Indices: 30017163--30017334 Score: 285
Period size: 93 Copynumber: 1.8 Consensus size: 93
30017153 CGGATATTTG
*
30017163 GGCATCCGAACTCATTGAGTT-ATGTCTGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTG
1 GGCATCCGAACTCATTGAGTTGA-GTCCGAGTTCACTTATGGATGCGAACG-CCTGAACTCGTTG
30017226 AGTTGAGTCCGAGTTCATGAAATGTAACTA
64 AGTTGAGTCCGAGTTCATGAAATGTAACTA
* *
30017256 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
30017321 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30017335 GCTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 2 0.03
93 71 0.96
94 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
TTGAGTCCGAGTTCATGAAATGTAACTA
Found at i:30020409 original size:13 final size:13
Alignment explanation
Indices: 30020391--30020415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30020381 GATATAAATT
30020391 CACAAAAAATAAA
1 CACAAAAAATAAA
30020404 CACAAAAAATAA
1 CACAAAAAATAA
30020416 TTTTAAAATA
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:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
CACAAAAAATAAA
Found at i:30024303 original size:25 final size:25
Alignment explanation
Indices: 30024281--30024330 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
30024271 AAAAGGCTTG
30024281 CATGATGAATAATCTTTATGGCTAT
1 CATGATGAATAATCTTTATGGCTAT
30024306 CATGATGAATAATCTTTATGGCTAT
1 CATGATGAATAATCTTTATGGCTAT
30024331 GTTATCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (25 bp):
CATGATGAATAATCTTTATGGCTAT
Found at i:30030369 original size:21 final size:21
Alignment explanation
Indices: 30030344--30030394 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
30030334 GGATTATGTT
30030344 TTAAGGGTT-GAGGTTT-AAGG
1 TTAAGGGTTAG-GGTTTCAAGG
30030364 ATTAAGGGTTAGGGTTTCAAGG
1 -TTAAGGGTTAGGGTTTCAAGG
*
30030386 TTCAGGGTT
1 TTAAGGGTT
30030395 TATATTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.24, C:0.04, G:0.37, T:0.35
Consensus pattern (21 bp):
TTAAGGGTTAGGGTTTCAAGG
Found at i:30030639 original size:21 final size:23
Alignment explanation
Indices: 30030598--30030652 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
30030588 TAAAGTTTAT
* *
30030598 GATTTAG-GGTTTATGA-TTTGG
1 GATTTAGTGTTTTATGAGTTGGG
30030619 GATTTAGTGTTTTAT-AGTTGGG
1 GATTTAGTGTTTTATGAGTTGGG
*
30030641 GTTTTAGTGTTT
1 GATTTAGTGTTT
30030653 ATGGTTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (23 bp):
GATTTAGTGTTTTATGAGTTGGG
Found at i:30030755 original size:25 final size:23
Alignment explanation
Indices: 30030706--30030757 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
30030696 ACATCATTTT
*
30030706 ATATTTATATATTTCATACATAA
1 ATATTTATATATTTCATACAAAA
* *
30030729 ATATTTATATTTATTCAATATAAAA
1 ATATTTATATAT-TTC-ATACAAAA
30030754 ATAT
1 ATAT
30030758 ATTGATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.46
24 3 0.12
25 10 0.42
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATTTATATATTTCATACAAAA
Found at i:30031108 original size:7 final size:7
Alignment explanation
Indices: 30031096--30031163 Score: 73
Period size: 7 Copynumber: 9.3 Consensus size: 7
30031086 AATCTTCAAA
30031096 AAAATTT
1 AAAATTT
30031103 AAAATTT
1 AAAATTT
30031110 AAAATTT
1 AAAATTT
**
30031117 AAAAATAA
1 -AAAATTT
*
30031125 AAAAATT
1 AAAATTT
30031132 AAAATTTT
1 AAAA-TTT
30031140 AAAATTTT
1 AAAA-TTT
30031148 AAAATTT
1 AAAATTT
*
30031155 AATATTT
1 AAAATTT
30031162 AA
1 AA
30031164 TTTTTTAATC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
7 33 0.63
8 19 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAAATTT
Found at i:30031120 original size:22 final size:22
Alignment explanation
Indices: 30031095--30031163 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
30031085 AAATCTTCAA
30031095 AAAAATTTAAAATTTAAAATTT
1 AAAAATTTAAAATTTAAAATTT
** *
30031117 AAAAATAAAAAAATTAAAATTTT
1 AAAAATTTAAAATTTAAAA-TTT
* *
30031140 AAAATTTTAAAATTTAATATTT
1 AAAAATTTAAAATTTAAAATTT
30031162 AA
1 AA
30031164 TTTTTTAATC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 21 0.55
23 17 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAATTTAAAATTTAAAATTT
Found at i:30031121 original size:8 final size:8
Alignment explanation
Indices: 30031069--30031156 Score: 67
Period size: 7 Copynumber: 10.9 Consensus size: 8
30031059 TTTGTATGTT
30031069 AATTTAAA
1 AATTTAAA
30031077 AATTATAAA
1 AATT-TAAA
30031086 AATCTTCAAAAA
1 AAT-TT---AAA
30031098 AATTT-AA
1 AATTTAAA
30031105 AATTT-AA
1 AATTTAAA
30031112 AATTTAAA
1 AATTTAAA
*
30031120 AA-TAAAA
1 AATTTAAA
*
30031127 AAATT-AA
1 AATTTAAA
*
30031134 AATTTTAA
1 AATTTAAA
*
30031142 AATTTTAA
1 AATTTAAA
30031150 AATTTAA
1 AATTTAA
30031157 TATTTAATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
7 26 0.38
8 25 0.37
9 8 0.12
10 1 0.01
11 2 0.03
12 6 0.09
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
AATTTAAA
Found at i:30031129 original size:30 final size:30
Alignment explanation
Indices: 30031093--30031152 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
30031083 AAAAATCTTC
30031093 AAAAAAATTTAAAA-TTTAAAATTTAAAAAT
1 AAAAAAA-TTAAAATTTTAAAATTTAAAAAT
*
30031123 AAAAAAATTAAAATTTTAAAATTTTAAAAT
1 AAAAAAATTAAAATTTTAAAATTTAAAAAT
30031153 TTAATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAAAAATTAAAATTTTAAAATTTAAAAAT
Found at i:30034780 original size:23 final size:22
Alignment explanation
Indices: 30034746--30035101 Score: 270
Period size: 23 Copynumber: 15.5 Consensus size: 22
30034736 TAATGTTGTT
30034746 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAA-TGCTGCA
**
30034769 AATTGAAGTGTTTAAATGCTATA
1 AATTGAAGTG-TTAAATGCTGCA
30034792 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAA-TGCTGCA
* * *
30034815 AATTGAAGTGTTTGAATGCCGTA
1 AATTGAAGTG-TTAAATGCTGCA
*
30034838 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGCA
* *
30034861 AATTTAAGTGCTTAAATGTTGCA
1 AATTGAAGTG-TTAAATGCTGCA
* * *
30034884 AATTGAGGTGTTTAAGTACTGCA
1 AATTGAAGTG-TTAAATGCTGCA
** *
30034907 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTG-TTAAATGCTGCA
* ** *
30034930 CATTG-AGATGTTTTATCGCTG-T
1 AATTGAAG-TGTTAAAT-GCTGCA
* * **
30034952 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGT-TAAATGCTGCA
30034975 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAA-TGCTGCA
*
30034998 AATTGAAGTGTTAAAGTACTGCA
1 AATTGAAGTGTTAAA-TGCTGCA
**
30035021 AATTGAAGTGTTTAAATGCTATA
1 AATTGAAGTG-TTAAATGCTGCA
30035044 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAA-TGCTGCA
* * *
30035067 AATTGAAGTATTTGAATGCTGTA
1 AATTGAAGT-GTTAAATGCTGCA
30035090 AATTGAAGTGTT
1 AATTGAAGTGTT
30035102 TAAGTTCTTA
Statistics
Matches: 270, Mismatches: 48, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
22 32 0.12
23 216 0.80
24 22 0.08
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (22 bp):
AATTGAAGTGTTAAATGCTGCA
Found at i:30034848 original size:69 final size:68
Alignment explanation
Indices: 30034756--30035104 Score: 321
Period size: 69 Copynumber: 5.1 Consensus size: 68
30034746 AATTGAGATG
* **
30034756 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTATAAATTGAAGTGTTAAAGTGCTGCAAATTGA
1 TTAAA-TGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTAAA-TGCTGCAAATTGA
30034821 AGTGT
64 AGTGT
* * * * * *
30034826 TTGAATGCCGTAAATTGAAGTGTTTAAATGCTGTAAATTTAAGTGCTTAAATGTTGCAAATTGAG
1 TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-TTAAATGCTGCAAATTGAA
30034891 GTGT
65 GTGT
* * * ** * * ** *
30034895 TTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTG-AGATGTTTTATCGCTG-TAATTGA
1 TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAG-TGTTAAAT-GCTGCAAATTGA
*
30034958 GGTGT
64 AGTGT
* * * *
30034963 ATAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGTTAAAGTACTGCAAATTG
1 TTAAATGCTGTAAATTGAAG-TGTTTAAA-TGCTGCAAATTGAAGTGTTAAA-TGCTGCAAATTG
30035026 AAGTGT
63 AAGTGT
* * * *
30035032 TTAAATGCTATAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTATTTGAATGCTGTAAATTGA
1 TTAAATGCTGTAAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGT-GTTAAATGCTGCAAATTGA
30035096 AGTGT
64 AGTGT
30035101 TTAA
1 TTAA
30035105 GTTCTTATTT
Statistics
Matches: 225, Mismatches: 44, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
67 5 0.02
68 48 0.21
69 157 0.70
70 15 0.07
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (68 bp):
TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTAAATGCTGCAAATTGAAG
TGT
Found at i:30036036 original size:43 final size:43
Alignment explanation
Indices: 30035937--30036052 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
30035927 AAAAGTCATG
* * *
30035937 TAGCGGCGCTTTCCCCACCAACGCCGCTAAAGGCCATGACTTT
1 TAGCGGTGCTTTTCCCACAAACGCCGCTAAAGGCCATGACTTT
*
30035980 TAGCGGTGC-TTTCCCACAAATGCCGCTAAAGGCCATGACTTT
1 TAGCGGTGCTTTTCCCACAAACGCCGCTAAAGGCCATGACTTT
* *
30036022 TAGCGGTGCTTTTCCCACAAACACCGGTAAA
1 TAGCGGTGCTTTTCCCACAAACGCCGCTAAA
30036053 AGTGTAACGC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 39 0.60
43 26 0.40
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (43 bp):
TAGCGGTGCTTTTCCCACAAACGCCGCTAAAGGCCATGACTTT
Found at i:30037500 original size:40 final size:41
Alignment explanation
Indices: 30037439--30037580 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 41
30037429 AACCCAAGTA
* *
30037439 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* * *
30037478 CCTTCGGGTCTTAACCCGGATATAGTCAA-TAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
30037518 CCTTCGAGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
30037558 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30037581 TGTAACACTC
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
39 12 0.13
40 75 0.83
41 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:30045153 original size:40 final size:40
Alignment explanation
Indices: 30045094--30045345 Score: 330
Period size: 40 Copynumber: 6.3 Consensus size: 40
30045084 CATTTGAATG
*
30045094 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
30045134 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
30045174 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
30045214 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
30045254 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
30045294 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
30045334 ATATCC-GGCTAA
1 ATATCCGGGCTAA
30045346 ATTCCGAAGA
Statistics
Matches: 193, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
39 7 0.04
40 183 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:30050929 original size:29 final size:29
Alignment explanation
Indices: 30050895--30050968 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
30050885 TAATCAACCA
*
30050895 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
30050924 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
30050953 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
30050969 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:30052670 original size:40 final size:40
Alignment explanation
Indices: 30052612--30052694 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
30052602 GGCTGTCACA
*
30052612 GATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTCAATACCACAAATGCCTTCGGGACTTAGCCCG
*
30052652 GATATAGTCACTACCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTCAATACCACAAATGCCTTCGGGACTTAGCCCG
30052692 GAT
1 GAT
30052695 GTCATTCGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
GATATAGTCAATACCACAAATGCCTTCGGGACTTAGCCCG
Found at i:30059375 original size:40 final size:40
Alignment explanation
Indices: 30059301--30059560 Score: 416
Period size: 40 Copynumber: 6.5 Consensus size: 40
30059291 AACCCAAGTA
* *
30059301 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
30059340 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
30059380 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
30059420 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
30059460 CCTTCGGGACTTAGCCCGGATATAGTCACTACCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
30059500 CCTTCGGGACTTAGCCCGGATATAGTCACTACCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
30059540 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
30059561 GTCATTCGAA
Statistics
Matches: 209, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.06
40 194 0.93
41 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:30060007 original size:11 final size:11
Alignment explanation
Indices: 30059991--30060049 Score: 118
Period size: 11 Copynumber: 5.4 Consensus size: 11
30059981 TTCCCTTTCC
30059991 CCTTTCTTCTT
1 CCTTTCTTCTT
30060002 CCTTTCTTCTT
1 CCTTTCTTCTT
30060013 CCTTTCTTCTT
1 CCTTTCTTCTT
30060024 CCTTTCTTCTT
1 CCTTTCTTCTT
30060035 CCTTTCTTCTT
1 CCTTTCTTCTT
30060046 CCTT
1 CCTT
30060050 CCTCAAGTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 48 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (11 bp):
CCTTTCTTCTT
Found at i:30066010 original size:46 final size:46
Alignment explanation
Indices: 30065958--30066129 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
30065948 TGGGCATTCA
30065958 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* * *
30066004 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCG
* *
30066051 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* * **
30066097 AGCTCGTTGAGTTGAGTCTGAGTTTGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30066130 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 57 0.54
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
Found at i:30070135 original size:30 final size:29
Alignment explanation
Indices: 30070088--30070149 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
30070078 ATTTATTTTA
*
30070088 TTGTTAATTTTTTATTATTGTAGAAACAT
1 TTGTTAATTTTTTATTATTGTAAAAACAT
*
30070117 TTGTTAATTTTGTTATTATTTTAAAAACAT
1 TTGTTAATTTT-TTATTATTGTAAAAACAT
30070147 TTG
1 TTG
30070150 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (29 bp):
TTGTTAATTTTTTATTATTGTAAAAACAT
Found at i:30074144 original size:24 final size:21
Alignment explanation
Indices: 30074100--30074145 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
30074090 TTTGTAACAT
*
30074100 AAATAATATTTATTTAATAGA
1 AAATAATATTTATCTAATAGA
30074121 AAATAATATTCTACTCTAAGTAGA
1 AAATAATATT-TA-TCTAA-TAGA
30074145 A
1 A
30074146 TGGGGTGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 4 0.19
24 5 0.24
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (21 bp):
AAATAATATTTATCTAATAGA
Found at i:30085587 original size:51 final size:51
Alignment explanation
Indices: 30085540--30085642 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 51
30085530 CGAAGCTACT
* *
30085540 ACATAACATGTAA-CACATCCATAATGAACTCGGACCTCTCAACAAGCTCGG
1 ACATAACATG-AATCACATCCATAATGAACTCAGACCACTCAACAAGCTCGG
* * * *
30085591 ATATTACATGAATCGCATCCATCATGAACTCAGACCACTCAACAAGCTCGG
1 ACATAACATGAATCACATCCATAATGAACTCAGACCACTCAACAAGCTCGG
30085642 A
1 A
30085643 TGCTTGCATC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 2 0.04
51 43 0.96
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (51 bp):
ACATAACATGAATCACATCCATAATGAACTCAGACCACTCAACAAGCTCGG
Found at i:30091088 original size:40 final size:40
Alignment explanation
Indices: 30091028--30091120 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
30091018 GATATCTATT
*
30091028 ACACTAAGTGCCGTACATAGCTGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATACATAGCTGAAGCTATCTCAAATCGC
* * * *
30091068 ACATTAAGTGCCATATATAGCTGAAGCTATGTCGAATCGC
1 ACACTAAGTGCCATACATAGCTGAAGCTATCTCAAATCGC
30091108 ACACTAAGTGCCA
1 ACACTAAGTGCCA
30091121 CAAATAGCCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCTGAAGCTATCTCAAATCGC
Found at i:30095598 original size:15 final size:15
Alignment explanation
Indices: 30095566--30095594 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30095556 ATTTTCTATG
30095566 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
30095581 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
30095595 ATTTCCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:30095833 original size:22 final size:23
Alignment explanation
Indices: 30095808--30095852 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
30095798 AAAGGTTATT
*
30095808 TAAG-TAATTTAATAAAACATTA
1 TAAGTTAATATAATAAAACATTA
30095830 TAAGTTATAATATAATAAAACAT
1 TAAG-T-TAATATAATAAAACAT
30095853 AAAAACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
25 15 0.79
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (23 bp):
TAAGTTAATATAATAAAACATTA
Found at i:30096905 original size:16 final size:15
Alignment explanation
Indices: 30096864--30096905 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
30096854 GTGTGAAATA
*
30096864 CAGGCTTATGGCTAG
1 CAGGCTTATGCCTAG
30096879 CAGGCTTATGCCTAG
1 CAGGCTTATGCCTAG
30096894 CAGGCTTTATGC
1 CAGGC-TTATGC
30096906 TAGTGATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (15 bp):
CAGGCTTATGCCTAG
Found at i:30117768 original size:16 final size:16
Alignment explanation
Indices: 30117749--30117785 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
30117739 TTTCATTAAG
30117749 TTTTTAAGACTCATTT
1 TTTTTAAGACTCATTT
*
30117765 TTTTTAAGATTCATTT
1 TTTTTAAGACTCATTT
*
30117781 GTTTT
1 TTTTT
30117786 CTTTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTTTAAGACTCATTT
Found at i:30120420 original size:27 final size:27
Alignment explanation
Indices: 30120389--30120566 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30120379 TAAATTGTAC
30120389 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30120416 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
30120442 ATGCACTAAGTGTGCGAACTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30120470 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30120498 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30120525 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30120552 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30120567 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30120503 original size:82 final size:81
Alignment explanation
Indices: 30120390--30120540 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
30120380 AAATTGTACA
* *
30120390 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30120454 TGCGAACTGACCATGCG
65 TGCGAACTGACCATGCG
** *
30120471 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
30120536 TGCGA
65 TGCGA
30120541 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAACTGACCATGCG
Found at i:30141150 original size:13 final size:13
Alignment explanation
Indices: 30141132--30141167 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
30141122 CGTGTGTGAC
30141132 ACATGGCCATTCG
1 ACATGGCCATTCG
30141145 ACATGGCCATTCG
1 ACATGGCCATTCG
30141158 ACATGGCCAT
1 ACATGGCCAT
30141168 GTGTCCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (13 bp):
ACATGGCCATTCG
Found at i:30142711 original size:13 final size:13
Alignment explanation
Indices: 30142695--30142719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30142685 ATTCGAGAGA
30142695 TTTTGGAGAGAAT
1 TTTTGGAGAGAAT
30142708 TTTTGGAGAGAA
1 TTTTGGAGAGAA
30142720 AAGGTTTAGA
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:0.32, T:0.36
Consensus pattern (13 bp):
TTTTGGAGAGAAT
Found at i:30145126 original size:17 final size:17
Alignment explanation
Indices: 30145101--30145133 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30145091 TGTATACGGT
*
30145101 ATTGTTTGTTTGTATTA
1 ATTGATTGTTTGTATTA
30145118 ATTGATTGTTTGTATT
1 ATTGATTGTTTGTATT
30145134 CATTAGTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (17 bp):
ATTGATTGTTTGTATTA
Found at i:30154170 original size:20 final size:20
Alignment explanation
Indices: 30154133--30154172 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30154123 AGAAACTGAT
*
30154133 ACTTCTGAAAGATTTTTGAA
1 ACTTCTGAAAGATATTTGAA
30154153 ACTTCTGATAA-ATATTTGAA
1 ACTTCTGA-AAGATATTTGAA
30154173 GCATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (20 bp):
ACTTCTGAAAGATATTTGAA
Found at i:30162420 original size:16 final size:17
Alignment explanation
Indices: 30162399--30162432 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
30162389 AATATTAGGG
30162399 GCAAAAGTAT-AATTTT
1 GCAAAAGTATGAATTTT
30162415 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
30162432 G
1 G
30162433 GACTAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:30166319 original size:25 final size:25
Alignment explanation
Indices: 30166275--30166322 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
30166265 ACGAATTTTC
*
30166275 TCAAAATTTTATCGGGGTAAAATCA
1 TCAAAATTTTATCGGAGTAAAATCA
30166300 TCAAAATTTTA-CAGGAGTAAAAT
1 TCAAAATTTTATC-GGAGTAAAAT
30166323 TGGGATGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (25 bp):
TCAAAATTTTATCGGAGTAAAATCA
Found at i:30169160 original size:114 final size:114
Alignment explanation
Indices: 30169024--30169353 Score: 518
Period size: 114 Copynumber: 2.9 Consensus size: 114
30169014 CAATCATAAT
*
30169024 CATATCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACATTCATGTATTGTGTTCTGC
1 CATATCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACATTCATGTATTGTGTTTTGC
* *
30169089 CATTCCAGTTTCATCTTACTGGAGGCTACACTATGAACATTCATACAGC
66 CATTCCAGTTTCATCTTACTAGAGGCTACACCATGAACATTCATACAGC
* * *
30169138 CATATCATATCATGCCAAGGGTCTTAACCACATGGTCTTATACACATTCATGTATAT-TGTTTTT
1 CATATCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACATTCATGTAT-TGTGTTTTG
* *
30169202 TCATTCTAGTTTCATCTTACTAGAGGCTACACCATGAACATTCATACAGC
65 CCATTCCAGTTTCATCTTACTAGAGGCTACACCATGAACATTCATACAGC
* * * *
30169252 CATATCATATCATGTCATGGGTATTAACCACATGGTCTTACACATATTCATGTATCGTGTTTTGC
1 CATATCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACATTCATGTATTGTGTTTTGC
* *
30169317 CATTCCAGTTTTAGCTTACTAGAGGCTACACCATGAA
66 CATTCCAGTTTCATCTTACTAGAGGCTACACCATGAA
30169354 TGGTTCCAAT
Statistics
Matches: 195, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
114 194 0.99
115 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (114 bp):
CATATCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACATTCATGTATTGTGTTTTGC
CATTCCAGTTTCATCTTACTAGAGGCTACACCATGAACATTCATACAGC
Found at i:30172526 original size:11 final size:11
Alignment explanation
Indices: 30172512--30172542 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
30172502 ATGATGTTGA
30172512 TGATATTTTGG
1 TGATATTTTGG
30172523 TGATATTTTGG
1 TGATATTTTGG
30172534 TGATTATTT
1 TGA-TATTT
30172543 ATTTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (11 bp):
TGATATTTTGG
Found at i:30172610 original size:23 final size:23
Alignment explanation
Indices: 30172568--30172611 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
30172558 TAAATATTAT
*
30172568 TTTATTAATATTTTGCTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
30172591 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
30172612 AAAATGATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:30181553 original size:39 final size:39
Alignment explanation
Indices: 30181510--30181593 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 39
30181500 CATGTTTCTA
* ** *
30181510 AGTATTACGAAATATTCTTGAATGTTATGTGATTATATG
1 AGTATTACGAAATATGCTTGAACATTATGTAATTATATG
* * *
30181549 AGTATTGCGATATGTGCTTGAACATTATGTAATTATATG
1 AGTATTACGAAATATGCTTGAACATTATGTAATTATATG
30181588 AGTATT
1 AGTATT
30181594 GTGATACATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (39 bp):
AGTATTACGAAATATGCTTGAACATTATGTAATTATATG
Found at i:30181623 original size:39 final size:39
Alignment explanation
Indices: 30181530--30181626 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 39
30181520 AATATTCTTG
** *
30181530 AATGTTATGTGATTATATGAGTATTGCGATATGTGCTTG
1 AATGTTATGTGATTATATGAGTATTGCGATACATGCTTA
** * * *
30181569 AACATTATGTAATTATATGAGTATTGTGATACATGGTTA
1 AATGTTATGTGATTATATGAGTATTGCGATACATGCTTA
*
30181608 AATGTTTTGTGATTATATG
1 AATGTTATGTGATTATATG
30181627 TGTAATATGA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (39 bp):
AATGTTATGTGATTATATGAGTATTGCGATACATGCTTA
Found at i:30187614 original size:40 final size:40
Alignment explanation
Indices: 30187577--30187762 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
30187567 GCTACTCGTT
* *
30187577 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
30187617 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAATCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
30187657 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
30187697 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
30187738 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30187763 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30192269 original size:218 final size:219
Alignment explanation
Indices: 30191904--30192414 Score: 658
Period size: 218 Copynumber: 2.3 Consensus size: 219
30191894 CTTCAACCTA
* * * * * *
30191904 CTCCACTGCAACCT-AAGGGAGATAAGATTACCGGCTTCAATCTGCTCCACTACTACTTAGAGAG
1 CTCCACTGCAACTTCAA-GGAGATAGGATTACTGGCTTCAATCTGCTTCACTACTGCTTAGGGAG
* *
30191968 ATAAGATCT-TCCATCCTCGATATGCCCTACTATTAGTTAGGAAGATAAGTTCCGTAATTCTTCG
65 ATAAGATCTGTCCATCCTCGATATGCCCTACTACTAGTTAGGAAGATAAGTTCCGTAATTCTTCA
* * * *
30192032 GCCTCCTCCGCTGCAACTTCAGGGAGATAAGACTTGATACAAACTACTCTACTGCAACTTCAGAG
130 GCCTACTCCACTGCAACTTCAGGGAGATAAGACCTAATACAAACTACTCTACTGCAACTTCAGAG
*
30192097 AGATAAGATCTTTTATTTTAATCCG
195 AGAAAAGATCTTTTATTTTAATCCG
* * *
30192122 CTCCAATGCAACTTCAAGGAGATAGGATTATTGGCTTCAATCTGCTTCACTACTGCTCAGGGAGA
1 CTCCACTGCAACTTCAAGGAGATAGGATTACTGGCTTCAATCTGCTTCACTACTGCTTAGGGAGA
* * *
30192187 TAAGATCTGT-CATCTTCGATCTGCTCC-ACTACT-GCTTAGGAAGATAAGATT-TGTAATTCTT
66 TAAGATCTGTCCATCCTCGATATGC-CCTACTACTAG-TTAGGAAGATAAG-TTCCGTAATTCTT
* * * * * * *
30192248 CAGTCTACTCCATTTCAACTTCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAG
128 CAGCCTACTCCACTGCAACTTCAGGGAGATAAGACCTAATACAAACTACTCTACTGCAACTTCAG
*
30192313 AGAGAAAAGATCTTTTATTTTAATCTG
193 AGAGAAAAGATCTTTTATTTTAATCCG
* *
30192340 CTCCACTTCAACTTCAAGGAGATAGGATTACTGGCTTCAATCTAC-TCTACTACTGCTTAGGGAG
1 CTCCACTGCAACTTCAAGGAGATAGGATTACTGGCTTCAATCTGCTTC-ACTACTGCTTAGGGAG
*
30192404 ATACGATCTGT
65 ATAAGATCTGT
30192415 AATTTCATTA
Statistics
Matches: 254, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
217 3 0.01
218 244 0.96
219 7 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (219 bp):
CTCCACTGCAACTTCAAGGAGATAGGATTACTGGCTTCAATCTGCTTCACTACTGCTTAGGGAGA
TAAGATCTGTCCATCCTCGATATGCCCTACTACTAGTTAGGAAGATAAGTTCCGTAATTCTTCAG
CCTACTCCACTGCAACTTCAGGGAGATAAGACCTAATACAAACTACTCTACTGCAACTTCAGAGA
GAAAAGATCTTTTATTTTAATCCG
Found at i:30195820 original size:65 final size:65
Alignment explanation
Indices: 30195716--30195845 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
30195706 TAAGGCACAA
30195716 CACAACTTCTCAATGGACGAGTACCTCATTTCACAATCAGTGAATTTCTTGCTGAGATAGTATAT
1 CACAACTTCTCAATGGACGAGTACCTCATTTCACAATCAGTGAATTTCTTGCTGAGATAGTATAT
30195781 CACAACTTCTCAATGGACGAGTACCTCATTTCACAATCAGTGAATTTCTTGCTGAGATAGTATAT
1 CACAACTTCTCAATGGACGAGTACCTCATTTCACAATCAGTGAATTTCTTGCTGAGATAGTATAT
30195846 TGCCCTTTCC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (65 bp):
CACAACTTCTCAATGGACGAGTACCTCATTTCACAATCAGTGAATTTCTTGCTGAGATAGTATAT
Found at i:30200410 original size:21 final size:21
Alignment explanation
Indices: 30200371--30200410 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30200361 ATTGCCCTAA
* *
30200371 ATTTCTCTTCAATCCATTTCC
1 ATTTCTCCTCAAACCATTTCC
*
30200392 ATTTCTCCTCAAACTATTT
1 ATTTCTCCTCAAACCATTT
30200411 TGGCAATTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTCTCCTCAAACCATTTCC
Found at i:30205249 original size:21 final size:19
Alignment explanation
Indices: 30205199--30205250 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 19
30205189 TTTGAAGACA
*
30205199 AATTTAAATATGATAAAAC
1 AATTTAAAAATGATAAAAC
30205218 AACTTTGAAAAATGATAACAAC
1 AA-TTT-AAAAATGATAA-AAC
30205240 AATTATAAAAA
1 AATT-TAAAAA
30205251 AATATTAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.07
20 3 0.11
21 17 0.61
22 6 0.21
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (19 bp):
AATTTAAAAATGATAAAAC
Found at i:30209856 original size:27 final size:26
Alignment explanation
Indices: 30209837--30210143 Score: 337
Period size: 27 Copynumber: 11.4 Consensus size: 26
30209827 GGGTATAACA
* *
30209837 GTCATTTTACCCTATCGGGGTATTTC
1 GTCATTCTACCCTATGGGGGTATTTC
*
30209863 GATCATTCTACCCTATGGGGGTATTTT
1 G-TCATTCTACCCTATGGGGGTATTTC
30209890 GATCATTCTACCCTATGGGGGTATTTC
1 G-TCATTCTACCCTATGGGGGTATTTC
30209917 AGTCATTCTACCCTATGGGGGTATTTC
1 -GTCATTCTACCCTATGGGGGTATTTC
*
30209944 GGTCATTCTACCCTATGGGTGTATTTC
1 -GTCATTCTACCCTATGGGGGTATTTC
* *
30209971 GATCATTCTACCCTATTGGAGTATTTC
1 G-TCATTCTACCCTATGGGGGTATTTC
30209998 GGTCATTCTACCCTATGGGGGTATTTC
1 -GTCATTCTACCCTATGGGGGTATTTC
*
30210025 GATCATTCTACCCTAT-GGGGTATTTTG
1 G-TCATTCTACCCTATGGGGGTA-TTTC
* * * *
30210052 GTTATTTTAACTTATGGGGGTATTTC
1 GTCATTCTACCCTATGGGGGTATTTC
* * *
30210078 GGTCATTTTACCCTATGAGGGTATTTTG
1 -GTCATTCTACCCTATGGGGGTA-TTTC
* * * *
30210106 GTTATTTTATCCTATAGGGGTATTTC
1 GTCATTCTACCCTATGGGGGTATTTC
*
30210132 GGTCATTTTACC
1 -GTCATTCTACC
30210144 TAGTTTGAGG
Statistics
Matches: 243, Mismatches: 28, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
26 25 0.10
27 213 0.88
28 5 0.02
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (26 bp):
GTCATTCTACCCTATGGGGGTATTTC
Found at i:30209884 original size:54 final size:54
Alignment explanation
Indices: 30209837--30210143 Score: 393
Period size: 54 Copynumber: 5.7 Consensus size: 54
30209827 GGGTATAACA
* * *
30209837 GTCATTTTACCCTATCGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
*
30209891 ATCATTCTACCCTATGGGGGTATTTC-AGTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCGA-TCATTCTACCCTATGGGGGTATTTCG
* * *
30209945 GTCATTCTACCCTATGGGTGTATTTCGATCATTCTACCCTATTGGAGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
*
30209999 GTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTAT-GGGGTATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
* * * * * * * *
30210052 GTTATTTTAACTTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
* * * * * *
30210106 GTTATTTTATCCTATAGGGGTATTTCGGTCATTTTACC
1 GTCATTCTACCCTATGGGGGTATTTCGATCATTCTACC
30210144 TAGTTTGAGG
Statistics
Matches: 229, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
53 46 0.20
54 182 0.79
55 1 0.00
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (54 bp):
GTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
Found at i:30209950 original size:81 final size:81
Alignment explanation
Indices: 30209826--30210130 Score: 387
Period size: 81 Copynumber: 3.8 Consensus size: 81
30209816 TCATCTCCTA
** * *
30209826 GGGGTATAACAGTCATTTTACCCTATCGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTTG
1 GGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTTG
30209891 ATCATTCTACCCTATG
66 ATCATTCTACCCTATG
* * *
30209907 GGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGTGTATTTCG
1 GGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTTG
*
30209972 ATCATTCTACCCTATT
66 ATCATTCTACCCTATG
* *
30209988 GGAGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTAT-GGGGTATTTTG
1 GGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTTG
* * * * *
30210052 GTTATTTTAACTTATG
66 ATCATTCTACCCTATG
* * * * * * * * *
30210068 GGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTTATTTTATCCTATAGGGGTATTT
1 GGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTT
30210131 CGGTCATTTT
Statistics
Matches: 196, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 64 0.33
81 132 0.67
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (81 bp):
GGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTTG
ATCATTCTACCCTATG
Found at i:30211589 original size:56 final size:51
Alignment explanation
Indices: 30211513--30211803 Score: 322
Period size: 50 Copynumber: 5.7 Consensus size: 51
30211503 ATTTGGGTAA
* * * *
30211513 AGAGATCCCATGTAAGACCATGTCAGGGACATGTCATTGGCATCATTGACATTATG
1 AGAGGTCCCATGTAAGACCATGTCAGGGACATGGCGTTGGCATC---GA-A-GATG
30211569 AGAGGTCCCATGTAAGACCATGTCTA-GGACATGGCGTTGGCATC-AAGATG
1 AGAGGTCCCATGTAAGACCATGTC-AGGGACATGGCGTTGGCATCGAAGATG
* ** *
30211619 AGAGGTCCCATGTAAGACCATATTTGGGACATGGCGTTGGCACCG-AGATG
1 AGAGGTCCCATGTAAGACCATGTCAGGGACATGGCGTTGGCATCGAAGATG
* * * *
30211669 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGTGTTGGCACCG-AGATG
1 AGAGGTCCCATGTAAGACCATGTCAGGGACATGGCGTTGGCATCGAAGATG
* * * *
30211719 AGAGGTCCCATGTAATACCATGTCTGGGACATGGCGTTAGCA-CCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCAGGGACATGGCGTTGGCATCGAAGATG
** *
30211769 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCAGGGACATGGC
30211804 ATGGGCACCT
Statistics
Matches: 211, Mismatches: 20, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
49 1 0.00
50 168 0.80
51 1 0.00
52 1 0.00
56 39 0.18
57 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCAGGGACATGGCGTTGGCATCGAAGATG
Found at i:30211621 original size:50 final size:50
Alignment explanation
Indices: 30211566--30211909 Score: 388
Period size: 50 Copynumber: 6.9 Consensus size: 50
30211556 CATTGACATT
* *
30211566 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCATCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
* * *
30211616 ATGAGAGGTCCCATGTAAGACCATATTTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
* * *
30211666 ATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
* *
30211716 ATGAGAGGTCCCATGTAATACCATGTCTGGGACATGGCGTTAGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
** * * * *
30211766 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
** * * * * * *
30211816 ATGAGAACTCTCATGTAAGACCATATCTGGGATATGACATTGGCAGTACAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--CCAAG
** * * *
30211868 A--A-ACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
30211910 TGTTATATTC
Statistics
Matches: 249, Mismatches: 43, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
49 31 0.12
50 215 0.86
52 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
Found at i:30219820 original size:31 final size:32
Alignment explanation
Indices: 30219764--30219826 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
30219754 AAATTACAAT
30219764 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
30219796 AGTAATTGAATCCTAAT-AAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
30219827 TTATCTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAA
Found at i:30224955 original size:6 final size:6
Alignment explanation
Indices: 30224944--30224969 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30224934 CAATTTTGGG
30224944 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
30224970 TAACAATAAT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:30225045 original size:20 final size:19
Alignment explanation
Indices: 30225018--30225064 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
30225008 GTAGGCAACT
30225018 TTTTTTTTGCGCTTTTTGC
1 TTTTTTTTGCGCTTTTTGC
*
30225037 TTCTTTTTTGCGCTTTTTTC
1 TT-TTTTTTGCGCTTTTTGC
30225057 TTTTTTTT
1 TTTTTTTT
30225065 AAAGAATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.00, C:0.15, G:0.11, T:0.74
Consensus pattern (19 bp):
TTTTTTTTGCGCTTTTTGC
Found at i:30225663 original size:31 final size:32
Alignment explanation
Indices: 30225604--30225668 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
30225594 GGAAAATTAC
30225604 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
30225636 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
30225667 AA
1 AA
30225669 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:30240134 original size:17 final size:17
Alignment explanation
Indices: 30240093--30240148 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
30240083 TTTCTTTTTC
30240093 TTCTTTTTCAATCTCTT
1 TTCTTTTTCAATCTCTT
*
30240110 TTGC-TTTTCACTCTCTT
1 TT-CTTTTTCAATCTCTT
*
30240127 TTCTTTTTGAAATCTCATT
1 TTCTTTTT-CAATCTC-TT
30240146 TTC
1 TTC
30240149 ATCTTTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.03
17 20 0.62
18 6 0.19
19 5 0.16
ACGTcount: A:0.12, C:0.23, G:0.04, T:0.61
Consensus pattern (17 bp):
TTCTTTTTCAATCTCTT
Found at i:30240170 original size:15 final size:14
Alignment explanation
Indices: 30240150--30240197 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
30240140 CTCATTTTCA
30240150 TCTTTTTCTTTTATT
1 TCTTTTTCTTTT-TT
*
30240165 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
*
30240179 TCTCATTTCTTTTTT
1 TCT-TTTTCTTTTTT
30240194 TCTT
1 TCTT
30240198 CTCTCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:30240202 original size:22 final size:21
Alignment explanation
Indices: 30240150--30240208 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
30240140 CTCATTTTCA
* *
30240150 TCTTTTTCTTTTATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
30240171 TCTTTTTCTCTCATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
*
30240192 T-TTCTTCTCTCAATTTC
1 TCTTTTTCTCTC-ATTTC
30240209 ATTCAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTTTTCTCTCATTTCTTTT
Found at i:30241225 original size:11 final size:11
Alignment explanation
Indices: 30241209--30241251 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 11
30241199 GAATACAAAC
30241209 TTTTTTTTTAA
1 TTTTTTTTTAA
30241220 TTTTTTTTTCAA
1 TTTTTTTTT-AA
*
30241232 ATTTTTTTTATA
1 TTTTTTTTTA-A
30241244 TTTTTTTT
1 TTTTTTTT
30241252 ACAATACCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:30241227 original size:13 final size:13
Alignment explanation
Indices: 30241204--30241240 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
30241194 AAATTGAATA
30241204 CAAACTTTTTTTTT
1 CAAA-TTTTTTTTT
30241218 --AATTTTTTTTT
1 CAAATTTTTTTTT
30241229 CAAATTTTTTTT
1 CAAATTTTTTTT
30241241 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (13 bp):
CAAATTTTTTTTT
Found at i:30241252 original size:11 final size:10
Alignment explanation
Indices: 30241210--30241252 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 10
30241200 AATACAAACT
30241210 TTTTTTTTAA
1 TTTTTTTTAA
30241220 TTTTTTTTTCAAA
1 -TTTTTTTT--AA
30241233 TTTTTTTTATA
1 TTTTTTTTA-A
30241244 TTTTTTTTA
1 TTTTTTTTA
30241253 CAATACCGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.03
11 18 0.62
12 8 0.28
13 2 0.07
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:30250568 original size:18 final size:17
Alignment explanation
Indices: 30250541--30250581 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
30250531 AATTTTTTTT
*
30250541 GAAAACAATAATAGAAAA
1 GAAAATAATAATA-AAAA
*
30250559 TAAAATAATAATAAAAA
1 GAAAATAATAATAAAAA
30250576 GAAAAT
1 GAAAAT
30250582 TATTATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (17 bp):
GAAAATAATAATAAAAA
Found at i:30252576 original size:26 final size:28
Alignment explanation
Indices: 30252533--30252587 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
30252523 TAGTTAAAAC
*
30252533 TCTTCTAAAAGAAAACTCA-AGAGAAAT
1 TCTTCTAAAAGAAAACTCAGAAAGAAAT
*
30252560 TCTTC-AAAAGAATACTCAGAAAGAAAT
1 TCTTCTAAAAGAAAACTCAGAAAGAAAT
30252587 T
1 T
30252588 TAATAACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.24
Consensus pattern (28 bp):
TCTTCTAAAAGAAAACTCAGAAAGAAAT
Found at i:30254318 original size:18 final size:18
Alignment explanation
Indices: 30254278--30254319 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
30254268 ACATTACTTT
*
30254278 TAAAAAATACTTTTAGGA
1 TAAAAAATACTTTTAAGA
*
30254296 CAAAAAATACTTTTAAGA
1 TAAAAAATACTTTTAAGA
30254314 TAAAAA
1 TAAAAA
30254320 TATTACTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (18 bp):
TAAAAAATACTTTTAAGA
Found at i:30259473 original size:21 final size:21
Alignment explanation
Indices: 30259447--30259491 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
30259437 TCACTCAAAA
30259447 GTATGTATTTCTTAGAAATAT
1 GTATGTATTTCTTAGAAATAT
30259468 GTATGTATTTCTTAGAAATAT
1 GTATGTATTTCTTAGAAATAT
30259489 GTA
1 GTA
30259492 CAACTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (21 bp):
GTATGTATTTCTTAGAAATAT
Found at i:30261188 original size:38 final size:38
Alignment explanation
Indices: 30261137--30261213 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
30261127 TTCTTGGAAG
30261137 TAAAACATTTAATTATCTTAGGGACCACTAATTTACAC
1 TAAAACATTTAATTATCTTAGGGACCACTAATTTACAC
30261175 TAAAACATTTAATTATCTTAGGGACCACTAATTTACAC
1 TAAAACATTTAATTATCTTAGGGACCACTAATTTACAC
30261213 T
1 T
30261214 CTTTTCCTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (38 bp):
TAAAACATTTAATTATCTTAGGGACCACTAATTTACAC
Found at i:30266117 original size:62 final size:62
Alignment explanation
Indices: 30266051--30266193 Score: 171
Period size: 62 Copynumber: 2.3 Consensus size: 62
30266041 AGAAGTTATT
* * * * *
30266051 ATGAAAATTTTCAAAAATT-TGAGGGGGTCTAATTAAATTTTTTTTAAAATTTCAAGGGAGAA
1 ATGAAAATTTCCAAAAATTAT-AGGGGGCCTAATTAAAATTTTCTAAAAATTTCAAGGGAGAA
* * *
30266113 ATGAAAATTTCCAAAAATTATTGGGGGCCTAATTAAAATTTTCTAAAAATTTCAAGTGAAAA
1 ATGAAAATTTCCAAAAATTATAGGGGGCCTAATTAAAATTTTCTAAAAATTTCAAGGGAGAA
* * *
30266175 ATCATAATTTCCTAAAATT
1 ATGAAAATTTCCAAAAATT
30266194 TTGAAGGGTC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
62 68 0.99
63 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (62 bp):
ATGAAAATTTCCAAAAATTATAGGGGGCCTAATTAAAATTTTCTAAAAATTTCAAGGGAGAA
Found at i:30267975 original size:23 final size:24
Alignment explanation
Indices: 30267945--30267990 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
30267935 TTAACCAGTC
*
30267945 TATTGGTACCT-AATTTTTTTTTA
1 TATTGGTACCTAAATATTTTTTTA
*
30267968 TATTGGTACTTAAATATTTTTTT
1 TATTGGTACCTAAATATTTTTTT
30267991 GGTCACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.61
Consensus pattern (24 bp):
TATTGGTACCTAAATATTTTTTTA
Found at i:30273545 original size:145 final size:144
Alignment explanation
Indices: 30273331--30273603 Score: 483
Period size: 145 Copynumber: 1.9 Consensus size: 144
30273321 AACTCAAGGT
* * *
30273331 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAGTCGCACCCTTCATGTAAATAATTTATAG
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGTCGCACCCTTAATGTAAATAATTTATAG
*
30273396 AAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGCA
66 AAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
30273461 TTTCAAGTTCGCAC
131 TTTCAAGTTCGCAC
*
30273475 ACTTACCTTTTCCGCTGTCCAAGATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAA-GTCGCACCCTTAATGTAAATAATTTATA
*
30273540 GAAAATATATGTTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
65 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
30273604 TACTTTAAAC
Statistics
Matches: 122, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
144 33 0.27
145 89 0.73
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (144 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGTCGCACCCTTAATGTAAATAATTTATAG
AAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
TTTCAAGTTCGCAC
Found at i:30273649 original size:29 final size:29
Alignment explanation
Indices: 30273586--30273653 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
30273576 TAATCAACCA
*
30273586 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
30273615 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
30273644 CGCACACTTA
1 CGCACACTTA
30273654 CCTTTTTCCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:30273733 original size:175 final size:174
Alignment explanation
Indices: 30273443--30273803 Score: 677
Period size: 175 Copynumber: 2.1 Consensus size: 174
30273433 ATCAACCGCG
*
30273443 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAGATCGACTCGA
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
*
30273508 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATGTTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
30273573 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
131 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
30273617 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTTCCGCTGTCCAAAATCGACTCG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACC-TTTTCCGCTGTCCAAAATCGACTCG
*
30273682 GTAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGC
65 ATAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGC
*
30273747 TTAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCG
130 TTAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
30273792 CACACTTAGTGC
1 CACACTTAGTGC
30273804 TGTACAATTT
Statistics
Matches: 182, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
174 39 0.21
175 143 0.79
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGA
TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCA
Found at i:30273795 original size:29 final size:30
Alignment explanation
Indices: 30273756--30273834 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
30273746 CTTAATAATC
30273756 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30273786 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30273815 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30273835 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30277603 original size:9 final size:9
Alignment explanation
Indices: 30277585--30277660 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
30277575 TTTGGTTAAA
*
30277585 AATTAACCG
1 AATTACCCG
30277594 AATTACCCG
1 AATTACCCG
*
30277603 AATTAACCG
1 AATTACCCG
30277612 AATTACCCG
1 AATTACCCG
*
30277621 AATTACCCA
1 AATTACCCG
*
30277630 AATTATCCG
1 AATTACCCG
*
30277639 AATTACTCG
1 AATTACCCG
30277648 AATTACCCG
1 AATTACCCG
30277657 AATT
1 AATT
30277661 GAATCACTAG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:30291025 original size:29 final size:29
Alignment explanation
Indices: 30290954--30291163 Score: 206
Period size: 29 Copynumber: 7.2 Consensus size: 29
30290944 GTATGCTAAA
* * * *
30290954 CGATGGTCGAAACCATCCATTTTCTTTAAT
1 CGATGGTTGAAACCATCCCTTTTC-ATATT
30290984 CGATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTTGAAACCATCCCTTTTCATATT
*
30291013 CGAAGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTTGAAACCATCCCTTTTCATATT
* ** ** *
30291042 CTATGGCCGTCACCATCCCTTTTTATATT
1 CGATGGTTGAAACCATCCCTTTTCATATT
* **
30291071 TGATGGTCT-TCACCATCCCTTTTCATATT
1 CGATGGT-TGAAACCATCCCTTTTCATATT
* *
30291100 CAATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTTGAAACCATCCCTTTTCATATT
** * *
30291129 CGATGGTTGTCACCATTCCTTTTCATTAAT
1 CGATGGTTGAAACCATCCCTTTTCA-TATT
30291159 CGATG
1 CGATG
30291164 CTCGTTGATA
Statistics
Matches: 149, Mismatches: 28, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
29 119 0.80
30 30 0.20
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (29 bp):
CGATGGTTGAAACCATCCCTTTTCATATT
Found at i:30310204 original size:20 final size:20
Alignment explanation
Indices: 30310179--30310240 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
30310169 TTGTACGGGA
30310179 TTTGCACTTCAGTGTCTCTG
1 TTTGCACTTCAGTGTCTCTG
* * *
30310199 TTTGCACTTCGGTGCCTCTA
1 TTTGCACTTCAGTGTCTCTG
* * * *
30310219 TATACACTTCAATGTCCCTG
1 TTTGCACTTCAGTGTCTCTG
30310239 TT
1 TT
30310241 CACACTACGG
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.27, G:0.16, T:0.42
Consensus pattern (20 bp):
TTTGCACTTCAGTGTCTCTG
Found at i:30310293 original size:20 final size:21
Alignment explanation
Indices: 30310249--30310293 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
30310239 TTCACACTAC
**
30310249 GGTGCCCCTGTTTGCACATTT
1 GGTGCCCCTGTCAGCACATTT
30310270 -GTGCCCCTGTCAGCAC-TTT
1 GGTGCCCCTGTCAGCACATTT
30310289 GGTGC
1 GGTGC
30310294 TTCTGTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.09, C:0.31, G:0.27, T:0.33
Consensus pattern (21 bp):
GGTGCCCCTGTCAGCACATTT
Found at i:30311851 original size:38 final size:38
Alignment explanation
Indices: 30311800--30311875 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
30311790 ACACGGCCGT
*
30311800 GTGACCCTTGTTTTCTAATTTTTGCATGTTTTTCCTAA
1 GTGACCCTTGTTTTCCAATTTTTGCATGTTTTTCCTAA
*
30311838 GTGACCCTTGTTTTCCAATTTTTGTATGTTTTTCCTAA
1 GTGACCCTTGTTTTCCAATTTTTGCATGTTTTTCCTAA
30311876 ACTTTTTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (38 bp):
GTGACCCTTGTTTTCCAATTTTTGCATGTTTTTCCTAA
Found at i:30312537 original size:25 final size:25
Alignment explanation
Indices: 30312509--30312556 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
30312499 CATTAAGTGT
30312509 TTGCATCTTTTAATTATAATATGAA
1 TTGCATCTTTTAATTATAATATGAA
*
30312534 TTGCATCTTTTAATTATGATATG
1 TTGCATCTTTTAATTATAATATG
30312557 CATAATGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (25 bp):
TTGCATCTTTTAATTATAATATGAA
Done.