Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 98 of 144
Found at i:29975576 original size:28 final size:31
Alignment explanation
Indices: 29975544--29975602 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
29975534 TGTTTTGTTT
29975544 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
29975572 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
29975603 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:29984156 original size:36 final size:35
Alignment explanation
Indices: 29984057--29984338 Score: 237
Period size: 35 Copynumber: 7.8 Consensus size: 35
29984047 AGGCCGACAT
* *
29984057 TTAAAAAAGGTTGGGATAAACCTGTCTGAAGA-AATC
1 TTAAAAAA-GTTGGGATAGACCTGTCT-AAGACAACC
* * *
29984093 TTAAAAAGGTTAGGATAGACCTATCTAAGACAACC
1 TTAAAAAAGTTGGGATAGACCTGTCTAAGACAACC
* *
29984128 TTAAAAAATTTGGAATAGACCTTGTCTAA-AGCAACC
1 TTAAAAAAGTTGGGATAGACC-TGTCTAAGA-CAACC
* * * * *
29984164 TTTAAAAAAGGTTAGAATAGACCCGTCTAAAATAACC
1 -TTAAAAAA-GTTGGGATAGACCTGTCTAAGACAACC
* *
29984201 TTAGAAAGGTTGGGATAGACCTTGTCTAA-AGCAACC
1 TTAAAAAAGTTGGGATAGACC-TGTCTAAGA-CAACC
* * * * *
29984237 CTAAAAAGGTTGGGATAGACATTGTCTAAGGCAATCT
1 TTAAAAAAGTTGGGATAGAC-CTGTCTAAGACAA-CC
*
29984274 TTAAAAAAAGTTGGGATAGACCTATCTAAGACAACC
1 TT-AAAAAAGTTGGGATAGACCTGTCTAAGACAACC
* * *
29984310 TTAAAAAGGTTGGGATAGACATGTTTAAG
1 TTAAAAAAGTTGGGATAGACCTGTCTAAG
29984339 GCCATTTTTT
Statistics
Matches: 199, Mismatches: 35, Indels: 25
0.77 0.14 0.10
Matches are distributed among these distances:
34 4 0.02
35 71 0.36
36 65 0.33
37 30 0.15
38 29 0.15
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (35 bp):
TTAAAAAAGTTGGGATAGACCTGTCTAAGACAACC
Found at i:29984184 original size:73 final size:71
Alignment explanation
Indices: 29984057--29984338 Score: 282
Period size: 73 Copynumber: 3.9 Consensus size: 71
29984047 AGGCCGACAT
* * * * *
29984057 TTAAAAAAGGTTGGGATAAACC-TGTCTGAAGAAATCTTAAAAAGGTTAGGATAGACCTATCTAA
1 TTAAAAAA-GTTGGGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGACCTGTCTAA
29984121 GACAACC
65 GACAACC
* * * *
29984128 TTAAAAAATTTGGAATAGACCTTGTCTAAAGCAACCTTTAAAAAAGGTTAGAATAGACCCGTCTA
1 TTAAAAAAGTTGGGATAGACCTTGTCTAAAGCAACC-TT-AAAAAGGTTAGGATAGACCTGTCTA
* *
29984193 AAATAACC
64 AGACAACC
* * * * *
29984201 TTAGAAAGGTTGGGATAGACCTTGTCTAAAGCAACCCTAAAAAGGTTGGGATAGACATTGTCTAA
1 TTAAAAAAGTTGGGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGAC-CTGTCTAA
* *
29984266 GGCAATCT
65 GACAA-CC
* * * *
29984274 TTAAAAAAAGTTGGGATAGACC-TATCT-AAGACAACCTTAAAAAGGTTGGGATAGACATGTTTA
1 TT-AAAAAAGTTGGGATAGACCTTGTCTAAAG-CAACCTTAAAAAGGTTAGGATAGACCTGTCTA
29984337 AG
64 AG
29984339 GCCATTTTTT
Statistics
Matches: 174, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
70 10 0.06
71 35 0.20
72 21 0.12
73 91 0.52
74 17 0.10
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (71 bp):
TTAAAAAAGTTGGGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTAGGATAGACCTGTCTAAG
ACAACC
Found at i:29984265 original size:109 final size:107
Alignment explanation
Indices: 29984056--29984329 Score: 334
Period size: 109 Copynumber: 2.5 Consensus size: 107
29984046 AAGGCCGACA
* * *
29984056 TTTAAAAAAGGTTGGGATAAACCTGTCTGAAGAAATCTTAAAAAGGTTAGGATAGACCTATCTAA
1 TTTAAAAAAGGTTGGGATAGACCTGTCT-AAGAAACCTTAAAAAGGTTGGGATAGACCTATCTAA
* * *
29984121 GACAACCTTAAAAAATTTGGAATAGACCTTGTCTAAAGCAACC
65 GACAACCCTAAAAAAGTTGGAATAGACATTGTCTAAAGCAACC
* * * * * *
29984164 TTTAAAAAAGGTTAGAATAGACCCGTCTAAAATAACCTTAGAAAGGTTGGGATAGACCTTGTCTA
1 TTTAAAAAAGGTTGGGATAGACCTGTCTAAGA-AACCTTAAAAAGGTTGGGATAGACC-TATCTA
* * * *
29984229 A-AGCAACCCTAAAAAGGTTGGGATAGACATTGTCTAAGGCAATC
64 AGA-CAACCCTAAAAAAGTTGGAATAGACATTGTCTAAAGCAACC
* *
29984273 TTTAAAAAAAGTTGGGATAGACCTATCTAAGACAACCTTAAAAAGGTTGGGATAGAC
1 TTTAAAAAAGGTTGGGATAGACCTGTCTAAGA-AACCTTAAAAAGGTTGGGATAGAC
29984330 ATGTTTAAGG
Statistics
Matches: 139, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
107 3 0.02
108 47 0.34
109 89 0.64
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (107 bp):
TTTAAAAAAGGTTGGGATAGACCTGTCTAAGAAACCTTAAAAAGGTTGGGATAGACCTATCTAAG
ACAACCCTAAAAAAGTTGGAATAGACATTGTCTAAAGCAACC
Found at i:29986557 original size:29 final size:31
Alignment explanation
Indices: 29986525--29986595 Score: 101
Period size: 34 Copynumber: 2.3 Consensus size: 31
29986515 AATATATGTC
29986525 ATTAAAAA-G-AACATAATATAATATTTTTA
1 ATTAAAAATGAAACATAATATAATATTTTTA
29986554 ATTAAAAAATGCATAACATAATATAATATTTTTA
1 ATT-AAAAATG-A-AACATAATATAATATTTTTA
29986588 ATTAAAAA
1 ATTAAAAA
29986596 ATGCATAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
29 3 0.08
30 5 0.14
31 1 0.03
33 5 0.14
34 23 0.62
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (31 bp):
ATTAAAAATGAAACATAATATAATATTTTTA
Found at i:29986573 original size:34 final size:34
Alignment explanation
Indices: 29986534--29986602 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
29986524 CATTAAAAAG
29986534 AACATAATATAATATTTTTAATTAAAAAATGCAT
1 AACATAATATAATATTTTTAATTAAAAAATGCAT
29986568 AACATAATATAATATTTTTAATTAAAAAATGCAT
1 AACATAATATAATATTTTTAATTAAAAAATGCAT
29986602 A
1 A
29986603 GTTTTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (34 bp):
AACATAATATAATATTTTTAATTAAAAAATGCAT
Found at i:29987041 original size:139 final size:140
Alignment explanation
Indices: 29986791--29987044 Score: 361
Period size: 139 Copynumber: 1.8 Consensus size: 140
29986781 GGACAAAGTC
* *
29986791 GACTCTTATTTAAGAGTTGTCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAG
1 GACTCTTATTTAAGAGTTGCCTTAGGCATGCATATCCCAAACCTTATACAAAGAGTTGGCCAAAG
* * * * *
29986856 CGCATGTTGGCAGGTCTATCCCAACACTTAGGAAAGTGTCGGCCCAAAAGTGTCAACATAATGTT
66 CGCATGCTGACAAGTCAATCCCAACACTTAGAAAAGTGTCGGCCCAAAAGTGTCAACATAATGTT
29986921 GGATACAACT
131 GGATACAACT
* *
29986931 GACTCTTATTTAAGTA-TTGCCTTAGGCATGTATATCCCAAATCTTAT-CAAAGAGTTGGCCAAA
1 GACTCTTATTTAAG-AGTTGCCTTAGGCATGCATATCCCAAACCTTATACAAAGAGTTGGCCAAA
* * *
29986994 GCATC-TGCTGACAAGTCAATCCCGACACTTAGAAAAGTGTTGGCCCAAAAG
65 GC-GCATGCTGACAAGTCAATCCCAACACTTAGAAAAGTGTCGGCCCAAAAG
29987045 AGTCGTATTA
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
139 57 0.57
140 42 0.42
141 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (140 bp):
GACTCTTATTTAAGAGTTGCCTTAGGCATGCATATCCCAAACCTTATACAAAGAGTTGGCCAAAG
CGCATGCTGACAAGTCAATCCCAACACTTAGAAAAGTGTCGGCCCAAAAGTGTCAACATAATGTT
GGATACAACT
Found at i:29988322 original size:27 final size:27
Alignment explanation
Indices: 29988243--29988346 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 27
29988233 TATACAGGTA
* * *
29988243 AACCCCAGCTCTCCTAACCAACTGGTG
1 AACCCCAGTTCGCCAAACCAACTGGTG
* * * ** *
29988270 AACTCGAGTTTGCCAAATTAATTGGTG
1 AACCCCAGTTCGCCAAACCAACTGGTG
*
29988297 AACCCCA-TCTCGCTAAACCAACTGGTG
1 AACCCCAGT-TCGCCAAACCAACTGGTG
29988324 AACCCCAGTTCGCCAAACCAACT
1 AACCCCAGTTCGCCAAACCAACT
29988347 AGCGAGCACT
Statistics
Matches: 58, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.21
Consensus pattern (27 bp):
AACCCCAGTTCGCCAAACCAACTGGTG
Found at i:29993246 original size:26 final size:27
Alignment explanation
Indices: 29993195--29993246 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
29993185 TATTAGTTAA
29993195 TCGATAAATAAATATTTTATTAATTTG
1 TCGATAAATAAATATTTTATTAATTTG
*
29993222 TCGATAAATTAATA-TTTATTAATTT
1 TCGATAAATAAATATTTTATTAATTT
29993247 AGAGAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (27 bp):
TCGATAAATAAATATTTTATTAATTTG
Found at i:29996087 original size:37 final size:36
Alignment explanation
Indices: 29996038--29996108 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
29996028 CATAGATATT
* *
29996038 CCACCTGAAACACGCCA-ACTGCTCATAAGAGCTAAA
1 CCACCCGAAACACGCCAGA-TGCTCATAAAAGCTAAA
29996074 CCACCCGATAACACGCCAGATGCTCATAAAAGCTA
1 CCACCCGA-AACACGCCAGATGCTCATAAAAGCTA
29996109 GTCTATCCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.38, C:0.34, G:0.14, T:0.14
Consensus pattern (36 bp):
CCACCCGAAACACGCCAGATGCTCATAAAAGCTAAA
Found at i:29998621 original size:7 final size:8
Alignment explanation
Indices: 29998604--29998628 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
29998594 TTGGAATATT
29998604 AAAATTAA
1 AAAATTAA
29998612 AAAATTAA
1 AAAATTAA
29998620 AAAATTAA
1 AAAATTAA
29998628 A
1 A
29998629 TAGAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATTAA
Found at i:29999068 original size:28 final size:27
Alignment explanation
Indices: 29999024--29999078 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
29999014 TAAATTACAT
**
29999024 TAACATGTTTAGTATTAACAAAAATAGC
1 TAACATGTTTACCATTAA-AAAAATAGC
*
29999052 TAACATGTTTACCATTAAAAATATAGC
1 TAACATGTTTACCATTAAAAAAATAGC
29999079 CGATGCCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (27 bp):
TAACATGTTTACCATTAAAAAAATAGC
Found at i:29999110 original size:3 final size:3
Alignment explanation
Indices: 29999102--29999931 Score: 1660
Period size: 3 Copynumber: 276.7 Consensus size: 3
29999092 CGTTAACATG
29999102 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999150 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999198 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999246 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999294 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999342 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999390 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999438 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999486 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999534 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999582 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999630 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999678 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999726 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999774 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999822 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999870 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29999918 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
29999932 AATGATTATT
Statistics
Matches: 827, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 827 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:30011418 original size:18 final size:17
Alignment explanation
Indices: 30011397--30011432 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
30011387 AAATATTGAG
*
30011397 TTTTTAAGTGTTTCTATT
1 TTTTTAAGT-TTTCGATT
30011415 TTTTTAAGTTTTCGATT
1 TTTTTAAGTTTTCGATT
30011432 T
1 T
30011433 AGTCCCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTTTAAGTTTTCGATT
Found at i:30019260 original size:101 final size:102
Alignment explanation
Indices: 30019141--30019325 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
30019131 AAAGTGATGG
* *
30019141 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA-C-CAAAATGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGCAAAATGAT-GGTCACATGTGTAGT
30019204 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * *
30019242 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGCAAAATGATGGTCACATGTGTAGTA
*
30019307 CTATGTGCATGCTACTATG
66 CTATGTGCAGGCTACTATG
30019326 TGAACCGATA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 36 0.47
102 34 0.45
103 6 0.08
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGCAAAATGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:30019261 original size:51 final size:50
Alignment explanation
Indices: 30019141--30019325 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 50
30019131 AAAGTGATGG
* * * * * * *
30019141 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACC--AAAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-AT-GA
*
30019191 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GA
* * * * *
30019242 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGA
*
30019293 TCACATGTGTAGTACTATGTGCATGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
30019326 TGAACCGATA
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
50 35 0.31
51 73 0.65
52 3 0.03
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGA
Found at i:30019327 original size:26 final size:26
Alignment explanation
Indices: 30019247--30019327 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
30019237 TTCGATCACG
*
30019247 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
* * *
30019273 CGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCATGCT-ACTA
30019298 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
30019324 TGTG
1 TGTG
30019328 AACCGATATC
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 17 0.41
26 22 0.54
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCATGCTACTA
Found at i:30019403 original size:46 final size:44
Alignment explanation
Indices: 30019332--30019421 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 44
30019322 TATGTGAACC
*
30019332 GATATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCCACCG
1 GATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CCACCG
* *
30019376 GATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCCACCG
1 GATATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCCACCG
30019422 TGTATCTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
44 13 0.32
45 2 0.05
46 23 0.57
47 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
GATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCCACCG
Found at i:30028940 original size:17 final size:17
Alignment explanation
Indices: 30028914--30028947 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
30028904 ATATTTTAGA
30028914 TTTATTATTTA-AAACT
1 TTTATTATTTAGAAACT
30028930 TTTAGTTATTTAGAAACT
1 TTTA-TTATTTAGAAACT
30028948 ATGATGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTATTATTTAGAAACT
Found at i:30031560 original size:91 final size:91
Alignment explanation
Indices: 30031405--30031578 Score: 231
Period size: 91 Copynumber: 1.9 Consensus size: 91
30031395 TCATCCACAT
* * * **
30031405 ATTATCTAGCAGCTTTTATCTAAAATTAAGTTGTGTATTTACAACCATCTGGCGGCGTATTAACC
1 ATTATCTAGCAGCTTTTATCTAAAATTAAGTTGTGTACTCACAACCATCTAGCAACGTATTAACC
* *
30031470 TACAACTTTTGGTTGTTCGCCCACCC
66 TACAACATTTGGTGGTTCGCCCACCC
* * * * *
30031496 ATTATCTGGTAGCTTTTATCTACAATTATGTTGTGTACTCACAATCATCTAGCAACGTATTAACC
1 ATTATCTAGCAGCTTTTATCTAAAATTAAGTTGTGTACTCACAACCATCTAGCAACGTATTAACC
*
30031561 TGCAACATTTGGTGGTTC
66 TACAACATTTGGTGGTTC
30031579 ATCCACAACC
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
91 70 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (91 bp):
ATTATCTAGCAGCTTTTATCTAAAATTAAGTTGTGTACTCACAACCATCTAGCAACGTATTAACC
TACAACATTTGGTGGTTCGCCCACCC
Found at i:30034166 original size:18 final size:19
Alignment explanation
Indices: 30034114--30034168 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
30034104 TTACAAAAAG
*
30034114 AAATTCAAAATAGTTT-TTA
1 AAATTCAAAATA-TTTATAA
30034133 AAATTCAAAATATTTATAA
1 AAATTCAAAATATTTATAA
*
30034152 AAATTCTAAAT-TTTATA
1 AAATTCAAAATATTTATA
30034169 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 9 0.27
19 24 0.73
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (19 bp):
AAATTCAAAATATTTATAA
Found at i:30041131 original size:39 final size:40
Alignment explanation
Indices: 30041031--30041215 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
30041021 TTGAATGATG
* * *
30041031 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAT
* * *
30041070 ATACGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGTGAGTTACTAAT
* *
30041111 TCCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAT
* *
30041150 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAT
* *
30041189 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30041216 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAT
Found at i:30041229 original size:40 final size:40
Alignment explanation
Indices: 30041112--30041234 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 40
30041102 GATACTAATT
* *** *
30041112 CCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
30041150 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
30041191 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
30041231 CCGG
1 CCGG
30041235 TTAAATTCCG
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 10 0.14
40 60 0.83
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:30046268 original size:23 final size:22
Alignment explanation
Indices: 30046237--30046288 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
30046227 TTTTGTTATA
30046237 TATATATATACATGCATACATTTT
1 TATA-ATATACATGCATA-ATTTT
* * *
30046261 TATAATATACGTTCATATTTTT
1 TATAATATACATGCATAATTTT
30046283 TATAAT
1 TATAAT
30046289 TTATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.40
23 11 0.44
24 4 0.16
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.50
Consensus pattern (22 bp):
TATAATATACATGCATAATTTT
Found at i:30046349 original size:35 final size:36
Alignment explanation
Indices: 30046275--30046349 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
30046265 ATATACGTTC
*
30046275 ATATTTTTTATAATTTATATATATAAATACTTATAT
1 ATATTTTTTATAATTTATATATATAAATACATATAT
* * * *
30046311 ATATTTTTTATATTTTATA-ATTTATATACATATCT
1 ATATTTTTTATAATTTATATATATAAATACATATAT
30046346 ATAT
1 ATAT
30046350 ATATCTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 16 0.47
36 18 0.53
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (36 bp):
ATATTTTTTATAATTTATATATATAAATACATATAT
Found at i:30046402 original size:42 final size:42
Alignment explanation
Indices: 30046320--30046412 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
30046310 TATATTTTTT
* * *
30046320 ATATTTTATAATTTATATACATATCTATATATATCTATATAC
1 ATATTTTATAATTTATATAAATATATATACATATCTATATAC
* *
30046362 ATATTTTTTAATTT-TCATAAATATATATACATA-CTGATATAT
1 ATATTTTATAATTTAT-ATAAATATATATACATATCT-ATATAC
30046404 ATATTTTAT
1 ATATTTTAT
30046413 TATATCTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
41 3 0.07
42 40 0.93
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.52
Consensus pattern (42 bp):
ATATTTTATAATTTATATAAATATATATACATATCTATATAC
Found at i:30046402 original size:52 final size:51
Alignment explanation
Indices: 30046306--30046405 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 51
30046296 TATAAATACT
* *
30046306 TATATATATTTTTTATATTTTATAATTTATATACATATCTATATATATCTA
1 TATACATATTTTTTATATTTTATAATATATATACATATCTATATATATCTA
30046357 TATACATATTTTTTA-ATTTTCATAAATATATATACATA-CTGATATATAT
1 TATACATATTTTTTATATTTT-AT-AATATATATACATATCT-ATATATAT
30046406 ATTTTATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
50 5 0.11
51 18 0.41
52 21 0.48
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (51 bp):
TATACATATTTTTTATATTTTATAATATATATACATATCTATATATATCTA
Found at i:30052344 original size:44 final size:44
Alignment explanation
Indices: 30052290--30052383 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
30052280 ACTTGGTTAA
*
30052290 AAAGAGAAGCTAAGTCCTTTTTATCGGACCATATGAGATCACGG
1 AAAGAGAAGCTAAGTCCTTTTTATCGGAACATATGAGATCACGG
*
30052334 AAAGANAAGCTAAGTCCTTTTTATCGGAACATATGAGATCACGG
1 AAAGAGAAGCTAAGTCCTTTTTATCGGAACATATGAGATCACGG
30052378 AAAGAG
1 AAAGAG
30052384 TGGAACCAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.23
Consensus pattern (44 bp):
AAAGAGAAGCTAAGTCCTTTTTATCGGAACATATGAGATCACGG
Found at i:30053100 original size:9 final size:9
Alignment explanation
Indices: 30053086--30053122 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
30053076 ACATTAATCA
30053086 AAAGAAAAG
1 AAAGAAAAG
*
30053095 AAAGAAAAT
1 AAAGAAAAG
30053104 AAAG-AAAG
1 AAAGAAAAG
30053112 AAAGAAAAG
1 AAAGAAAAG
30053121 AA
1 AA
30053123 GTTTAACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:30053120 original size:13 final size:13
Alignment explanation
Indices: 30053086--30053122 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
30053076 ACATTAATCA
30053086 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
30053099 AAA-ATAAAGAAAG
1 AAAGA-AAAGAAAG
30053112 AAAGAAAAGAA
1 AAAGAAAAGAA
30053123 GTTTAACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:30057805 original size:49 final size:49
Alignment explanation
Indices: 30057716--30057816 Score: 114
Period size: 49 Copynumber: 2.1 Consensus size: 49
30057706 CTCATTTTCT
* * * *
30057716 CGATGCCATAGTCAAACTATGGTCTTACATGTAATAACATATCA-TATAC
1 CGATGCCATAGCCAAACTATGGTCCTACACGGAATAACATATCACT-TAC
* * * *
30057765 CGATGCCATAGCCCAGCTATGGTCCTATACGGAATCACATATCACTTAC
1 CGATGCCATAGCCAAACTATGGTCCTACACGGAATAACATATCACTTAC
30057814 CGA
1 CGA
30057817 AAGTACTCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
49 42 0.98
50 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (49 bp):
CGATGCCATAGCCAAACTATGGTCCTACACGGAATAACATATCACTTAC
Found at i:30059716 original size:40 final size:40
Alignment explanation
Indices: 30059668--30060175 Score: 962
Period size: 40 Copynumber: 12.7 Consensus size: 40
30059658 GCAAACACAT
* * *
30059668 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30059708 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30059748 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30059788 TTGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30059828 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30059868 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30059908 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30059948 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30059988 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30060028 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30060068 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30060108 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30060148 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
30060176 TCCAATGCTC
Statistics
Matches: 459, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 459 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:30062819 original size:33 final size:33
Alignment explanation
Indices: 30062768--30062928 Score: 118
Period size: 33 Copynumber: 4.7 Consensus size: 33
30062758 TTATCCGTTA
* *
30062768 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
30062802 TCGGGGAATCAGCACTTAGCAAACCCTTTCACATTCAATGAT
1 TCGGGGAATCAGCACTTAGC-AA--C---CAC---CAATGAT
* * *
30062844 ACGGTGGAATCAGCACTTAGCAACTACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
30062878 TCAGGGAATCAGCACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
*
30062905 TGGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
30062929 CCCTTCACAT
Statistics
Matches: 106, Mismatches: 11, Indels: 27
0.74 0.08 0.19
Matches are distributed among these distances:
27 22 0.21
32 2 0.02
33 34 0.32
34 14 0.13
36 1 0.01
37 2 0.02
39 3 0.03
40 1 0.01
42 11 0.10
43 16 0.15
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:30062969 original size:42 final size:42
Alignment explanation
Indices: 30062909--30063012 Score: 190
Period size: 42 Copynumber: 2.5 Consensus size: 42
30062899 ACCCCTTGGG
*
30062909 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGT
*
30062951 TGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGT
30062993 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
30063013 ACCAATGAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGT
Found at i:30063029 original size:144 final size:145
Alignment explanation
Indices: 30062807--30063074 Score: 475
Period size: 144 Copynumber: 1.9 Consensus size: 145
30062797 GTGATTCGGG
* * *
30062807 GAATCAGCACTTAGCAAACCCTTTCACATTCAATGATACGGTGGAATCAGCACTTAGCAACTACC
1 GAATCAGCACTTAGCAAACCCCTTCACATTCAATAATACGGTGGAATCAGCACTTAGCAACCACC
30062872 AATGAATCAGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCAC
66 AATGAATCAGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCAC
30062937 ATTTAAAATACGGTT
131 ATTTAAAATACGGTT
*
30062952 GAATCAGCACTTAGCAACCCCCTTCACATTCAA-AATACGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTAGCAAACCCCTTCACATTCAATAATACGGTGGAATCAGCACTTAGCAACCACC
* *
30063016 AATGAATCGGGGAATCATCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCC
66 AATGAATCAGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCC
30063075 ATTTATATTC
Statistics
Matches: 117, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
144 86 0.74
145 31 0.26
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.21
Consensus pattern (145 bp):
GAATCAGCACTTAGCAAACCCCTTCACATTCAATAATACGGTGGAATCAGCACTTAGCAACCACC
AATGAATCAGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCAC
ATTTAAAATACGGTT
Found at i:30063178 original size:51 final size:51
Alignment explanation
Indices: 30063092--30063393 Score: 314
Period size: 51 Copynumber: 6.0 Consensus size: 51
30063082 TTCAAAGATA
* * * *
30063092 CCGGTTCACATAGTAGCCTGCACATGGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
** *
30063143 CCGAAACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * * *
30063194 CCGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* *
30063244 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * * *
30063295 CCGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
*
30063345 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
30063394 TTCACTTTTA
Statistics
Matches: 203, Mismatches: 35, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
48 1 0.00
49 4 0.02
50 80 0.39
51 114 0.56
52 2 0.01
53 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:30063281 original size:101 final size:101
Alignment explanation
Indices: 30063100--30063385 Score: 493
Period size: 101 Copynumber: 2.8 Consensus size: 101
30063090 TACCGGTTCA
* * * * **
30063100 CATAGTAGCCTGCACATGGTACTACACATGTGACC-ATCACTATCCGAAACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
30063164 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
64 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
30063202 CATAGTAGCCTACACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTACACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTGCAC
30063267 ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
30063303 CATAGTAGCCTACACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTACACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTGCAC
30063368 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
30063386 CCATCACTTT
Statistics
Matches: 177, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
101 140 0.79
102 33 0.19
103 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:30068100 original size:29 final size:29
Alignment explanation
Indices: 30068058--30068119 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
30068048 TCGCGTAGGC
*
30068058 CTCGCAAAAATGAGGTTGCAAGAGGAAAG
1 CTCGCAAAAATGAGGCTGCAAGAGGAAAG
* *
30068087 CTCGCAGAAATGAGGCTGCAAGAGGAGAG
1 CTCGCAAAAATGAGGCTGCAAGAGGAAAG
30068116 CTCG
1 CTCG
30068120 AATAAACCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.34, T:0.13
Consensus pattern (29 bp):
CTCGCAAAAATGAGGCTGCAAGAGGAAAG
Found at i:30075971 original size:23 final size:23
Alignment explanation
Indices: 30075941--30075986 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
30075931 TATCTTTAGG
*
30075941 ATTTACAATAATTACCTTGATAA
1 ATTTACAATAATTACCCTGATAA
30075964 ATTTACAATAATTACCCTGATAA
1 ATTTACAATAATTACCCTGATAA
30075987 CTCTAGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (23 bp):
ATTTACAATAATTACCCTGATAA
Found at i:30078361 original size:39 final size:40
Alignment explanation
Indices: 30078318--30078485 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
30078308 CTCGTTCAAG
* * * *
30078318 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
30078357 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
30078397 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
30078437 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
30078477 TGCCTTCGG
1 TGCCTTCGG
30078486 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:30078498 original size:40 final size:40
Alignment explanation
Indices: 30078355--30078485 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
30078345 TAACTCATAC
* *
30078355 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
30078395 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
30078435 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
30078475 AATGCCTTCGG
1 AATGCCTTCGG
30078486 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.04
40 79 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:30078498 original size:80 final size:80
Alignment explanation
Indices: 30078318--30078538 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
30078308 CTCGTTCAAG
* * * * * * * *
30078318 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
*
30078382 TAAAACTCGCACGAA
66 TAAAACTCGCACAAA
*
30078397 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGA
30078459 -ATTAATAACTCGCACAAA
63 TATTAA-AACTCGCACAAA
** * *
30078477 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAGAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
30078539 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 34 0.29
80 72 0.61
81 9 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
TAAAACTCGCACAAA
Found at i:30081971 original size:26 final size:27
Alignment explanation
Indices: 30081942--30082014 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 27
30081932 CCTGTTATAT
*
30081942 GGCTCTTTGTGAGCTTCTC-GGTTAAA
1 GGCTCTTTGTGAGCTTCTCTGATTAAA
* *
30081968 GGCTCTTTGTGAGTTTC-CTGATTAAT
1 GGCTCTTTGTGAGCTTCTCTGATTAAA
*
30081994 GGCTCTCTG-GAGCTTCT-TGAT
1 GGCTCTTTGTGAGCTTCTCTGAT
30082015 ATGGCTCGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 11 0.28
26 29 0.73
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.41
Consensus pattern (27 bp):
GGCTCTTTGTGAGCTTCTCTGATTAAA
Found at i:30082719 original size:23 final size:22
Alignment explanation
Indices: 30082693--30082737 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
30082683 ACTATACTAC
* *
30082693 AACTCGTTTTGGTATAAATGGCA
1 AACTCATTTTGATAT-AATGGCA
*
30082716 AACTTATTTTGATATAATGGCA
1 AACTCATTTTGATATAATGGCA
30082738 TGTATAGACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (22 bp):
AACTCATTTTGATATAATGGCA
Found at i:30085310 original size:46 final size:46
Alignment explanation
Indices: 30085228--30085335 Score: 139
Period size: 46 Copynumber: 2.4 Consensus size: 46
30085218 GTCTTTGACT
** * *
30085228 TATGGTCTTACTC-AATTTTATCCTGATGTCATAGCATCTTTCAAC
1 TATGGTCTTACTCTTTTTTTATCCTAATGCCATAGCATCTTTCAAC
* *
30085273 TATGGTCTTACTCTTTTTTTATTCTAATGCCATAGCATCTTTCAGC
1 TATGGTCTTACTCTTTTTTTATCCTAATGCCATAGCATCTTTCAAC
*
30085319 TATGGTCTCACT-TTTTT
1 TATGGTCTTACTCTTTTT
30085336 CTTTTTTTGC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 18 0.33
46 37 0.67
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.47
Consensus pattern (46 bp):
TATGGTCTTACTCTTTTTTTATCCTAATGCCATAGCATCTTTCAAC
Found at i:30088381 original size:21 final size:21
Alignment explanation
Indices: 30088355--30088394 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
30088345 ACTGTATGGT
30088355 GATATCTGATAGAAAGTCTGC
1 GATATCTGATAGAAAGTCTGC
30088376 GATATCTGATAGAAAGTCT
1 GATATCTGATAGAAAGTCT
30088395 CGTTTCCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (21 bp):
GATATCTGATAGAAAGTCTGC
Found at i:30088779 original size:76 final size:76
Alignment explanation
Indices: 30088693--30088846 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
30088683 GTAAATCTCT
30088693 TTTTAAACTTAGTTTTCCAGGAACATGCAGAACCCTTAAAATGGTTTTGGAAACTCTTAACTTTG
1 TTTTAAACTTAGTTTTCCAGGAACATGCAGAACCCTTAAAATGGTTTTGGAAACTCTTAACTTTG
30088758 TTTTCTGAATC
66 TTTTCTGAATC
*
30088769 TTTTAAACTTAGTTTTCCAGGAACATGTAGAACCCTTAAAATGGTTTTGGAAACTCTTAACTTTG
1 TTTTAAACTTAGTTTTCCAGGAACATGCAGAACCCTTAAAATGGTTTTGGAAACTCTTAACTTTG
30088834 TTTTCTGAATC
66 TTTTCTGAATC
30088845 TT
1 TT
30088847 ACATACACCA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (76 bp):
TTTTAAACTTAGTTTTCCAGGAACATGCAGAACCCTTAAAATGGTTTTGGAAACTCTTAACTTTG
TTTTCTGAATC
Found at i:30091056 original size:15 final size:16
Alignment explanation
Indices: 30091036--30091068 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
30091026 TGATACTGAT
30091036 TTGAGACAGGC-CATA
1 TTGAGACAGGCGCATA
*
30091051 TTGAGAGAGGCGCATA
1 TTGAGACAGGCGCATA
30091067 TT
1 TT
30091069 AGCCCTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (16 bp):
TTGAGACAGGCGCATA
Found at i:30093955 original size:40 final size:40
Alignment explanation
Indices: 30093879--30093960 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 40
30093869 TGATATTGTG
* *
30093879 ATGGGCTAAGGCCCTACTGCATATTTGATACTATACTGAA
1 ATGGGCTAAGGCCCAACTGCATATCTGATACTATACTGAA
*
30093919 ATGGGCTAAGGCCCAAACTGC-TA-CTGCTACTGATACTGAA
1 ATGGGCTAAGGCCC-AACTGCATATCTGATACT-ATACTGAA
30093959 AT
1 AT
30093961 AGGGATTAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 6 0.16
40 26 0.70
41 5 0.14
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (40 bp):
ATGGGCTAAGGCCCAACTGCATATCTGATACTATACTGAA
Found at i:30095358 original size:13 final size:13
Alignment explanation
Indices: 30095325--30095358 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30095315 CTTTACATTC
30095325 TCAAAAAGGTGAA
1 TCAAAAAGGTGAA
*
30095338 TCAGAAAGGTGAA
1 TCAAAAAGGTGAA
*
30095351 TTAAAAAG
1 TCAAAAAG
30095359 ATGAGTTGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (13 bp):
TCAAAAAGGTGAA
Found at i:30102870 original size:43 final size:44
Alignment explanation
Indices: 30102713--30102877 Score: 228
Period size: 43 Copynumber: 3.8 Consensus size: 44
30102703 TTATGAGGCA
* * * *
30102713 AAACGCCGCTAAAGATCATGTTCTTTAGTGGCAC-TTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACCCAC
** * *
30102756 AAATACCGCTAAAGAACATGATCTTTAGTGGCG-TCTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACCCAC
30102799 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTA-CCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACCCAC
*
30102842 AAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTT
30102878 GTGTTTAAAG
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
43 105 0.96
44 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (44 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACCCAC
Found at i:30107672 original size:47 final size:48
Alignment explanation
Indices: 30107614--30107712 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 48
30107604 CATAGTTTTG
*
30107614 TTTAAGTAATATTTATAAAAATTAGATAAAATTATAAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
*
30107661 TTTAAGTAATATTTATAATAATTAGATAAAATTAAAAATTTTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
30107709 TTTA
1 TTTA
30107713 TTTCATTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 43 0.88
48 6 0.12
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
Found at i:30107726 original size:25 final size:26
Alignment explanation
Indices: 30107698--30107750 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
30107688 AAAATTAAAA
* *
30107698 ATTTTAGTGTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTAATTTCATTTCTT
* *
30107723 ATTTTTGTATTTTAATTTTATTTCTT
1 ATTTTAGTATTTTAATTTCATTTCTT
30107749 AT
1 AT
30107751 AATTTGGTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (26 bp):
ATTTTAGTATTTTAATTTCATTTCTT
Found at i:30107733 original size:19 final size:18
Alignment explanation
Indices: 30107697--30107750 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
30107687 TAAAATTAAA
30107697 AATTTTAGTGTTTTTATTTC
1 AATTTTA-T-TTTTTATTTC
* *
30107717 ATTTTTATTTTTGTATTTT
1 AATTTTATTTTT-TATTTC
*
30107736 AATTTTATTTCTTAT
1 AATTTTATTTTTTAT
30107751 AATTTGGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (18 bp):
AATTTTATTTTTTATTTC
Found at i:30108285 original size:20 final size:21
Alignment explanation
Indices: 30108260--30108299 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
30108250 CTAGTTAATC
30108260 TAAACCCTAAAC-CATAAACT
1 TAAACCCTAAACTCATAAACT
30108280 TAAACCCTAAACTCATAAAC
1 TAAACCCTAAACTCATAAAC
30108300 CCTTAACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAACTCATAAACT
Found at i:30108384 original size:22 final size:21
Alignment explanation
Indices: 30108337--30108428 Score: 62
Period size: 22 Copynumber: 4.3 Consensus size: 21
30108327 ACCCCAGCCT
*
30108337 TTAAACCATAAACCATAACCC
1 TTAAACCATAAACCATAAACC
* *
30108358 CTAAACCCATAATCCATAAACC
1 TTAAA-CCATAAACCATAAACC
***
30108380 TTAAAATGGTAACACC-TAAACC
1 TT-AAACCATAA-ACCATAAACC
*
30108402 TTAAACTC-TAAACCATATACC
1 TTAAAC-CATAAACCATAAACC
*
30108423 CTAAAC
1 TTAAAC
30108429 TATAGTGATA
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
20 3 0.06
21 20 0.37
22 26 0.48
23 5 0.09
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (21 bp):
TTAAACCATAAACCATAAACC
Found at i:30108428 original size:14 final size:14
Alignment explanation
Indices: 30108259--30108384 Score: 60
Period size: 15 Copynumber: 8.9 Consensus size: 14
30108249 ACTAGTTAAT
*
30108259 CTAAACCCTAAACC
1 CTAAACCATAAACC
* *
30108273 ATAAA-CTTAAACC
1 CTAAACCATAAACC
30108286 CTAAACTCATAAACC
1 CTAAAC-CATAAACC
*
30108301 CTTAACACAT-AACC
1 CTAAAC-CATAAACC
* *
30108315 TTTAAACCTTAAACC
1 -CTAAACCATAAACC
* * *
30108330 C-CAGCCTTTAAACC
1 CTAAACC-ATAAACC
* *
30108344 ATAAACCATAACCC
1 CTAAACCATAAACC
*
30108358 CTAAACCCATAATCC
1 CTAAA-CCATAAACC
* *
30108373 ATAAACCTTAAA
1 CTAAACCATAAA
30108385 ATGGTAACAC
Statistics
Matches: 83, Mismatches: 22, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
13 14 0.17
14 31 0.37
15 38 0.46
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:30108667 original size:41 final size:41
Alignment explanation
Indices: 30108610--30108688 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
30108600 TTTTAAATCC
* *
30108610 CTGAGCATTAGCGGCGCTTTCTCAAAAATGCCGCTAAAGCA
1 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCA
* *
30108651 CTGAGCATTAGCGGCGCTTTATTAAAAACGTCGCTAAA
1 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAA
30108689 TCCCTGAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCA
Found at i:30108820 original size:114 final size:114
Alignment explanation
Indices: 30108620--30109216 Score: 817
Period size: 114 Copynumber: 5.2 Consensus size: 114
30108610 CTGAGCATTA
* *
30108620 GCGGCGCTTTCTCAAAAATGCCGCTAAAG-CACTGAGCATTAGCGGCGCTTTATTAAAAACGTCG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCA-TGAGCATTAGCGGCGCTTTATTAAAAACGCCG
* *
30108684 CTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGAGCTTAGGTTTTTTT
65 CTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
* * *
30108734 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCATGAGCATTAGCGGCGCTTTCTTAAAAATGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCGGCGCTTTATTAAAAACGCCGC
* *
30108799 TAAATCCCCGAAAGTTCAGAAAACGGCGTCATTGGGCTTAGGTTTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
* * * *
30108848 GCGGCGCTTTCCCAAAAATGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCG
1 GCGGCGCTTTCTCAAAAACGCCGCT-AAAGCCATGAGCATTAGCGGCGCTTTATTAAAAACGCCG
* *
30108913 CTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTA-GATTTTTT
65 CTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
* * * * * *
30108962 GAGGCACTTTCTAAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTTATTAAAAAAGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCGGCGCTTTATTAAAAACGCCGC
* * *
30109027 TAAATCCTCGGAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
* * * * * * *
30109076 ACGGTGCTTTCTCAAAAATGCCGCTAAAGCCTTAAACATTAGCGGCGCTTTATTAATAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCGGCGCTTTATTAAAAACGCCGC
* * *
30109141 CAAATCCCCGAAAGCTCAGAAAACAGAGTCGTTGGGAC-TAGGTTTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG-CTTAGGTTTTTTT
30109190 GCGGCGCTTTCTTC--AAACGCCGCTAAA
1 GCGGCGCTTTC-TCAAAAACGCCGCTAAA
30109217 TCCCCGAAAC
Statistics
Matches: 430, Mismatches: 48, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
113 85 0.20
114 265 0.62
115 80 0.19
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCGGCGCTTTATTAAAAACGCCGC
TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
Found at i:30109235 original size:72 final size:73
Alignment explanation
Indices: 30109117--30109259 Score: 191
Period size: 72 Copynumber: 2.0 Consensus size: 73
30109107 TTAAACATTA
*
30109117 GCGGCGCTTTATTAATAACGCCGCCAAATCCCCGAAAGCTCAGAAAACAGAGTCGTTGGGAC-TA
1 GCGGCGCTTTATTAATAACGCCGCCAAATCCCCGAAACCTCAGAAAACAGAGTCGTTGGG-CTTA
30109181 GGTTTTTTT
65 GGTTTTTTT
* * * ** * *
30109190 GCGGCGCTTTCTTCA-AACGCCGCTAAATCCCCGAAACCTTGGAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTATTAATAACGCCGCCAAATCCCCGAAACCTCAGAAAACAGAGTCGTTGGGCTTAG
30109254 GTTTTT
66 GTTTTT
30109260 AGTGGCGCTG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
71 1 0.02
72 47 0.77
73 13 0.21
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (73 bp):
GCGGCGCTTTATTAATAACGCCGCCAAATCCCCGAAACCTCAGAAAACAGAGTCGTTGGGCTTAG
GTTTTTTT
Found at i:30109284 original size:72 final size:72
Alignment explanation
Indices: 30109114--30109287 Score: 172
Period size: 72 Copynumber: 2.4 Consensus size: 72
30109104 GCCTTAAACA
* * * * *
30109114 TTAGCGGCGCTTTATTAATAACGCCGCCAAATCCCCGAAAGCTCAGAAAACAGAGTCGTTGGGAC
1 TTAGCGGCGCTGTCTGAA-AACGCCGCTAAATCCCCGAAACCTCAGAAAACAGAGTCGTTGGGAC
30109179 TAGGTTTT
65 TAGGTTTT
* * ** ** * *
30109187 TTTGCGGCGCTTTCTTCAAACGCCGCTAAATCCCCGAAACCTTGGAAAACGGCGTCGTTGGG-CT
1 TTAGCGGCGCTGTCTGAAAACGCCGCTAAATCCCCGAAACCTCAGAAAACAGAGTCGTTGGGAC-
30109251 TAGG-TTT
65 TAGGTTTT
* *
30109258 TTAGTGGCGCTGTCTGGAAAATGCCGCTAA
1 TTAGCGGCGCTGTCT-GAAAACGCCGCTAA
30109288 TACTTATTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
71 16 0.19
72 53 0.63
73 15 0.18
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (72 bp):
TTAGCGGCGCTGTCTGAAAACGCCGCTAAATCCCCGAAACCTCAGAAAACAGAGTCGTTGGGACT
AGGTTTT
Found at i:30111120 original size:21 final size:21
Alignment explanation
Indices: 30111096--30111148 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
30111086 CATTGTTTCT
* *
30111096 AATCTCACCGTTACAATATCC
1 AATCTCACCGCTACAATAACC
* * *
30111117 AATCTCACAGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
30111138 AATCTCACCGC
1 AATCTCACCGC
30111149 CACCGCTGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:30114547 original size:5 final size:5
Alignment explanation
Indices: 30114532--30114567 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
30114522 GAGATGAAAT
*
30114532 TCGAA TTGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
30114568 ATGTTTGTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (5 bp):
TCGAA
Found at i:30115108 original size:16 final size:17
Alignment explanation
Indices: 30115071--30115112 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
30115061 GGGTGAGAAG
30115071 TAAAAGTTTAGGGGAAA
1 TAAAAGTTTAGGGGAAA
* *
30115088 AAAAAGTTTTGGGG-AA
1 TAAAAGTTTAGGGGAAA
30115104 TAAAAGTTT
1 TAAAAGTTT
30115113 GAGGAAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:30117663 original size:50 final size:50
Alignment explanation
Indices: 30117548--30117735 Score: 270
Period size: 50 Copynumber: 3.7 Consensus size: 50
30117538 GATAATAACA
* ** *
30117548 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTTGG
* * * *
30117599 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-AGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTTGG
30117649 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
*
30117699 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
30117736 TTTCTTTACC
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
49 1 0.01
50 89 0.72
51 32 0.26
52 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
Found at i:30120245 original size:235 final size:235
Alignment explanation
Indices: 30119676--30120384 Score: 1152
Period size: 235 Copynumber: 3.0 Consensus size: 235
30119666 TCATTTGATA
* * *
30119676 AAAAGTTTCCAAGTTTTGCAAGAAATCCTAAGAATGTAAGGCTTGGGCTTGCATCTGATGGCCTT
1 AAAAGTTTCCAAGTTTTGCAAGCAATCCTAAGAATGTGAGGCTTGGGCTTACATCTGATGGCCTT
*
30119741 AATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCTTGTTGTGCTTGTT-TCTTACAATT
66 AATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCCTGTTGTGCTTGTTCT-TTACAATT
* * * *
30119805 TCCCTTCATGAATTTGCATAAAACAATATTCTTTTATCTTATCTATGATAATCCTTGGGGAGAAA
130 TGCCTCCATGGATTTGCATGAAACAATATTCTTTTATCTTATCTATGATAATCCTTGGGGAGAAA
* *
30119870 GGCCTAAAGAACAATATTGGCATTTATATGC-GTCGCTTAT
195 GGTCTAAAGAACGATATTGGCATTTATATGCAGTCGCTTAT
* *
30119910 AAAAGTTTCCAAGTTTTGCAAGCAATCCTAAGAATGTGAGGCTTGGGTTTACATCTAATGGCCTT
1 AAAAGTTTCCAAGTTTTGCAAGCAATCCTAAGAATGTGAGGCTTGGGCTTACATCTGATGGCCTT
* *
30119975 AATCCTTTTAAAATTATGAGTCCTTCATATAGTACTTAGCCTGTTGTGCTTGTTCTTTACAATTT
66 AATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCCTGTTGTGCTTGTTCTTTACAATTT
* * *
30120040 GCCTCCATGGATTTACATGAAACAATATTCTTTTATTTTATCTATGATAATCCTTGGGGAGAAGG
131 GCCTCCATGGATTTGCATGAAACAATATTCTTTTATCTTATCTATGATAATCCTTGGGGAGAAAG
30120105 GTCTAAAGAACGATATTGGCATTTATATGCAGTCGCTTAT
196 GTCTAAAGAACGATATTGGCATTTATATGCAGTCGCTTAT
* * *
30120145 AAAAGTTTCCAAGTTTTGCAAGCAATCTTAAGAATGTGAGGCTTGGGCCTATATCTGATGGCCTT
1 AAAAGTTTCCAAGTTTTGCAAGCAATCCTAAGAATGTGAGGCTTGGGCTTACATCTGATGGCCTT
* *
30120210 AATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCCTGTTGTGCTTGTTCCTTACAACTT
66 AATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCCTGTTGTGCTTGTTCTTTACAATTT
* * *
30120275 GCCTCCATGGATTTGCATGAAACAATGTTCTTTTATCTTATCTATGATAATCATTGGGGAGAAAA
131 GCCTCCATGGATTTGCATGAAACAATATTCTTTTATCTTATCTATGATAATCCTTGGGGAGAAAG
* *
30120340 GTCAAAAGAACGATATTGGCATTTATATGTAGTCGCTTAT
196 GTCTAAAGAACGATATTGGCATTTATATGCAGTCGCTTAT
30120380 AAAAG
1 AAAAG
30120385 AGTTGAAGCA
Statistics
Matches: 439, Mismatches: 34, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
234 206 0.47
235 233 0.53
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (235 bp):
AAAAGTTTCCAAGTTTTGCAAGCAATCCTAAGAATGTGAGGCTTGGGCTTACATCTGATGGCCTT
AATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCCTGTTGTGCTTGTTCTTTACAATTT
GCCTCCATGGATTTGCATGAAACAATATTCTTTTATCTTATCTATGATAATCCTTGGGGAGAAAG
GTCTAAAGAACGATATTGGCATTTATATGCAGTCGCTTAT
Found at i:30132199 original size:50 final size:49
Alignment explanation
Indices: 30132160--30132402 Score: 324
Period size: 50 Copynumber: 4.9 Consensus size: 49
30132150 CATTGATATT
*
30132160 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGTACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA-CGAG
* *
30132210 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA-CGAG
*
30132260 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA-CGAG
* * * *
30132310 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACTGAT
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCAC-GAG
** * * * *
30132360 ATGAGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGG
30132403 TAATACAGAA
Statistics
Matches: 176, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
49 1 0.01
50 175 0.99
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.23
Consensus pattern (49 bp):
ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACGAG
Found at i:30132292 original size:100 final size:100
Alignment explanation
Indices: 30132160--30132404 Score: 373
Period size: 100 Copynumber: 2.5 Consensus size: 100
30132150 CATTGATATT
30132160 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCATG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCATG
* *
30132225 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* * *
30132260 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCATG
* *
30132325 TAAGACCATGTCTGGGACATGGCATGGGCACTGAT
66 TAAGACCATGTCTGGGACATGGCATGGGCACCGAG
** * * * *
30132360 ATGAGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGTA
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGTA
30132405 ATACAGAAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 130 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (100 bp):
ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCATG
TAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:30132684 original size:16 final size:16
Alignment explanation
Indices: 30132663--30132698 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30132653 TAGTAAGCAT
*
30132663 GTAAGTAAAAAAGTGA
1 GTAAGTAAAAAAGCGA
*
30132679 GTAAGTAAAGAAGCGA
1 GTAAGTAAAAAAGCGA
30132695 GTAA
1 GTAA
30132699 AGATTCTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.28, T:0.17
Consensus pattern (16 bp):
GTAAGTAAAAAAGCGA
Found at i:30138780 original size:17 final size:17
Alignment explanation
Indices: 30138758--30138790 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30138748 AGAAAGTCGA
30138758 CCCATGGTTGTTAACTC
1 CCCATGGTTGTTAACTC
30138775 CCCATGGTTGTTAACT
1 CCCATGGTTGTTAACT
30138791 TCTTCGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (17 bp):
CCCATGGTTGTTAACTC
Found at i:30139387 original size:3 final size:3
Alignment explanation
Indices: 30139379--30139403 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30139369 GTGGATTTAC
30139379 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
30139404 TATTTGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:30141183 original size:42 final size:42
Alignment explanation
Indices: 30141089--30141183 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
30141079 TCTTATTCTA
* * *
30141089 GGAA-TATTTTATTTTATGTTTTAGTAGTTTATTAGAATAAG
1 GGAATTATTTTCTCTTATATTTTAGTAGTTTATTAGAATAAG
*
30141130 GGAATTATTTTCTCTTATATTTTAGTAGTTTATTAGAGTAAG
1 GGAATTATTTTCTCTTATATTTTAGTAGTTTATTAGAATAAG
30141172 GGAATTATTTTC
1 GGAATTATTTTC
30141184 CCAACTAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 4 0.08
42 45 0.92
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (42 bp):
GGAATTATTTTCTCTTATATTTTAGTAGTTTATTAGAATAAG
Found at i:30142796 original size:15 final size:15
Alignment explanation
Indices: 30142772--30142821 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
30142762 TTGGCAGTGC
30142772 TTTA-TCTGGTGAAA
1 TTTACTCTGGTGAAA
30142786 TTTACTCTGGTGAAA
1 TTTACTCTGGTGAAA
*
30142801 TTTACTCTGGTGGAA
1 TTTACTCTGGTGAAA
30142816 TTTACT
1 TTTACT
30142822 TTCGTGACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 4 0.12
15 30 0.88
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (15 bp):
TTTACTCTGGTGAAA
Found at i:30145820 original size:19 final size:19
Alignment explanation
Indices: 30145772--30145812 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
30145762 GAATATATTT
30145772 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
30145791 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
30145810 TAA
1 TAA
30145813 GTTTTATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
TAAATCTTATTTAGGTAGA
Found at i:30145880 original size:42 final size:42
Alignment explanation
Indices: 30145834--30145923 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
30145824 ATTCTAGGAA
**
30145834 TATTTTATTTTATCTTTTAGTAGTTTATTAAAATAAGGAAAT
1 TATTTTACCTTATCTTTTAGTAGTTTATTAAAATAAGGAAAT
** * * * *
30145876 TATTTCCCCTTATGTTTTAGTAGTTTATTAGAGTAAGGGAAT
1 TATTTTACCTTATCTTTTAGTAGTTTATTAAAATAAGGAAAT
30145918 TATTTT
1 TATTTT
30145924 CCCAATTAGG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (42 bp):
TATTTTACCTTATCTTTTAGTAGTTTATTAAAATAAGGAAAT
Found at i:30147293 original size:13 final size:13
Alignment explanation
Indices: 30147277--30147306 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30147267 AGACTGAAGA
*
30147277 GCAAAACTGCAAT
1 GCAAAACCGCAAT
30147290 GCAAAACCGCAAT
1 GCAAAACCGCAAT
30147303 GCAA
1 GCAA
30147307 TTTTCATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.27, G:0.17, T:0.10
Consensus pattern (13 bp):
GCAAAACCGCAAT
Found at i:30161886 original size:12 final size:12
Alignment explanation
Indices: 30161861--30161903 Score: 59
Period size: 12 Copynumber: 3.4 Consensus size: 12
30161851 CAAATGGATC
*
30161861 ATTTCTCATCTTT
1 ATTT-TCATTTTT
30161874 ATTTTCATTTTT
1 ATTTTCATTTTT
30161886 ATTTTCATTTTT
1 ATTTTCATTTTT
30161898 AGTTTT
1 A-TTTT
30161904 GAGAAACCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 20 0.71
13 8 0.29
ACGTcount: A:0.16, C:0.12, G:0.02, T:0.70
Consensus pattern (12 bp):
ATTTTCATTTTT
Found at i:30174125 original size:17 final size:19
Alignment explanation
Indices: 30174092--30174128 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
30174082 TGCAAATGAA
30174092 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTTCATTT
30174111 TCATTTC-CA-TTTCATTT
1 TCATTTCTCATTTTCATTT
30174128 T
1 T
30174129 TGAGAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 2 0.11
19 7 0.39
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (19 bp):
TCATTTCTCATTTTCATTT
Found at i:30177489 original size:15 final size:15
Alignment explanation
Indices: 30177469--30177498 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30177459 GAGTATGGTA
30177469 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
*
30177484 AAATATTTAAAAAAT
1 AAATATTAAAAAAAT
30177499 TACTAATAGT
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:30179014 original size:21 final size:22
Alignment explanation
Indices: 30178979--30179035 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
30178969 TTAAAAATTG
* *
30178979 AATATAAATATTAAAATATGAAA
1 AATACAAAAATTAAAAT-TGAAA
*
30179002 AA-A-AAAAATTAAAATTTAAA
1 AATACAAAAATTAAAATTGAAA
30179022 AATACAAAAATTAA
1 AATACAAAAATTAA
30179036 GTTCTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.20
21 12 0.40
22 10 0.33
23 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
AATACAAAAATTAAAATTGAAA
Found at i:30179620 original size:12 final size:12
Alignment explanation
Indices: 30179603--30179634 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
30179593 TATTAGCAAG
30179603 ACATATAAATTA
1 ACATATAAATTA
30179615 ACATATAAATTA
1 ACATATAAATTA
30179627 ACATATAA
1 ACATATAA
30179635 GAAAGTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (12 bp):
ACATATAAATTA
Found at i:30184790 original size:38 final size:39
Alignment explanation
Indices: 30184739--30184887 Score: 162
Period size: 38 Copynumber: 3.9 Consensus size: 39
30184729 AGTTTAAGTC
* *
30184739 TTTAATTATGTCATAATTTGA-ACATCATTAATATGAGT
1 TTTAATTATGTCATAGTTTGAGACATCTTTAATATGAGT
* * * *
30184777 TTTAATTATGTCATACTCTGA-ACATCTTTAATAAGGGTT
1 TTTAATTATGTCATAGTTTGAGACATCTTTAATATGAG-T
* * *
30184816 TTTAATTATGTCATAGCTTAAGACATCTTAAATAT-ATGT
1 TTTAATTATGTCATAGTTTGAGACATCTTTAATATGA-GT
*
30184855 TTTAAATATGTCATAGTTT-AGACATCTTTAATA
1 TTTAATTATGTCATAGTTTGAGACATCTTTAATA
30184888 CAAGTCTTTA
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
38 45 0.48
39 36 0.39
40 12 0.13
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (39 bp):
TTTAATTATGTCATAGTTTGAGACATCTTTAATATGAGT
Found at i:30184857 original size:78 final size:77
Alignment explanation
Indices: 30184739--30184887 Score: 187
Period size: 78 Copynumber: 1.9 Consensus size: 77
30184729 AGTTTAAGTC
* * *
30184739 TTTAATTATGTCATAATTTGAACATCATTAATATGAGTTTTAATTATGTCATACTCTGA-ACATC
1 TTTAATTATGTCATAACTTAAACATCATTAATATGAGTTTTAAATATGTCATACT-TGAGACATC
30184803 TTTAATAAGGGTT
65 TTTAATAAGGGTT
* * *
30184816 TTTAATTATGTCATAGCTTAAGACATC-TTAAATAT-ATGTTTTAAATATGTCATAGTTTAGACA
1 TTTAATTATGTCATAACTTAA-ACATCATT-AATATGA-GTTTTAAATATGTCATACTTGAGACA
30184879 TCTTTAATA
63 TCTTTAATA
30184888 CAAGTCTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
77 23 0.37
78 39 0.63
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (77 bp):
TTTAATTATGTCATAACTTAAACATCATTAATATGAGTTTTAAATATGTCATACTTGAGACATCT
TTAATAAGGGTT
Found at i:30191165 original size:39 final size:38
Alignment explanation
Indices: 30191046--30191202 Score: 140
Period size: 38 Copynumber: 4.1 Consensus size: 38
30191036 AGTTTAAGTC
*
30191046 TTTAATTATGTCATAATTTGAACAT-TATTAATATGA-GT
1 TTTAATTATGTCATAATTTAAACATCT-TTAATAT-ATGT
* ***
30191084 TTTAATTATGTCATAATCTAAACATCTTTAATAGGGGTT
1 TTTAATTATGTCATAATTTAAACATCTTTAATATATG-T
* * *
30191123 TTTAATTATGTCATATTTTAGGACATCTTAAATATATGT
1 TTTAATTATGTCATAATTTA-AACATCTTTAATATATGT
* * * *
30191162 TTT-ATATATGTCCTAGTTTAGACATCTTTAATACATGT
1 TTTAAT-TATGTCATAATTTAAACATCTTTAATATATGT
30191200 TTT
1 TTT
30191203 TAGTTCAGAC
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 51 0.52
39 36 0.36
40 12 0.12
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (38 bp):
TTTAATTATGTCATAATTTAAACATCTTTAATATATGT
Found at i:30191172 original size:78 final size:77
Alignment explanation
Indices: 30191046--30191194 Score: 178
Period size: 78 Copynumber: 1.9 Consensus size: 77
30191036 AGTTTAAGTC
*
30191046 TTTAATTATGTCATAATTTGAACATTATTAATATGAGTTTTAATTATGTCATAATCTAAACATCT
1 TTTAATTATGTCATAATTTGAACATTATAAATATGAGTTTTAATTATGTCATAATCTAAACATCT
30191111 TTAATAGGGGTT
66 TTAATAGGGGTT
* * * * * *
30191123 TTTAATTATGTCATATTTTAGGACATCT-TAAATAT-ATGTTTT-ATATATGTCCTAGTTTAGAC
1 TTTAATTATGTCATAATTT-GAACAT-TATAAATATGA-GTTTTAAT-TATGTCATAATCTAAAC
30191185 ATCTTTAATA
62 ATCTTTAATA
30191195 CATGTTTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
77 21 0.34
78 39 0.64
79 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.47
Consensus pattern (77 bp):
TTTAATTATGTCATAATTTGAACATTATAAATATGAGTTTTAATTATGTCATAATCTAAACATCT
TTAATAGGGGTT
Found at i:30193497 original size:13 final size:13
Alignment explanation
Indices: 30193479--30193503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30193469 TGGTTGAAAA
30193479 TTTTAAAAATAAT
1 TTTTAAAAATAAT
30193492 TTTTAAAAATAA
1 TTTTAAAAATAA
30193504 AAATTAGAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTTAAAAATAAT
Found at i:30194040 original size:20 final size:20
Alignment explanation
Indices: 30193973--30194044 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 20
30193963 TATCTAACCA
* *
30193973 AAAATAATTTAAAAATTATA-
1 AAAAT-ATTCAAAAAATATAT
*
30193993 AAAATATTC-AAAAATA-CT
1 AAAATATTCAAAAAATATAT
* *
30194011 CATA-ATTCAAAAAATATAT
1 AAAATATTCAAAAAATATAT
30194030 AAAATATTCAAAAAA
1 AAAATATTCAAAAAA
30194045 AACATGAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
17 4 0.10
18 15 0.38
19 6 0.15
20 15 0.38
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATATTCAAAAAATATAT
Found at i:30219245 original size:21 final size:21
Alignment explanation
Indices: 30219219--30219271 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
30219209 AGCGGTGGCG
*
30219219 GTGAGATTAGTTACTATAGCA
1 GTGAGATTAGATACTATAGCA
* * *
30219240 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTATAGCA
30219261 GTGAGATTAGA
1 GTGAGATTAGA
30219272 AACAATGGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTATAGCA
Found at i:30223403 original size:27 final size:27
Alignment explanation
Indices: 30223343--30223404 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
30223333 AGTAAAAATT
30223343 GGGTAGTCCGTTCGGACAGTAAACAGA
1 GGGTAGTCCGTTCGGACAGTAAACAGA
** *
30223370 GAATAGTCCG-TCGGGACCGTAAACACG-
1 GGGTAGTCCGTTC-GGACAGTAAACA-GA
30223397 GGGTAGTC
1 GGGTAGTC
30223405 TGCCGAGACA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.89
28 1 0.04
ACGTcount: A:0.27, C:0.21, G:0.34, T:0.18
Consensus pattern (27 bp):
GGGTAGTCCGTTCGGACAGTAAACAGA
Found at i:30223420 original size:27 final size:27
Alignment explanation
Indices: 30223390--30223459 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
30223380 TCGGGACCGT
30223390 AAACACGGGGTAGTCTGCCGAGACAAC
1 AAACACGGGGTAGTCTGCCGAGACAAC
* * * * *
30223417 AAACATGGGTTAGTTTGCCGGGACAAT
1 AAACACGGGGTAGTCTGCCGAGACAAC
**
30223444 AAACACGATGTAGTCT
1 AAACACGGGGTAGTCT
30223460 ACCAGGATGG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (27 bp):
AAACACGGGGTAGTCTGCCGAGACAAC
Found at i:30229656 original size:3 final size:3
Alignment explanation
Indices: 30229648--30229673 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30229638 TACAGTGGCT
30229648 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
30229674 TTCTTCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:30238246 original size:17 final size:17
Alignment explanation
Indices: 30238224--30238256 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30238214 GGAGTACATG
*
30238224 AAAAAAGAAATTAAAAA
1 AAAAAAGAAAATAAAAA
30238241 AAAAAAGAAAATAAAA
1 AAAAAAGAAAATAAAA
30238257 GAAAGAGAAG
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:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAAGAAAATAAAAA
Found at i:30243624 original size:25 final size:26
Alignment explanation
Indices: 30243580--30243633 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
30243570 ATTAGAAATT
*
30243580 AAATAATGAAAATAAATAAACA-ATA
1 AAATAATCAAAATAAATAAACAGATA
* * *
30243605 AAATAATCAAAATGACTAAATAGATA
1 AAATAATCAAAATAAATAAACAGATA
30243631 AAA
1 AAA
30243634 CCAATTAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (26 bp):
AAATAATCAAAATAAATAAACAGATA
Found at i:30247119 original size:21 final size:21
Alignment explanation
Indices: 30247095--30247135 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30247085 ACATTTTAGG
*
30247095 TTGGAATATG-TATGTTTTGAA
1 TTGGAAT-TGCTAAGTTTTGAA
30247116 TTGGAATTGCTAAGTTTTGA
1 TTGGAATTGCTAAGTTTTGA
30247136 TTAAGGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.46
Consensus pattern (21 bp):
TTGGAATTGCTAAGTTTTGAA
Found at i:30252900 original size:19 final size:19
Alignment explanation
Indices: 30252876--30252913 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30252866 AAAGTTAATA
30252876 AAAATTTTGATTACGGTGG
1 AAAATTTTGATTACGGTGG
30252895 AAAATTTTGATTACGGTGG
1 AAAATTTTGATTACGGTGG
30252914 GTGACAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (19 bp):
AAAATTTTGATTACGGTGG
Found at i:30256233 original size:22 final size:21
Alignment explanation
Indices: 30256193--30256252 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
30256183 AAAATGTAAA
30256193 AATTAAATTAAAAACAAAATT
1 AATTAAATTAAAAACAAAATT
* *
30256214 AATTTAATTAAAAACAAAAAT
1 AATTAAATTAAAAACAAAATT
* *
30256235 -ATTAAAATAAAAATAAAA
1 AATTAAATTAAAAACAAAA
30256253 AATGGCTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.44
21 19 0.56
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTAAATTAAAAACAAAATT
Found at i:30271884 original size:18 final size:18
Alignment explanation
Indices: 30271863--30271908 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
30271853 AAGAATATAT
30271863 TTAATATTA-AGAATTTTA
1 TTAA-ATTATAGAATTTTA
* *
30271881 TTAAATTATATATTTTTA
1 TTAAATTATAGAATTTTA
30271899 TTAAATTATA
1 TTAAATTATA
30271909 TTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TTAAATTATAGAATTTTA
Found at i:30271884 original size:122 final size:121
Alignment explanation
Indices: 30271758--30272050 Score: 525
Period size: 122 Copynumber: 2.4 Consensus size: 121
30271748 CAAACTTTAG
30271758 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
* *
30271823 TTATATATTATGATTTTAGTAAATTCATA-TAAGAATATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATATTAAG-A-ATATCTAATATTAAGAATTTT
30271880 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
*
30271945 TTATATATTATGATTTTAGTAATTTAATATTAAGAATATCTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATATTAAGAATATCTAATATTAAGAATTTT
*
30272001 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
30272051 ATATGATTAA
Statistics
Matches: 166, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
121 69 0.42
122 93 0.56
123 4 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (121 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
TTATATATTATGATTTTAGTAAATTAATATTAAGAATATCTAATATTAAGAATTTT
Found at i:30271894 original size:31 final size:30
Alignment explanation
Indices: 30271857--30272016 Score: 84
Period size: 31 Copynumber: 5.3 Consensus size: 30
30271847 TCATATAAGA
30271857 ATATATTTAATATTAAGAATTTTATTAAATT
1 ATATATTTAATATT-AGAATTTTATTAAATT
* * * *
30271888 ATATATTT-TTATTA-AATTATATTTAATA
1 ATATATTTAATATTAGAATTTTATTAAATT
* *
30271916 ATAATTATTTTAA-ATTA-TATTTTA-TAGTATT
1 AT-A-TA-TTTAATATTAGAATTTTATTA-AATT
* * *
30271947 ATATATTATGATTTTAGTAATTTAATATT-AA-G
1 ATATATT-TAATATTAG-AATTT--TATTAAATT
*
30271979 A-ATATCTAATATTAAGAATTTTATTAAATT
1 ATATATTTAATATT-AGAATTTTATTAAATT
30272009 ATATATTT
1 ATATATTT
30272017 TTATTAAATT
Statistics
Matches: 93, Mismatches: 20, Indels: 32
0.64 0.14 0.22
Matches are distributed among these distances:
28 19 0.20
29 8 0.09
30 22 0.24
31 35 0.38
32 5 0.05
33 1 0.01
34 2 0.02
35 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (30 bp):
ATATATTTAATATTAGAATTTTATTAAATT
Found at i:30271974 original size:22 final size:20
Alignment explanation
Indices: 30271924--30271976 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
30271914 TAATAATTAT
*
30271924 TTTAA-ATTATATTTTATAG
1 TTTAATATTATATTTTATAA
30271943 TATTATATATTATGATTTTAGTAA
1 T-TTA-ATATTAT-ATTTTA-TAA
30271967 TTTAATATTA
1 TTTAATATTA
30271977 AGAATATCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 1 0.04
22 11 0.39
23 9 0.32
24 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTAATATTATATTTTATAA
Found at i:30272298 original size:15 final size:16
Alignment explanation
Indices: 30272257--30272304 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
30272247 TTGATTTGCT
*
30272257 ATTATGCCTCTATCCC
1 ATTATGCCTCTATTCC
30272273 ATTATGCCTCTATTCC
1 ATTATGCCTCTATTCC
30272289 ATTA-GCCTCTATTCC
1 ATTATGCCTCTATTCC
30272304 A
1 A
30272305 ATACAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTATGCCTCTATTCC
Found at i:30283364 original size:23 final size:23
Alignment explanation
Indices: 30283344--30283400 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
30283334 GATTGTTGTG
* *
30283344 GCCAATGAGAAGAATGAGTTGAT
1 GCCAACGAGAAGAACGAGTTGAT
*
30283367 TCCAACGAGAAGAACGAGTTGAT
1 GCCAACGAGAAGAACGAGTTGAT
* *
30283390 TCCAACAAGAA
1 GCCAACGAGAA
30283401 CAACCACAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.18
Consensus pattern (23 bp):
GCCAACGAGAAGAACGAGTTGAT
Found at i:30284910 original size:25 final size:25
Alignment explanation
Indices: 30284844--30284910 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
30284834 GACACACCAC
* * **
30284844 AGCTCGTATGAGCTTAACGATTTGT
1 AGCTCGTATGAGCATACCGATTCAT
30284869 AGCTCGTGA-GAGCATACCGATTCAT
1 AGCTCGT-ATGAGCATACCGATTCAT
*
30284894 AGCTCGTATAAGCATAC
1 AGCTCGTATGAGCATAC
30284911 ATGTACTGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTCAT
Found at i:30292685 original size:25 final size:25
Alignment explanation
Indices: 30292657--30292735 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
30292647 TAGATCATGA
30292657 GAGCTTATCGATTCTCAGCTTGTAT
1 GAGCTTATCGATTCTCAGCTTGTAT
30292682 GAGCTTATCGATT-TACAGCTTGTGA-
1 GAGCTTATCGATTCT-CAGCTTGT-AT
* * *
30292707 GAGCATACCGATTCAT-AGCTCGTAT
1 GAGCTTATCGATTC-TCAGCTTGTAT
30292732 GAGC
1 GAGC
30292736 ATACATGTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 2 0.04
25 42 0.91
26 1 0.02
27 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (25 bp):
GAGCTTATCGATTCTCAGCTTGTAT
Found at i:30292708 original size:50 final size:51
Alignment explanation
Indices: 30292622--30292735 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 51
30292612 AGACACACCA
** * *
30292622 CAGCTTGTATGAGCTTACCGATTTGTAGATCATGAGAGCTTATCGATTC-T
1 CAGCTTGTATGAGCTTACCGATTTACAGATCATGAGAGCATACCGATTCAT
* * **
30292672 CAGCTTGTATGAGCTTATCGATTTACAGCTTGTGAGAGCATACCGATTCAT
1 CAGCTTGTATGAGCTTACCGATTTACAGATCATGAGAGCATACCGATTCAT
*
30292723 -AGCTCGTATGAGC
1 CAGCTTGTATGAGC
30292736 ATACATGTAC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 53 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (51 bp):
CAGCTTGTATGAGCTTACCGATTTACAGATCATGAGAGCATACCGATTCAT
Found at i:30295012 original size:44 final size:44
Alignment explanation
Indices: 30294964--30295050 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 44
30294954 CTTTATTTGT
*
30294964 TTATTTTTA-TCTATCTATT-TT-TTATTTTTTATTTACTTTTCTAG
1 TTATTATTAGTCTATCTATTATTGTTA-TTTTTA-TTA-TTTTCTAG
* *
30295008 TTATTATTAGTCTGTTTATTATTGTTATTTTTATTATTTTCTA
1 TTATTATTAGTCTATCTATTATTGTTATTTTTATTATTTTCTA
30295051 TTTTGTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
44 15 0.41
45 11 0.30
46 8 0.22
47 3 0.08
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.69
Consensus pattern (44 bp):
TTATTATTAGTCTATCTATTATTGTTATTTTTATTATTTTCTAG
Found at i:30296661 original size:6 final size:6
Alignment explanation
Indices: 30296652--30296698 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
30296642 AGTTTTATTT
* * *
30296652 TTTATG TTTATG TTTATA TTTATA TTTATA TTTATA CTTATA TTTAT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT
30296699 TTTTTTATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (6 bp):
TTTATA
Found at i:30304552 original size:21 final size:21
Alignment explanation
Indices: 30304522--30304564 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
30304512 GTATTATGCA
*
30304522 TTATACATATGTGCCCATAAT
1 TTATACATATGTGCCCACAAT
*
30304543 TTATATATATGTGCCCACAAT
1 TTATACATATGTGCCCACAAT
30304564 T
1 T
30304565 ATCCAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (21 bp):
TTATACATATGTGCCCACAAT
Found at i:30306014 original size:127 final size:126
Alignment explanation
Indices: 30305789--30306042 Score: 463
Period size: 127 Copynumber: 2.0 Consensus size: 126
30305779 TATATATAAG
*
30305789 TAAATGAGGAAACATAAAACCTAGTTTTAAAACTCCATGTTTCCTCTTTTTTAACTTGATGTTTA
1 TAAATGAGGAAACATAAAACCTAGTTCTAAAACTCCATGTTTCCTCTTTTTTAACTTGATGTTTA
30305854 ACTCCTCAGCCAACTTTTTCAAATGTTGTAAGGTTCCACTGTCGGTATTATACCATCTTGA
66 ACTCCTCAGCCAACTTTTTCAAATGTTGTAAGGTTCCACTGTCGGTATTATACCATCTTGA
* *
30305915 TAAATGAGTAAACATAAAACCTGGTTCTAAAACTCCATGTTTCCTCTTTTTTTAACTTGATGTTT
1 TAAATGAGGAAACATAAAACCTAGTTCTAAAACTCCATGTTTCCTC-TTTTTTAACTTGATGTTT
*
30305980 AACTCCTCAGCCAAGTTTTTCAAATGTTGTAAGGTTCCACTGTCGGTATTATACCATCTTGA
65 AACTCCTCAGCCAACTTTTTCAAATGTTGTAAGGTTCCACTGTCGGTATTATACCATCTTGA
30306042 T
1 T
30306043 CTCCACTATA
Statistics
Matches: 123, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 43 0.35
127 80 0.65
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (126 bp):
TAAATGAGGAAACATAAAACCTAGTTCTAAAACTCCATGTTTCCTCTTTTTTAACTTGATGTTTA
ACTCCTCAGCCAACTTTTTCAAATGTTGTAAGGTTCCACTGTCGGTATTATACCATCTTGA
Found at i:30333958 original size:84 final size:84
Alignment explanation
Indices: 30333831--30333997 Score: 307
Period size: 84 Copynumber: 2.0 Consensus size: 84
30333821 ATAATTCATA
30333831 AGCCAAAATATATACTAATAAATACAAACAATCAAATAATACAAACAAACAATACTGTATATATA
1 AGCCAAAATATATACTAATAAATACAAACAATCAAATAATACAAACAAACAATACTGTATATATA
30333896 AGAGCAATGATTACATGTC
66 AGAGCAATGATTACATGTC
* *
30333915 AGCCAAAATATATACTAATGAATACAAACAATCAAATAATACAAACAAATAATACTGTATATATA
1 AGCCAAAATATATACTAATAAATACAAACAATCAAATAATACAAACAAACAATACTGTATATATA
*
30333980 AGAGCAATGGTTACATGT
66 AGAGCAATGATTACATGT
30333998 AAATATTAAC
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (84 bp):
AGCCAAAATATATACTAATAAATACAAACAATCAAATAATACAAACAAACAATACTGTATATATA
AGAGCAATGATTACATGTC
Found at i:30334278 original size:26 final size:26
Alignment explanation
Indices: 30334249--30334309 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
30334239 TAGGTTAATT
* *
30334249 TTAAAATAAGTAATATGCAAAATAAC
1 TTAAAATAAATAATATACAAAATAAC
* *
30334275 TTAAAATAAATAATATATAAAGTAAC
1 TTAAAATAAATAATATACAAAATAAC
30334301 TTAAAATAA
1 TTAAAATAA
30334310 TTAGTCTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (26 bp):
TTAAAATAAATAATATACAAAATAAC
Found at i:30334352 original size:21 final size:21
Alignment explanation
Indices: 30334328--30334367 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30334318 ATAAGTTATG
30334328 TTAAAATAATAAATAAAAGGT
1 TTAAAATAATAAATAAAAGGT
* **
30334349 TTAATATAATCTATAAAAG
1 TTAAAATAATAAATAAAAG
30334368 AGAAAATTGG
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:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (21 bp):
TTAAAATAATAAATAAAAGGT
Found at i:30335559 original size:14 final size:15
Alignment explanation
Indices: 30335535--30335569 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
30335525 TTTTGGTTTG
30335535 TTATATGGACTGTTA
1 TTATATGGACTGTTA
*
30335550 TTAT-TGGACTTTTA
1 TTATATGGACTGTTA
30335564 TTATAT
1 TTATAT
30335570 ATATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (15 bp):
TTATATGGACTGTTA
Found at i:30339382 original size:251 final size:251
Alignment explanation
Indices: 30338939--30339447 Score: 919
Period size: 251 Copynumber: 2.0 Consensus size: 251
30338929 TAAAATTTTA
*
30338939 GATTTTTGCTGAGTAAAAATTCTCTTAGAGTTTTCTCCAAGAATTCTCTCTTGAGTTTCTTTAGA
1 GATTTTTGCTAAGTAAAAATTCTCTTAGAGTTTTCTCCAAGAATTCTCTCTTGAGTTTCTTTAGA
*
30339004 AGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGCTCTTC
66 AGTAGTTTTAACAATATTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGCTCTTC
* **
30339069 ATTGGAGGGGAGATTAGAGTTGTTTGAAGGAAGTTGTGAAATCTTTCTCGATTTCAAGGCTTCTT
131 ATTGGAGGGAAGATTAGAGCCGTTTGAAGGAAGTTGTGAAATCTTTCTCGATTTCAAGGCTTCTT
30339134 AGGACTTTATCTTTATTTTCTTGTTGTTCAATCTATTTTAAATTTCTACTTGTGTC
196 AGGACTTTATCTTTATTTTCTTGTTGTTCAATCTATTTTAAATTTCTACTTGTGTC
*
30339190 GATTTTTGTTAAGTAAAAATTCTCTTAGAGTTTTCTCCAAGAATTCTCTCTTGAGTTTCTTTAGA
1 GATTTTTGCTAAGTAAAAATTCTCTTAGAGTTTTCTCCAAGAATTCTCTCTTGAGTTTCTTTAGA
*
30339255 AGTAGTTTTAACAATATTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGTTCTTC
66 AGTAGTTTTAACAATATTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGCTCTTC
* *
30339320 ATTGGAGGGAAGGTTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCTCGATTTCAAGGCTTCTT
131 ATTGGAGGGAAGATTAGAGCCGTTTGAAGGAAGTTGTGAAATCTTTCTCGATTTCAAGGCTTCTT
* *
30339385 AGGACTTTATCTTTATTTTCTTGTTGTTCAATCTCTTTTAAATTTCTGCTTGTGTC
196 AGGACTTTATCTTTATTTTCTTGTTGTTCAATCTATTTTAAATTTCTACTTGTGTC
30339441 GATTTTT
1 GATTTTT
30339448 ATTAGCTAAT
Statistics
Matches: 247, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
251 247 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.45
Consensus pattern (251 bp):
GATTTTTGCTAAGTAAAAATTCTCTTAGAGTTTTCTCCAAGAATTCTCTCTTGAGTTTCTTTAGA
AGTAGTTTTAACAATATTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGCTCTTC
ATTGGAGGGAAGATTAGAGCCGTTTGAAGGAAGTTGTGAAATCTTTCTCGATTTCAAGGCTTCTT
AGGACTTTATCTTTATTTTCTTGTTGTTCAATCTATTTTAAATTTCTACTTGTGTC
Found at i:30341563 original size:36 final size:33
Alignment explanation
Indices: 30341498--30341564 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
30341488 GTGAATGAAG
* *
30341498 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGGGAAAAAGAGAGAGAGCTAAAACAAGGAA
*
30341531 TGAGGGAAAAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGGGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
30341565 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.49, C:0.09, G:0.31, T:0.10
Consensus pattern (33 bp):
TGAGGGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:30346621 original size:37 final size:38
Alignment explanation
Indices: 30346551--30346623 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
30346541 CTCCGACCAC
* **
30346551 CCTGCACACCACAATAGGGCCATGTTAGACCCATCCAT
1 CCTGCACACCACAATAGGACCATAATAGACCCATCCAT
* *
30346589 CCTGCACACCAC-ATAGGACCTTAATAGGCCCATCC
1 CCTGCACACCACAATAGGACCATAATAGACCCATCC
30346624 GCCCTACACA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 18 0.60
38 12 0.40
ACGTcount: A:0.29, C:0.38, G:0.15, T:0.18
Consensus pattern (38 bp):
CCTGCACACCACAATAGGACCATAATAGACCCATCCAT
Found at i:30349267 original size:40 final size:40
Alignment explanation
Indices: 30349167--30349338 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
30349157 GCTCCTCGTT
* * *
30349167 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
30349207 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
30349246 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
30349286 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
30349326 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30349339 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:30357155 original size:39 final size:40
Alignment explanation
Indices: 30357110--30357294 Score: 187
Period size: 40 Copynumber: 4.7 Consensus size: 40
30357100 GCTCCTCGGT
* * * *
30357110 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
30357150 C-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
30357189 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
30357229 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
30357270 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30357295 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 36 0.30
40 75 0.61
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30357303 original size:41 final size:41
Alignment explanation
Indices: 30357226--30357303 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
30357216 TTAGTATCTC
* * *
30357226 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
30357267 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
30357304 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:30368570 original size:14 final size:14
Alignment explanation
Indices: 30368551--30368578 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30368541 TTAGAGAGCT
30368551 GATCAAAGATAGCA
1 GATCAAAGATAGCA
30368565 GATCAAAGATAGCA
1 GATCAAAGATAGCA
30368579 TATTTGGCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (14 bp):
GATCAAAGATAGCA
Done.