Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 71 of 325
Found at i:24913872 original size:19 final size:18
Alignment explanation
Indices: 24913850--24913889 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
24913840 TGAATAAAAC
24913850 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
24913869 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
24913887 TTA
1 TTA
24913890 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:24916877 original size:39 final size:39
Alignment explanation
Indices: 24916830--24916904 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
24916820 CTAGCTTCGA
* * *
24916830 TTTTGTTTTCAAGGATTCTAGTTTTGATTTGATAGCTTT
1 TTTTGTTTTCAAAGATTCGAGTTTTGATTCGATAGCTTT
*
24916869 TTTTGTTTTCAAAGTTTCGAGTTTTGATTCGATAGC
1 TTTTGTTTTCAAAGATTCGAGTTTTGATTCGATAGC
24916905 ATTTGAGTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.53
Consensus pattern (39 bp):
TTTTGTTTTCAAAGATTCGAGTTTTGATTCGATAGCTTT
Found at i:24917816 original size:30 final size:30
Alignment explanation
Indices: 24917761--24917818 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
24917751 AATTCAGCTG
*
24917761 AAAATTAAAATTTTAGTTGCTCTATTTTTT
1 AAAATTAAAATTTTAGGTGCTCTATTTTTT
24917791 AAAATTTAAAA-TTTAGGT-CTACTATTTT
1 AAAA-TTAAAATTTTAGGTGCT-CTATTTT
24917819 AACATTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 17 0.68
31 6 0.24
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (30 bp):
AAAATTAAAATTTTAGGTGCTCTATTTTTT
Found at i:24921271 original size:29 final size:29
Alignment explanation
Indices: 24921225--24921304 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 29
24921215 TCAAATCTGA
* *
24921225 AAAAGTAGAAGGATTAAATTCTTGAAAAT
1 AAAAGTACAAGGACTAAATTCTTGAAAAT
*
24921254 AAAAGTACAAGAACTAAATTCTTGAAAAT
1 AAAAGTACAAGGACTAAATTCTTGAAAAT
*
24921283 AAAAATACAAGGACTAAATTCT
1 AAAAGTACAAGGACTAAATTCT
24921305 AAATTTGTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (29 bp):
AAAAGTACAAGGACTAAATTCTTGAAAAT
Found at i:24924190 original size:14 final size:14
Alignment explanation
Indices: 24924161--24924198 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
24924151 GAGTTCTGAA
*
24924161 TTTAGAATTT-GAG
1 TTTAAAATTTAGAG
*
24924174 TTTAAATTTTAGAG
1 TTTAAAATTTAGAG
24924188 TTTAAAATTTA
1 TTTAAAATTTA
24924199 TAATTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (14 bp):
TTTAAAATTTAGAG
Found at i:24929446 original size:15 final size:15
Alignment explanation
Indices: 24929423--24929458 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24929413 GTTCCAAATG
*
24929423 TTGCAACAAGTTCTA
1 TTGCTACAAGTTCTA
*
24929438 TTGCTACAAGTTCTG
1 TTGCTACAAGTTCTA
24929453 TTGCTA
1 TTGCTA
24929459 AATTGTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (15 bp):
TTGCTACAAGTTCTA
Found at i:24938285 original size:62 final size:62
Alignment explanation
Indices: 24938209--24938332 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
24938199 ACTCTTCTGT
24938209 GAGCTATAGTTAAAATCCTTTGTCTTCCCATTCACATTTTCATTCTCAATTAGAAATTACTC
1 GAGCTATAGTTAAAATCCTTTGTCTTCCCATTCACATTTTCATTCTCAATTAGAAATTACTC
*
24938271 GAGCTATAGTTAAAATCCTTTGTCTTCCCATTCACATTTTCGTTCTCAATTAGAAATTACTC
1 GAGCTATAGTTAAAATCCTTTGTCTTCCCATTCACATTTTCATTCTCAATTAGAAATTACTC
24938333 TTAAAAATAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (62 bp):
GAGCTATAGTTAAAATCCTTTGTCTTCCCATTCACATTTTCATTCTCAATTAGAAATTACTC
Found at i:24953769 original size:32 final size:32
Alignment explanation
Indices: 24953733--24953798 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
24953723 GTTAAACAAT
24953733 TTAGTTTCAAATTGTTCATATGAATTCTTAAC
1 TTAGTTTCAAATTGTTCATATGAATTCTTAAC
24953765 TTAGTTTCAAATTGTTCATATGAATTCTTAAC
1 TTAGTTTCAAATTGTTCATATGAATTCTTAAC
24953797 TT
1 TT
24953799 TGACATAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (32 bp):
TTAGTTTCAAATTGTTCATATGAATTCTTAAC
Found at i:24953947 original size:86 final size:86
Alignment explanation
Indices: 24953836--24954010 Score: 296
Period size: 86 Copynumber: 2.0 Consensus size: 86
24953826 TTAGTGAACA
* ** *
24953836 AATTTACAGCGTTTCTTGCCTTGCTTCTCCTCATGTAGTTCTTACTTCCCTGATTTTGTTTTGAC
1 AATTTACAGCGCTTCTCCCCCTGCTTCTCCTCATGTAGTTCTTACTTCCCTGATTTTGTTTTGAC
24953901 TTAGAAATGATTACAAGACCT
66 TTAGAAATGATTACAAGACCT
24953922 AATTTACAGCGCTTCTCCCCCTGCTTCTCCTCATGTAGTTCTTACTTCCCTGATTTTGTTTTGAC
1 AATTTACAGCGCTTCTCCCCCTGCTTCTCCTCATGTAGTTCTTACTTCCCTGATTTTGTTTTGAC
* *
24953987 TTAGTAATGATTACATGACCT
66 TTAGAAATGATTACAAGACCT
24954008 AAT
1 AAT
24954011 GTTTGGTTGC
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (86 bp):
AATTTACAGCGCTTCTCCCCCTGCTTCTCCTCATGTAGTTCTTACTTCCCTGATTTTGTTTTGAC
TTAGAAATGATTACAAGACCT
Found at i:24971849 original size:14 final size:14
Alignment explanation
Indices: 24971830--24971860 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24971820 TGCTACTATT
24971830 TTACTATTATGTTG
1 TTACTATTATGTTG
*
24971844 TTACTATTTTGTTG
1 TTACTATTATGTTG
24971858 TTA
1 TTA
24971861 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:24971904 original size:17 final size:17
Alignment explanation
Indices: 24971882--24971914 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24971872 TTATATAAAA
24971882 TTTATT-TTATTGTTAAT
1 TTTATTATTATT-TTAAT
24971899 TTTATTATTATTTTAA
1 TTTATTATTATTTTAA
24971915 AGACATTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTTTAAT
Found at i:24971931 original size:30 final size:30
Alignment explanation
Indices: 24971895--24971955 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
24971885 ATTTTATTGT
24971895 TAATTTTATTATTATTTTAAAGACATTTGC
1 TAATTTTATTATTATTTTAAAGACATTTGC
* * *
24971925 TAATTTTGTTATTATTTTAGAGGCATTTGC
1 TAATTTTATTATTATTTTAAAGACATTTGC
24971955 T
1 T
24971956 TGTTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (30 bp):
TAATTTTATTATTATTTTAAAGACATTTGC
Found at i:24973662 original size:11 final size:11
Alignment explanation
Indices: 24973648--24973686 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
24973638 TTTTTGTCAC
*
24973648 TATTTTGCTAT
1 TATTTTGTTAT
*
24973659 TATTTTATTAT
1 TATTTTGTTAT
*
24973670 TATATTGTTAT
1 TATTTTGTTAT
24973681 TATTTT
1 TATTTT
24973687 ATTGTTAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (11 bp):
TATTTTGTTAT
Found at i:24973682 original size:14 final size:14
Alignment explanation
Indices: 24973659--24973693 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
24973649 ATTTTGCTAT
24973659 TATT-TTATTATTA
1 TATTGTTATTATTA
*
24973672 TATTGTTATTATTT
1 TATTGTTATTATTA
24973686 TATTGTTA
1 TATTGTTA
24973694 ATGTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (14 bp):
TATTGTTATTATTA
Found at i:24984755 original size:2 final size:2
Alignment explanation
Indices: 24984748--24984774 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24984738 GCTTATTTGA
24984748 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24984775 AAAATTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24985412 original size:20 final size:20
Alignment explanation
Indices: 24985374--24985412 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24985364 TTAAAATTAA
*
24985374 AATTAAAGAAGATATAATTT
1 AATTAAAGAAAATATAATTT
24985394 AATTAAATGAAAATA-AATT
1 AATTAAA-GAAAATATAATT
24985413 ACTTATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
AATTAAAGAAAATATAATTT
Found at i:24987256 original size:19 final size:18
Alignment explanation
Indices: 24987232--24987272 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
24987222 CGAATAATAT
24987232 AATAAACATATTTATAAAA
1 AATAAA-ATATTTATAAAA
24987251 AAT-AAATATTTATAAAA
1 AATAAAATATTTATAAAA
24987268 AATAA
1 AATAA
24987273 TTTAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 15 0.71
18 3 0.14
19 3 0.14
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAAATATTTATAAAA
Found at i:24987261 original size:17 final size:17
Alignment explanation
Indices: 24987239--24987272 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24987229 TATAATAAAC
24987239 ATATTTATAAAAAATAA
1 ATATTTATAAAAAATAA
24987256 ATATTTATAAAAAATAA
1 ATATTTATAAAAAATAA
24987273 TTTAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATTTATAAAAAATAA
Found at i:24988761 original size:20 final size:20
Alignment explanation
Indices: 24988693--24988762 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
24988683 AAATTGAGCT
*
24988693 TTCTTAAATAAATTGTTAAAAA
1 TTCTAAAAT-AATT-TTAAAAA
** * *
24988715 AACTAAAATAATTTTTAAAT
1 TTCTAAAATAATTTTAAAAA
24988735 TTC-AAAAT-ATTTATAAAAA
1 TTCTAAAATAATTT-TAAAAA
24988754 TTCTAAAAT
1 TTCTAAAAT
24988763 TTATATTTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 11 0.30
21 4 0.11
22 6 0.16
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (20 bp):
TTCTAAAATAATTTTAAAAA
Found at i:24996348 original size:20 final size:20
Alignment explanation
Indices: 24996323--24996363 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24996313 CTTAAGGCAC
*
24996323 TAGACTCAACATGTTTCTTT
1 TAGACTCAACATGTTTATTT
24996343 TAGACTCAACATGTTTATTT
1 TAGACTCAACATGTTTATTT
24996363 T
1 T
24996364 CTCTCTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (20 bp):
TAGACTCAACATGTTTATTT
Found at i:24996735 original size:17 final size:17
Alignment explanation
Indices: 24996715--24996749 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24996705 GAATTATTTG
24996715 TTAAAAATTA-ATAATAT
1 TTAAAAA-TACATAATAT
24996732 TTAAAAATACATAATAT
1 TTAAAAATACATAATAT
24996749 T
1 T
24996750 ACTTAGATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATACATAATAT
Found at i:24997784 original size:3 final size:3
Alignment explanation
Indices: 24997778--24997803 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24997768 AAACTTTAGT
24997778 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
24997804 GCAATATATA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:25009372 original size:33 final size:33
Alignment explanation
Indices: 25009329--25009394 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
25009319 AAATTGAGAC
*
25009329 AAGATAAGAGAGAAAGTCAACCTTGGAAGCTAT
1 AAGATAAGAGAGAAAGTCAACCATGGAAGCTAT
*
25009362 AAGATGAGAGAGAAAGTCAACCATGGAAGCTAT
1 AAGATAAGAGAGAAAGTCAACCATGGAAGCTAT
25009395 CTTTCAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.26, T:0.17
Consensus pattern (33 bp):
AAGATAAGAGAGAAAGTCAACCATGGAAGCTAT
Found at i:25012215 original size:14 final size:14
Alignment explanation
Indices: 25012196--25012225 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25012186 CTTCACTTTA
*
25012196 TATTCATCTCTCAT
1 TATTCATCACTCAT
25012210 TATTCATCACTCAT
1 TATTCATCACTCAT
25012224 TA
1 TA
25012226 CTATAACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTCATCACTCAT
Found at i:25013579 original size:43 final size:43
Alignment explanation
Indices: 25013531--25013617 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
25013521 TAATAATTGG
25013531 TATTAATTTTTTAATGTAGTTTAGTGATGACATGCGACGTTGA
1 TATTAATTTTTTAATGTAGTTTAGTGATGACATGCGACGTTGA
*
25013574 TATTAATTTTTTAATGTGGTTTAGTGATGACATGCGACGTTGA
1 TATTAATTTTTTAATGTAGTTTAGTGATGACATGCGACGTTGA
25013617 T
1 T
25013618 GACATCAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (43 bp):
TATTAATTTTTTAATGTAGTTTAGTGATGACATGCGACGTTGA
Found at i:25016084 original size:5 final size:5
Alignment explanation
Indices: 25016074--25016101 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
25016064 TCAGATAGGA
25016074 GTGAT GTGAT GTGAT GTGAT GTGAT GTG
1 GTGAT GTGAT GTGAT GTGAT GTGAT GTG
25016102 TGGGTACAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (5 bp):
GTGAT
Found at i:25017347 original size:30 final size:31
Alignment explanation
Indices: 25017311--25017379 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
25017301 TACTTTCAGT
* *
25017311 TCAGTCACTCAACTTTCTT-AAAATAACAAA
1 TCAGTCACTCAACGTTATTAAAAATAACAAA
* *
25017341 TCAGTCA-TTAACGTTATTGAAAAATGACAAA
1 TCAGTCACTCAACGTTATT-AAAAATAACAAA
25017372 TCAGTCAC
1 TCAGTCAC
25017380 CCATAAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 8 0.25
30 7 0.22
31 17 0.53
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (31 bp):
TCAGTCACTCAACGTTATTAAAAATAACAAA
Found at i:25021987 original size:12 final size:12
Alignment explanation
Indices: 25021963--25022007 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
25021953 GAGGGCATAT
25021963 ATAATAT-AATA
1 ATAATATAAATA
25021974 ATAATATAAATA
1 ATAATATAAATA
* *
25021986 ATAGTAAAAATA
1 ATAATATAAATA
*
25021998 ATAAAATAAA
1 ATAATATAAA
25022008 AAAATAAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:25022013 original size:13 final size:14
Alignment explanation
Indices: 25021968--25022016 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 14
25021958 CATATATAAT
*
25021968 ATAATAATAATATAA
1 ATAATAA-AATAAAA
*
25021983 ATAAT--AGTAAAA
1 ATAATAAAATAAAA
25021995 ATAATAAAATAAAA
1 ATAATAAAATAAAA
25022009 A-AATAAAA
1 ATAATAAAA
25022017 CAAAGCTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 10 0.34
13 7 0.24
14 7 0.24
15 5 0.17
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
ATAATAAAATAAAA
Found at i:25022442 original size:13 final size:13
Alignment explanation
Indices: 25022409--25022503 Score: 100
Period size: 13 Copynumber: 7.9 Consensus size: 13
25022399 TTTGTTGGCA
25022409 AGTGGAGTGG-TT
1 AGTGGAGTGGTTT
25022421 -G-GG-GTGGTTT
1 AGTGGAGTGGTTT
25022431 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
25022444 AGTAGGA-TGG-TT
1 AGT-GGAGTGGTTT
*
25022456 -G-GGA-TGATTT
1 AGTGGAGTGGTTT
25022466 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
*
25022479 AGTGTAGTGGTTT
1 AGTGGAGTGGTTT
25022492 AGTGGAGTGGTT
1 AGTGGAGTGGTT
25022504 GCAGTGGTTG
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
9 9 0.13
10 6 0.09
11 4 0.06
12 7 0.10
13 41 0.59
14 3 0.04
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
AGTGGAGTGGTTT
Found at i:25022490 original size:35 final size:35
Alignment explanation
Indices: 25022409--25022490 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 35
25022399 TTTGTTGGCA
* *
25022409 AGTGGAGTGGTTGGGGTGGTTTAGTGGAGTGGTTT
1 AGTGGAGTGGTTGGGATGATTTAGTGGAGTGGTTT
25022444 AGTAGGA-TGGTTGGGATGATTTAGTGGAGTGGTTT
1 AGT-GGAGTGGTTGGGATGATTTAGTGGAGTGGTTT
*
25022479 AGTGTAGTGGTT
1 AGTGGAGTGGTT
25022491 TAGTGGAGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 2 0.05
35 37 0.88
36 3 0.07
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (35 bp):
AGTGGAGTGGTTGGGATGATTTAGTGGAGTGGTTT
Found at i:25025247 original size:38 final size:39
Alignment explanation
Indices: 25025171--25025248 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 39
25025161 AATTTTTATT
* *
25025171 ATATTTTTTAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTAATTTGTGTATTGTTTTAAGAATTATTTTA
* * * *
25025210 ATATATTTT-ATTTGTTTCTTGTTTTAATATTTATTTTA
1 ATATATTTTAATTTGTGTATTGTTTTAAGAATTATTTTA
25025248 A
1 A
25025249 ATGTATTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
38 25 0.76
39 8 0.24
ACGTcount: A:0.26, C:0.01, G:0.09, T:0.64
Consensus pattern (39 bp):
ATATATTTTAATTTGTGTATTGTTTTAAGAATTATTTTA
Found at i:25025582 original size:23 final size:23
Alignment explanation
Indices: 25025552--25025600 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
25025542 GAGTTTTCTC
25025552 CTTGGCCGAAATCCTCAAAATAT
1 CTTGGCCGAAATCCTCAAAATAT
25025575 CTTGGCCGAAATCCTCAAAATAT
1 CTTGGCCGAAATCCTCAAAATAT
25025598 CTT
1 CTT
25025601 TCTTTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (23 bp):
CTTGGCCGAAATCCTCAAAATAT
Found at i:25033224 original size:41 final size:39
Alignment explanation
Indices: 25033137--25033215 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 39
25033127 TAGATAGGCA
*
25033137 AAAAAAGAGAAAATAAAATGAATAGCTCACAGAATTAGGCC
1 AAAAAAGAGAAAATAAAATGAATAGCT-ACAGAACTA-GCC
*
25033178 AAAAAAGAGAAAATAACATGAATAGCT-CAGAACT-GCC
1 AAAAAAGAGAAAATAAAATGAATAGCTACAGAACTAGCC
25033215 A
1 A
25033216 GAAGAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 4 0.11
39 6 0.17
41 26 0.72
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (39 bp):
AAAAAAGAGAAAATAAAATGAATAGCTACAGAACTAGCC
Found at i:25040216 original size:25 final size:25
Alignment explanation
Indices: 25040188--25040238 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25040178 CTTTTTTTTT
25040188 AATACAATGCCTAAGATTATTCATA
1 AATACAATGCCTAAGATTATTCATA
25040213 AATACAATGCCTAAGATTATTCATA
1 AATACAATGCCTAAGATTATTCATA
25040238 A
1 A
25040239 GTCCTCTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (25 bp):
AATACAATGCCTAAGATTATTCATA
Found at i:25040392 original size:52 final size:52
Alignment explanation
Indices: 25040314--25040419 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
25040304 TTAAACTACA
*
25040314 ACTCAATTAGCTAGTTTCTCTTATTTTTTATTAGCTTAGCTGGAATGGTGTT
1 ACTCAATTAGCTAGTTTCTCTTATTTTTTATTAGCTTAGCTGGAACGGTGTT
*
25040366 ACTCAATTAGCTAGTTTCTCTTATTTTTTATTAGCTTAGCTGGTACGGTGTT
1 ACTCAATTAGCTAGTTTCTCTTATTTTTTATTAGCTTAGCTGGAACGGTGTT
25040418 AC
1 AC
25040420 GGGTAAAACA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (52 bp):
ACTCAATTAGCTAGTTTCTCTTATTTTTTATTAGCTTAGCTGGAACGGTGTT
Found at i:25055109 original size:17 final size:17
Alignment explanation
Indices: 25055087--25055122 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25055077 TTTGTTAACT
*
25055087 TTTTAAAGAGAAATATA
1 TTTTAAAGAAAAATATA
*
25055104 TTTTAAGGAAAAATATA
1 TTTTAAAGAAAAATATA
25055121 TT
1 TT
25055123 GGTATTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
TTTTAAAGAAAAATATA
Found at i:25060787 original size:21 final size:21
Alignment explanation
Indices: 25060737--25060779 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
25060727 ACATTATTTG
*
25060737 AATAGTATATGATGTATAATGA
1 AATAGTTTAT-ATGTATAATGA
25060759 AATAGTTTATATGTAT-ATGA
1 AATAGTTTATATGTATAATGA
25060779 A
1 A
25060780 TTGAGTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 6 0.30
22 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (21 bp):
AATAGTTTATATGTATAATGA
Found at i:25063067 original size:14 final size:14
Alignment explanation
Indices: 25063048--25063077 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
25063038 TGTGTTTATC
25063048 GATGGGTAAAATCA
1 GATGGGTAAAATCA
25063062 GATGGGTAAAATCA
1 GATGGGTAAAATCA
25063076 GA
1 GA
25063078 AAGTCTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.30, T:0.20
Consensus pattern (14 bp):
GATGGGTAAAATCA
Found at i:25063372 original size:50 final size:53
Alignment explanation
Indices: 25063317--25063423 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 53
25063307 AAGTAATTAC
25063317 AAAAGAC-TT-GAAATAAAATCCAAATTGACATCAAA-TTCGAGTTCAATCCT
1 AAAAGACTTTAGAAATAAAATCCAAATTGACATCAAATTTCGAGTTCAATCCT
*
25063367 AAAAGACTTGTGTTAGAAATAAAATCTAAATTGACATCAAATTTCGAGTTCAATCCT
1 AAAAGAC---T-TTAGAAATAAAATCCAAATTGACATCAAATTTCGAGTTCAATCCT
25063424 TGCATAGTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
50 7 0.14
55 2 0.04
56 25 0.51
57 15 0.31
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (53 bp):
AAAAGACTTTAGAAATAAAATCCAAATTGACATCAAATTTCGAGTTCAATCCT
Found at i:25083733 original size:46 final size:46
Alignment explanation
Indices: 25083666--25083819 Score: 209
Period size: 46 Copynumber: 3.3 Consensus size: 46
25083656 GTGCTCTCTA
* * *
25083666 ATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
25083712 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*** * *
25083758 ACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGTCAACATG
1 ATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
25083805 ATATAAAATGTGTAA
1 ATATGAAATGAGTAA
25083820 CCATGGCAAC
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 53 0.57
47 40 0.43
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (46 bp):
ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:25083786 original size:47 final size:46
Alignment explanation
Indices: 25083678--25083805 Score: 193
Period size: 47 Copynumber: 2.8 Consensus size: 46
25083668 ATGGAATGTG
* * * *
25083678 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
*
25083724 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AAATGAA
*
25083771 TAAGACCATGGTTGAAAGATACCATGTCAACATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA
25083806 TATAAAATGT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
46 35 0.47
47 40 0.53
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
Found at i:25083854 original size:74 final size:75
Alignment explanation
Indices: 25083744--25083888 Score: 220
Period size: 74 Copynumber: 1.9 Consensus size: 75
25083734 GTTGAAAGAT
* *
25083744 ACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGTCAACATGATAT
1 ACCATGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
25083809 AAAATGTGTA
66 AAAATGTGTA
* * **
25083819 ACCATGGCAACATGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
1 ACCATGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
*
25083883 GAAATG
66 AAAATG
25083889 AATAAGACCA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 47 0.75
75 16 0.25
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (75 bp):
ACCATGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
AAAATGTGTA
Found at i:25083855 original size:30 final size:28
Alignment explanation
Indices: 25083791--25083847 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
25083781 GTTGAAAGAT
*
25083791 ACCATGTCAACATGATATAAAATGTGTA
1 ACCATGGCAACATGATATAAAATGTGTA
*
25083819 ACCATGGCAACATGATATGAAATGTGTA
1 ACCATGGCAACATGATATAAAATGTGTA
25083847 A
1 A
25083848 GACCATGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (28 bp):
ACCATGGCAACATGATATAAAATGTGTA
Found at i:25083886 original size:46 final size:46
Alignment explanation
Indices: 25083819--25084051 Score: 333
Period size: 46 Copynumber: 5.0 Consensus size: 46
25083809 AAAATGTGTA
* *
25083819 ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
* *
25083865 ACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
* *
25083911 ACCATGGAAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
** *
25083957 ACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATG-AAATGAGTAAGACCATGGTTGAAAGAT
* * *
25084004 ACCATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGAT
1 ACCATGGCAACATGACATG-AAATGAGTAAGACCATGGTTGAAAGAT
25084050 AC
1 AC
25084052 TATAACATCA
Statistics
Matches: 170, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 128 0.75
47 42 0.25
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (46 bp):
ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
Found at i:25084031 original size:93 final size:92
Alignment explanation
Indices: 25083819--25084051 Score: 351
Period size: 93 Copynumber: 2.5 Consensus size: 92
25083809 AAAATGTGTA
* * * *
25083819 ACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
25083884 AAATGAATAAGACCATGGTTGAAAGAT
66 AAATGAATAAGACCATGGTTGAAAGAT
* * *
25083911 ACCATGGAAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
25083976 AAAATGAATAAGACCATGGTTGAAAGAT
66 -AAATGAATAAGACCATGGTTGAAAGAT
* * *
25084004 ACCATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 ACCATGGCAACATGACATG-AAATGAGTAAGACCATGGTTGAAAGATAC
25084052 TATAACATCA
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
92 59 0.46
93 68 0.54
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (92 bp):
ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
AAATGAATAAGACCATGGTTGAAAGAT
Found at i:25086047 original size:14 final size:15
Alignment explanation
Indices: 25086018--25086047 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25086008 AATTTTTTGA
25086018 TTAATTATGTTTTTT
1 TTAATTATGTTTTTT
25086033 TTAATTATGTTTTTT
1 TTAATTATGTTTTTT
25086048 CTTACTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (15 bp):
TTAATTATGTTTTTT
Found at i:25086370 original size:44 final size:44
Alignment explanation
Indices: 25086316--25086402 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
25086306 GAAAATGAGG
*
25086316 GGAATGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCTT
1 GGAAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCTT
*
25086360 GGAAAGAGTAAAAAAATCAACTTTGAGGCTAATGAACAATTCT
1 GGAAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCT
25086403 CTCACACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (44 bp):
GGAAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCTT
Found at i:25087361 original size:5 final size:5
Alignment explanation
Indices: 25087351--25087400 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
25087341 GATCGAATCT
* * *
25087351 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTTG TTTTG TTTTA TTTTG TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
25087401 TCAGGTACTC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
5 37 0.90
6 4 0.10
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:25087371 original size:15 final size:15
Alignment explanation
Indices: 25087351--25087400 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
25087341 GATCGAATCT
*
25087351 TTTTATTTTATTTTA
1 TTTTATTTTATTTTG
25087366 TTTTATTTTATTTTTG
1 TTTTATTTTA-TTTTG
*
25087382 TTTTGTTTTATTTTG
1 TTTTATTTTATTTTG
25087397 TTTT
1 TTTT
25087401 TCAGGTACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTTATTTTATTTTG
Found at i:25089023 original size:22 final size:22
Alignment explanation
Indices: 25088998--25089041 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
25088988 TGAGACTAAG
25088998 GCTTCAGTTTATCCACCCCCTC
1 GCTTCAGTTTATCCACCCCCTC
25089020 GCTTCAGTTTATCCACCCCCTC
1 GCTTCAGTTTATCCACCCCCTC
25089042 TATTCGTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.45, G:0.09, T:0.32
Consensus pattern (22 bp):
GCTTCAGTTTATCCACCCCCTC
Found at i:25095153 original size:52 final size:49
Alignment explanation
Indices: 25094943--25095156 Score: 154
Period size: 52 Copynumber: 4.3 Consensus size: 49
25094933 CTTGCACATA
* *
25094943 GTCACATATCACA--CACCGAAGCCATAGCCCTGCCATGGTCTTACACG
1 GTCACATATCACATTCACCGAAGCCATAGCCCAGCTATGGTCTTACACG
* * * *
25094990 GATCACATAT-A-A-T-ACCGAGGCCATATCCCAGATATGGTCTTATACAG
1 G-TCACATATCACATTCACCGAAGCCATAGCCCAGCTATGGTCTTACAC-G
* * * **
25095037 AATCACATTATCACATCACACCGACA-CCATAGCCCAACTATGGTCTTATTCGG
1 -GTCACA-TATCACAT-TCACCGA-AGCCATAGCCCAGCTATGGTCTTACAC-G
* * *
25095090 GAACACGTATCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTACACTG
1 G-TCACATATCACATT-CACCGAAGCCATAGCCCAGCTATGGTCTTACAC-G
25095142 GTGCACATATCACAT
1 GT-CACATATCACAT
25095157 CTTTTTTGTC
Statistics
Matches: 127, Mismatches: 25, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
46 27 0.21
47 8 0.06
48 11 0.09
49 1 0.01
50 1 0.01
52 49 0.39
53 30 0.24
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (49 bp):
GTCACATATCACATTCACCGAAGCCATAGCCCAGCTATGGTCTTACACG
Found at i:25096362 original size:18 final size:17
Alignment explanation
Indices: 25096339--25096429 Score: 58
Period size: 18 Copynumber: 4.8 Consensus size: 17
25096329 TTTTATCTCA
25096339 TTTAATCTATAATTTTCC
1 TTTAAT-TATAATTTTCC
25096357 TTTAATTCATAA-TTTCAC
1 TTTAATT-ATAATTTTC-C
** *
25096375 TAATTCAAAAATATATTTCTCA
1 T--TT-AATTATA-ATTT-TCC
25096397 TTTAATCTATAATTTTCC
1 TTTAAT-TATAATTTTCC
25096415 TTTAATTCATAATTT
1 TTTAATT-ATAATTT
25096430 CACTAATTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
17 6 0.11
18 27 0.47
19 6 0.11
20 10 0.18
21 3 0.05
22 3 0.05
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAATTATAATTTTCC
Found at i:25096404 original size:58 final size:58
Alignment explanation
Indices: 25096334--25096452 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
25096324 CTCGTTTTTA
25096334 TCTCATTTAATCTATAATTTTCCTTTAATTCATAATTTCACTAATTCAAAAATATATT
1 TCTCATTTAATCTATAATTTTCCTTTAATTCATAATTTCACTAATTCAAAAATATATT
25096392 TCTCATTTAATCTATAATTTTCCTTTAATTCATAATTTCACTAATTCAAAAATATATT
1 TCTCATTTAATCTATAATTTTCCTTTAATTCATAATTTCACTAATTCAAAAATATATT
25096450 TCT
1 TCT
25096453 AAAACCATAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (58 bp):
TCTCATTTAATCTATAATTTTCCTTTAATTCATAATTTCACTAATTCAAAAATATATT
Found at i:25098229 original size:17 final size:18
Alignment explanation
Indices: 25098207--25098242 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25098197 TTATTTTCAT
25098207 TTTGAA-TTTAATTATAA
1 TTTGAAGTTTAATTATAA
*
25098224 TTTGAAGTTTCATTATAA
1 TTTGAAGTTTAATTATAA
25098242 T
1 T
25098243 ATTTTAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTGAAGTTTAATTATAA
Found at i:25110039 original size:15 final size:16
Alignment explanation
Indices: 25110019--25110054 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
25110009 GTAAAAAAAA
*
25110019 TTTATTT-TTTTATTT
1 TTTATTTCTTGTATTT
25110034 TTTATTTCTTGTATTT
1 TTTATTTCTTGTATTT
25110050 TTTAT
1 TTTAT
25110055 ATTATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTATTTCTTGTATTT
Found at i:25111484 original size:72 final size:72
Alignment explanation
Indices: 25111248--25111500 Score: 400
Period size: 73 Copynumber: 3.5 Consensus size: 72
25111238 ACATGTGAAC
* *
25111248 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
25111312 CAGCGTGTCC
63 CAACGTGTCT
*
25111322 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
25111387 ACGTGTCT
65 ACGTGTCT
25111395 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
25111460 TGTGTCT
66 CGTGTCT
*
25111467 TGAGGCTCAACTCATTTCTCGCAATGTGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
25111501 TTCTTTCAAA
Statistics
Matches: 169, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
72 67 0.40
73 72 0.43
74 30 0.18
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:25111585 original size:88 final size:85
Alignment explanation
Indices: 25111433--25111932 Score: 333
Period size: 78 Copynumber: 6.0 Consensus size: 85
25111423 AGTTGAATTT
* * ** * ** *
25111433 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATGTGAGT
1 TGAAAACATAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
25111498 TGATTCTTTCAAAAACATAATAA
66 TGATT-TTTGAAAAACA-AA-AA
* *
25111521 TGAAAACATAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACATAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
25111586 TGATTTTTTTTTTTGAAAAACAGAAA
66 TGA------TTTTTGAAAAACAAAAA
* *
25111612 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CATAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
25111676 GAGTTGATTTTTG-AAAACAAAAA
62 GAGTTGATTTTTGAAAAACAAAAA
* * * *
25111699 T------TTAAA-AG-AAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCACAATATG
1 TGAAAACATAAATTGAAAATACCTCGG--TGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
25111755 AGTTGATTTTTG-AAAAC----A
63 AGTTGATTTTTGAAAAACAAAAA
** * ** * * * *
25111773 -G-AAATTTAAA-AG-AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGT
1 TGAAAACATAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
25111833 TGATTTTTGAAAAACAGAAAT
66 TGATTTTTGAAAAACA-AAAA
*
25111854 TG-----A-AAA--G-AAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAACATAAATTGAAAATACCTCGG--TGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
*
25111909 AGTTGATTTTTGAAAAACGAAAA
63 AGTTGATTTTTGAAAAACAAAAA
25111932 T
1 T
25111933 TTGAAAGAAA
Statistics
Matches: 343, Mismatches: 38, Indels: 72
0.76 0.08 0.16
Matches are distributed among these distances:
74 1 0.00
75 19 0.06
76 37 0.11
77 4 0.01
78 96 0.28
79 30 0.09
80 3 0.01
82 1 0.00
87 10 0.03
88 64 0.19
91 7 0.02
92 16 0.05
93 12 0.03
94 43 0.13
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (85 bp):
TGAAAACATAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAACAAAAA
Found at i:25111851 original size:76 final size:76
Alignment explanation
Indices: 25111650--25112311 Score: 805
Period size: 76 Copynumber: 8.7 Consensus size: 76
25111640 CGTGTGTCCT
* * *
25111650 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAAAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
*
25111714 TCGGCATGTGATCC
65 TCGGCA--TGACCC
* ** *
25111728 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG-AAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
25111792 TCGGCATGACCC
65 TCGGCATGACCC
*
25111804 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGAAATACCT
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
*
25111869 CGGCATGTGATCC
66 CGGCA--TGACCC
* * * *
25111882 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-GAAAATTTGAAAGAAATAC
1 GAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACAG-AAATTTAAAAGAAATAC
*
25111946 TTCGGCATGACCC
64 CTCGGCATGACCC
*
25111959 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAAC-GAAAAATTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAG-AAATTTAAAAGAAATACC
*
25112023 TCGGCATGACTC
65 TCGGCATGACCC
**
25112035 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAATGGAAATTTAAAAGAAATACCT
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
25112100 CGGCATGACCC
66 CGGCATGACCC
* *
25112111 GAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTAAAAAACATAAA-TT--AA-AAATACCT
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
* *
25112171 CAGCGTGACCC
66 CGGCATGACCC
* * * *
25112182 GATGCCCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAATCATAAA-TT--AA-AAATACC
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAATACC
* *
25112242 TCAGCGTGACCC
65 TCGGCATGACCC
* * * *
25112254 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTG-AAAACAGAAATTGAAAA
1 GAGGCTCAACTCACCTCT-GTATTATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAA
25112312 TACCTCAACG
Statistics
Matches: 526, Mismatches: 45, Indels: 27
0.88 0.08 0.05
Matches are distributed among these distances:
71 47 0.09
72 50 0.10
73 15 0.03
74 17 0.03
75 30 0.06
76 207 0.39
77 25 0.05
78 90 0.17
79 45 0.09
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (76 bp):
GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
CGGCATGACCC
Found at i:25112046 original size:231 final size:227
Alignment explanation
Indices: 25111629--25112311 Score: 879
Period size: 231 Copynumber: 3.0 Consensus size: 227
25111619 GCTTAATTGA
*
25111629 AAATACCTCGGCGTGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA
1 AAATACCTCGGCATGTGATCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
* * ** *
25111692 ACAAAAATTTAAAAGAAATACCTCGGCATGTGATCCAAGGCTCAACTCACCTCTCACAATATGAG
65 AC-AAAATTT-AAAGAAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCT-GTATTATGAG
*
25111757 TTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT
125 TTGATTTTTGAAAACA-AAAATTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT
25111822 GTATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAG
189 GTATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAG
*
25111861 AAATACCTCGGCATGTGATCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
*
25111926 CGAAAATTTGAAAGAAATACTTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
66 C-AAAATTT-AAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
*
25111991 TTTTTGAAAAACGAAAAATTAAAAGAAATACCTCGGCATGACTCGAGGCTCAACTCACCTCTGTA
129 TTTTTG-AAAAC-AAAAATTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTA
** *
25112056 TTATGAGTTGATTTTTGAAAAATGGAAATTTAAAAG
192 TTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAG
* * * *
25112092 AAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TTTTAAAAAA
1 AAATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * *
25112153 CATAAA-TT-AA-AAATACCTCAGCGTGACCCGATGCCCAACTCACCTCTGTATTATGAGTTGAT
66 CA-AAATTTAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-
* * * * * *
25112215 TTTTTGAAATCATAAATT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAA
129 TTTTTGAAAACAAAAATTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTAT
*
25112277 TATAAGTTGATTTTTTTG-AAAACAGAAATTGAAAA
193 TATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAA
25112312 TACCTCAACG
Statistics
Matches: 406, Mismatches: 36, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
219 34 0.08
220 13 0.03
221 14 0.03
222 12 0.03
223 50 0.12
224 8 0.02
226 3 0.01
227 13 0.03
228 12 0.03
229 22 0.05
230 17 0.04
231 122 0.30
232 55 0.14
233 31 0.08
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (227 bp):
AAATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
CAAAATTTAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATT
TTTGAAAACAAAAATTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTAT
GAGTTGATTTTTGAAAAACAGAAATTGAAAAG
Found at i:25112396 original size:72 final size:72
Alignment explanation
Indices: 25111623--25112530 Score: 548
Period size: 76 Copynumber: 12.1 Consensus size: 72
25111613 CAAAAGGCTT
* * *
25111623 AATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAATTTT
*
25111688 GAAAACAAA
64 GAAAACAGA
* * * * *
25111697 AATTTAAAAGAAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCACAATATGAGTTGA
1 AA-TT--GA-AAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA
*
25111761 TTTTTGAAAACAGA
59 ATTTTGAAAACAGA
* * * * * * * * *
25111775 AATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTT
1 AA-TT--GA-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAATT
25111839 TTGAAAAACAGA
62 TTG-AAAACAGA
* * *
25111851 AATTGAAAAGAAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AATTG---A-AAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA
*
25111915 TTTTTGAAAA-ACGAA
59 ATTTTGAAAACA-G-A
* * * * * * * * *
25111930 AATTTGAAAGAAATACTTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTT
1 AA-TTG--A-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAATT
*
25111994 TTGAAAAACGAAA
62 TTG-AAAAC-AGA
* * * * * * * *
25112007 AATTAAAAGAAATACCTCGGCATG-ACTCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTT
1 AATT--GA-AAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATAAGTTGAATT
25112070 TTGAAAA-ATGGA
62 TTGAAAACA--GA
* * * * * * * *
25112082 AATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTG-ATT
1 AA-TT--GA-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAATT
* *
25112145 TTAAAAAACATA
62 TT-GAAAACAGA
* * * * * * * * *
25112157 AATTAAAAATACCTCAGCGTGACCCGATGCCCAACTCACCTCT-GTATTATGAGTTGATTTTTTG
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-ATTTTG
* *
25112221 AAATCATA
65 AAAACAGA
* * * *
25112229 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA--ATTTT
25112294 GAAAACAGA
64 GAAAACAGA
* * ** *
25112303 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTCGAATTTTGA
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAATTTTGA
25112368 AAACAGA
66 AAACAGA
* ** *
25112375 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT-AATTTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAA----TT
*
25112439 TTTAACAACAGA
62 TTGAA-AACAGA
* * * *
25112451 AATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGA
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAATTTTG-
*
25112515 AAAACAAA
65 AAAACAGA
25112523 AATT-AAAA
1 AATTGAAAA
25112531 GGCTTAACTC
Statistics
Matches: 723, Mismatches: 70, Indels: 85
0.82 0.08 0.10
Matches are distributed among these distances:
71 51 0.07
72 127 0.18
73 18 0.02
74 67 0.09
75 44 0.06
76 235 0.33
77 30 0.04
78 106 0.15
79 42 0.06
80 3 0.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (72 bp):
AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAATTTTGA
AAACAGA
Found at i:25112500 original size:148 final size:145
Alignment explanation
Indices: 25111623--25112530 Score: 493
Period size: 146 Copynumber: 6.1 Consensus size: 145
25111613 CAAAAGGCTT
* * * * * *
25111623 AATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 AATTAAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTT
* * * * *
25111686 TTGAAAACAAAAATTTAAAAGAAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCA-C
64 TTGAAAACAGAAA-TT--GA-AAATACCTC--AACGTG-TCCTGAGGCTCAACTCACCTCT-AGC
* *
25111749 AATATGAGTTGATTTTTGAAAACAGAA
121 AATATAAGTCGA-TTTTGAAAACA-AA
* * * * * * *
25111776 ATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA--TT
1 AATT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTT
* * * *
25111838 TTTGAAAAACAGAAATTGAAAAGAAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCG
63 TTTG-AAAACAGAAATTG---A-AAATACCTC--AACGTG-TCCTGAGGCTCAACTCACCTCTAG
* *
25111902 CAATATGAGTTGATTTTTGAAAAACGAAA
120 CAATATAAGTCGA-TTTTG-AAAAC-AAA
* * * * * * * *
25111931 ATTTGAAAGAAATACTTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA--TT
1 AATT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTT
* * ** * * *
25111993 TTTGAAAAACGAAAAATTAAAAGAAATACCTCGGCATG-ACTCGAGGCTCAACTCACCTCT-GTA
63 TTTG-AAAAC-AGAAATT--GA-AAATACCTCAACGTGTCCT-GAGGCTCAACTCACCTCTAGCA
* * *
25112056 TTATGAGTTGATTTTTGAAAA-ATGGAA
122 ATATAAGTCGA-TTTTGAAAACA---AA
* * * * * * *
25112083 ATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA--TT
1 AATT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTT
** * * * * * * * * * *
25112145 TTAAAAAACATAAATTAAAAATACCTCAGCGTGACCCGATGCCCAACTCACCTCT-GTATTATGA
63 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAA
* * *
25112209 GTTGATTTTTTGAAATCATA
128 GTCGA--TTTTGAAAACAAA
*
25112229 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTT
1 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTTT
* ** *
25112294 GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTC
66 GAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTC
*
25112359 GAATTTTGAAAACAGA
131 G-ATTTTGAAAACAAA
* * * * ** *
25112375 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTTTT
1 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAA-TTTTTT
* * * * *
25112440 TTAACAACAGAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAG
65 TGAA-AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAG
*
25112505 TTGATTTTGAAAAACAAA
129 TCGATTTTG-AAAACAAA
25112523 AATTAAAA
1 AATTAAAA
25112531 GGCTTAACTC
Statistics
Matches: 647, Mismatches: 79, Indels: 63
0.82 0.10 0.08
Matches are distributed among these distances:
143 35 0.05
144 13 0.02
146 110 0.17
147 67 0.10
148 81 0.13
149 2 0.00
150 6 0.01
151 10 0.02
152 82 0.13
153 42 0.06
154 91 0.14
155 89 0.14
156 19 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (145 bp):
AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTTT
GAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTC
GATTTTGAAAACAAA
Found at i:25112746 original size:127 final size:123
Alignment explanation
Indices: 25112439--25112783 Score: 435
Period size: 124 Copynumber: 2.7 Consensus size: 123
25112429 TTAATTTTTT
*
25112439 TTTAACAACAGAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTTAA-AACAGAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGA
* *
25112504 GTTGATTTTGAAAAA-CAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAA
65 GTTGATTTTGAAAAAGCAGAAATTAAAAGGCTTAACCCACCTCTCGCAATATGAGTCAA
* * * *
25112562 TTTAAAACATAAAAATTGAAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATG
1 TTTAAAAC--AGAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATG
* * * * *
25112627 AGCTGATTTTGAAAAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGTAATATGAGTTGAT
64 AGTTGATTTTGAAAAAGCAGAAATTAAAAGGCTT-AACCCACCTCTCGCAATATGAG-TCAA
* * **
25112688 TCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCATTTCTTGCAATAT
1 T-TT-A-AAACAGAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATAT
25112753 GAGTTGAATTTTG-AAAAGCAGAAATTGAAAA
63 GAGTTG-ATTTTGAAAAAGCAGAAATT-AAAA
25112784 TACCTCAACG
Statistics
Matches: 190, Mismatches: 22, Indels: 15
0.84 0.10 0.07
Matches are distributed among these distances:
122 3 0.02
123 5 0.03
124 67 0.35
125 32 0.17
126 3 0.02
127 65 0.34
128 11 0.06
129 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (123 bp):
TTTAAAACAGAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAG
TTGATTTTGAAAAAGCAGAAATTAAAAGGCTTAACCCACCTCTCGCAATATGAGTCAA
Found at i:25112756 original size:73 final size:72
Alignment explanation
Indices: 25112669--25112908 Score: 360
Period size: 73 Copynumber: 3.3 Consensus size: 72
25112659 TCAACCCACC
* *
25112669 TCTCGTAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCT
1 TCTCGCAATATGAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCATCGTGTCTTGAGGCT
25112733 CAACTCATT
64 CAACTCATT
* * *
25112742 TCTTGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTC
1 TCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTC
25112807 AACTCATT
65 AACTCATT
*
25112815 TCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAAT-GTGTCTTGAGGCTC
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC-ATCGTGTCTTGAGGCTC
*
25112879 AACTCATC
65 AACTCATT
25112887 TCTCGCAATATGAGTTG-ATTTT
1 TCTCGCAATATGAGTTGAATTTT
25112909 CCTTGGAAAG
Statistics
Matches: 154, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
71 5 0.03
72 58 0.38
73 88 0.57
74 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (72 bp):
TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTCA
ACTCATT
Found at i:25128814 original size:21 final size:20
Alignment explanation
Indices: 25128790--25128829 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
25128780 AAAAATTCAA
*
25128790 AAAATGAATATATAAAAAATG
1 AAAATGAAAATA-AAAAAATG
25128811 AAAATGAAAATAAAAAAAT
1 AAAATGAAAATAAAAAAAT
25128830 TAAGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAATGAAAATAAAAAAATG
Found at i:25131097 original size:16 final size:16
Alignment explanation
Indices: 25131076--25131107 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25131066 CAAACAGAAA
25131076 AAATAGTAGTAAGTTT
1 AAATAGTAGTAAGTTT
25131092 AAATAGTAGTAAGTTT
1 AAATAGTAGTAAGTTT
25131108 GGTGTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
AAATAGTAGTAAGTTT
Found at i:25131265 original size:13 final size:13
Alignment explanation
Indices: 25131236--25131272 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
25131226 GAAAATAATT
25131236 TAAAAATTATAAA
1 TAAAAATTATAAA
*
25131249 -AAAAATTGTAAA
1 TAAAAATTATAAA
25131261 TAAAAATTATAA
1 TAAAAATTATAA
25131273 TTTGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
TAAAAATTATAAA
Found at i:25131978 original size:20 final size:20
Alignment explanation
Indices: 25131953--25131993 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
25131943 TTACTACAAT
25131953 TATTCACTACTAACCCTAAA
1 TATTCACTACTAACCCTAAA
25131973 TATTCACTACTAACCCTAAA
1 TATTCACTACTAACCCTAAA
25131993 T
1 T
25131994 CTAAATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (20 bp):
TATTCACTACTAACCCTAAA
Found at i:25134508 original size:53 final size:53
Alignment explanation
Indices: 25134352--25134517 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
25134342 TGACGAAAAT
* **
25134352 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
25134404 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
25134457 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
25134511 TATGTGA
1 -ATGTGA
25134518 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:25136516 original size:16 final size:16
Alignment explanation
Indices: 25136495--25136541 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
25136485 AAGATTATTT
25136495 TTTATATTTTATGTTA
1 TTTATATTTTATGTTA
*
25136511 TTTATATATTTAT-ATA
1 TTTATAT-TTTATGTTA
*
25136527 TTATATAATTTATGT
1 TT-TATATTTTATGT
25136542 CATATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (16 bp):
TTTATATTTTATGTTA
Found at i:25138815 original size:22 final size:22
Alignment explanation
Indices: 25138772--25138815 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25138762 ACATATGCAC
*
25138772 ATACTTACATTTTTATTTTATA
1 ATACTTACATTTTTATTATATA
25138794 ATACTTACAGTTTTT-TTATATA
1 ATACTTACA-TTTTTATTATATA
25138816 TGTATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (22 bp):
ATACTTACATTTTTATTATATA
Found at i:25145058 original size:86 final size:86
Alignment explanation
Indices: 25144913--25145262 Score: 547
Period size: 86 Copynumber: 4.1 Consensus size: 86
25144903 AGTAAAAATT
* * * * * *
25144913 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
25144978 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
*
25144999 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
25145064 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
*
25145085 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
*
25145150 GCACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * * *
25145171 GAAGACAAACCTTGCCTCTCTCATTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTTCTTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* *
25145236 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
25145258 GAAGA
1 GAAGA
25145263 TGGCAAATTT
Statistics
Matches: 246, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
86 225 0.91
87 21 0.09
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:25145100 original size:42 final size:42
Alignment explanation
Indices: 25144967--25145187 Score: 107
Period size: 42 Copynumber: 5.2 Consensus size: 42
25144957 GTTATCAGAT
25144967 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * * *
25145009 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAAG--A-CAAAC
25145053 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * * *
25145095 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAAG--A-CAAAC
*
25145139 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
25145181 CTTGCCT
1 CTTGCCT
25145188 CTCTCATTTG
Statistics
Matches: 122, Mismatches: 37, Indels: 40
0.61 0.19 0.20
Matches are distributed among these distances:
40 2 0.02
41 26 0.21
42 35 0.29
43 4 0.03
44 27 0.22
45 26 0.21
46 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
Found at i:25145381 original size:134 final size:134
Alignment explanation
Indices: 25145210--25145454 Score: 384
Period size: 134 Copynumber: 1.8 Consensus size: 134
25145200 GCAGAGCTGG
* ** *
25145210 TTGAAGATATCAGATCTTTCTTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAAATTTTA
1 TTGAAGATATCAGATCTTACCCTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAAATTTTA
25145275 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATCTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATCTGGCAGTGGAA
25145340 TAGA
131 TAGA
*
25145344 TTGAAGAT-TGCAGATCTTACCCTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
1 TTGAAGATAT-CAGATCTTACCCTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAAATTTT
** * **
25145408 ACCTCCCTGATTACAGTGGAGTACATTGAAGCTGATAGTTCTATCTC
65 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
25145455 CCGGGGCAAG
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
133 1 0.01
134 99 0.99
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (134 bp):
TTGAAGATATCAGATCTTACCCTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAAATTTTA
CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATCTGGCAGTGGAA
TAGA
Found at i:25145701 original size:132 final size:132
Alignment explanation
Indices: 25145464--25146367 Score: 1479
Period size: 132 Copynumber: 6.8 Consensus size: 132
25145454 CCCGGGGCAA
* * * *
25145464 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCTGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
*
25145529 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
25145594 GT
131 GT
* * * *
25145596 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCTGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
**
25145661 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTGGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
25145726 GT
131 GT
* *
25145728 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGAAGA
1 GAAGTAGATCGAAGATAGCTGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
25145793 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
25145858 GT
131 GT
* * * * * *
25145860 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCTGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
**
25145925 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATAAATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
25145990 GT
131 GT
25145992 GAAGTAGATCGAAGATAG-TAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAG
1 GAAGTAGATCGAAGATAGCT-GGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAG
*
25146056 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTATCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG
25146121 CGT
130 CGT
* *
25146124 GAAGTAGATCGAAGATAG-TAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCACGACGCAG
1 GAAGTAGATCGAAGATAGCT-GGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAG
25146188 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG
25146253 CGT
130 CGT
* * * * *
25146256 GAAGTAGATCGAAGATACCAGATCCTATCCTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCTGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
* * * *
25146321 TCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAAAAAGCAGATC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATC
25146368 GACGATGGCG
Statistics
Matches: 728, Mismatches: 42, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
132 728 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCTGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:25146317 original size:44 final size:45
Alignment explanation
Indices: 25145464--25146367 Score: 490
Period size: 44 Copynumber: 20.5 Consensus size: 45
25145454 CCCGGGGCAA
* * * *
25145464 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * * * *
25145508 GAAATGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * * ** *
25145552 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG-GCGT
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * *
25145596 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * * * *
25145640 GAAATGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* ** * * * ** *
25145684 GAAGTAGATCGC-AGAAAGTGGATCTTGTCTTCATGTATTG-GCGT
1 GAAGTAGATC-CAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * *
25145728 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * * *
25145772 GAAGTGGATCCAAGAT-GAAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * ** *
25145816 GAAGTAGATCGC-AGAAAGCAGATCTTGTCTTCATGTATTG-GCGT
1 GAAGTAGATC-CAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * *
25145860 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTG-
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * * * * *
25145904 GAAGTGGATCGACGA-CGCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * ** *
25145948 GAAGTAGATCGC-AGAAAGCAGATCTTGTCTTCATAAATTG-GCGT
1 GAAGTAGATC-CAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * *
25145992 GAAGTAGATCGAAGATAGTAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * *
25146036 GAAGTGGATCCAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * ** *
25146080 GAAGTAGATCGC-AGAAAGCAGATCTTATCTTCATGTATTG-GCGT
1 GAAGTAGATC-CAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * *
25146124 GAAGTAGATCGAAGATAGTAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * * * *
25146168 GAAGTGGATCCACGA-CGCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * ** *
25146212 GAAGTAGATCGC-AGAAAGCAGATCTTGTCTTCATGTATTG-GCGT
1 GAAGTAGATC-CAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * *
25146256 GAAGTAGATCGAAGATACCAGATCCTATCCTCCTATATTGATAG-
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * * * * * *
25146300 GAAGTGGATCCAAGATA-CAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
* * *
25146344 GAAGTAGATCGAAAAAAGCAGATC
1 GAAGTAGATCCAAGATAGCAGATC
25146368 GACGATGGCG
Statistics
Matches: 648, Mismatches: 182, Indels: 59
0.73 0.20 0.07
Matches are distributed among these distances:
43 143 0.22
44 374 0.58
45 131 0.20
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (45 bp):
GAAGTAGATCCAAGATAGCAGATCTTATCTTCCTATATTGATAGC
Found at i:25148285 original size:22 final size:22
Alignment explanation
Indices: 25148242--25148285 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25148232 ACATATGCAC
*
25148242 ATACTTACATTTTTATTTTATA
1 ATACTTACATTTTTATTATATA
25148264 ATACTTACAGTTTTT-TTATATA
1 ATACTTACA-TTTTTATTATATA
25148286 TGTATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (22 bp):
ATACTTACATTTTTATTATATA
Found at i:25150096 original size:24 final size:25
Alignment explanation
Indices: 25150030--25150096 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 25
25150020 TTTTAAATAA
25150030 TTTAATTATATTCAAA-ATTTAATTTT
1 TTTAATT-TATT-AAATATTTAATTTT
*
25150056 TTAATATTTATCT-AATATTT-ATTTT
1 TTTA-ATTTAT-TAAATATTTAATTTT
25150081 TTTAATTTATTAAATA
1 TTTAATTTATTAAATA
25150097 CAGACTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
23 1 0.03
24 10 0.29
25 10 0.29
26 10 0.29
27 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTAATTTATTAAATATTTAATTTT
Found at i:25155700 original size:25 final size:25
Alignment explanation
Indices: 25155666--25155713 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
25155656 GTTTTGGAGG
*
25155666 TTTTACTTCAACAAACTCTTATAAAT
1 TTTTACTTCAACAAA-TATTATAAAT
*
25155692 TTTTA-TTCACCAAATATTATAA
1 TTTTACTTCAACAAATATTATAA
25155714 TTAGAGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 8 0.40
26 5 0.25
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTTACTTCAACAAATATTATAAAT
Found at i:25161058 original size:54 final size:52
Alignment explanation
Indices: 25160851--25161058 Score: 197
Period size: 54 Copynumber: 3.9 Consensus size: 52
25160841 TACCATACCA
* * * * * *
25160851 ATGCCATATCCCAGATATGGTCTTACACGGAAGCACTTATCA-TTATTCTCC
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTGTTATCC
* * * *
25160902 GATGCCATAGCGCAGCTATGGTCTTATACGG-ATCACTTGTATCACAT-TAATCTG
1 -ATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-T-TATCACTTGTTATC-C
* * ** *
25160956 AAGCCATAACCCAGCTATGGTCTTATACGGAAATCACTTATCTTTTGTTTTCC
1 ATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACTTATCACTTGTTATCC
25161009 ATTGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTTGTT
1 A-TGCCATAGCCCAGCTATGGTCTTATACGGA-ATCACTTATCACTTGTT
25161059 GCCATGGTCC
Statistics
Matches: 125, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
51 4 0.03
52 27 0.22
53 42 0.34
54 47 0.38
55 5 0.04
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
ATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTGTTATCC
Found at i:25163961 original size:8 final size:8
Alignment explanation
Indices: 25163948--25163976 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
25163938 TTATGTTTAG
25163948 TATATTAT
1 TATATTAT
25163956 TATATTAT
1 TATATTAT
25163964 TATATTAT
1 TATATTAT
25163972 TATAT
1 TATAT
25163977 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:25164009 original size:5 final size:5
Alignment explanation
Indices: 25163999--25164029 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
25163989 TTATGTTTTA
25163999 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
25164030 AATATAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:25165325 original size:15 final size:15
Alignment explanation
Indices: 25165305--25165361 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
25165295 CGATGAATTT
25165305 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
25165320 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
25165335 ATTGAATTTATATTG
1 ATTGAATTTATATTG
25165350 ATTGAA-TTATAT
1 ATTGAATTTATAT
25165362 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:25165788 original size:21 final size:21
Alignment explanation
Indices: 25165745--25165805 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
25165735 AGGCACTTTA
* *
25165745 TGTGTCGTATTTCAAGCATCTCG
1 TGTGTCGTA--TCAGGCACCTCG
25165768 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
25165789 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATCAGGCAC
25165806 TTTATGTGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 25 0.74
23 9 0.26
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:25165813 original size:21 final size:21
Alignment explanation
Indices: 25165735--25165817 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
25165725 TTTATCGATC
*
25165735 AGGCACTTTATGTGTCGTATTT
1 AGGCACTTCATGTGTCGT-TTT
* * * *
25165757 CAAGCA-TCTCGTGTGTCGTATC
1 -AGGCACT-TCATGTGTCGTTTT
* *
25165779 AGGCACCTCGTGTGTCGTTTT
1 AGGCACTTCATGTGTCGTTTT
*
25165800 AGGCACTTTATGTGTCGT
1 AGGCACTTCATGTGTCGT
25165818 ACTCTGATCA
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
21 31 0.67
22 2 0.04
23 13 0.28
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (21 bp):
AGGCACTTCATGTGTCGTTTT
Found at i:25167287 original size:26 final size:26
Alignment explanation
Indices: 25167258--25167365 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
25167248 TGGTACAAAT
25167258 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25167284 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
25167310 TGACAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
25167336 TGATAATGATTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25167362 TGAT
1 TGAT
25167366 GGACATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25174352 original size:26 final size:26
Alignment explanation
Indices: 25174314--25174420 Score: 187
Period size: 26 Copynumber: 4.1 Consensus size: 26
25174304 GGTACAAATC
25174314 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
* *
25174340 GATAATGGATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
25174366 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
25174392 GATAATGGTTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
25174418 GAT
1 GAT
25174421 GGACATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
GATAATGGGTTAGGTAAATGTTCCAT
Found at i:25177446 original size:20 final size:20
Alignment explanation
Indices: 25177421--25177460 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25177411 AACGAGAGTA
25177421 AGCTTATATAAATTATTATT
1 AGCTTATATAAATTATTATT
25177441 AGCTTATATAAATTATTATT
1 AGCTTATATAAATTATTATT
25177461 TAAATAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
AGCTTATATAAATTATTATT
Found at i:25183523 original size:35 final size:34
Alignment explanation
Indices: 25183477--25183605 Score: 141
Period size: 35 Copynumber: 3.7 Consensus size: 34
25183467 TTTCCTCATT
* **
25183477 GAAATACCATACCTACATTTCACAACTTGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTAT-G
* **
25183512 GAAATGCCATACCTACGTTTCTTAACTCAGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* *
25183546 GATAATACCATACCTACGTTTCACAACTCAATACG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* *
25183581 GTTAATATCATACCTACGTTTCACA
1 G-AAATACCATACCTACGTTTCACA
25183606 TCTTATCATG
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
34 3 0.04
35 76 0.96
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:25186834 original size:20 final size:21
Alignment explanation
Indices: 25186793--25186835 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
25186783 TAAAAATGAT
*
25186793 ATTAAATGTTTAATTGATTTA
1 ATTAAATGTTTAAATGATTTA
25186814 ATTAAA-GTTTAAAT-ATATTA
1 ATTAAATGTTTAAATGAT-TTA
25186834 AT
1 AT
25186836 ATCCGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.60
21 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (21 bp):
ATTAAATGTTTAAATGATTTA
Found at i:25187339 original size:29 final size:29
Alignment explanation
Indices: 25187275--25187346 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
25187265 AAATTCTTGA
*
25187275 AGGATTATTTAAATATTAACCTAAAAAAT
1 AGGATGATTTAAATATTAACCTAAAAAAT
* *
25187304 -GGATGATTTAAATATTAACCTCAAAATT
1 AGGATGATTTAAATATTAACCTAAAAAAT
25187332 AGGATGATTTAAATA
1 AGGATGATTTAAATA
25187347 GAGTCAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 25 0.64
29 14 0.36
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (29 bp):
AGGATGATTTAAATATTAACCTAAAAAAT
Found at i:25187646 original size:19 final size:19
Alignment explanation
Indices: 25187622--25187675 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
25187612 AAATTCAAGG
25187622 AAATACATTAAAAATATAA
1 AAATACATTAAAAATATAA
*
25187641 AAATACTTTTAAAAATATAA
1 AAATAC-ATTAAAAATATAA
* *
25187661 TAATAAATTTAAAAA
1 AAATACA-TTAAAAA
25187676 ATAGTGGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATACATTAAAAATATAA
Found at i:25187655 original size:21 final size:20
Alignment explanation
Indices: 25187629--25187675 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
25187619 AGGAAATACA
**
25187629 TTAAAAATATAAAAATACTT
1 TTAAAAATATAAAAATAAAT
*
25187649 TTAAAAATATAATAATAAAT
1 TTAAAAATATAAAAATAAAT
25187669 TTAAAAA
1 TTAAAAA
25187676 ATAGTGGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAAAAATATAAAAATAAAT
Found at i:25188166 original size:29 final size:29
Alignment explanation
Indices: 25188103--25188167 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
25188093 GTAATTATAA
* *
25188103 ACATAAAATTTTAATTATAGTTTAAATAT
1 ACATAAAAATTTAATTATAATTTAAATAT
* * *
25188132 ATATAAAAATTTAATTATAATTTAATTGT
1 ACATAAAAATTTAATTATAATTTAAATAT
25188161 ACATAAA
1 ACATAAA
25188168 TAAATATGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
ACATAAAAATTTAATTATAATTTAAATAT
Found at i:25190870 original size:23 final size:23
Alignment explanation
Indices: 25190817--25190870 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
25190807 GTTAAAGTTT
* *
25190817 AAATTTTAAATTTGGTAAATAAA
1 AAATTTTAAAGTTGATAAATAAA
*
25190840 AAAGTTTAAAGTTGATAAA-AAA
1 AAATTTTAAAGTTGATAAATAAA
25190862 ATAATTTTA
1 A-AATTTTA
25190871 TTTATTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (23 bp):
AAATTTTAAAGTTGATAAATAAA
Found at i:25197831 original size:13 final size:13
Alignment explanation
Indices: 25197815--25197839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25197805 TTTATTTATC
25197815 ATTTCAATATATA
1 ATTTCAATATATA
25197828 ATTTCAATATAT
1 ATTTCAATATAT
25197840 TAATAATATA
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTCAATATATA
Found at i:25197847 original size:11 final size:11
Alignment explanation
Indices: 25197833--25197875 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
25197823 ATATAATTTC
25197833 AATATATTAAT
1 AATATATTAAT
*
25197844 AATATATAAAT
1 AATATATTAAT
25197855 -A-ATATTAAT
1 AATATATTAAT
*
25197864 AATATAATAAT
1 AATATATTAAT
25197875 A
1 A
25197876 TAAAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 18 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATTAAT
Found at i:25197859 original size:9 final size:9
Alignment explanation
Indices: 25197847--25197879 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
25197837 TATTAATAAT
25197847 ATATAAATA
1 ATATAAATA
*
25197856 ATATTAATA
1 ATATAAATA
25197865 ATAT-AATA
1 ATATAAATA
25197873 ATATAAA
1 ATATAAA
25197880 AAGAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
ATATAAATA
Found at i:25197863 original size:17 final size:17
Alignment explanation
Indices: 25197836--25197876 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 17
25197826 TAATTTCAAT
25197836 ATATTAATAATATATAAATA
1 ATATTAAT-A-ATAT-AATA
25197856 ATATTAATAATATAATA
1 ATATTAATAATATAATA
25197873 ATAT
1 ATAT
25197877 AAAAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 1 0.05
20 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATTAATAATATAATA
Found at i:25206792 original size:29 final size:30
Alignment explanation
Indices: 25206741--25206799 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
25206731 TTTAGTCTAA
**
25206741 TGTGTAATGTTATATATGTA-TTTTGATTT
1 TGTGTAATGTTATATATAAATTTTTGATTT
*
25206770 TGTGTAATTTTATATATAAATTTTTGATTT
1 TGTGTAATGTTATATATAAATTTTTGATTT
25206800 GATTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (30 bp):
TGTGTAATGTTATATATAAATTTTTGATTT
Found at i:25226811 original size:176 final size:176
Alignment explanation
Indices: 25226603--25226972 Score: 395
Period size: 181 Copynumber: 2.1 Consensus size: 176
25226593 AATTCTGAAC
** * * *
25226603 AAAGAAGCTAAACTGAAAGACTAGTGGAAAGCAAGATTTAACCTAGTACAACAC-GATCACAAGA
1 AAAGAAGCTAAACCAAAAAACTAATGGAAAGCAAGATTCAACCTAGTACAACACAGATCACAAG-
* * * * * * * * ** ***
25226667 TTGTTTCCGGGACAAAGTTCTGGAGTTTGATTTGTGTATAAATGAAGACCTATTTTTGTATGTAG
65 TTGTTTCAGGCACAAAGTTCGGGAGTTCGAATTGGGTATAAATCAAGACCTATATACGTAACCAG
* * * * *
25226732 TCCAACACAACAACTA-CTATCACAATTAATCCATAG-TAATTCAGATG
130 TCAAACACAACAACAATC-ATCACAATTAAT-AATAGATAATTAAGAAG
* * * *
25226779 AAAGAAGCTAAACCAAAAAACTAATTGAAAGCAAGATTCAAGCTATTTCAACACATAGATGATCA
1 AAAGAAGCTAAACCAAAAAACTAATGGAAAGCAAGATTCAACCTAGTACAACAC----A-GATCA
25226844 CAAGTTGTTTCAGGCACAAAGTTCGGGAGTTCGAATTGGGTATAAATCAAGACCTATATACGTAA
61 CAAGTTGTTTCAGGCACAAAGTTCGGGAGTTCGAATTGGGTATAAATCAAGACCTATATACGTAA
*
25226909 CCAGTCAAACACAACAACAATCATCATAATTAATAATAGATAATTAAGAAG
126 CCAGTCAAACACAACAACAATCATCACAATTAATAATAGATAATTAAGAAG
25226960 AAAGAAGCTAAAC
1 AAAGAAGCTAAAC
25226973 AACAACTCAC
Statistics
Matches: 158, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
176 45 0.28
180 4 0.03
181 99 0.63
182 10 0.06
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (176 bp):
AAAGAAGCTAAACCAAAAAACTAATGGAAAGCAAGATTCAACCTAGTACAACACAGATCACAAGT
TGTTTCAGGCACAAAGTTCGGGAGTTCGAATTGGGTATAAATCAAGACCTATATACGTAACCAGT
CAAACACAACAACAATCATCACAATTAATAATAGATAATTAAGAAG
Found at i:25228877 original size:23 final size:23
Alignment explanation
Indices: 25228850--25228903 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
25228840 ATAATCATAA
* *
25228850 TTAAATTGTATATTTTTATCA-TT
1 TTAAATTG-ATATCTTTATAACTT
25228873 TTAAAGTTGATATCTTTATAACTT
1 TTAAA-TTGATATCTTTATAACTT
25228897 TTAAATT
1 TTAAATT
25228904 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (23 bp):
TTAAATTGATATCTTTATAACTT
Found at i:25234428 original size:53 final size:53
Alignment explanation
Indices: 25234347--25234497 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
25234337 CTTACACGGT
* * *
25234347 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCATATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
25234402 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
25234455 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
25234498 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:25238794 original size:17 final size:17
Alignment explanation
Indices: 25238774--25238811 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
25238764 AAAATATTAA
*
25238774 AAAAGTAAATTAATTCT
1 AAAACTAAATTAATTCT
25238791 AAAACTAAATTAATTCT
1 AAAACTAAATTAATTCT
25238808 AAAA
1 AAAA
25238812 AAAGTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAACTAAATTAATTCT
Found at i:25244627 original size:23 final size:24
Alignment explanation
Indices: 25244578--25244640 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
25244568 ACAAAAAATA
*
25244578 AAATCT-ATTCTAAAAAGAAAAGGG
1 AAATCTAATT-TAAAAAGAAAAGAG
25244602 AAATCTAATTTAAAAAGAAAA-AG
1 AAATCTAATTTAAAAAGAAAAGAG
*
25244625 AAA-CATAATCTAAAAA
1 AAATC-TAATTTAAAAA
25244641 TATGGGAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 1 0.03
23 14 0.40
24 17 0.49
25 3 0.09
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.21
Consensus pattern (24 bp):
AAATCTAATTTAAAAAGAAAAGAG
Found at i:25244855 original size:21 final size:21
Alignment explanation
Indices: 25244829--25244870 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25244819 TTTTGATCTC
25244829 GGGGCTTGGTGTCGTGACTTT
1 GGGGCTTGGTGTCGTGACTTT
25244850 GGGGCTTGGTGTCGTGACTTT
1 GGGGCTTGGTGTCGTGACTTT
25244871 AATGACAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.14, G:0.43, T:0.38
Consensus pattern (21 bp):
GGGGCTTGGTGTCGTGACTTT
Found at i:25245490 original size:13 final size:13
Alignment explanation
Indices: 25245472--25245499 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25245462 CACAGTTTCA
25245472 TGATTCAATTATG
1 TGATTCAATTATG
25245485 TGATTCAATTATG
1 TGATTCAATTATG
25245498 TG
1 TG
25245500 TACATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (13 bp):
TGATTCAATTATG
Found at i:25249336 original size:21 final size:21
Alignment explanation
Indices: 25249311--25249353 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
25249301 CAAACAAATC
25249311 AAAATCTGAATAAATTGGAGA
1 AAAATCTGAATAAATTGGAGA
*
25249332 AAAATCTGAGTAAATTGGAGA
1 AAAATCTGAATAAATTGGAGA
25249353 A
1 A
25249354 TAATGATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.23
Consensus pattern (21 bp):
AAAATCTGAATAAATTGGAGA
Found at i:25250410 original size:15 final size:14
Alignment explanation
Indices: 25250380--25250428 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
25250370 ATTGTGTTGG
*
25250380 TAAAAAAATATTTT
1 TAAAATAATATTTT
*
25250394 TAAAATAGATATATT
1 TAAAATA-ATATTTT
* *
25250409 TATAATATTATTTT
1 TAAAATAATATTTT
25250423 TAAAAT
1 TAAAAT
25250429 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
TAAAATAATATTTT
Found at i:25257728 original size:20 final size:20
Alignment explanation
Indices: 25257703--25257752 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
25257693 TGGCTTAAAA
25257703 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
25257723 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
25257740 GTGGTAGTGGATT
1 TTGGTAGTGGATT
25257753 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:25262367 original size:20 final size:20
Alignment explanation
Indices: 25262342--25262391 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
25262332 TGGCTTAAAA
25262342 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
25262362 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
25262379 GTGGTAGTGGATT
1 TTGGTAGTGGATT
25262392 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:25270873 original size:46 final size:44
Alignment explanation
Indices: 25270769--25270876 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
25270759 TGTCTTTGAC
** * * *
25270769 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
25270813 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
25270859 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
25270877 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:25278243 original size:46 final size:44
Alignment explanation
Indices: 25278139--25278246 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
25278129 TATCTTTGAC
** * * *
25278139 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
25278183 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
25278229 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
25278247 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:25284515 original size:38 final size:38
Alignment explanation
Indices: 25284464--25284542 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
25284454 GTTATGGTTA
25284464 TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
1 TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
*
25284502 TTAAAGATTGAGATAATTGACATAGTGCCACTATATCT
1 TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
25284540 TTA
1 TTA
25284543 TATGTTCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (38 bp):
TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
Found at i:25291656 original size:46 final size:45
Alignment explanation
Indices: 25291594--25291684 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
25291584 CCCAACAAAC
* * * *
25291594 AAACATTATCAAGATCTGTGGTGTGTTCTATATTCAAGTGTAACAA
1 AAACATTATCAAGATCTG-GATATGCTCTATATTCAACTGTAACAA
* *
25291640 AAACATTATCGAGATCTGGATATGCTCTTTATTCAACTGTAACAA
1 AAACATTATCAAGATCTGGATATGCTCTATATTCAACTGTAACAA
25291685 GGTAGGTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 22 0.56
46 17 0.44
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (45 bp):
AAACATTATCAAGATCTGGATATGCTCTATATTCAACTGTAACAA
Found at i:25294092 original size:7 final size:7
Alignment explanation
Indices: 25294080--25294108 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
25294070 CAAGTTTAAA
25294080 TTATATT
1 TTATATT
25294087 TTATATT
1 TTATATT
25294094 TTATATT
1 TTATATT
25294101 TTATATT
1 TTATATT
25294108 T
1 T
25294109 AAATAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATATT
Found at i:25296318 original size:21 final size:21
Alignment explanation
Indices: 25296294--25296335 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25296284 TTTGGAAACT
25296294 AATTTTATTAAAGAAATTATA
1 AATTTTATTAAAGAAATTATA
* * *
25296315 AATTTTTTTTAATAAATTATA
1 AATTTTATTAAAGAAATTATA
25296336 TTATTAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTTTATTAAAGAAATTATA
Found at i:25301154 original size:20 final size:20
Alignment explanation
Indices: 25301129--25301166 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
25301119 GAATAGGGGC
25301129 ACATGCCCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
25301149 ACATGCCCGTGTGGCCTG
1 ACATGCCCGTGTGGCCTG
25301167 CCCGTGGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.32, G:0.34, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:25303315 original size:3 final size:3
Alignment explanation
Indices: 25303301--25303334 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
25303291 TTATCTCAAT
25303301 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
25303335 GTAAATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:25311627 original size:60 final size:60
Alignment explanation
Indices: 25311534--25311654 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
25311524 TGTAATTTAT
25311534 TATAGTTGAAGCTTAAAAATAGTGATCATGTACAAGCTTATAAGATAGAATTAAAAAAAA
1 TATAGTTGAAGCTTAAAAATAGTGATCATGTACAAGCTTATAAGATAGAATTAAAAAAAA
25311594 TATAGTTGAAGCTTAAAAATAGTGATCATGTACAAGCTTATAAGATAGAATTAAAAAAAA
1 TATAGTTGAAGCTTAAAAATAGTGATCATGTACAAGCTTATAAGATAGAATTAAAAAAAA
25311654 T
1 T
25311655 GAACTACCAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.29
Consensus pattern (60 bp):
TATAGTTGAAGCTTAAAAATAGTGATCATGTACAAGCTTATAAGATAGAATTAAAAAAAA
Done.