Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 164 of 199
Found at i:48132435 original size:6 final size:6
Alignment explanation
Indices: 48132426--48132452 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48132416 TTAAAAATAA
48132426 ATTGAT ATTGAT ATTGAT ATTGAT ATT
1 ATTGAT ATTGAT ATTGAT ATTGAT ATT
48132453 TATGTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
ATTGAT
Found at i:48136561 original size:30 final size:30
Alignment explanation
Indices: 48136520--48136586 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
48136510 CTTGATCAAC
*
48136520 AGATAGTCATAAAGGCGACCATACATCATT
1 AGATAGCCATAAAGGCGACCATACATCATT
* *
48136550 AGATAGCCATAAAGGCGTCCATATATCATT
1 AGATAGCCATAAAGGCGACCATACATCATT
48136580 AGATAGC
1 AGATAGC
48136587 TACAAATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (30 bp):
AGATAGCCATAAAGGCGACCATACATCATT
Found at i:48136733 original size:29 final size:28
Alignment explanation
Indices: 48136678--48136762 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 28
48136668 ATAGAGAACA
48136678 GCCACAAAGGCTTCCACATATAACATATC-C
1 GCCAC-AAGGC-T-CACATATAACATATCTC
* *
48136708 TGCCACTAAGGCTCACATATAGCATATTTC
1 -GCCAC-AAGGCTCACATATAACATATCTC
48136738 GCCACAAGGGCTCACATATAACATA
1 GCCACAA-GGCTCACATATAACATA
48136763 GAATAGCCAC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.04
29 34 0.71
30 2 0.04
31 10 0.21
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.22
Consensus pattern (28 bp):
GCCACAAGGCTCACATATAACATATCTC
Found at i:48136774 original size:30 final size:30
Alignment explanation
Indices: 48136647--48136809 Score: 116
Period size: 30 Copynumber: 5.4 Consensus size: 30
48136637 CAACAAAATC
* * * * *
48136647 AGCCACAAAAGCTCACATGTAATAGAGAAC
1 AGCCACAAAGGCTCACATATAACATAGAAT
***
48136677 AGCCACAAAGGCTTCCACATATAACATATCCT
1 AGCCACAAAGGC-T-CACATATAACATAGAAT
* * **
48136709 -GCCACTAAGGCTCACATATAGCATA-TTT
1 AGCCACAAAGGCTCACATATAACATAGAAT
* *
48136737 CGCCACAAGGGCTCACATATAACATAGAAT
1 AGCCACAAAGGCTCACATATAACATAGAAT
** * *
48136767 AGCCACAAAGGCTTC-CATATATTAGAGAAC
1 AGCCACAAAGGC-TCACATATAACATAGAAT
48136797 AGCCACAAAGGCT
1 AGCCACAAAGGCT
48136810 TCTATTTTTT
Statistics
Matches: 105, Mismatches: 23, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
28 1 0.01
29 35 0.33
30 46 0.44
31 13 0.12
32 10 0.10
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.19
Consensus pattern (30 bp):
AGCCACAAAGGCTCACATATAACATAGAAT
Found at i:48137168 original size:16 final size:16
Alignment explanation
Indices: 48137147--48137192 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
48137137 TTTCATGTAG
* *
48137147 AGACTTATTGATGCAA
1 AGACTTAGTCATGCAA
48137163 AGACTTAGTCATGCAA
1 AGACTTAGTCATGCAA
48137179 AGACTCTA-TCATGC
1 AGACT-TAGTCATGC
48137193 TTTCAGACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 25 0.93
17 2 0.07
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (16 bp):
AGACTTAGTCATGCAA
Found at i:48141423 original size:18 final size:19
Alignment explanation
Indices: 48141388--48141431 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
48141378 TTAAAATTCT
48141388 ATAA-AAAAATCATAAAAA
1 ATAATAAAAATCATAAAAA
48141406 ATAATAAAAAT-ATAAAAA
1 ATAATAAAAATCATAAAAA
*
48141424 ATATTAAA
1 ATAATAAA
48141432 TTTGAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAATAAAAATCATAAAAA
Found at i:48141431 original size:10 final size:9
Alignment explanation
Indices: 48141195--48141342 Score: 66
Period size: 9 Copynumber: 15.8 Consensus size: 9
48141185 TAAAAAAGCT
48141195 TATAAAAAA
1 TATAAAAAA
*
48141204 TCATAAAAAT
1 T-ATAAAAAA
*
48141214 TAT-CAAAA
1 TATAAAAAA
*
48141222 TATAAAAAG
1 TATAAAAAA
* * *
48141231 TATTAGATA
1 TATAAAAAA
48141240 T-TAAAAAA
1 TATAAAAAA
48141248 TATTTAAAAAA
1 TA--TAAAAAA
* *
48141259 TATGAAAAT
1 TATAAAAAA
* **
48141268 TGATATGAACT
1 T-ATA-AAAAA
48141279 TATAAAAAA
1 TATAAAAAA
* *
48141288 AATATAAAAC
1 TATA-AAAAA
48141298 TATAAAAAA
1 TATAAAAAA
*
48141307 TCTAATAAAA
1 TATAA-AAAA
* *
48141317 TTTAATAAAT
1 TATAA-AAAA
48141327 TATAAAAAA
1 TATAAAAAA
48141336 TATAAAA
1 TATAAAA
48141343 TTAATAAATC
Statistics
Matches: 101, Mismatches: 29, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
8 11 0.11
9 41 0.41
10 36 0.36
11 13 0.13
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (9 bp):
TATAAAAAA
Found at i:48141889 original size:9 final size:9
Alignment explanation
Indices: 48141872--48142128 Score: 84
Period size: 9 Copynumber: 27.8 Consensus size: 9
48141862 TTTATGGTTT
48141872 TTTTATATAA
1 TTTT-TATAA
48141882 TTTTTATAA
1 TTTTTATAA
*
48141891 GTTTGTATCAA
1 -TTTTTAT-AA
* **
48141902 TTTCAATATTT
1 TTT--TTATAA
*
48141913 TTTTTATAT
1 TTTTTATAA
*
48141922 TTTTTACAA
1 TTTTTATAA
*
48141931 TTTATTATTAT
1 TTT-TTA-TAA
*
48141942 TTTTTAAGAA
1 TTTTT-ATAA
* *
48141952 TTCTAATACA
1 TTTTTATA-A
48141962 TTTTT-TAA
1 TTTTTATAA
*
48141970 TTTTGA-ATA
1 TTTTTATA-A
*
48141979 TTTTAATAA
1 TTTTTATAA
*
48141988 GTTTTATTAA
1 TTTTTA-TAA
48141998 -TTTTATAA
1 TTTTTATAA
* *
48142006 TTTATTAGAT
1 TTT-TTATAA
48142016 TTTTTAT-A
1 TTTTTATAA
48142024 -TTTT-TAA
1 TTTTTATAA
*
48142031 TATTTATAA
1 TTTTTATAA
48142040 GTTTTTTATAA
1 --TTTTTATAA
*
48142051 TTTTGATAA
1 TTTTTATAA
*
48142060 GTTTATATCAA
1 -TTTTTAT-AA
*
48142071 TTTTAAT-A
1 TTTTTATAA
48142079 -TTTTATAA
1 TTTTTATAA
*
48142087 TATTTA-ATA
1 TTTTTATA-A
**
48142096 TTTTTATTT
1 TTTTTATAA
48142105 TTTTTATAA
1 TTTTTATAA
*
48142114 TTTTT-TTA
1 TTTTTATAA
48142122 TTTTTAT
1 TTTTTAT
48142129 GGAAAAATTA
Statistics
Matches: 181, Mismatches: 40, Indels: 53
0.66 0.15 0.19
Matches are distributed among these distances:
6 1 0.01
7 10 0.06
8 22 0.12
9 78 0.43
10 47 0.26
11 20 0.11
12 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:48141985 original size:27 final size:25
Alignment explanation
Indices: 48141955--48142047 Score: 75
Period size: 26 Copynumber: 3.5 Consensus size: 25
48141945 TTAAGAATTC
48141955 TAATACATTTTTTAATTTTGAATATTT
1 TAATA-ATTTTTTAATTTT-AATATTT
*
48141982 TAATAAGTTTTATTAATTTT-ATAATT
1 TAATAA-TTTT-TTAATTTTAATATTT
*
48142008 TATTAGATTTTTTATATTTTTAATA-TT
1 TAATA-ATTTTTTA-A-TTTTAATATTT
48142035 T-ATAAGTTTTTTA
1 TAATAA-TTTTTTA
48142048 TAATTTTGAT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
25 4 0.07
26 24 0.43
27 17 0.30
28 11 0.20
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (25 bp):
TAATAATTTTTTAATTTTAATATTT
Found at i:48142033 original size:54 final size:54
Alignment explanation
Indices: 48141961--48142116 Score: 162
Period size: 53 Copynumber: 2.9 Consensus size: 54
48141951 ATTCTAATAC
*
48141961 ATTTTTTA-ATTTTGAATATTTTAATAAGTTTTATTAATTTTATAATTTAT-T-A
1 ATTTTTTATATTTTTAATA-TTTAATAAGTTTTATTAATTTTATAATTTATATCA
*
48142013 GATTTTTTATATTTTTAATATTT-ATAAGTTTTTTATAATTTTGATAAGTTTATATCA
1 -ATTTTTTATATTTTTAATATTTAATAAGTTTTAT-TAATTTT-ATAA-TTTATATCA
* * **
48142070 A-TTTTAATATTTTATAATATTTAAT-ATTTTTATTTTTTTTATAATTT
1 ATTTTTTATATTTT-TAATATTTAATAAGTTTTATTAATTTTATAATTT
48142117 TTTTATTTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 16
0.79 0.06 0.14
Matches are distributed among these distances:
52 10 0.11
53 21 0.24
54 17 0.19
55 21 0.24
56 16 0.18
57 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.63
Consensus pattern (54 bp):
ATTTTTTATATTTTTAATATTTAATAAGTTTTATTAATTTTATAATTTATATCA
Found at i:48142059 original size:20 final size:19
Alignment explanation
Indices: 48142024--48142063 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
48142014 ATTTTTTATA
48142024 TTTTTAATATTTATAAGTT
1 TTTTTAATATTTATAAGTT
48142043 TTTTATAAT-TTTGATAAGTT
1 TTTT-TAATATTT-ATAAGTT
48142063 T
1 T
48142064 ATATCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTTAATATTTATAAGTT
Found at i:48142072 original size:20 final size:20
Alignment explanation
Indices: 48141978--48142074 Score: 54
Period size: 20 Copynumber: 5.2 Consensus size: 20
48141968 AATTTTGAAT
*
48141978 ATTTTAATAAGTTTTAT-TA
1 ATTTTGATAAGTTTTATATA
48141997 ATTTT-ATAA--TTTAT-TA
1 ATTTTGATAAGTTTTATATA
* *
48142013 GATTTT-TTATATTTTTA-AT-
1 -ATTTTGATA-AGTTTTATATA
*
48142032 A-TTT-ATAAGTTTTTTATA
1 ATTTTGATAAGTTTTATATA
48142050 ATTTTGATAAG-TTTATATCA
1 ATTTTGATAAGTTTTATAT-A
48142070 ATTTT
1 ATTTT
48142075 AATATTTTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
16 12 0.19
17 14 0.22
18 7 0.11
19 14 0.22
20 16 0.25
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (20 bp):
ATTTTGATAAGTTTTATATA
Found at i:48142110 original size:18 final size:18
Alignment explanation
Indices: 48142071--48142126 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 18
48142061 TTTATATCAA
**
48142071 TTTTAATA-TTTTATAAT
1 TTTTAATATTTTTATTTT
*
48142088 ATTTAATATTTTTATTTTT
1 TTTTAATATTTTTA-TTTT
*
48142107 TTTATAATTTTTTTATTTT
1 TTT-TAATATTTTTATTTT
48142126 T
1 T
48142127 ATGGAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 7 0.23
18 5 0.16
19 9 0.29
20 10 0.32
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTAATATTTTTATTTT
Found at i:48153255 original size:50 final size:50
Alignment explanation
Indices: 48153147--48153371 Score: 164
Period size: 50 Copynumber: 4.4 Consensus size: 50
48153137 TGTTCCAGAT
* * * * * * ** * *
48153147 ATGGTCTTACATGGGATGTTTCCTGT-ACTGCCAATGCCATAACCCAGAT
1 ATGGTCTTACATGGGATCTCTCATATCAGTGCCAACGCCATGTCCCAAAC
* * * *
48153196 ATGGTCTTACATGGGATTTCTCATATCGGTGCCTATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGATCTCTCATATCAGTGCCAACGCCATGTCCCAAAC
** * * * * *
48153246 ATGGTCTTACGGGGGACCTCTTATCTCAGTGCCAACGCCATGTCCTAGAC
1 ATGGTCTTACATGGGATCTCTCATATCAGTGCCAACGCCATGTCCCAAAC
* * * *
48153296 ATGGTCTTACATGGGATCTCTCATAACCTTAATAACGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCTCTCAT-A--TCAGT---GCCAACGCCATGTCCCAAAC
48153352 ATGGTCTTACATGGGATCTC
1 ATGGTCTTACATGGGATCTC
48153372 ATCCTCTTAA
Statistics
Matches: 138, Mismatches: 31, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
49 22 0.16
50 75 0.54
53 3 0.02
56 38 0.28
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (50 bp):
ATGGTCTTACATGGGATCTCTCATATCAGTGCCAACGCCATGTCCCAAAC
Found at i:48155430 original size:18 final size:19
Alignment explanation
Indices: 48155395--48155431 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
48155385 CTCGAAAAAA
*
48155395 AATTCGAGTTAACTTGATT
1 AATTCGAGTTAACATGATT
48155414 AATTCGA-TTAACATGATT
1 AATTCGAGTTAACATGATT
48155432 CAAATAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (19 bp):
AATTCGAGTTAACATGATT
Found at i:48155823 original size:26 final size:26
Alignment explanation
Indices: 48155765--48155827 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
48155755 CTATTTTACC
*
48155765 CAGTAAAATTTTGACATTTTTACCCT
1 CAGTAAAATTTTGACATTTTAACCCT
*
48155791 CAATAAAATTTTGACAATTTTAACCCT
1 CAGTAAAATTTTGAC-ATTTTAACCCT
*
48155818 -GGTAAAATTT
1 CAGTAAAATTT
48155828 CAGGAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 10 0.31
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.40
Consensus pattern (26 bp):
CAGTAAAATTTTGACATTTTAACCCT
Found at i:48158739 original size:94 final size:95
Alignment explanation
Indices: 48158575--48158982 Score: 438
Period size: 94 Copynumber: 4.3 Consensus size: 95
48158565 CATTAAAAGA
* * * *
48158575 GGTTACAAGTGTAAGACCATAGCTCGACTATGGA-AACATG-GAGAGTCTGTTGGGACAGTAATC
1 GGTTACATGTGTAAGACCATAGCTCGACTAT-GACAACATGAG-GAGTCTGTCGAGACAGTAAAC
* *
48158638 -ATGGGGTAATTCACTAGGACATTAAACATGG
64 AATGGGGTAATCCACCAGGACATTAAACATGG
** * * *
48158669 GGTTACATGTGTAAGACCATATTTC-AGCTATGACAACATGAGGAGTTTGTCGGGACAATAAACA
1 GGTTACATGTGTAAGACCATAGCTCGA-CTATGACAACATGAGGAGTCTGTCGAGACAGTAAACA
* * *
48158733 AT-GGGTAGTCTATCAGGACATTAAACATGG
65 ATGGGGTAATCCACCAGGACATTAAACATGG
* * * * * * *
48158763 GGTTACATGTGTAAGGCCATATCT-TAGCTATGACAACATGGGGAGTCCGTCGAGATAGTAAA-T
1 GGTTACATGTGTAAGACCATAGCTCGA-CTATGACAACATGAGGAGTCTGTCGAGACAGTAAACA
* * * *
48158826 ATGGGGCAGTCCACCAGGAAATTAAACATGT
65 ATGGGGTAATCCACCAGGACATTAAACATGG
*
48158857 GGTTACATGTGTAAGACCATAGCTCGACTATGACAACATGAGGAGACTGTCGAGACAGTAAACAC
1 GGTTACATGTGTAAGACCATAGCTCGACTATGACAACATGAGGAGTCTGTCGAGACAGTAAACA-
* **
48158922 A--GGGTAGTCCACCAAAACATTAAACATGG
65 ATGGGGTAATCCACCAGGACATTAAACATGG
*
48158951 GGTTACATGTGTAAGATCATAGCTCGACTATG
1 GGTTACATGTGTAAGACCATAGCTCGACTATG
48158983 GCAGCATGTG
Statistics
Matches: 265, Mismatches: 40, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
93 5 0.02
94 255 0.96
95 4 0.02
96 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (95 bp):
GGTTACATGTGTAAGACCATAGCTCGACTATGACAACATGAGGAGTCTGTCGAGACAGTAAACAA
TGGGGTAATCCACCAGGACATTAAACATGG
Found at i:48162754 original size:28 final size:28
Alignment explanation
Indices: 48162691--48162872 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
48162681 ATATTAAGTC
* *
48162691 CGCACACTCAGTGTTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48162718 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
48162746 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
48162774 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
48162802 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48162830 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48162859 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48162873 CAATCTCATG
Statistics
Matches: 143, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
27 21 0.15
28 103 0.72
29 19 0.13
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48168037 original size:14 final size:13
Alignment explanation
Indices: 48168018--48168048 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
48168008 GATGGATTTG
48168018 TATAATTCTTATCA
1 TATAATTCTTAT-A
48168032 TATAATTCTTATA
1 TATAATTCTTATA
48168045 TATA
1 TATA
48168049 TTGTACAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAATTCTTATA
Found at i:48169002 original size:13 final size:13
Alignment explanation
Indices: 48168984--48169025 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
48168974 TCGCCATGCT
48168984 ATTAAGTATTTTG
1 ATTAAGTATTTTG
48168997 ATTAAGTATTTTG
1 ATTAAGTATTTTG
*
48169010 ATGTAATTA-TTTG
1 AT-TAAGTATTTTG
48169023 ATT
1 ATT
48169026 CTAATCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 21 0.78
14 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
ATTAAGTATTTTG
Found at i:48179965 original size:85 final size:86
Alignment explanation
Indices: 48179822--48179989 Score: 284
Period size: 85 Copynumber: 2.0 Consensus size: 86
48179812 TTTTGTTTCC
48179822 AAATTAAAGGTAAATAAAATCTGTTTCGGGATTGATTCTTGTCGTTCAACGATTTTATTCC-ATT
1 AAATTAAAGGTAAATAAAATCTGTTTCGGGATTGATTCTTGTCGTTCAACGATTTTATTCCAATT
*
48179886 TTTATTTTATTTCCAAACGGG
66 TTGATTTTATTTCCAAACGGG
* * *
48179907 AAATTAAAGGTAAATAAAATTTGTTTCGGGATTGATTCTTGTTGTTCAATGATTTTATTCCAAAT
1 AAATTAAAGGTAAATAAAATCTGTTTCGGGATTGATTCTTGTCGTTCAACGATTTTATTCC-AAT
48179972 TTTGATTTTATTTCCAAA
65 TTTGATTTTATTTCCAAA
48179990 AGCGAGTAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
85 58 0.75
87 19 0.25
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (86 bp):
AAATTAAAGGTAAATAAAATCTGTTTCGGGATTGATTCTTGTCGTTCAACGATTTTATTCCAATT
TTGATTTTATTTCCAAACGGG
Found at i:48180151 original size:80 final size:78
Alignment explanation
Indices: 48179918--48180144 Score: 242
Period size: 80 Copynumber: 2.9 Consensus size: 78
48179908 AATTAAAGGT
* *
48179918 AAATAAAATTTGTTTCGGGATTGATTCTTG-TTGTTCAATGATTTTATTCCAAATTTTGATTTTA
1 AAATAAAATCTGTTTCGGGATTGATTCTCGCTT-TT-AATGATTTTATTCCAAATTTTGATTTTA
* *
48179982 TTTCCAAAAGCGAGTA
64 TTT-GAAAAACGAGTA
* * * * * * * * *
48179998 AATTCAAACCTATTTCGGGATTGATTTTCACTGTTCAACGATTTTATTCCAAATTTTAATTTTAT
1 AAATAAAATCTGTTTCGGGATTGATTCTCGCT-TTTAATGATTTTATTCCAAATTTTGATTTTA-
48180063 TTTGAAAAACGAGTA
64 TTTGAAAAACGAGTA
* * *
48180078 AAATAAAATCTGTTTCAGGATTGATTCCCGCCTTTTAATGATTCTATTCCAAATTTTGATTTT-T
1 AAATAAAATCTGTTTCGGGATTGATTCTCG-CTTTTAATGATTTTATTCCAAATTTTGATTTTAT
48180142 TTG
65 TTG
48180145 GTAAAAATGA
Statistics
Matches: 118, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
78 4 0.03
80 106 0.90
81 7 0.06
82 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (78 bp):
AAATAAAATCTGTTTCGGGATTGATTCTCGCTTTTAATGATTTTATTCCAAATTTTGATTTTATT
TGAAAAACGAGTA
Found at i:48197980 original size:21 final size:21
Alignment explanation
Indices: 48197938--48197991 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
48197928 GTTGGTAAGA
*
48197938 AGAAAGTTGCTGCTGCAAAAG
1 AGAAAGTTGCTACTGCAAAAG
*
48197959 AGAAAGTTGTTACTG-AAGAAG
1 AGAAAGTTGCTACTGCAA-AAG
48197980 A-AGAAGTTGCTA
1 AGA-AAGTTGCTA
48197992 AAAATGAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.41, C:0.09, G:0.28, T:0.22
Consensus pattern (21 bp):
AGAAAGTTGCTACTGCAAAAG
Found at i:48203111 original size:12 final size:12
Alignment explanation
Indices: 48203096--48203147 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
48203086 AATAACACAA
*
48203096 AAAATAACACCC
1 AAAACAACACCC
48203108 AAAACAACA-CC
1 AAAACAACACCC
*
48203119 --AA-AACAGCC
1 AAAACAACACCC
48203128 AAAACAACACCC
1 AAAACAACACCC
48203140 AAAACAAC
1 AAAACAAC
48203148 CTACAAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 4 0.12
9 4 0.12
11 4 0.12
12 22 0.65
ACGTcount: A:0.62, C:0.35, G:0.02, T:0.02
Consensus pattern (12 bp):
AAAACAACACCC
Found at i:48203129 original size:20 final size:21
Alignment explanation
Indices: 48203101--48203145 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
48203091 CACAAAAAAT
48203101 AACACCCAAAACAACA-CCAA
1 AACACCCAAAACAACACCCAA
*
48203121 AACAGCCAAAACAACACCCAA
1 AACACCCAAAACAACACCCAA
48203142 AACA
1 AACA
48203146 ACCTACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.60, C:0.38, G:0.02, T:0.00
Consensus pattern (21 bp):
AACACCCAAAACAACACCCAA
Found at i:48208786 original size:28 final size:29
Alignment explanation
Indices: 48208722--48208792 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 29
48208712 TCTAAATAGG
48208722 TATATATAATACATATTTTTGCATCTCGATA
1 TATATATAAT--ATATTTTTGCATCTCGATA
* * *
48208753 AATATATAATATATTTTTG-GTCTTG-T-
1 TATATATAATATATTTTTGCATCTCGATA
48208779 TATATATAATATAT
1 TATATATAATATAT
48208793 ATATGCCTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 13 0.36
27 1 0.03
28 4 0.11
29 9 0.25
31 9 0.25
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (29 bp):
TATATATAATATATTTTTGCATCTCGATA
Found at i:48208793 original size:28 final size:29
Alignment explanation
Indices: 48208722--48208794 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 29
48208712 TCTAAATAGG
*
48208722 TATATATAATACATATTTTTGCATCTCGA
1 TATATATAATATATATTTTTGCATCTCGA
* * * *
48208751 TAAATAT-ATAATATATTTTTG-GTCTTGT
1 TATATATAAT-ATATATTTTTGCATCTCGA
48208779 TATATATAATATATAT
1 TATATATAATATATAT
48208795 ATGCCTCTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (29 bp):
TATATATAATATATATTTTTGCATCTCGA
Found at i:48211731 original size:7 final size:7
Alignment explanation
Indices: 48211685--48211754 Score: 52
Period size: 7 Copynumber: 9.6 Consensus size: 7
48211675 TTTAATTTAA
48211685 TTTTCTT
1 TTTTCTT
48211692 TTCTTCTT
1 TT-TTCTT
*
48211700 TCTTCTT
1 TTTTCTT
*
48211707 TCTTCTT
1 TTTTCTT
*
48211714 TTCTCGTTT
1 TTTTC--TT
48211723 TTTTCTT
1 TTTTCTT
* *
48211730 TTTCCCTA
1 TTT-TCTT
48211738 TTTTC-T
1 TTTTCTT
48211744 TTTTCTT
1 TTTTCTT
48211751 TTTT
1 TTTT
48211755 TTGGTTCATC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
6 5 0.10
7 28 0.56
8 11 0.22
9 6 0.12
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.76
Consensus pattern (7 bp):
TTTTCTT
Found at i:48211756 original size:15 final size:15
Alignment explanation
Indices: 48211685--48211756 Score: 63
Period size: 15 Copynumber: 4.5 Consensus size: 15
48211675 TTTAATTTAA
48211685 TTTTCTTTTCTTCTTTC
1 TTTT-TTTTCTT-TTTC
*
48211702 TTCTTTCTTCTTTTCTC
1 TT-TTTTTTCTTTT-TC
*
48211719 GTTTTTTTCTTTTTC
1 TTTTTTTTCTTTTTC
** *
48211734 CCTATTTTCTTTTTC
1 TTTTTTTTCTTTTTC
48211749 TTTTTTTT
1 TTTTTTTT
48211757 GGTTCATCTC
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
15 19 0.43
16 12 0.27
17 11 0.25
18 2 0.05
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.76
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:48212130 original size:18 final size:18
Alignment explanation
Indices: 48212103--48212137 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48212093 GAATTTCGTT
*
48212103 GTTTTAGTTGTTTAATTG
1 GTTTTAGTTGGTTAATTG
*
48212121 GTTTTGGTTGGTTAATT
1 GTTTTAGTTGGTTAATT
48212138 TAGGCTCCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.26, T:0.60
Consensus pattern (18 bp):
GTTTTAGTTGGTTAATTG
Found at i:48212463 original size:29 final size:29
Alignment explanation
Indices: 48212431--48212514 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
48212421 GACACAGGCA
48212431 TGTGTTAGGCCGTGTGAGGCACACGAACG
1 TGTGTTAGGCCGTGTGAGGCACACGAACG
48212460 TGTGTTAGGCCGTGTGAGGCACACGAACG
1 TGTGTTAGGCCGTGTGAGGCACACGAACG
* *
48212489 TGTGTCAGGCCGTGTGGAGCCACACG
1 TGTGTTAGGCCGTGT-GAGGCACACG
48212515 GGTTAGCTAC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
29 43 0.83
30 9 0.17
ACGTcount: A:0.19, C:0.23, G:0.38, T:0.20
Consensus pattern (29 bp):
TGTGTTAGGCCGTGTGAGGCACACGAACG
Found at i:48216341 original size:35 final size:35
Alignment explanation
Indices: 48216295--48216540 Score: 205
Period size: 35 Copynumber: 7.0 Consensus size: 35
48216285 TCACTAATTA
*
48216295 TTCGTCGGTTTATCCGACTAGCGCTAGGCACAACT
1 TTCGTCGGTTTATCCGACTAGCGCTGGGCACAACT
* * * * *
48216330 TTCGTCAGTTTATCTGACTAGTGCTGAGCAC-ACA
1 TTCGTCGGTTTATCCGACTAGCGCTGGGCACAACT
*
48216364 TTCGTCGGTTTATCCGACTAGTGCTGGGCACAACT
1 TTCGTCGGTTTATCCGACTAGCGCTGGGCACAACT
* * * *
48216399 TTCATCAGTTTATCTGACTAGTGCTGGGCACATA-T
1 TTCGTCGGTTTATCCGACTAGCGCTGGGCACA-ACT
* * *
48216434 TT-GTCGGTTTATCC-AGCTAGCACTGGGCGCAAAT
1 TTCGTCGGTTTATCCGA-CTAGCGCTGGGCACAACT
* * * * *
48216468 ATT-GTCGGTTTATCCAACAAGAGTTGGGCTCACTAATT
1 -TTCGTCGGTTTATCCGACTAGCGCTGGG--CAC-AACT
* *
48216506 ATTCGTCGGTTTATCCGACTAGCGCTAGGCGCAAC
1 -TTCGTCGGTTTATCCGACTAGCGCTGGGCACAAC
48216541 CTTTGTTATT
Statistics
Matches: 169, Mismatches: 32, Indels: 19
0.77 0.15 0.09
Matches are distributed among these distances:
33 2 0.01
34 52 0.31
35 81 0.48
36 4 0.02
37 4 0.02
38 6 0.04
39 20 0.12
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (35 bp):
TTCGTCGGTTTATCCGACTAGCGCTGGGCACAACT
Found at i:48216606 original size:69 final size:70
Alignment explanation
Indices: 48216294--48216608 Score: 309
Period size: 69 Copynumber: 4.5 Consensus size: 70
48216284 CTCACTAATT
* * *
48216294 ATTCGTCGGTTTATCCGACTAGCGCTAGGCACAACTTTCGTCAGTTTATCTGACTAGTGCTGAGC
1 ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAACTTTCGTCAGTTTATCTGACTAGTGCTGGGC
48216359 ACAC-
66 ACACA
* * *
48216363 ATTCGTCGGTTTATCCGACTAGTGCTGGGCACAACTTTCATCAGTTTATCTGACTAGTGCTGGGC
1 ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAACTTTCGTCAGTTTATCTGACTAGTGCTGGGC
*
48216428 ACA-T
66 ACACA
* * * * ** * * *
48216432 ATTTGTCGGTTTATCC-AGCTAGCACTGGGCGCAAATATT-GTCGGTTTATCCAACAAGAGTTGG
1 ATTCGTCGGTTTATCCGA-CTAGCGCTGGGCGCAACT-TTCGTCAGTTTATCTGACTAGTGCTGG
*
48216495 GCTCACTAA
64 GCACAC--A
* * * *
48216504 TTATTCGTCGGTTTATCCGACTAGCGCTAGGCGCAACCTTT-GTTATTTTATCTTACTAGTGCTG
1 --ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAA-CTTTCGTCAGTTTATCTGACTAGTGCTG
48216568 GGCACACA
63 GGCACACA
* * *
48216576 ATT-GTCAGTTTATCCCACTAGCACTGGGCGCAA
1 ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAA
48216609 ACTCTTTTGC
Statistics
Matches: 201, Mismatches: 35, Indels: 20
0.79 0.14 0.08
Matches are distributed among these distances:
68 1 0.00
69 140 0.70
70 5 0.02
72 1 0.00
74 52 0.26
75 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (70 bp):
ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAACTTTCGTCAGTTTATCTGACTAGTGCTGGGC
ACACA
Found at i:48225375 original size:22 final size:22
Alignment explanation
Indices: 48225347--48225390 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
48225337 GTGAACAACT
48225347 CACCCTTGTATTTATACTAGGG
1 CACCCTTGTATTTATACTAGGG
48225369 CACCCTTGTATTTATACTAGGG
1 CACCCTTGTATTTATACTAGGG
48225391 TTGCCACCCC
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:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (22 bp):
CACCCTTGTATTTATACTAGGG
Found at i:48236630 original size:31 final size:30
Alignment explanation
Indices: 48236594--48236698 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 30
48236584 TATACTAAAT
*
48236594 TTAATTTAATATTTATCTAGACAGTAATTTA
1 TTAATTTAATATTTATCTAGATA-TAATTTA
* * *
48236625 TTAATTTAATATTAATAT-GATAT-ATTAAA
1 TTAATTTAATATTTATCTAGATATAATT-TA
*
48236654 TTTAATTTAATATTTATCTAGATAATATTTTA
1 -TTAATTTAATATTTATCTAGAT-ATAATTTA
48236686 TTAATTTAATATT
1 TTAATTTAATATT
48236699 AATATGGTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
28 3 0.05
29 2 0.03
30 19 0.31
31 32 0.52
32 3 0.05
33 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (30 bp):
TTAATTTAATATTTATCTAGATATAATTTA
Found at i:48236639 original size:11 final size:11
Alignment explanation
Indices: 48236623--48236701 Score: 53
Period size: 11 Copynumber: 7.6 Consensus size: 11
48236613 GACAGTAATT
48236623 TATTAATTTAA
1 TATTAATTTAA
* *
48236634 TATTAATATGA
1 TATTAATTTAA
*
48236645 TA-T-ATTAAA
1 TATTAATTTAA
48236654 T-TTAATTTAA
1 TATTAATTTAA
* *
48236664 TATTTATCTAGA
1 TATTAATTTA-A
*
48236676 TAAT-ATTT--
1 TATTAATTTAA
48236684 TATTAATTTAA
1 TATTAATTTAA
48236695 TATTAAT
1 TATTAAT
48236702 ATGGTTAATT
Statistics
Matches: 50, Mismatches: 11, Indels: 14
0.67 0.15 0.19
Matches are distributed among these distances:
8 3 0.06
9 9 0.18
10 7 0.14
11 27 0.54
12 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:48236643 original size:61 final size:61
Alignment explanation
Indices: 48236572--48236704 Score: 230
Period size: 61 Copynumber: 2.2 Consensus size: 61
48236562 ATTTATCTTG
*
48236572 ATATTAATATGATATACTAAATTTAATTTAATATTTATCTAGACAGTAATTTATTAATTTA
1 ATATTAATATGATATACTAAATTTAATTTAATATTTATCTAGACAATAATTTATTAATTTA
* * *
48236633 ATATTAATATGATATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTA
1 ATATTAATATGATATACTAAATTTAATTTAATATTTATCTAGACAATAATTTATTAATTTA
48236694 ATATTAATATG
1 ATATTAATATG
48236705 GTTAATTCTA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (61 bp):
ATATTAATATGATATACTAAATTTAATTTAATATTTATCTAGACAATAATTTATTAATTTA
Found at i:48237365 original size:3 final size:3
Alignment explanation
Indices: 48237359--48237396 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
48237349 ATCAAAGACA
*
48237359 AAT AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48237397 AAGATACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:48243961 original size:39 final size:40
Alignment explanation
Indices: 48243918--48244021 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
48243908 TCCTTATGCT
*
48243918 ATTACAGCTCTATTCCATTCAACCAAACACAAGAA-TA-CC
1 ATTAC-GCTCTATTCCATTCAACCAAACAAAAGAATTACCC
48243957 ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTACCC
1 ATTACG-CTC---T--ATTCCATTCAACCAAACAAAAGAATTACCC
48244003 ATTACGCATCTATTCCATT
1 ATTACGC-TCTATTCCATT
48244022 ACAGCGAACC
Statistics
Matches: 55, Mismatches: 1, Indels: 16
0.76 0.01 0.22
Matches are distributed among these distances:
38 1 0.02
39 8 0.15
41 8 0.15
42 1 0.02
43 1 0.02
44 23 0.42
45 3 0.05
46 10 0.18
ACGTcount: A:0.37, C:0.31, G:0.05, T:0.28
Consensus pattern (40 bp):
ATTACGCTCTATTCCATTCAACCAAACAAAAGAATTACCC
Found at i:48243996 original size:44 final size:46
Alignment explanation
Indices: 48243929--48244021 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
48243919 TTACAGCTCT
* *
48243929 ATTCCATTCAACCAAACACAAGAA-TA-CCATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCCATTACGCATCTATTCC
48243973 ATTCCATTCAACCAAACAAAAGAATTACCCATTACGCATCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCCATTACGCATCTATTCC
48244019 ATT
1 ATT
48244022 ACAGCGAACC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 2 0.04
46 20 0.44
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCCATTACGCATCTATTCC
Found at i:48244032 original size:46 final size:44
Alignment explanation
Indices: 48243937--48244034 Score: 126
Period size: 46 Copynumber: 2.2 Consensus size: 44
48243927 CTATTCCATT
* * * *
48243937 CAACCAAACACAAGAATACCATTACGCCTCTATTCCATTCCATT
1 CAACCAAACAAAAGAATACCATTACGCATCTATTCCATTACATG
48243981 CAACCAAACAAAAGAATTACCCATTACGCATCTATTCCATTACA-G
1 CAACCAAACAAAAGAA-TA-CCATTACGCATCTATTCCATTACATG
48244026 CGAACCAAA
1 C-AACCAAA
48244035 TGTCCCCTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 15 0.32
45 3 0.06
46 29 0.62
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (44 bp):
CAACCAAACAAAAGAATACCATTACGCATCTATTCCATTACATG
Found at i:48246879 original size:3 final size:3
Alignment explanation
Indices: 48246871--48246907 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
48246861 TTTTCCTAAT
48246871 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
48246908 CCTTCTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:48247707 original size:15 final size:14
Alignment explanation
Indices: 48247633--48247711 Score: 70
Period size: 15 Copynumber: 5.4 Consensus size: 14
48247623 GGGCTTTTTT
* *
48247633 AGAGAAAAAGAAGA
1 AGAGAAAGAGAAAA
*
48247647 AG-GAAAGAAAGAAA
1 AGAGAAAGAGA-AAA
*
48247661 AGAGATAAGAAAAAA
1 AGAGA-AAGAGAAAA
48247676 AGAGAAAAGAGAAAA
1 AGAG-AAAGAGAAAA
*
48247691 AGAGAAAGACGATAA
1 AGAGAAAGA-GAAAA
48247706 AGAGAA
1 AGAGAA
48247712 GGAAAGAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
13 6 0.11
14 11 0.20
15 31 0.56
16 7 0.13
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.03
Consensus pattern (14 bp):
AGAGAAAGAGAAAA
Found at i:48248035 original size:21 final size:21
Alignment explanation
Indices: 48248011--48248051 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48248001 TTGTATAAGG
* *
48248011 TTTTGACTTTTTTTTATATTT
1 TTTTAACTTTTTTATATATTT
*
48248032 TTTTAAGTTTTTTATATATT
1 TTTTAACTTTTTTATATATT
48248052 CATTAGTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTTAACTTTTTTATATATTT
Found at i:48248042 original size:19 final size:19
Alignment explanation
Indices: 48248019--48248074 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
48248009 GGTTTTGACT
48248019 TTTTTTTATATTTTTTTAAG
1 TTTTTTTATATTTTTTT-AG
**
48248039 -TTTTTTATATATTCATTAG
1 TTTTTTTATAT-TTTTTTAG
48248058 TTTTTTTATATTTTTTT
1 TTTTTTTATATTTTTTT
48248075 TGAAATGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTTTTATATTTTTTTAG
Found at i:48258608 original size:21 final size:21
Alignment explanation
Indices: 48258582--48258622 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
48258572 AGACTTTTCA
48258582 AACACTTTTACATGATTTAAT
1 AACACTTTTACATGATTTAAT
48258603 AACACTTTTACATGATTTAA
1 AACACTTTTACATGATTTAA
48258623 CTTTAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (21 bp):
AACACTTTTACATGATTTAAT
Found at i:48259527 original size:3 final size:3
Alignment explanation
Indices: 48259519--48259578 Score: 63
Period size: 3 Copynumber: 21.0 Consensus size: 3
48259509 CCTAGGCAGT
* * *
48259519 AGA AGA AGA AG- AGA AAA AGA AGA AGA AG- AGA AGA A-A TGG AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
48259564 AAA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA
48259579 GAAAATTGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 5 0.11
3 41 0.89
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:48259550 original size:11 final size:10
Alignment explanation
Indices: 48259530--48259581 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
48259520 GAAGAAGAAG
48259530 AGAAAA-AGA
1 AGAAAAGAGA
48259539 AGAAGAAGAGA
1 AGAA-AAGAGA
*
48259550 AGAAATGGAGA
1 AGAAA-AGAGA
48259561 AGAAAA-AGA
1 AGAAAAGAGA
48259570 AGAAGAAGAGA
1 AGAA-AAGAGA
48259581 A
1 A
48259582 AATTGAAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 11 0.31
10 5 0.14
11 20 0.56
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (10 bp):
AGAAAAGAGA
Found at i:48260643 original size:40 final size:41
Alignment explanation
Indices: 48260596--48260676 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
48260586 GTAACAGTTT
* * *
48260596 GGGCCTTAGCCCATTTCAGTA-CAGTATCAAAT-ATGCAGTA
1 GGGCCTTAGCCCATTACAATATCAGTAGC-AATCATGCAGTA
48260636 GGGCCTTAGCCCATTACAATATCAGTAGCAATCATGCAGTA
1 GGGCCTTAGCCCATTACAATATCAGTAGCAATCATGCAGTA
48260677 TTCAGTAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 22 0.61
41 14 0.39
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
GGGCCTTAGCCCATTACAATATCAGTAGCAATCATGCAGTA
Found at i:48261149 original size:18 final size:18
Alignment explanation
Indices: 48261126--48261170 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
48261116 ATTTGGTCTG
*
48261126 CCCGTGTGGACCGACACA
1 CCCGTGTGGACCCACACA
*
48261144 CCCGTGTGGACCCACACG
1 CCCGTGTGGACCCACACA
*
48261162 CCTGTGTGG
1 CCCGTGTGG
48261171 CTCACTTGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.38, G:0.31, T:0.16
Consensus pattern (18 bp):
CCCGTGTGGACCCACACA
Found at i:48264359 original size:17 final size:17
Alignment explanation
Indices: 48264320--48264352 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
48264310 TCTGGACCAA
48264320 GCGGGCTAGGCTTTTGG
1 GCGGGCTAGGCTTTTGG
48264337 GCGGGCTAGGCTTTTG
1 GCGGGCTAGGCTTTTG
48264353 TGTGGGCCTT
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:0.06, C:0.18, G:0.45, T:0.30
Consensus pattern (17 bp):
GCGGGCTAGGCTTTTGG
Found at i:48268673 original size:16 final size:16
Alignment explanation
Indices: 48268633--48268678 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
48268623 CCCTTATAAA
*
48268633 AAATGTTATAAATTAT
1 AAATGTTATATATTAT
*
48268649 AAAAGTTATATATTAT
1 AAATGTTATATATTAT
48268665 AAAT-TT-TATATTAT
1 AAATGTTATATATTAT
48268679 TTTGACCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 8 0.30
15 2 0.07
16 17 0.63
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (16 bp):
AAATGTTATATATTAT
Found at i:48270030 original size:13 final size:13
Alignment explanation
Indices: 48270012--48270036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48270002 ATTTTTTTAA
48270012 TTTTAATTAATAT
1 TTTTAATTAATAT
48270025 TTTTAATTAATA
1 TTTTAATTAATA
48270037 ACTCATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATTAATAT
Found at i:48276505 original size:13 final size:13
Alignment explanation
Indices: 48276487--48276511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48276477 AATAATTTAT
48276487 TATTTAAAATATA
1 TATTTAAAATATA
48276500 TATTTAAAATAT
1 TATTTAAAATAT
48276512 CACAATATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTAAAATATA
Found at i:48280965 original size:26 final size:26
Alignment explanation
Indices: 48280936--48280986 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
48280926 AAAATAATCA
*
48280936 TTAACGTATCAAATAATTATTTTTAT
1 TTAACATATCAAATAATTATTTTTAT
*
48280962 TTAATATATCAAATAATTATTTTTA
1 TTAACATATCAAATAATTATTTTTA
48280987 GAAAGGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (26 bp):
TTAACATATCAAATAATTATTTTTAT
Found at i:48281945 original size:21 final size:22
Alignment explanation
Indices: 48281920--48281963 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
48281910 ATAAAAAACC
48281920 CTAATATTTTTCCA-TGTTTTG
1 CTAATATTTTTCCACTGTTTTG
* *
48281941 CTAATGTTTTTCCACTTTTTTG
1 CTAATATTTTTCCACTGTTTTG
48281963 C
1 C
48281964 CACTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.57
Consensus pattern (22 bp):
CTAATATTTTTCCACTGTTTTG
Found at i:48288827 original size:13 final size:13
Alignment explanation
Indices: 48288792--48288829 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
48288782 GATATATTTG
48288792 TAATTTGAAAACT
1 TAATTTGAAAACT
48288805 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
48288819 TAATTTGAAAA
1 TAATTTGAAAA
48288830 TTTGGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:48289167 original size:69 final size:69
Alignment explanation
Indices: 48289066--48289254 Score: 227
Period size: 69 Copynumber: 2.7 Consensus size: 69
48289056 TTCACTTGTC
* *
48289066 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATCATTTT-TTGCAGGGAATCTCTCCTGTCCACA
48289131 CATCA
65 CATCA
* * * * * * *
48289136 -TTTCTTGTAGGGAATTTTTCATGTTCACGCATCATTTCTTGCAGGGAACCTTTCCTGTCCACGC
1 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATCATTTTTTGCAGGGAATCTCTCCTGTCCACAC
*
48289200 ATTA
66 ATCA
* * * * *
48289204 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCATTTTTTACAGGGAATC
1 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATCATTTTTTGCAGGGAATC
48289255 ATTTCTGGTA
Statistics
Matches: 99, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
68 25 0.25
69 74 0.75
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (69 bp):
TTTTCTTGCAGGGAATATTTCCTGTTCACGCATCATTTTTTGCAGGGAATCTCTCCTGTCCACAC
ATCA
Found at i:48289251 original size:103 final size:103
Alignment explanation
Indices: 48289067--48289253 Score: 320
Period size: 103 Copynumber: 1.8 Consensus size: 103
48289057 TCACTTGTCT
* *
48289067 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAACATTTCCTGTCCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
**
48289132 ATCATTTCTTGTAGGGAATTTTTCATGTTCACGCATCA
66 ATCATTTCTTACAGGGAATTTTTCATGTTCACGCATCA
*
48289170 TTTCTTGCAGGGAACCTTTCCTGTCCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAACATTTCCTGTCCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
*
48289235 ATCATTTTTTACAGGGAAT
66 ATCATTTCTTACAGGGAAT
48289254 CATTTCTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 78 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (103 bp):
TTTCTTGCAGGGAACATTTCCTGTCCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
ATCATTTCTTACAGGGAATTTTTCATGTTCACGCATCA
Found at i:48291975 original size:21 final size:23
Alignment explanation
Indices: 48291951--48291993 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
48291941 TTAATTTTTT
*
48291951 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
48291972 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
48291994 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:48295888 original size:13 final size:14
Alignment explanation
Indices: 48295855--48295898 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
48295845 AGATCAACAC
48295855 AGCCCAATCAGCCTA
1 AGCCCAA-CAGCCTA
*
48295870 AGCCCAACA-CCTT
1 AGCCCAACAGCCTA
48295883 AGCCCAACTAGCCTA
1 AGCCCAAC-AGCCTA
48295898 A
1 A
48295899 ACAAGCAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 11 0.44
14 3 0.12
15 11 0.44
ACGTcount: A:0.34, C:0.41, G:0.11, T:0.14
Consensus pattern (14 bp):
AGCCCAACAGCCTA
Found at i:48299247 original size:21 final size:21
Alignment explanation
Indices: 48299222--48299356 Score: 112
Period size: 21 Copynumber: 6.4 Consensus size: 21
48299212 GTGTTTTACT
* *
48299222 TTTTGTTTAGCTCTTATGAGC
1 TTTTGTTCAACTCTTATGAGC
* *
48299243 TTTTGTTTAACTCATATGAG-
1 TTTTGTTCAACTCTTATGAGC
*
48299263 TTTCTGTTCAGCTCTTATGAGC
1 TTT-TGTTCAACTCTTATGAGC
* * *
48299285 TTCTATTAAACTCTTATGAG-
1 TTTTGTTCAACTCTTATGAGC
* *
48299305 TTTCTGTTCAGCTCTTACGAGC
1 TTT-TGTTCAACTCTTATGAGC
* * *
48299327 TTCTGCTCAACTCTTACGAGC
1 TTTTGTTCAACTCTTATGAGC
*
48299348 TTTTATTCA
1 TTTTGTTCA
48299357 GCTTTCGAGC
Statistics
Matches: 90, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
20 5 0.06
21 81 0.90
22 4 0.04
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (21 bp):
TTTTGTTCAACTCTTATGAGC
Found at i:48299339 original size:42 final size:42
Alignment explanation
Indices: 48299225--48299375 Score: 173
Period size: 42 Copynumber: 3.6 Consensus size: 42
48299215 TTTTACTTTT
* * * * *
48299225 TGTTTAGCTCTTATGAGCTTTTGTTTAACTCATATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAGTTTC
* *
48299267 TGTTCAGCTCTTATGAGCTTCTATTAAACTCTTATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAGTTTC
* * *
48299309 TGTTCAGCTCTTACGAGCTTCTGCTCAACTCTTACGAGCTTT-
1 TGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAG-TTTC
*
48299351 TATTCAGCT-TT-CGAGCTTCTGTTAA
1 TGTTCAGCTCTTACGAGCTTCTGTTAA
48299376 CTATGTACTC
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
40 12 0.13
41 2 0.02
42 78 0.82
43 3 0.03
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (42 bp):
TGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAGTTTC
Found at i:48299342 original size:63 final size:63
Alignment explanation
Indices: 48299232--48299354 Score: 149
Period size: 63 Copynumber: 2.0 Consensus size: 63
48299222 TTTTGTTTAG
* * * * * *
48299232 CTCTTATGAGCTTTTGTTTAACTCATATGAGTTTCTGTTCAGCTCTTATGAGCTTCTATTAAA
1 CTCTTATGAGCTTTTGTTCAACTCATACGAGCTTCTGCTCAACTCTTACGAGCTTCTATTAAA
* * *
48299295 CTCTTATGAG-TTTCTGTTCAGCTCTTACGAGCTTCTGCTCAACTCTTACGAGCTTTTATT
1 CTCTTATGAGCTTT-TGTTCAACTCATACGAGCTTCTGCTCAACTCTTACGAGCTTCTATT
48299355 CAGCTTTCGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 3 0.06
63 47 0.94
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.45
Consensus pattern (63 bp):
CTCTTATGAGCTTTTGTTCAACTCATACGAGCTTCTGCTCAACTCTTACGAGCTTCTATTAAA
Found at i:48302846 original size:31 final size:31
Alignment explanation
Indices: 48302811--48302871 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
48302801 ATTTAATTTA
*
48302811 ATTTAATTAATTATAGTATTTGTACTTTTTG
1 ATTTAATCAATTATAGTATTTGTACTTTTTG
* *
48302842 ATTTAATCAATTTTAGTTTTTGTACTTTTT
1 ATTTAATCAATTATAGTATTTGTACTTTTT
48302872 AAAATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (31 bp):
ATTTAATCAATTATAGTATTTGTACTTTTTG
Found at i:48303656 original size:3 final size:3
Alignment explanation
Indices: 48303648--48303672 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48303638 CAATCACAGT
48303648 AGC AGC AGC AGC AGC AGC AGC AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC A
48303673 ATGTAAGCTT
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:0.36, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:48313084 original size:16 final size:16
Alignment explanation
Indices: 48313063--48313125 Score: 81
Period size: 16 Copynumber: 3.7 Consensus size: 16
48313053 GGTTTTCAGT
48313063 AAAAAAACATGAACAG
1 AAAAAAACATGAACAG
*
48313079 AAAAAAACATGGCTATCAG
1 AAAAAAACAT-G--AACAG
48313098 TAAAAAAACATGAACAG
1 -AAAAAAACATGAACAG
48313115 AAAAAAACATG
1 AAAAAAACATG
48313126 GCTATCAGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 21 0.51
17 5 0.12
19 5 0.12
20 10 0.24
ACGTcount: A:0.63, C:0.13, G:0.13, T:0.11
Consensus pattern (16 bp):
AAAAAAACATGAACAG
Found at i:48313098 original size:36 final size:36
Alignment explanation
Indices: 48313058--48313143 Score: 172
Period size: 36 Copynumber: 2.4 Consensus size: 36
48313048 ACAATGGTTT
48313058 TCAGTAAAAAAACATGAACAGAAAAAAACATGGCTA
1 TCAGTAAAAAAACATGAACAGAAAAAAACATGGCTA
48313094 TCAGTAAAAAAACATGAACAGAAAAAAACATGGCTA
1 TCAGTAAAAAAACATGAACAGAAAAAAACATGGCTA
48313130 TCAGTAAAAAAACA
1 TCAGTAAAAAAACA
48313144 ATAAAGAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.59, C:0.14, G:0.13, T:0.14
Consensus pattern (36 bp):
TCAGTAAAAAAACATGAACAGAAAAAAACATGGCTA
Found at i:48330730 original size:12 final size:12
Alignment explanation
Indices: 48330713--48330737 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48330703 GGTGTTCATT
48330713 CGGTTAACCGAC
1 CGGTTAACCGAC
48330725 CGGTTAACCGAC
1 CGGTTAACCGAC
48330737 C
1 C
48330738 CGAAATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:48330910 original size:9 final size:9
Alignment explanation
Indices: 48330896--48330983 Score: 149
Period size: 9 Copynumber: 9.8 Consensus size: 9
48330886 TTTGGTTAAA
48330896 AATTACCCG
1 AATTACCCG
48330905 AATTACCCG
1 AATTACCCG
48330914 AATTACCCG
1 AATTACCCG
48330923 AATTACCCG
1 AATTACCCG
48330932 AATTACCCG
1 AATTACCCG
48330941 AATTACCCG
1 AATTACCCG
*
48330950 AATTAACCG
1 AATTACCCG
*
48330959 AATTAACCG
1 AATTACCCG
*
48330968 AATTAACCG
1 AATTACCCG
48330977 AATTACC
1 AATTACC
48330984 GAAAAATACC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 77 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:48339890 original size:22 final size:22
Alignment explanation
Indices: 48339865--48339908 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
48339855 TAACGAAGGT
*
48339865 GATATTGGGATACCTAGAGTAG
1 GATATTGCGATACCTAGAGTAG
* *
48339887 GATATTGCGATATCTCGAGTAG
1 GATATTGCGATACCTAGAGTAG
48339909 TGTTGAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (22 bp):
GATATTGCGATACCTAGAGTAG
Found at i:48341550 original size:25 final size:25
Alignment explanation
Indices: 48341516--48341599 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
48341506 TATACATTAA
48341516 ATATATATTTTATTTTTAATCAAAT
1 ATATATATTTTATTTTTAATCAAAT
48341541 ATATATATTTTATTTTTAATCAAAT
1 ATATATATTTTATTTTTAATCAAAT
* * * *
48341566 ATATATATTTTGTATAT-ATTAAAT
1 ATATATATTTTATTTTTAATCAAAT
48341590 ATATATATTT
1 ATATATATTT
48341600 AATATGGGTC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
24 16 0.29
25 39 0.71
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (25 bp):
ATATATATTTTATTTTTAATCAAAT
Found at i:48342416 original size:13 final size:15
Alignment explanation
Indices: 48342386--48342434 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
48342376 AGCTCATTGC
48342386 ACATAAGAAAAACAA
1 ACATAAGAAAAACAA
48342401 ACAT-AGAAAAAC-A
1 ACATAAGAAAAACAA
48342414 ACA-AA-AACAAACCAA
1 ACATAAGAA-AAA-CAA
48342429 ACATAA
1 ACATAA
48342435 AATAATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 2 0.07
13 8 0.28
14 9 0.31
15 8 0.28
16 2 0.07
ACGTcount: A:0.71, C:0.18, G:0.04, T:0.06
Consensus pattern (15 bp):
ACATAAGAAAAACAA
Found at i:48346060 original size:17 final size:17
Alignment explanation
Indices: 48346038--48346070 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
48346028 TGACATGGAA
48346038 GGTCACTACTATAGGTG
1 GGTCACTACTATAGGTG
48346055 GGTCACTACTATAGGT
1 GGTCACTACTATAGGT
48346071 AGATTTTCTC
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:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (17 bp):
GGTCACTACTATAGGTG
Found at i:48351886 original size:13 final size:13
Alignment explanation
Indices: 48351870--48351901 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
48351860 TTCTCCTTTT
48351870 GTTTTCCTTTCCC
1 GTTTTCCTTTCCC
48351883 GTTTTCCTTTCCC
1 GTTTTCCTTTCCC
48351896 GTTTTC
1 GTTTTC
48351902 AAGTGAGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.34, G:0.09, T:0.56
Consensus pattern (13 bp):
GTTTTCCTTTCCC
Found at i:48353414 original size:27 final size:27
Alignment explanation
Indices: 48353384--48353438 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
48353374 AATATAATAT
*
48353384 AATTATTAA-ATTATTAAATTTTACTTA
1 AATTATTAACA-TATTAAATTTTAATTA
*
48353411 AATTATTAACATATTGAATTTTAATTA
1 AATTATTAACATATTAAATTTTAATTA
48353438 A
1 A
48353439 TTTTCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (27 bp):
AATTATTAACATATTAAATTTTAATTA
Found at i:48353463 original size:21 final size:20
Alignment explanation
Indices: 48353427--48353472 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
48353417 TAACATATTG
*
48353427 AATTTTAATTAATTTTCATA
1 AATTTTAATTAATTTTCACA
* *
48353447 AATTTTGAATTATTTTTGACA
1 AATTTT-AATTAATTTTCACA
48353468 AATTT
1 AATTT
48353473 GCACAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (20 bp):
AATTTTAATTAATTTTCACA
Found at i:48356329 original size:21 final size:21
Alignment explanation
Indices: 48356305--48356359 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
48356295 GACGACTGCA
*
48356305 GTGTCGCAACACTGAGAAGTG
1 GTGTCGCAACACCGAGAAGTG
48356326 GTGTCGCAACACCGAGAAGTG
1 GTGTCGCAACACCGAGAAGTG
*
48356347 GTATCGCAACACC
1 GTGTCGCAACACC
48356360 AGACTTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.25, G:0.29, T:0.16
Consensus pattern (21 bp):
GTGTCGCAACACCGAGAAGTG
Found at i:48365001 original size:23 final size:23
Alignment explanation
Indices: 48364975--48365020 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
48364965 TTATAGAGGG
48364975 TTATGGTATTTTGTTCGATTCCA
1 TTATGGTATTTTGTTCGATTCCA
48364998 TTATGGTATTTTGTTCGATTCCA
1 TTATGGTATTTTGTTCGATTCCA
48365021 ATTTCTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.52
Consensus pattern (23 bp):
TTATGGTATTTTGTTCGATTCCA
Found at i:48365770 original size:15 final size:15
Alignment explanation
Indices: 48365750--48365780 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48365740 GATGAAGAAT
48365750 ATTATTACGATGATG
1 ATTATTACGATGATG
*
48365765 ATTATTATGATGATG
1 ATTATTACGATGATG
48365780 A
1 A
48365781 AGACGACGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.42
Consensus pattern (15 bp):
ATTATTACGATGATG
Found at i:48365779 original size:18 final size:18
Alignment explanation
Indices: 48365735--48365783 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
48365725 GGTGATGACG
48365735 ATGATGATGAAGAATATT
1 ATGATGATGAAGAATATT
* * * *
48365753 ATTACGATGATGATTATT
1 ATGATGATGAAGAATATT
48365771 ATGATGATGAAGA
1 ATGATGATGAAGA
48365784 CGACGACGAC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (18 bp):
ATGATGATGAAGAATATT
Found at i:48365846 original size:18 final size:18
Alignment explanation
Indices: 48365825--48365859 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48365815 GAATATAATG
*
48365825 ATGAGAAAGATCAGAAAA
1 ATGAGAAAGAACAGAAAA
48365843 ATGAGAAAGAACAGAAA
1 ATGAGAAAGAACAGAAA
48365860 TAAAATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.06, G:0.23, T:0.09
Consensus pattern (18 bp):
ATGAGAAAGAACAGAAAA
Found at i:48366698 original size:16 final size:16
Alignment explanation
Indices: 48366677--48366708 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48366667 GATTGTAAGA
48366677 GTAAAAAAGTTGCCAC
1 GTAAAAAAGTTGCCAC
48366693 GTAAAAAAGTTGCCAC
1 GTAAAAAAGTTGCCAC
48366709 TAAGGTGCAG
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:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
GTAAAAAAGTTGCCAC
Found at i:48366894 original size:97 final size:97
Alignment explanation
Indices: 48366728--48366919 Score: 384
Period size: 97 Copynumber: 2.0 Consensus size: 97
48366718 GCACCAATCA
48366728 GTGTGTTTGGCAACGTAGTAGTGAACATTTCTCACCTCACTATAATCCAAAATTTTGGTTGGAGT
1 GTGTGTTTGGCAACGTAGTAGTGAACATTTCTCACCTCACTATAATCCAAAATTTTGGTTGGAGT
48366793 TTAGAGTTCGAATTGACTGCTTTGAAAGTCTG
66 TTAGAGTTCGAATTGACTGCTTTGAAAGTCTG
48366825 GTGTGTTTGGCAACGTAGTAGTGAACATTTCTCACCTCACTATAATCCAAAATTTTGGTTGGAGT
1 GTGTGTTTGGCAACGTAGTAGTGAACATTTCTCACCTCACTATAATCCAAAATTTTGGTTGGAGT
48366890 TTAGAGTTCGAATTGACTGCTTTGAAAGTC
66 TTAGAGTTCGAATTGACTGCTTTGAAAGTC
48366920 CAAAAACAGG
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (97 bp):
GTGTGTTTGGCAACGTAGTAGTGAACATTTCTCACCTCACTATAATCCAAAATTTTGGTTGGAGT
TTAGAGTTCGAATTGACTGCTTTGAAAGTCTG
Found at i:48367031 original size:16 final size:16
Alignment explanation
Indices: 48366993--48367034 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48366983 ACACACAACG
48366993 TAATTTTAATATATCA
1 TAATTTTAATATATCA
*
48367009 TTA-TTTAATATAAT-A
1 TAATTTTAATAT-ATCA
48367024 TAATTTTAATA
1 TAATTTTAATA
48367035 AAAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTTTAATATATCA
Found at i:48369028 original size:16 final size:18
Alignment explanation
Indices: 48369007--48369040 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48368997 GAAAAATATT
48369007 AAATAT-ATA-TTTTTTA
1 AAATATAATAGTTTTTTA
48369023 AAATATAATAGTTTTTTA
1 AAATATAATAGTTTTTTA
48369041 TTTTAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
AAATATAATAGTTTTTTA
Found at i:48369186 original size:59 final size:59
Alignment explanation
Indices: 48369117--48369295 Score: 241
Period size: 68 Copynumber: 2.9 Consensus size: 59
48369107 TCAAGTTTAT
* *
48369117 TTTACTAATCAAATGTTATATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
48369176 TTTACTAATCAAATGTTAGATTTTATTATAAAAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTA-T-T----A--CA-ACAATTAATACAATTAATAATTTGAT
48369241 AAA
57 AAA
*
48369244 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
48369296 AATAATTTGA
Statistics
Matches: 106, Mismatches: 5, Indels: 18
0.82 0.04 0.14
Matches are distributed among these distances:
59 44 0.42
60 2 0.02
61 1 0.01
62 1 0.01
65 1 0.01
66 1 0.01
67 2 0.02
68 54 0.51
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:48369220 original size:9 final size:9
Alignment explanation
Indices: 48369208--48369233 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
48369198 TTATTATAAA
48369208 AATTAATAC
1 AATTAATAC
48369217 AATTAATAC
1 AATTAATAC
48369226 AATTAATA
1 AATTAATA
48369234 ATTTGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
AATTAATAC
Found at i:48369223 original size:68 final size:68
Alignment explanation
Indices: 48369147--48369317 Score: 301
Period size: 68 Copynumber: 2.5 Consensus size: 68
48369137 TTTTGTTACA
*
48369147 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTATAAAAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAAAAATT
48369212 AAT
66 AAT
*
48369215 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAAAAATT
48369280 AAT
66 AAT
*
48369283 ACAATT-A-ACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAA
48369318 CAATTAATTT
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
66 27 0.27
67 1 0.01
68 72 0.72
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (68 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAAAAATT
AAT
Found at i:48369327 original size:16 final size:16
Alignment explanation
Indices: 48369306--48369347 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
48369296 AATAATTTGA
*
48369306 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
48369322 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
48369338 TAGTTTTAAT
1 TAATTTTAAT
48369348 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:48369336 original size:59 final size:66
Alignment explanation
Indices: 48369147--48369339 Score: 274
Period size: 68 Copynumber: 3.0 Consensus size: 66
48369137 TTTTGTTACA
*
48369147 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTATAAAAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-TATAACAATT
48369212 AAT
64 AAT
*
48369215 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-TATAACAATT
48369280 AAT
64 AAT
*
48369283 ACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATATAACAATTA
48369340 GTTTTAATTT
Statistics
Matches: 121, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
59 9 0.07
61 6 0.05
62 3 0.02
64 2 0.02
65 1 0.01
66 27 0.22
67 1 0.01
68 72 0.60
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (66 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATATAACAATTAA
T
Found at i:48369364 original size:31 final size:31
Alignment explanation
Indices: 48369329--48369389 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
48369319 AATTAATTTT
*
48369329 AATAACAATTAGTTTTAATTTT-ATTAAAAAA
1 AATAA-AATTAATTTTAATTTTAATTAAAAAA
**
48369360 AATAATTTTAATTTTAATTTTAATTAAAAA
1 AATAAAATTAATTTTAATTTTAATTAAAAA
48369390 CGGGTCGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (31 bp):
AATAAAATTAATTTTAATTTTAATTAAAAAA
Found at i:48369591 original size:21 final size:21
Alignment explanation
Indices: 48369557--48369596 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48369547 CTTGAACAAC
*
48369557 TTTTAGATTATTTGTTTTACT
1 TTTTAGATTATTTGATTTACT
48369578 TTTTA-ATTATTTTGATTTA
1 TTTTAGATTA-TTTGATTTA
48369597 AAAAATGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTAGATTATTTGATTTACT
Found at i:48369703 original size:11 final size:11
Alignment explanation
Indices: 48369668--48369706 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
48369658 GTAAATCATC
48369668 TAATAAATATAT
1 TAAT-AATATAT
48369680 TAGATAATATAT
1 TA-ATAATATAT
*
48369692 TAATAATTTAT
1 TAATAATATAT
48369703 TAAT
1 TAAT
48369707 TTATATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 12 0.48
12 11 0.44
13 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TAATAATATAT
Found at i:48374766 original size:30 final size:30
Alignment explanation
Indices: 48374732--48374789 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
48374722 CACAGGCTGG
*
48374732 CACATGGGCGTGTGGCCAGCCCGTGTGGCT
1 CACATGGGCATGTGGCCAGCCCGTGTGGCT
*
48374762 CACATGGGCATGTGGCCAGCCTGTGTGG
1 CACATGGGCATGTGGCCAGCCCGTGTGG
48374790 AAGTGCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.28, G:0.40, T:0.21
Consensus pattern (30 bp):
CACATGGGCATGTGGCCAGCCCGTGTGGCT
Found at i:48375349 original size:72 final size:71
Alignment explanation
Indices: 48375111--48375447 Score: 399
Period size: 72 Copynumber: 4.7 Consensus size: 71
48375101 TCACCTGTGA
** * * **
48375111 ATAAATTTTATATCC-AAAATCATATATAAACAACTATTGATAAAACTA-ATTTAGTATAAATAA
1 ATAAATTCAATATCCAAAAACCAAATATAAACAACTATTGATAAAACTAGA-TTAACATAAATAA
48375174 GTAGAAC
65 GTAGAAC
* * * * **
48375181 ATAAATTTAACATCCAAAAATCAAATATAAACAATTATTGATAAAACTAGCCCTAAGCATAAATA
1 ATAAATTCAATATCCAAAAACCAAATATAAACAACTATTGATAAAACTAG-ATTAA-CATAAATA
* *
48375246 ATTAGACC
64 AGTAGAAC
* *
48375254 ATAAATTCAATATCCAAAGACCAAATATAAACAAATATTGATAAAACTAGATTACACATAAATAA
1 ATAAATTCAATATCCAAAAACCAAATATAAACAACTATTGATAAAACTAGATTA-ACATAAATAA
*
48375319 GCAGAAC
65 GTAGAAC
* * * *
48375326 ATAAATTCAATATCCAAAAACCAAACATAAATAACCATTGATAAAACTAGATTACACAAAAATAA
1 ATAAATTCAATATCCAAAAACCAAATATAAACAACTATTGATAAAACTAGATTA-ACATAAATAA
*
48375391 GTAGCAC
65 GTAGAAC
* *
48375398 ATAAATTCAATATCCAAAAACCAAACATAAATAACTATTGATAAAACTAG
1 ATAAATTCAATATCCAAAAACCAAATATAAACAACTATTGATAAAACTAG
48375448 TTTAGCATTG
Statistics
Matches: 233, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
70 13 0.06
71 31 0.13
72 130 0.56
73 59 0.25
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.25
Consensus pattern (71 bp):
ATAAATTCAATATCCAAAAACCAAATATAAACAACTATTGATAAAACTAGATTAACATAAATAAG
TAGAAC
Found at i:48376745 original size:20 final size:20
Alignment explanation
Indices: 48376720--48376758 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
48376710 TACTTTCTTC
48376720 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
48376740 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
48376759 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:48381712 original size:40 final size:40
Alignment explanation
Indices: 48381659--48381747 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
48381649 ATCTCATGCA
* *
48381659 AACA-TAGGAATGGGTCGATCCTGGATCAATTAAAGCAAT
1 AACACTAGTAATGGGTCGATCCTAGATCAATTAAAGCAAT
*
48381698 AACTCTAGTAATGGGTCGATCCTAGATCAATTAAAGCAAT
1 AACACTAGTAATGGGTCGATCCTAGATCAATTAAAGCAAT
48381738 AACACTAGTA
1 AACACTAGTA
48381748 TCATAAAGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 3 0.07
40 42 0.93
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (40 bp):
AACACTAGTAATGGGTCGATCCTAGATCAATTAAAGCAAT
Found at i:48382514 original size:22 final size:22
Alignment explanation
Indices: 48382443--48382507 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
48382433 AACAAGGAGA
* * *
48382443 CTCTTCAGTGGTATCGCGAAATC
1 CTCTTCTG-GGTATCGTGATATC
48382466 CTCTT-TGGGTATCGTGATATC
1 CTCTTCTGGGTATCGTGATATC
*
48382487 CTCTTCTGGGTATTGTGATAT
1 CTCTTCTGGGTATCGTGATAT
48382508 AGCCTTCGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 17 0.46
22 15 0.41
23 5 0.14
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (22 bp):
CTCTTCTGGGTATCGTGATATC
Found at i:48385059 original size:62 final size:62
Alignment explanation
Indices: 48384989--48385111 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
48384979 TGAATAATAG
*
48384989 AAGTATTAAATGGATTGAAATTTTCTATTCAGATTAAGATAAACCACGTACGAATTCAGATT
1 AAGTATTAAATGGATTGAAATTGTCTATTCAGATTAAGATAAACCACGTACGAATTCAGATT
*
48385051 AAGTATTAAATGGATTGAAATTGTCTATTCAGATTAAGATAAACCACGTACGAATTTAGAT
1 AAGTATTAAATGGATTGAAATTGTCTATTCAGATTAAGATAAACCACGTACGAATTCAGAT
48385112 CGGGGAAAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (62 bp):
AAGTATTAAATGGATTGAAATTGTCTATTCAGATTAAGATAAACCACGTACGAATTCAGATT
Found at i:48386193 original size:37 final size:37
Alignment explanation
Indices: 48386146--48386232 Score: 147
Period size: 37 Copynumber: 2.4 Consensus size: 37
48386136 ATGGCTTATG
*
48386146 TGGTATGTTTTGAGGTGGTTTGAATATGGTAAAGTTA
1 TGGTATGTTTTGAGGTAGTTTGAATATGGTAAAGTTA
48386183 TGGTATGTTTTGAGGTAGTTTGAATATGGTAAAGTTA
1 TGGTATGTTTTGAGGTAGTTTGAATATGGTAAAGTTA
* *
48386220 TAGCATGTTTTGA
1 TGGTATGTTTTGA
48386233 AAGGCATTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (37 bp):
TGGTATGTTTTGAGGTAGTTTGAATATGGTAAAGTTA
Found at i:48387772 original size:12 final size:12
Alignment explanation
Indices: 48387740--48387774 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
48387730 ATGAATAGTG
48387740 ATAAAAATAATA
1 ATAAAAATAATA
**
48387752 ATAGCAATAATA
1 ATAAAAATAATA
48387764 ATAAAAATAAT
1 ATAAAAATAAT
48387775 TAAATGATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:48388949 original size:25 final size:24
Alignment explanation
Indices: 48388905--48388951 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
48388895 CTGTTATTAA
*
48388905 TATTTTGTTTGGTTTATATATTTT
1 TATTTTGTTTGATTTATATATTTT
*
48388929 TATTTTGATTTGATTTTTATATT
1 TATTTTG-TTTGATTTATATATT
48388952 ATGGGCCGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (24 bp):
TATTTTGTTTGATTTATATATTTT
Found at i:48389599 original size:14 final size:14
Alignment explanation
Indices: 48389582--48389630 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
48389572 TGATTGTTTT
48389582 ATAATGTGTTTATG
1 ATAATGTGTTTATG
48389596 ATAATGATTGTTT-T-
1 ATAATG--TGTTTATG
48389610 ATAATGTGTTTATG
1 ATAATGTGTTTATG
48389624 ATAATGT
1 ATAATGT
48389631 ACGAAATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.16
13 1 0.03
14 19 0.61
15 1 0.03
16 5 0.16
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (14 bp):
ATAATGTGTTTATG
Found at i:48389601 original size:28 final size:28
Alignment explanation
Indices: 48389570--48389629 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
48389560 TATGTATGTG
48389570 AATGATTGTTTTATAATGTGTTTATGAT
1 AATGATTGTTTTATAATGTGTTTATGAT
48389598 AATGATTGTTTTATAATGTGTTTATGAT
1 AATGATTGTTTTATAATGTGTTTATGAT
48389626 AATG
1 AATG
48389630 TACGAAATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (28 bp):
AATGATTGTTTTATAATGTGTTTATGAT
Found at i:48392144 original size:41 final size:41
Alignment explanation
Indices: 48392087--48392167 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
48392077 GGAGGGTCTC
48392087 TCGTAGGCTTGAGTTCTTTCAATTTGGTGGAAGTGTTTTTT
1 TCGTAGGCTTGAGTTCTTTCAATTTGGTGGAAGTGTTTTTT
48392128 TCGTAGGCTTGAGTTCTTTCAATTTGGTGGAAGTGTTTTT
1 TCGTAGGCTTGAGTTCTTTCAATTTGGTGGAAGTGTTTTT
48392168 AACACTGAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.15, C:0.10, G:0.27, T:0.48
Consensus pattern (41 bp):
TCGTAGGCTTGAGTTCTTTCAATTTGGTGGAAGTGTTTTTT
Found at i:48394690 original size:42 final size:42
Alignment explanation
Indices: 48394625--48394780 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
48394615 AAATCGTACA
*
48394625 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
48394667 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
48394709 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
48394753 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
48394781 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:48402023 original size:42 final size:42
Alignment explanation
Indices: 48401958--48402113 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
48401948 AAATCGTACA
*
48401958 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
48402000 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
48402042 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
48402086 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
48402114 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:48403917 original size:5 final size:5
Alignment explanation
Indices: 48403907--48403931 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48403897 AAGTCTCATA
48403907 TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT
48403932 GCACACCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TATGT
Found at i:48417954 original size:56 final size:55
Alignment explanation
Indices: 48417855--48418008 Score: 209
Period size: 56 Copynumber: 2.7 Consensus size: 55
48417845 TTCTGTTGAT
* *
48417855 ATATTATTATGAGGTATTATCTTTTTAGCAATTTGATTCCTAATGGGATATTATAAG
1 ATATTATTATGAGATATTA--TATTTAGCAATTTGATTCCTAATGGGATATTATAAG
* *
48417912 ATATTATTATGAGATATTATATCTTAGCAGTTTGATTCCTAATGGGATGTTATAAG
1 ATATTATTATGAGATATTATAT-TTAGCAATTTGATTCCTAATGGGATATTATAAG
* * *
48417968 ATATTATTATGGGATTTTATGTTTCAGCAATTTGATTCCTA
1 ATATTATTATGAGATATTATATTT-AGCAATTTGATTCCTA
48418009 TGTAACTACT
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
55 4 0.05
56 65 0.75
57 18 0.21
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (55 bp):
ATATTATTATGAGATATTATATTTAGCAATTTGATTCCTAATGGGATATTATAAG
Found at i:48422532 original size:5 final size:5
Alignment explanation
Indices: 48422522--48422557 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
48422512 AGAAATAAAC
48422522 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA A
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA A
48422558 AAGAAAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATTAA
Found at i:48424379 original size:52 final size:53
Alignment explanation
Indices: 48424315--48424435 Score: 135
Period size: 52 Copynumber: 2.3 Consensus size: 53
48424305 ATAACTAGAA
* *
48424315 AAAT-AAAATAAAATAACTAAGAATAGAA-AATAATAG-ATAATAA-ACAATAAAT
1 AAATGAAAATAAAATAACTAA-AA-AGAATAATAATAGAAAAATAACA-AAAAAAT
* *
48424367 AAA-GAAAATAAAAGAACTAATAAGAATAATAATAGAAAAATAACAAAAAAAT
1 AAATGAAAATAAAATAACTAAAAAGAATAATAATAGAAAAATAACAAAAAAAT
48424419 AAATGATAAATAAAATA
1 AAATGA-AAATAAAATA
48424436 GGGCAAATAG
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
50 4 0.07
51 9 0.16
52 33 0.57
53 3 0.05
54 9 0.16
ACGTcount: A:0.71, C:0.03, G:0.07, T:0.19
Consensus pattern (53 bp):
AAATGAAAATAAAATAACTAAAAAGAATAATAATAGAAAAATAACAAAAAAAT
Found at i:48424398 original size:30 final size:31
Alignment explanation
Indices: 48424336--48424405 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
48424326 AATAACTAAG
*
48424336 AATAGAAAATAATAGATAATAAACAATAAAT
1 AATAGAAAATAAAAGATAATAAACAATAAAT
*
48424367 AA-AGAAAATAAAAGAACTAAT-AAGAAT-AAT
1 AATAGAAAATAAAAG-A-TAATAAACAATAAAT
48424397 AATAGAAAA
1 AATAGAAAA
48424406 ATAACAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 16 0.47
31 14 0.41
32 4 0.12
ACGTcount: A:0.70, C:0.03, G:0.09, T:0.19
Consensus pattern (31 bp):
AATAGAAAATAAAAGATAATAAACAATAAAT
Found at i:48442762 original size:41 final size:40
Alignment explanation
Indices: 48442717--48442815 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 40
48442707 TGATTCAGTA
48442717 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAA-TATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCT-AAAGTATTT
* * *
48442758 CACCGGCATTAAGCCTGCTAGACATTTTGTCTAAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTAAAGTATTT
*
48442799 CACCGGCAATAAGCCTG
1 CACCGGC-ATTAGCCTG
48442816 ATAAGCTCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
40 5 0.10
41 44 0.86
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTAAAGTATTT
Found at i:48448955 original size:29 final size:29
Alignment explanation
Indices: 48448865--48448958 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 29
48448855 ACACTAGTTG
* * * *
48448865 TCGGTGATTACAGTATCAGGTACTTTATA
1 TCGGTGATTATAGTTTCAGGTACTATGTA
* * *
48448894 ACGGTG-TTATAGTTTCAGGCACTCA-GTG
1 TCGGTGATTATAGTTTCAGGTACT-ATGTA
* *
48448922 CCGGTGATTATAGTTTTAGGTACTATGTA
1 TCGGTGATTATAGTTTCAGGTACTATGTA
48448951 TCGGTGAT
1 TCGGTGAT
48448959 GGATATCATA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
28 21 0.42
29 29 0.58
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (29 bp):
TCGGTGATTATAGTTTCAGGTACTATGTA
Found at i:48454739 original size:21 final size:21
Alignment explanation
Indices: 48454693--48454739 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
48454683 TTTCTATATG
*
48454693 CCTCATGATTTTTTTGTACTC
1 CCTCATGATTTTTTGGTACTC
* * *
48454714 TCTCATGGTTTTTTGGTATTC
1 CCTCATGATTTTTTGGTACTC
48454735 CCTCA
1 CCTCA
48454740 AAATTTTTGG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.51
Consensus pattern (21 bp):
CCTCATGATTTTTTGGTACTC
Found at i:48454783 original size:16 final size:17
Alignment explanation
Indices: 48454757--48454788 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
48454747 TGGTATGTCT
48454757 TCATAATTTTTTTATAC
1 TCATAATTTTTTTATAC
48454774 TCAT-ATTTTTTTATA
1 TCATAATTTTTTTATA
48454789 TTCCATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (17 bp):
TCATAATTTTTTTATAC
Found at i:48455300 original size:20 final size:20
Alignment explanation
Indices: 48455271--48455315 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
48455261 CTCTCATGGT
*
48455271 TTTTTGGTATCCCCTCAGAA
1 TTTTTAGTATCCCCTCAGAA
* *
48455291 TTTTTAGTATGCCCTCATAA
1 TTTTTAGTATCCCCTCAGAA
48455311 TTTTT
1 TTTTT
48455316 TATATTCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (20 bp):
TTTTTAGTATCCCCTCAGAA
Found at i:48457356 original size:102 final size:101
Alignment explanation
Indices: 48457173--48457357 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
48457163 AAAGTGATGG
*
48457173 TCACGTGTGTACTACTATGTGCAGGCTACTACATGTACCGGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTACTACTATGTGCAGGCTACTACATGTACCGGAATGATAGGTCACATGTGTAGTAC
48457238 TATGTGCAGGCTACTATGCGTACCGGATAGTTTTGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGTTTTGA
* * ** * *
48457274 TCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCGG-ATGGTAATGGTCACATGTGTAGT
1 TCACGTGTGTACTACTATGTGCAGGCTACTACATGTACCGGAATGAT-A-GGTCACATGTGTAGT
48457338 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
48457358 TGAACCAAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 37 0.49
102 34 0.45
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTACTACTATGTGCAGGCTACTACATGTACCGGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGTTTTGA
Found at i:48457358 original size:51 final size:50
Alignment explanation
Indices: 48457169--48457359 Score: 231
Period size: 51 Copynumber: 3.8 Consensus size: 50
48457159 AGTGAAAGTG
* * ** *
48457169 ATGGTCACGTGTGTACTACTATGTGCAGGCTACTACATGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG-ATGGT
* * *
48457220 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT-GGT
* * * * *
48457270 TTGATCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCGGATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGGT
48457320 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
48457360 AACCAAACAT
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.35
51 75 0.64
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGGT
Done.