Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 246 of 427
Found at i:70025462 original size:29 final size:29
Alignment explanation
Indices: 70025429--70025493 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
70025419 GTGACGAGAT
70025429 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
70025458 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
70025487 CGGCACT
1 TGGCACT
70025494 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:70036672 original size:29 final size:29
Alignment explanation
Indices: 70036639--70036703 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
70036629 GTGACGAGAT
70036639 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
70036668 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
70036697 CGGCACT
1 TGGCACT
70036704 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:70036811 original size:2 final size:2
Alignment explanation
Indices: 70036806--70036830 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
70036796 GCGTACTCTC
70036806 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
70036831 CTCCGATCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70040937 original size:40 final size:40
Alignment explanation
Indices: 70040907--70040986 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
70040897 TGGTGTGTGT
70040907 TTCGAGATAGCTTCGGCTATATATAGCACTTAGTGTGCGAA
1 TTCGA-ATAGCTTCGGCTATATATAGCACTTAGTGTGCGAA
* * * *
70040948 TTGGAATAGCTTCGGCTATATGTGGCACTGAGTGTGCGA
1 TTCGAATAGCTTCGGCTATATATAGCACTTAGTGTGCGA
70040987 TATTGAGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 31 0.89
41 4 0.11
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (40 bp):
TTCGAATAGCTTCGGCTATATATAGCACTTAGTGTGCGAA
Found at i:70041955 original size:30 final size:30
Alignment explanation
Indices: 70041921--70041979 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
70041911 GGGCAAAGAC
* *
70041921 ACGGGAGTGTGTCTCAGCTGTGTATGACAT
1 ACGGGAGTGTGTCTCAACCGTGTATGACAT
70041951 ACGGGAGTGTGTCTCAACCGTGTATGACA
1 ACGGGAGTGTGTCTCAACCGTGTATGACA
70041980 CACGTTAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (30 bp):
ACGGGAGTGTGTCTCAACCGTGTATGACAT
Found at i:70043310 original size:36 final size:36
Alignment explanation
Indices: 70043263--70043336 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
70043253 CACTAAGTAC
70043263 GAAAGAGAATTCTTACGATTAAACAAATACGCTCGG
1 GAAAGAGAATTCTTACGATTAAACAAATACGCTCGG
*
70043299 GAAAGAGAATTCTTACGATTAAACAAATATGCTCGG
1 GAAAGAGAATTCTTACGATTAAACAAATACGCTCGG
70043335 GA
1 GA
70043337 GTATGTATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (36 bp):
GAAAGAGAATTCTTACGATTAAACAAATACGCTCGG
Found at i:70049999 original size:20 final size:20
Alignment explanation
Indices: 70049960--70050002 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
70049950 TAATTCTTCA
*
70049960 TTTATTCTCTTCCGATAGGT
1 TTTATTCTCTTCCGACAGGT
* *
70049980 TTTATTCTCTTCTGGCAGGT
1 TTTATTCTCTTCCGACAGGT
70050000 TTT
1 TTT
70050003 CTAGTTTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (20 bp):
TTTATTCTCTTCCGACAGGT
Found at i:70070386 original size:40 final size:40
Alignment explanation
Indices: 70070327--70070544 Score: 239
Period size: 40 Copynumber: 5.5 Consensus size: 40
70070317 AAGCCAAGTA
* * * * *
70070327 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
* * *
70070366 CCTTTGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
70070406 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCTCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCACACAAATG
* *
70070446 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* * *
70070486 CCTTCGGGACTTATCCCGGA-ACTAGTCACT-AGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
70070526 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
70070545 TTATCATCCA
Statistics
Matches: 154, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 13 0.08
40 140 0.91
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:70070461 original size:80 final size:80
Alignment explanation
Indices: 70070366--70070544 Score: 286
Period size: 80 Copynumber: 2.2 Consensus size: 80
70070356 CACTCGAATA
* *
70070366 CCTTTGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
**
70070431 TAACTCTCACAAATG
66 TAACTAGCACAAATG
* *
70070446 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGGGACTTATCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
* *
70070511 TCACTAGCGCAAATG
66 TAACTAGCACAAATG
70070526 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
70070545 TTATCATCCA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 91 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
TAACTAGCACAAATG
Found at i:70078680 original size:39 final size:39
Alignment explanation
Indices: 70078566--70078820 Score: 363
Period size: 39 Copynumber: 6.5 Consensus size: 39
70078556 AAGCCAAGTA
* * * * *
70078566 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGA-ATAG-TAACTCGCACAAATG
*
70078605 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATG
70078645 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
70078684 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
70078723 CCTTCGGGACTTAGCCCGG-ATATGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATA-GTAACTCGCACAAATG
* * *
70078762 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
70078802 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
70078821 TTATCATCCA
Statistics
Matches: 201, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
38 3 0.01
39 124 0.62
40 72 0.36
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
Found at i:70078732 original size:78 final size:78
Alignment explanation
Indices: 70078566--70078820 Score: 363
Period size: 79 Copynumber: 3.2 Consensus size: 78
70078556 AAGCCAAGTA
* * * * * *
70078566 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGA-ATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATA
70078629 GTAACTCGCACAAATG
63 GTAACTCGCACAAATG
70078645 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTA
1 CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTA
70078710 ACTCGCACAAATG
66 ACTCGCACAAATG
70078723 CCTTCGGGACTTAGCCCGG-ATATGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGAATA-GTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-TAG
* * *
70078787 TCACTAGCGCAAATG
64 TAACTCGCACAAATG
70078802 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
70078821 TTATCATCCA
Statistics
Matches: 163, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
77 3 0.02
78 76 0.47
79 79 0.48
80 5 0.03
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.22
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTA
ACTCGCACAAATG
Found at i:70078800 original size:118 final size:119
Alignment explanation
Indices: 70078566--70078820 Score: 383
Period size: 118 Copynumber: 2.2 Consensus size: 119
70078556 AAGCCAAGTA
* * * *
70078566 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCGAATACCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATACCTTCGGGACATAGCCCGGATATAG
*
70078630 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
66 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTAGCACAAATG
* *
70078684 CCTTCGGGACTTAGCCCGGA-ATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT-
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATACCTTCGGGACATAGCCCGGATATA
* *
70078746 GTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCAAATG
65 GTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTAGCACAAATG
70078802 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
70078821 TTATCATCCA
Statistics
Matches: 125, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
117 38 0.30
118 82 0.66
119 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.22
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATACCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTAGCACAAATG
Found at i:70085258 original size:28 final size:30
Alignment explanation
Indices: 70085212--70085278 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
70085202 TGGCCCAAGA
* *
70085212 GTAAATACTCAAAATTTGAA-GATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
70085241 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
70085271 GCAAATAT
1 GTAAATAT
70085279 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 10 0.31
29 12 0.38
30 10 0.31
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:70087861 original size:45 final size:46
Alignment explanation
Indices: 70087692--70087876 Score: 248
Period size: 46 Copynumber: 4.0 Consensus size: 46
70087682 GTGTGCTCTC
* * *
70087692 TGATATGAAATGTGTAAGACCATGGTTGAAAGAAACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
70087738 CGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
70087784 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
** * * * *
70087830 TGA-A-GAAAATAAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
70087875 TG
1 TG
70087877 TCAAAGATAA
Statistics
Matches: 127, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
44 1 0.01
45 36 0.28
46 90 0.71
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:70087892 original size:45 final size:45
Alignment explanation
Indices: 70087752--70087894 Score: 128
Period size: 45 Copynumber: 3.2 Consensus size: 45
70087742 ATGAAATGTG
* * * ***
70087752 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTG
1 TAAGACCATAGTTGAAAGACACCATGGCAACATGA-A-GAAAATAAA
* * *
70087798 TAAGACCATGGTTGAAAGATACCATGGCAACATGAAGAAAATAAG
1 TAAGACCATAGTTGAAAGACACCATGGCAACATGAAGAAAATAAA
* * * *
70087843 TAAGACCATAGTTGAAAGACACTATGGCATCATGTCA-AAGATAAA
1 TAAGACCATAGTTGAAAGACACCATGGCAACATG-AAGAAAATAAA
70087888 TAAGACC
1 TAAGACC
70087895 GTGGATGGGA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 49 0.58
46 35 0.41
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACCATGGCAACATGAAGAAAATAAA
Found at i:70095910 original size:33 final size:33
Alignment explanation
Indices: 70095829--70095927 Score: 95
Period size: 33 Copynumber: 3.2 Consensus size: 33
70095819 ACATGACTGC
*
70095829 ACTGTATTGATACTGAATTA-GGCATAGGCCC--
1 ACTGTATTGATACTGAA-TAGGGCCTAGGCCCAG
* *
70095860 AC---ATTGTTACTGTATAGGG-CTAAGGCCCAG
1 ACTGTATTGATACTGAATAGGGCCT-AGGCCCAG
70095890 ACTGTATTGATACTGAATAGGGCCTAGGCCCAG
1 ACTGTATTGATACTGAATAGGGCCTAGGCCCAG
*
70095923 TCTGT
1 ACTGT
70095928 TACTGCATAC
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
27 3 0.06
28 18 0.33
30 2 0.04
31 2 0.04
33 27 0.50
34 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (33 bp):
ACTGTATTGATACTGAATAGGGCCTAGGCCCAG
Found at i:70105106 original size:35 final size:35
Alignment explanation
Indices: 70105060--70105130 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
70105050 ATTGGAGATA
70105060 GTGTGATGATGCTCCGACCAGTCTCCAACCTTTAC
1 GTGTGATGATGCTCCGACCAGTCTCCAACCTTTAC
* *
70105095 GTGTGATGATGCTCTGACCGGTCTCCAACCTTTAC
1 GTGTGATGATGCTCCGACCAGTCTCCAACCTTTAC
70105130 G
1 G
70105131 AGGTTTCGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.30, G:0.23, T:0.30
Consensus pattern (35 bp):
GTGTGATGATGCTCCGACCAGTCTCCAACCTTTAC
Found at i:70116669 original size:92 final size:93
Alignment explanation
Indices: 70116558--70116727 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
70116548 GCCCATAAGT
* *
70116558 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70116622 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
70116650 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70116715 CGAGTTCGGATGC
66 CGAGTTCGGATGC
70116728 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 49 0.66
93 25 0.34
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:70116701 original size:46 final size:46
Alignment explanation
Indices: 70116550--70116724 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
70116540 TGTAACCCGC
* * *
70116550 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
70116596 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
70116645 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
70116688 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
70116725 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 22 0.20
46 49 0.45
47 24 0.22
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:70124102 original size:93 final size:93
Alignment explanation
Indices: 70123990--70124160 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
70123980 GCCCATAAGT
* *
70123990 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
70124055 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
70124083 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
70124148 CGAGTTCGGATGC
66 CGAGTTCGGATGC
70124161 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:70124157 original size:46 final size:46
Alignment explanation
Indices: 70123982--70124157 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
70123972 TGTAACCCGC
* * *
70123982 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
70124028 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
70124078 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
70124121 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
70124158 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:70135964 original size:20 final size:20
Alignment explanation
Indices: 70135939--70135988 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
70135929 TTTACCTCGA
70135939 GTATCGATACTCGTGTTAGG
1 GTATCGATACTCGTGTTAGG
70135959 GTATCGATACTCGTGTTAGG
1 GTATCGATACTCGTGTTAGG
70135979 GTATCGATAC
1 GTATCGATAC
70135989 CAATTTACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (20 bp):
GTATCGATACTCGTGTTAGG
Found at i:70149325 original size:46 final size:46
Alignment explanation
Indices: 70149270--70149436 Score: 207
Period size: 46 Copynumber: 3.6 Consensus size: 46
70149260 TAGGATGGTT
70149270 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *
70149316 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
70149362 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
70149409 GAAC-GCCCAAGCTCGTTGAGTTGAGTCC
1 GAGCATCCGAA-CTCGTTGAGTTGAGTCC
70149437 TATGGGCGGG
Statistics
Matches: 104, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 4 0.04
45 6 0.06
46 54 0.52
47 34 0.33
48 2 0.02
50 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:70152908 original size:16 final size:15
Alignment explanation
Indices: 70152881--70152912 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
70152871 TCTTTTGATT
70152881 TTATTATAACTATTA
1 TTATTATAACTATTA
70152896 TTATTATTAACTATTA
1 TTATTA-TAACTATTA
70152912 T
1 T
70152913 AACATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATTATAACTATTA
Found at i:70156295 original size:24 final size:25
Alignment explanation
Indices: 70156253--70156301 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
70156243 ACACAAATGC
*
70156253 AGCTCTTCGTGAGCGTCCTGATATG
1 AGCTCTTCATGAGCGTCCTGATATG
*
70156278 AGCTCTT-ATGAGCTTCCTGATATG
1 AGCTCTTCATGAGCGTCCTGATATG
70156302 GCTTGCTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.35
Consensus pattern (25 bp):
AGCTCTTCATGAGCGTCCTGATATG
Found at i:70156758 original size:16 final size:17
Alignment explanation
Indices: 70156739--70156771 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
70156729 ATGATGGTAT
70156739 ATGAAATAT-TGATATA
1 ATGAAATATATGATATA
*
70156755 ATGAAATGTATGATATA
1 ATGAAATATATGATATA
70156772 TGTTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATATATGATATA
Found at i:70156770 original size:17 final size:17
Alignment explanation
Indices: 70156727--70156771 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
70156717 AAATTCATGA
*
70156727 AAATG-ATGGTAT-ATG
1 AAATGTATGATATAATG
*
70156742 AAATAT-TGATATAATG
1 AAATGTATGATATAATG
70156758 AAATGTATGATATA
1 AAATGTATGATATA
70156772 TGTTTATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 9 0.38
16 8 0.33
17 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.36
Consensus pattern (17 bp):
AAATGTATGATATAATG
Found at i:70161774 original size:12 final size:11
Alignment explanation
Indices: 70161749--70161783 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
70161739 AACACCTGAT
*
70161749 CTTCCCTTTCC
1 CTTCCCCTTCC
70161760 CTTCCCCTTCTC
1 CTTCCCCTTC-C
70161772 CTTCCCCTTCC
1 CTTCCCCTTCC
70161783 C
1 C
70161784 CCATCCTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (11 bp):
CTTCCCCTTCC
Found at i:70161779 original size:18 final size:17
Alignment explanation
Indices: 70161749--70161784 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
70161739 AACACCTGAT
*
70161749 CTTCCCTTTCCCTTCCC
1 CTTCCCTTCCCCTTCCC
70161766 CTTCTCCTTCCCCTTCCC
1 CTTC-CCTTCCCCTTCCC
70161784 C
1 C
70161785 CATCCTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (17 bp):
CTTCCCTTCCCCTTCCC
Found at i:70162081 original size:10 final size:10
Alignment explanation
Indices: 70162066--70162091 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
70162056 TCTTTTTAAC
70162066 TTGTTTAGAT
1 TTGTTTAGAT
70162076 TTGTTTAGAT
1 TTGTTTAGAT
70162086 TTGTTT
1 TTGTTT
70162092 CACTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.19, T:0.65
Consensus pattern (10 bp):
TTGTTTAGAT
Found at i:70164705 original size:24 final size:24
Alignment explanation
Indices: 70164658--70164706 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
70164648 CGAAGCTTCT
* *
70164658 TGATATGGTTCTTTATGAACTTCC
1 TGATATGGTTCTTTATCAAATTCC
*
70164682 TGATATGGTTCTTTGTCAAATTCC
1 TGATATGGTTCTTTATCAAATTCC
70164706 T
1 T
70164707 AATTATGGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.47
Consensus pattern (24 bp):
TGATATGGTTCTTTATCAAATTCC
Found at i:70172687 original size:40 final size:40
Alignment explanation
Indices: 70172642--70172809 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
70172632 CGGAATATAA
70172642 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
70172682 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
70172722 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
70172762 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
70172802 CCGGATAT
1 CCGGATAT
70172810 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:70177827 original size:28 final size:28
Alignment explanation
Indices: 70177796--70177947 Score: 126
Period size: 28 Copynumber: 5.4 Consensus size: 28
70177786 CTGATTTCGA
*
70177796 ACACATAGTGCTTGATTAAAGAACTCGC
1 ACACATAGTGCTCGATTAAAGAACTCGC
* * *
70177824 ACACATAGTGCCTCAATTACCA-ATCTCGC
1 ACACATAGTG-CTCGATTA-AAGAACTCGC
*
70177853 ACACATAGTGCTCGATTGAAGAACTCGC
1 ACACATAGTGCTCGATTAAAGAACTCGC
* * ** * *
70177881 ACACATAGTGCCTCAACTACTGATCTGGC
1 ACACATAGTG-CTCGATTAAAGAACTCGC
* * * *
70177910 ACACATAGTGCTCGGTTGAAGAGCTTGC
1 ACACATAGTGCTCGATTAAAGAACTCGC
*
70177938 ACACACAGTG
1 ACACATAGTG
70177948 TCTTATAATT
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
27 1 0.01
28 51 0.53
29 43 0.45
30 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (28 bp):
ACACATAGTGCTCGATTAAAGAACTCGC
Found at i:70177852 original size:29 final size:29
Alignment explanation
Indices: 70177819--70177920 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
70177809 GATTAAAGAA
70177819 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* **
70177848 CTCGCACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
70177876 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
70177905 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
70177921 TCGGTTGAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
28 23 0.38
29 38 0.62
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:70177863 original size:57 final size:57
Alignment explanation
Indices: 70177796--70177947 Score: 205
Period size: 57 Copynumber: 2.7 Consensus size: 57
70177786 CTGATTTCGA
* *
70177796 ACACATAGTGCTTGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATCTCGC
1 ACACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAACTACCAATCTCGC
* ** *
70177853 ACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATCTGGC
1 ACACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAACTACCAATCTCGC
* * * * *
70177910 ACACATAGTGCTCGGTTGAAGAGCTTGCACACACAGTG
1 ACACATAGTGCTCGATTAAAGAACTCGCACACATAGTG
70177948 TCTTATAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 85 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (57 bp):
ACACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAACTACCAATCTCGC
Found at i:70178025 original size:40 final size:40
Alignment explanation
Indices: 70177960--70178193 Score: 368
Period size: 40 Copynumber: 5.9 Consensus size: 40
70177950 TTATAATTCC
* *
70177960 AGCACGAATGC-CTTCGAGG-TTTAGCCCGAATATATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCACT
*
70177999 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA-CT
*
70178040 -GCACGAATGCTCTTCGGGACTTAGCCCAGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
70178079 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
70178119 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACAC-
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
70178158 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
70178194 AACTCTCAAT
Statistics
Matches: 181, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 49 0.27
40 130 0.72
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
Found at i:70190551 original size:24 final size:24
Alignment explanation
Indices: 70190259--70190543 Score: 507
Period size: 24 Copynumber: 11.9 Consensus size: 24
70190249 GCAAAGACCA
*
70190259 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
70190283 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
70190307 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
70190331 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
70190355 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
70190379 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
70190403 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
70190427 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
70190451 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
70190475 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
**
70190499 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTCAC
*
70190523 TATAGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATT
70190544 TGCTATAGTC
Statistics
Matches: 255, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 255 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:70192779 original size:5 final size:5
Alignment explanation
Indices: 70192758--70192810 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
70192748 TGTTAAAATA
* *
70192758 TATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
70192806 TATAT
1 TATAT
70192811 AAATAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.76
6 6 0.15
7 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:70192789 original size:10 final size:9
Alignment explanation
Indices: 70192755--70192811 Score: 59
Period size: 8 Copynumber: 6.6 Consensus size: 9
70192745 ATGTGTTAAA
70192755 ATATATATT
1 ATATATATT
*
70192764 AAAT-TATT
1 ATATATATT
70192772 AT-TATATT
1 ATATATATT
70192780 ATAGTATATT
1 ATA-TATATT
70192790 ATAT-TA-T
1 ATATATATT
70192797 ATATTATATT
1 ATA-TATATT
70192807 ATATA
1 ATATA
70192812 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.35
9 8 0.20
10 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:70192801 original size:12 final size:12
Alignment explanation
Indices: 70192756--70192811 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
70192746 TGTGTTAAAA
*
70192756 TATATATTAAAT
1 TATATATTATAT
70192768 TAT-TATTATATT
1 TATATATTATA-T
70192780 ATAGTATATTATAT
1 -TA-TATATTATAT
70192794 TATATATTATAT
1 TATATATTATAT
70192806 TATATA
1 TATATA
70192812 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:70194149 original size:18 final size:19
Alignment explanation
Indices: 70194128--70194166 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
70194118 ATATATAGAT
70194128 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
70194146 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
70194165 AT
1 AT
70194167 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:70194516 original size:39 final size:39
Alignment explanation
Indices: 70194406--70194540 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
70194396 GACCTCGAGT
* * * *
70194406 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
70194447 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
70194485 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
70194524 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
70194541 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:70194684 original size:18 final size:19
Alignment explanation
Indices: 70194663--70194703 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
70194653 AATGAAATGA
70194663 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
70194681 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
70194700 GAAA
1 GAAA
70194704 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:70199225 original size:5 final size:5
Alignment explanation
Indices: 70199204--70199256 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
70199194 TGTTAAAATA
* *
70199204 TATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
70199252 TATAT
1 TATAT
70199257 AAATAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.76
6 6 0.15
7 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:70199235 original size:10 final size:9
Alignment explanation
Indices: 70199201--70199257 Score: 59
Period size: 8 Copynumber: 6.6 Consensus size: 9
70199191 ATGTGTTAAA
70199201 ATATATATT
1 ATATATATT
*
70199210 AAAT-TATT
1 ATATATATT
70199218 AT-TATATT
1 ATATATATT
70199226 ATAGTATATT
1 ATA-TATATT
70199236 ATAT-TA-T
1 ATATATATT
70199243 ATATTATATT
1 ATA-TATATT
70199253 ATATA
1 ATATA
70199258 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.35
9 8 0.20
10 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:70199247 original size:12 final size:12
Alignment explanation
Indices: 70199202--70199257 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
70199192 TGTGTTAAAA
*
70199202 TATATATTAAAT
1 TATATATTATAT
70199214 TAT-TATTATATT
1 TATATATTATA-T
70199226 ATAGTATATTATAT
1 -TA-TATATTATAT
70199240 TATATATTATAT
1 TATATATTATAT
70199252 TATATA
1 TATATA
70199258 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:70200595 original size:18 final size:19
Alignment explanation
Indices: 70200574--70200612 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
70200564 ATATATAGAT
70200574 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
70200592 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
70200611 AT
1 AT
70200613 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:70200962 original size:39 final size:39
Alignment explanation
Indices: 70200852--70200986 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
70200842 GACCTCGAGT
* * * *
70200852 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
70200893 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
70200931 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
70200970 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
70200987 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:70201130 original size:18 final size:19
Alignment explanation
Indices: 70201109--70201149 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
70201099 AATGAAATGA
70201109 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
70201127 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
70201146 GAAA
1 GAAA
70201150 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:70203771 original size:51 final size:51
Alignment explanation
Indices: 70203714--70204288 Score: 813
Period size: 51 Copynumber: 11.6 Consensus size: 51
70203704 TTTAGGATTT
* *
70203714 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGTCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*
70203765 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*
70203816 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
***
70203867 AATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*
70203914 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*
70203965 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
***
70204016 AATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
* *
70204063 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCTGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*
70204114 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
* *** *
70204165 AATGTGATGAATGT-AAAC---ATGCGTATGTGTGATAAGGCCAAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
* * * *
70204212 AATATGATGAATGTGAACATG--CATATA--TGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
*
70204259 AATGTGATGAATGTGAACGTGTATATATAT
1 AATGTGATGAATGTGAACCTGTATATATAT
70204289 ATTGTGGCCA
Statistics
Matches: 470, Mismatches: 40, Indels: 29
0.87 0.07 0.05
Matches are distributed among these distances:
47 161 0.34
48 4 0.01
49 7 0.01
50 5 0.01
51 293 0.62
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (51 bp):
AATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCC
Found at i:70203872 original size:24 final size:24
Alignment explanation
Indices: 70203844--70203919 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
70203834 CCGTATATAT
70203844 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
70203868 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
70203891 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
70203915 ATGTG
1 ATGTG
70203920 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:70203902 original size:149 final size:149
Alignment explanation
Indices: 70203741--70204288 Score: 933
Period size: 149 Copynumber: 3.7 Consensus size: 149
70203731 CCTGTATATA
* * *
70203741 TATGCGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGCGTGATAAGG
70203806 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
66 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
70203871 TGATGAATGTGAACATGCG
131 TGATGAATGTGAACATGCG
*
70203890 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGCGTGATAAGG
70203955 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
66 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
70204020 TGATGAATGTGAACATGCG
131 TGATGAATGTGAACATGCG
*
70204039 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGCGTGATAAGG
*
70204104 CTGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
66 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
*
70204169 TGATGAATGTAAACATGCG
131 TGATGAATGTGAACATGCG
* * * ** *
70204188 TATGTGTGATAAGGCCAAATGGCCAATATGATGAATGTGAA--CATGCATATAT--GAGATAAGG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGCGTGATAAGG
**
70204249 CCGAATGGCCAATGTGATGAATGTGAACGTGTATATATAT
66 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATAT
70204289 ATTGTGGCCA
Statistics
Matches: 383, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
145 45 0.12
147 7 0.02
149 331 0.86
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (149 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGCGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
TGATGAATGTGAACATGCG
Found at i:70203922 original size:98 final size:100
Alignment explanation
Indices: 70203714--70204286 Score: 783
Period size: 98 Copynumber: 5.8 Consensus size: 100
70203704 TTTAGGATTT
* * *
70203714 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGTCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
70203779 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
66 GAA-CC-TATATATATGTGTGATAAGGCCGAATGGCC
70203816 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
***
70203881 GAA-C-ATGCGTATGTGTGATAAGGCCGAATGGCC
66 GAACCTATATATATGTGTGATAAGGCCGAATGGCC
* *
70203914 AATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
70203979 GAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
66 GAA-CC-TATATATATGTGTGATAAGGCCGAATGGCC
***
70204016 AATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* *
70204077 GAACCTGTATATATATGCGTGATAAGGCTGAATGGCC
66 GAACC--TATATATATGTGTGATAAGGCCGAATGGCC
70204114 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* *** *
70204179 -AAAC-ATGCGTATGTGTGATAAGGCCAAATGGCC
66 GAACCTATATATATGTGTGATAAGGCCGAATGGCC
* ** * *
70204212 AATATGATGAATGTGAA--C--ATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* *
70204273 GAACGTGTATATAT
66 GAACCTATATATAT
70204287 ATATTGTGGC
Statistics
Matches: 421, Mismatches: 39, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
94 39 0.09
95 2 0.00
96 5 0.01
97 2 0.00
98 219 0.52
100 3 0.01
101 3 0.01
102 148 0.35
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (100 bp):
AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
GAACCTATATATATGTGTGATAAGGCCGAATGGCC
Found at i:70204021 original size:24 final size:24
Alignment explanation
Indices: 70203993--70204068 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
70203983 CCGTATATAT
70203993 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
70204017 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
70204040 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
70204064 ATGTG
1 ATGTG
70204069 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:70204467 original size:37 final size:37
Alignment explanation
Indices: 70204416--70204565 Score: 201
Period size: 37 Copynumber: 4.0 Consensus size: 37
70204406 AACTTGGAAA
70204416 TATATTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATA-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
70204454 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
** *
70204491 TACGTCCGGGTAAGACCCGAAGACTACGTGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
* * * * * * *
70204528 TTTTTCCAGGTAAGACTCGATAACTTCGCGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
70204565 T
1 T
70204566 TCGTCTGAGC
Statistics
Matches: 100, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
37 96 0.96
38 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
TATATCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:70206479 original size:46 final size:46
Alignment explanation
Indices: 70206357--70206480 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
70206347 TACATATCAC
* * **
70206357 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
* *
70206403 GAACTCAGACTCAACTCAACGAGTTTGGATGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
*
70206449 GAACTCGGACTCAACTCAATGAGTTCGGATGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGT
70206481 CCAAATATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
Found at i:70209967 original size:42 final size:42
Alignment explanation
Indices: 70209913--70210075 Score: 159
Period size: 42 Copynumber: 3.9 Consensus size: 42
70209903 ACACATAGAA
* * *
70209913 TCATAGCAATGCCATATCTCAGATATGGTCTTACACGGGATC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACACGAGATC
* * * * *
70209955 TCATATCTATGCCAATAGCCCAGCTATGGTCTTACATGA-TTC
1 TCATATCAATGCC-ATATCCCAGATATGGTCTTACACGAGATC
* * * *
70209997 TCATATCAATGCCATGTCCCAGACATGGT-TCTACACGAAATT
1 TCATATCAATGCCATATCCCAGATATGGTCT-TACACGAGATC
* * *
70210039 TCAGAACGATGCCATATCCCAGATATGGTCTTACACG
1 TCATATCAATGCCATATCCCAGATATGGTCTTACACG
70210076 TAAACTCATA
Statistics
Matches: 96, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 1 0.01
41 18 0.19
42 56 0.58
43 21 0.22
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
TCATATCAATGCCATATCCCAGATATGGTCTTACACGAGATC
Found at i:70215581 original size:24 final size:24
Alignment explanation
Indices: 70215553--70215613 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
70215543 AACCGAATTT
* * *
70215553 GCACACATAGTGCTA-ATTATACTC
1 GCACACATAGTGCCATAGTAAAC-C
70215577 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
70215601 GCACACATAGTGC
1 GCACACATAGTGC
70215614 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:70217457 original size:41 final size:41
Alignment explanation
Indices: 70217412--70217529 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
70217402 TGAAAGATAA
70217412 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
70217453 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70217483 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70217524 ATGTAG
1 ATGTAG
70217530 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:70217468 original size:71 final size:71
Alignment explanation
Indices: 70217380--70217543 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70217370 GAGATGTATC
70217380 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70217445 AGGACA
66 AGGACA
70217451 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70217516 AGGACA
66 AGGACA
70217522 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
70217544 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:70225803 original size:46 final size:46
Alignment explanation
Indices: 70225753--70225921 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
70225743 TGAGCATCCA
70225753 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * * *
70225799 AACTCGTTGAATGGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
70225846 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
70225892 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
70225922 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 55 0.54
47 27 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:70225909 original size:93 final size:93
Alignment explanation
Indices: 70225746--70225916 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
70225736 GGATGGTTGA
* *
70225746 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAAT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAAT
70225811 GGAGTCCGAGTTCGTGAGATGTAACTAG
66 GGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
70225839 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAAT
*
70225904 TGAGTCCGAGTTC
66 GGAGTCCGAGTTC
70225917 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAAT
GGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:70229204 original size:24 final size:24
Alignment explanation
Indices: 70229176--70229236 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
70229166 AACCGAATTT
* * *
70229176 GCACACATAGTGCTA-ATTATACTC
1 GCACACATAGTGCCATAGTAAAC-C
70229200 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
70229224 GCACACATAGTGC
1 GCACACATAGTGC
70229237 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:70234015 original size:46 final size:46
Alignment explanation
Indices: 70233965--70234140 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
70233955 TGTTTGGGCA
70233965 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
70234011 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
70234056 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
70234104 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70234141 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70234120 original size:93 final size:93
Alignment explanation
Indices: 70233961--70234132 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
70233951 AGGATGTTTG
* *
70233961 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
70234026 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
70234054 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
70234119 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
70234133 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:70237057 original size:15 final size:15
Alignment explanation
Indices: 70237037--70237104 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
70237027 ATATCTTGGG
70237037 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
70237052 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
*
70237067 -TTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
70237081 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
70237096 TTTCTTTAT
1 TTTCTTTAT
70237105 TCGGTTTCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 13 0.29
15 32 0.71
ACGTcount: A:0.13, C:0.18, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:70237080 original size:29 final size:30
Alignment explanation
Indices: 70237028--70237106 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
70237018 CATAGTATCA
* * *
70237028 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
*
70237058 TAT-TCTGGA-TTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
70237087 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
70237107 GGTTTCTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 25 0.60
30 17 0.40
ACGTcount: A:0.13, C:0.18, G:0.14, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:70239545 original size:46 final size:46
Alignment explanation
Indices: 70239495--70239670 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
70239485 TGTTTGGGCA
70239495 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
70239541 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
70239586 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
70239634 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70239671 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70239650 original size:93 final size:93
Alignment explanation
Indices: 70239491--70239663 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
70239481 AGGATGTTTG
* * *
70239491 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
70239556 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
70239584 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
70239649 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
70239664 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:70242264 original size:39 final size:39
Alignment explanation
Indices: 70242220--70242301 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
70242210 AATTATGTTA
70242220 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
70242259 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
70242298 CCAG
1 CCAG
70242302 TGTCTTGCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:70251204 original size:24 final size:25
Alignment explanation
Indices: 70251148--70251205 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
70251138 GAGCTGATGG
* *
70251148 ACAGTAAGCTCTATATTGAGCTGAA
1 ACAGTAAGCTCTATATCGAGCTAAA
70251173 ACAGTAAGCTCTA-A-CGAGCTAAGA
1 ACAGTAAGCTCTATATCGAGCTAA-A
70251197 ACAGTAAGC
1 ACAGTAAGC
70251206 GCTTACAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 6 0.20
24 11 0.37
25 13 0.43
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (25 bp):
ACAGTAAGCTCTATATCGAGCTAAA
Found at i:70251745 original size:221 final size:221
Alignment explanation
Indices: 70251362--70251807 Score: 874
Period size: 221 Copynumber: 2.0 Consensus size: 221
70251352 TCAAGTAGAT
70251362 CATTTATTCAATTACATACAATCATTTCAAATAATTACAAGTATTTAAAAGTTCGATCCTAATTA
1 CATTTATTCAATTACATACAATCATTTCAAATAATTACAAGTATTTAAAAGTTCGATCCTAATTA
70251427 TACGAACTTACCCCGTATCGCTCGGATAACAAATATCGACTCATCGTAAACCTTTCCTTTTCCCT
66 TACGAACTTACCCCGTATCGCTCGGATAACAAATATCGACTCATCGTAAACCTTTCCTTTTCCCT
*
70251492 GACCTAGATTCAATCCTTGCTTATCTTGATCTATATATTATTAAAATCATCTTATTTAATAAACT
131 AACCTAGATTCAATCCTTGCTTATCTTGATCTATATATTATTAAAATCATCTTATTTAATAAACT
70251557 ATTTATTCAATTTAGTCCAAAACACA
196 ATTTATTCAATTTAGTCCAAAACACA
70251583 CATTTATTCAATTACATACAATCATTTCAAATAATTACAAGTATTTAAAAGTTCGATCCTAATTA
1 CATTTATTCAATTACATACAATCATTTCAAATAATTACAAGTATTTAAAAGTTCGATCCTAATTA
*
70251648 TACGAACTTACCTCGTATCGCTCGGATAACAAATATCGACTCATCGTAAACCTTTCCTTTTCCCT
66 TACGAACTTACCCCGTATCGCTCGGATAACAAATATCGACTCATCGTAAACCTTTCCTTTTCCCT
70251713 AACCTAGATTCAATCCTTGCTTATCTTGATCTATATATTATTAAAATCATCTTATTTAATAAACT
131 AACCTAGATTCAATCCTTGCTTATCTTGATCTATATATTATTAAAATCATCTTATTTAATAAACT
70251778 ATTTATTCAATTTAGTCCAAAACACA
196 ATTTATTCAATTTAGTCCAAAACACA
70251804 CATT
1 CATT
70251808 AGGGCTATTT
Statistics
Matches: 223, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 223 1.00
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (221 bp):
CATTTATTCAATTACATACAATCATTTCAAATAATTACAAGTATTTAAAAGTTCGATCCTAATTA
TACGAACTTACCCCGTATCGCTCGGATAACAAATATCGACTCATCGTAAACCTTTCCTTTTCCCT
AACCTAGATTCAATCCTTGCTTATCTTGATCTATATATTATTAAAATCATCTTATTTAATAAACT
ATTTATTCAATTTAGTCCAAAACACA
Found at i:70252872 original size:19 final size:19
Alignment explanation
Indices: 70252848--70252887 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
70252838 GTTCCTCACT
70252848 ATACATCAAATCATTCTGC
1 ATACATCAAATCATTCTGC
70252867 ATACATCAAATCATTCTGC
1 ATACATCAAATCATTCTGC
70252886 AT
1 AT
70252888 CTCAACATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACATCAAATCATTCTGC
Found at i:70255529 original size:19 final size:17
Alignment explanation
Indices: 70255505--70255543 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
70255495 AATCGGCTTT
70255505 TCTTTTCCCTTTGCTAAGC
1 TCTTTT-CCTTTGC-AAGC
*
70255524 TCTTTTGCTTTGCAAGC
1 TCTTTTCCTTTGCAAGC
70255541 TCT
1 TCT
70255544 GTCTACTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.10, C:0.28, G:0.13, T:0.49
Consensus pattern (17 bp):
TCTTTTCCTTTGCAAGC
Found at i:70258052 original size:24 final size:23
Alignment explanation
Indices: 70257977--70258083 Score: 81
Period size: 24 Copynumber: 4.3 Consensus size: 23
70257967 AAGCTCCCCA
*
70257977 GAGCTGATAGACAGTAAGCTCTATATT
1 GAGCTGA-A-ACAGTAAGCTCT-TA-C
* *
70258004 GAGCTGAAATAGTAAGCTCTAAC
1 GAGCTGAAACAGTAAGCTCTTAC
*
70258027 GAGCTGAGAACAGTAAGCGCTTAC
1 GAGCTGA-AACAGTAAGCTCTTAC
*
70258051 GAGCTGATATATC-GTTAAGCTCATAC
1 GAGCTGA-A-A-CAG-TAAGCTCTTAC
70258077 GAGCTGA
1 GAGCTGA
70258084 GGTGAGTCCG
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
23 7 0.10
24 22 0.33
25 13 0.19
26 18 0.27
27 7 0.10
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTTAC
Found at i:70271598 original size:40 final size:40
Alignment explanation
Indices: 70271513--70271663 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
70271503 AATTGAATGA
* * * **
70271513 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
70271553 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
70271594 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
70271633 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
70271664 ACATGTTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:70280965 original size:19 final size:19
Alignment explanation
Indices: 70280943--70280984 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
70280933 ACGGATCTAA
70280943 TTTTTTTATCTAAACTTAT
1 TTTTTTTATCTAAACTTAT
70280962 TTTTTTTATCTAAACTTAT
1 TTTTTTTATCTAAACTTAT
70280981 TTTT
1 TTTT
70280985 CGATCCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTTTATCTAAACTTAT
Found at i:70280993 original size:19 final size:19
Alignment explanation
Indices: 70280950--70280989 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
70280940 TAATTTTTTT
**
70280950 ATCTAAACTTATTTTTTTT
1 ATCTAAACTTATTTTTTCG
70280969 ATCTAAACTTA-TTTTTCG
1 ATCTAAACTTATTTTTTCG
70280987 ATC
1 ATC
70280990 CTAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.55
Consensus pattern (19 bp):
ATCTAAACTTATTTTTTCG
Found at i:70281787 original size:9 final size:8
Alignment explanation
Indices: 70281761--70281786 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
70281751 ATAATCTCTC
70281761 TTCTTTTT
1 TTCTTTTT
70281769 TTCTTTTT
1 TTCTTTTT
70281777 TTCTTTTT
1 TTCTTTTT
70281785 TT
1 TT
70281787 TAACCAGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTCTTTTT
Found at i:70282425 original size:20 final size:22
Alignment explanation
Indices: 70282402--70282442 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
70282392 TTTTTATAAA
70282402 TATTT-TAATTTT-TTGAAAAT
1 TATTTATAATTTTGTTGAAAAT
*
70282422 TATTTATATTTTTGTTGAAAA
1 TATTTATAATTTTGTTGAAAA
70282443 ATATCAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TATTTATAATTTTGTTGAAAAT
Found at i:70288247 original size:24 final size:25
Alignment explanation
Indices: 70288185--70288247 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
70288175 AATTTTTTTA
* *
70288185 TAATAATTTATATTTTTAAAATTATG
1 TAAT-ATTTAAATTTTTAAAATAATG
*
70288211 TAA-A-TTAATATTTTTATAATAAT-
1 TAATATTTAA-ATTTTTAAAATAATG
70288234 TAATATTTAAATTT
1 TAATATTTAAATTT
70288248 AAATTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 6 0.19
24 18 0.58
25 4 0.13
26 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TAATATTTAAATTTTTAAAATAATG
Found at i:70296551 original size:21 final size:22
Alignment explanation
Indices: 70296508--70296562 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
70296498 TGTATGTTGA
70296508 ATATA-TTAAAAATGCTTTAATT
1 ATATATTTAAAAAT-CTTTAATT
70296530 AT-TATTTAAAAAT-TTTATATT
1 ATATATTTAAAAATCTTTA-ATT
70296551 ATAATATTTAAA
1 AT-ATATTTAAA
70296563 TTGATAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.14
21 7 0.24
22 10 0.34
23 8 0.28
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATATTTAAAAATCTTTAATT
Found at i:70296558 original size:23 final size:23
Alignment explanation
Indices: 70296507--70296562 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
70296497 TTGTATGTTG
70296507 AATATATTAAAAATGCTTTAATTAT
1 AATAT-TTAAAAAT-CTTTAATTAT
70296532 --TATTTAAAAAT-TTTATATTAT
1 AATATTTAAAAATCTTTA-ATTAT
70296553 AATATTTAAA
1 AATATTTAAA
70296563 TTGATAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 8 0.29
23 11 0.39
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
AATATTTAAAAATCTTTAATTAT
Found at i:70300620 original size:13 final size:14
Alignment explanation
Indices: 70300602--70300643 Score: 59
Period size: 13 Copynumber: 2.9 Consensus size: 14
70300592 CAGTTATAGG
70300602 AAAAAAAGAAAA-A
1 AAAAAAAGAAAAGA
70300615 AAAAAAAGAAAAGA
1 AAAAAAAGAAAAGA
70300629 AAAGAAAAGAGAAAG
1 AAA-AAAAGA-AAAG
70300644 GGAAAATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 12 0.46
14 4 0.15
15 6 0.23
16 4 0.15
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAGA
Found at i:70300643 original size:6 final size:5
Alignment explanation
Indices: 70300605--70300643 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
70300595 TTATAGGAAA
70300605 AAAAG AAAA- AAAA- AAAAG AAAAG AAAAG AAAAG AGAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A-AAAG
70300644 GGAAAATTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 8 0.25
5 20 0.62
6 4 0.12
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:70303441 original size:18 final size:17
Alignment explanation
Indices: 70303420--70303453 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
70303410 TGAGTTTGTC
*
70303420 TTTAAGTGACCAGTTCTT
1 TTTAAGTAACCA-TTCTT
70303438 TTTAAGTAACCATTCT
1 TTTAAGTAACCATTCT
70303454 AAAATGCTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTAAGTAACCATTCTT
Found at i:70307220 original size:21 final size:21
Alignment explanation
Indices: 70307194--70307284 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
70307184 AAATATATAC
**
70307194 AAAATATATAAATATTTTTAA
1 AAAATATATAAATAAATTTAA
70307215 AAAATATA-ATAATAAATTTATA
1 AAAATATATA-AATAAATTTA-A
*
70307237 AAATATATAAAAATAAATATTTTCAA
1 AAA-ATATATAAAT-AA-A-TTT-AA
70307263 AAAATATA-ATAATAAATTTAA
1 AAAATATATA-AATAAATTTAA
70307284 A
1 A
70307285 TTTATATATT
Statistics
Matches: 59, Mismatches: 2, Indels: 18
0.75 0.03 0.23
Matches are distributed among these distances:
20 1 0.02
21 19 0.32
22 7 0.12
23 9 0.15
24 6 0.10
25 9 0.15
26 7 0.12
27 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATATATAAATAAATTTAA
Found at i:70307229 original size:25 final size:25
Alignment explanation
Indices: 70307196--70307279 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
70307186 ATATATACAA
70307196 AATATATAAATATTTTTAAAAAATAT
1 AATA-ATAAATATTTTTAAAAAATAT
* *
70307222 AATAAT-AA-ATTTATAAAATATAT
1 AATAATAAATATTTTTAAAAAATAT
* *
70307245 AAAAATAAATATTTTCAAAAAATAT
1 AATAATAAATATTTTTAAAAAATAT
70307270 AATAATAAAT
1 AATAATAAAT
70307280 TTAAATTTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
23 18 0.37
24 4 0.08
25 23 0.47
26 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAATAAATATTTTTAAAAAATAT
Found at i:70307238 original size:23 final size:23
Alignment explanation
Indices: 70307184--70307282 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 23
70307174 AAAAATTTTA
* *
70307184 AAATATATACAAAATAT-ATAA-
1 AAATTTATAAAAAATATAATAAT
* *
70307205 ATATTTTTAAAAAATATAATAAT
1 AAATTTATAAAAAATATAATAAT
* *
70307228 AAATTTATAAAATATATAAAAAT
1 AAATTTATAAAAAATATAATAAT
*
70307251 AAATATTTTCAAAAAATATAATAAT
1 AAAT-TTAT-AAAAAATATAATAAT
70307276 AAATTTA
1 AAATTTA
70307283 AATTTATATA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
21 13 0.21
22 4 0.06
23 23 0.37
24 5 0.08
25 17 0.27
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATTTATAAAAAATATAATAAT
Found at i:70307450 original size:21 final size:22
Alignment explanation
Indices: 70307411--70307452 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
70307401 TTTTGAGTAG
* *
70307411 AGAATTGAGGAAGAGAAGAGAA
1 AGAATAGAGGAAGAAAAGAGAA
70307433 AGAATAGA-GAAGAAAAGAGA
1 AGAATAGAGGAAGAAAAGAGA
70307453 GAGAGATCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (22 bp):
AGAATAGAGGAAGAAAAGAGAA
Found at i:70307584 original size:24 final size:25
Alignment explanation
Indices: 70307557--70307608 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
70307547 GCTATAAGCA
70307557 AAACACACCGTTT-AAGTAATCCCT
1 AAACACACCGTTTCAAGTAATCCCT
* * **
70307581 AAACTCCCCGTTTCATTTAATCCCT
1 AAACACACCGTTTCAAGTAATCCCT
70307606 AAA
1 AAA
70307609 ACTCCCCGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.29
Consensus pattern (25 bp):
AAACACACCGTTTCAAGTAATCCCT
Found at i:70307607 original size:25 final size:26
Alignment explanation
Indices: 70307573--70307626 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
70307563 ACCGTTTAAG
70307573 TAATCCCT-AAACTCCCCGTTTCATT
1 TAATCCCTAAAACTCCCCGTTTCATT
70307598 TAATCCCTAAAACTCCCCGTTTCATT
1 TAATCCCTAAAACTCCCCGTTTCATT
70307624 TAA
1 TAA
70307627 ACTAGAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.28, C:0.33, G:0.04, T:0.35
Consensus pattern (26 bp):
TAATCCCTAAAACTCCCCGTTTCATT
Found at i:70307644 original size:25 final size:24
Alignment explanation
Indices: 70307581--70307652 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 24
70307571 AGTAATCCCT
*
70307581 AAACTCCCCGTTTCATTTAATCCCTA
1 AAACTCCCCGTTTCATTTAA--ACTA
70307607 AAACTCCCCGTTTCATTTAAACTA
1 AAACTCCCCGTTTCATTTAAACTA
*
70307631 GAAAC-CCCCTGTTTTATTTAAA
1 -AAACTCCCC-GTTTCATTTAAA
70307653 AGAGTTGACT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 7 0.17
25 15 0.36
26 20 0.48
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.35
Consensus pattern (24 bp):
AAACTCCCCGTTTCATTTAAACTA
Found at i:70311660 original size:27 final size:28
Alignment explanation
Indices: 70311604--70311673 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
70311594 AAATTTGTAC
70311604 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
70311632 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
70311659 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
70311674 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:70311684 original size:27 final size:27
Alignment explanation
Indices: 70311604--70311685 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
70311594 AAATTTGTAC
* *
70311604 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
70311632 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
70311659 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
70311686 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:70319400 original size:27 final size:28
Alignment explanation
Indices: 70319344--70319413 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
70319334 AAATTTGTAC
70319344 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
70319372 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
70319399 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
70319414 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:70319424 original size:27 final size:27
Alignment explanation
Indices: 70319344--70319425 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
70319334 AAATTTGTAC
* *
70319344 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
70319372 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
70319399 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
70319426 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:70323048 original size:21 final size:22
Alignment explanation
Indices: 70323009--70323050 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
70322999 TTTTGAGTAG
* *
70323009 AGAATTGAGGAAGAGAAGAGAA
1 AGAATAGAGGAAGAAAAGAGAA
70323031 AGAATAGA-GAAGAAAAGAGA
1 AGAATAGAGGAAGAAAAGAGA
70323051 GAGAGATCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (22 bp):
AGAATAGAGGAAGAAAAGAGAA
Found at i:70323182 original size:24 final size:25
Alignment explanation
Indices: 70323155--70323206 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
70323145 GCTATAAGCA
70323155 AAACGCACCG-TTTAAGTAATCCCT
1 AAACGCACCGTTTTAAGTAATCCCT
* * **
70323179 AAACTCCCCGTTTTATTTAATCCCT
1 AAACGCACCGTTTTAAGTAATCCCT
70323204 AAA
1 AAA
70323207 ACTCCCCGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.31
Consensus pattern (25 bp):
AAACGCACCGTTTTAAGTAATCCCT
Found at i:70323199 original size:25 final size:26
Alignment explanation
Indices: 70323171--70323224 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
70323161 ACCGTTTAAG
*
70323171 TAATCCCT-AAACTCCCCGTTTTATT
1 TAATCCCTAAAACTCCCCGTTTCATT
70323196 TAATCCCTAAAACTCCCCGTTTCATT
1 TAATCCCTAAAACTCCCCGTTTCATT
70323222 TAA
1 TAA
70323225 ACTAGAACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.28, C:0.31, G:0.04, T:0.37
Consensus pattern (26 bp):
TAATCCCTAAAACTCCCCGTTTCATT
Found at i:70323732 original size:14 final size:14
Alignment explanation
Indices: 70323713--70323754 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
70323703 AGATTTTTAT
70323713 TTAATATTAATATA
1 TTAATATTAATATA
70323727 TTAATATTAA-ATTA
1 TTAATATTAATA-TA
*
70323741 TAAATATTAATATA
1 TTAATATTAATATA
70323755 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATATTAATATA
Found at i:70323747 original size:20 final size:19
Alignment explanation
Indices: 70323719--70323764 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
70323709 TTATTTAATA
*
70323719 TTAATATATTAATATTAAAT
1 TTAA-ATATTAATATAAAAT
70323739 TATAAATATTAATATAAAAT
1 T-TAAATATTAATATAAAAT
70323759 TTAAAT
1 TTAAAT
70323765 TTAGTGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 16 0.67
21 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATATTAATATAAAAT
Found at i:70326264 original size:93 final size:93
Alignment explanation
Indices: 70326105--70326276 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
70326095 CGCCCATAAG
* * *
70326105 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
70326170 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
70326198 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
70326263 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
70326277 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:70326273 original size:46 final size:46
Alignment explanation
Indices: 70326098--70326273 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
70326088 TGTAACCCGC
* * *
70326098 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
70326144 CCATAGGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
70326194 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
70326237 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
70326274 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 28 0.27
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:70326292 original size:46 final size:45
Alignment explanation
Indices: 70326106--70326292 Score: 125
Period size: 46 Copynumber: 4.0 Consensus size: 45
70326096 GCCCATAAGC
* ** * *
70326106 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-C-TA-GT
* * *
70326152 GAACTCGAACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGT
* * * *
70326199 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTAGT
70326245 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGT
70326291 GA
1 GA
70326293 CATGTCACTT
Statistics
Matches: 111, Mismatches: 16, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 60 0.54
47 30 0.27
48 1 0.01
49 5 0.05
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGT
Found at i:70328163 original size:22 final size:22
Alignment explanation
Indices: 70328135--70328176 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
70328125 TATGTTTTTC
70328135 TTTTTCTTTTCCTTTCCCTTCT
1 TTTTTCTTTTCCTTTCCCTTCT
* *
70328157 TTTTTCTTTTTCTTTTCCTT
1 TTTTTCTTTTCCTTTCCCTT
70328177 TCGCTTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTCTTTTCCTTTCCCTTCT
Found at i:70330403 original size:27 final size:27
Alignment explanation
Indices: 70330373--70330443 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
70330363 GTTTATAAAG
70330373 TTAGTTTGTAATTATTTTTATATAACT
1 TTAGTTTGTAATTATTTTTATATAACT
70330400 TTAGTTTGTAATTATTTTTATATAACT
1 TTAGTTTGTAATTATTTTTATATAACT
* *
70330427 TTATTTTGT-TTTATTTT
1 TTAGTTTGTAATTATTTT
70330444 ATTTTGATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
26 7 0.17
27 35 0.83
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (27 bp):
TTAGTTTGTAATTATTTTTATATAACT
Found at i:70334043 original size:21 final size:21
Alignment explanation
Indices: 70334019--70334061 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
70334009 ACAAGAACCA
*
70334019 AATTTAA-TGTTAAGTGTGAAC
1 AATTTAATTGTT-AGCGTGAAC
70334040 AATTTAATTGTTAGCGTGAAC
1 AATTTAATTGTTAGCGTGAAC
70334061 A
1 A
70334062 TATCTAGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (21 bp):
AATTTAATTGTTAGCGTGAAC
Found at i:70343482 original size:46 final size:46
Alignment explanation
Indices: 70343415--70343590 Score: 234
Period size: 46 Copynumber: 3.8 Consensus size: 46
70343405 TGTAACCCGC
70343415 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
70343461 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * **
70343511 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
70343554 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
70343591 TGCCCAAATA
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 2 0.02
45 2 0.02
46 66 0.58
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:70343530 original size:93 final size:93
Alignment explanation
Indices: 70343423--70343594 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
70343413 GCCCATAAGT
*
70343423 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70343488 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
70343516 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70343581 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
70343595 CAAATATCCC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:70346400 original size:48 final size:49
Alignment explanation
Indices: 70346345--70346569 Score: 190
Period size: 48 Copynumber: 4.7 Consensus size: 49
70346335 AGCGTGAATT
* * *
70346345 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGA-G
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTTCACG
* * * * *
70346393 GCCGATGCCATGTCCCAGACATGGTTTTACACTAGTTCTC--GTCTCACT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGT-TCACG
** * * * **
70346441 ATCGTTGCCATGTCCCAAACATGGTCTTACACTGGCTCTTAT-TACATT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTTCACG
* * * * * * **
70346489 ACCAATGCCACGTTCCAAACACGGTCTTACACTGGCTCTCAT-ATCGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTTCACG
*
70346537 GCCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT
70346570 AGTGTACATA
Statistics
Matches: 138, Mismatches: 35, Indels: 8
0.76 0.19 0.04
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 133 0.96
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTTCACG
Found at i:70364302 original size:56 final size:56
Alignment explanation
Indices: 70364242--70364353 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
70364232 TTCTATCAAA
70364242 ATACGGACCATGCAATAATATTAAAATCAATTTTCTTTTTGACTCGGATTTGTGGT
1 ATACGGACCATGCAATAATATTAAAATCAATTTTCTTTTTGACTCGGATTTGTGGT
70364298 ATACGGACCATGCAATAATATTAAAATCAATTTTCTTTTTGACTCGGATTTGTGGT
1 ATACGGACCATGCAATAATATTAAAATCAATTTTCTTTTTGACTCGGATTTGTGGT
70364354 CCCAAAACCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (56 bp):
ATACGGACCATGCAATAATATTAAAATCAATTTTCTTTTTGACTCGGATTTGTGGT
Found at i:70373935 original size:11 final size:11
Alignment explanation
Indices: 70373919--70373947 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
70373909 TACCGGTTTG
70373919 ATTAAAAAATT
1 ATTAAAAAATT
70373930 ATT-AAAAATT
1 ATTAAAAAATT
70373940 ATTAAAAA
1 ATTAAAAA
70373948 TTAAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:70373946 original size:9 final size:10
Alignment explanation
Indices: 70373923--70373950 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
70373913 GGTTTGATTA
70373923 AAAAATTATT
1 AAAAATTATT
70373933 AAAAATTATT
1 AAAAATTATT
70373943 AAAAATTA
1 AAAAATTA
70373951 AAAAATCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAATTATT
Found at i:70378992 original size:25 final size:25
Alignment explanation
Indices: 70378917--70378992 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
70378907 GTGTATATAT
70378917 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
70378942 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
70378964 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
70378989 GTGA
1 GTGA
70378993 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:70379130 original size:47 final size:47
Alignment explanation
Indices: 70378890--70379122 Score: 376
Period size: 47 Copynumber: 5.0 Consensus size: 47
70378880 TTAGGATTTT
** *
70378890 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
70378937 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
70378984 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
70379031 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
70379078 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
70379123 TAGTGTGAAG
Statistics
Matches: 171, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 171 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:70379430 original size:37 final size:37
Alignment explanation
Indices: 70379285--70379429 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
70379275 GGAAATATAT
*
70379285 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
70379322 TCCGGGTAAGACTCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
70379359 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
70379396 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
70379430 TCGTCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:70382801 original size:30 final size:28
Alignment explanation
Indices: 70382765--70382865 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
70382755 GACAAGATTG
* *
70382765 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
*
70382795 GCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
70382823 GCACTAAGTGTGCGAGCTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
70382852 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
70382866 GATTCACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 26 0.41
29 19 0.30
30 18 0.29
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:70390880 original size:30 final size:28
Alignment explanation
Indices: 70390844--70390944 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
70390834 GACAAGATTG
* *
70390844 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
*
70390874 GCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
70390902 GCACTAAGTGTGCGAGCTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
70390931 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
70390945 GATTCACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 26 0.41
29 19 0.30
30 18 0.29
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:70394576 original size:2 final size:2
Alignment explanation
Indices: 70394571--70394612 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
70394561 TTCTGAAAAC
70394571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70394613 TGCTTCTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.