Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 194 of 438
Found at i:60281959 original size:13 final size:14
Alignment explanation
Indices: 60281938--60281970 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
60281928 ACATGAGAGC
60281938 TTTTCTCTTTTT-T
1 TTTTCTCTTTTTCT
*
60281951 TTTTTTCTTTTTCT
1 TTTTCTCTTTTTCT
60281965 TTTTCT
1 TTTTCT
60281971 ATTCACGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTCTCTTTTTCT
Found at i:60284757 original size:13 final size:13
Alignment explanation
Indices: 60284727--60284765 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
60284717 TTTACTCTCG
* *
60284727 ATTTTACAAAAAG
1 ATTTTACTAAAAT
*
60284740 GTTTTACTAAAAT
1 ATTTTACTAAAAT
60284753 ATTTTACTAAAAT
1 ATTTTACTAAAAT
60284766 TACGATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (13 bp):
ATTTTACTAAAAT
Found at i:60288107 original size:42 final size:42
Alignment explanation
Indices: 60287986--60288146 Score: 128
Period size: 42 Copynumber: 3.8 Consensus size: 42
60287976 GATGCCAATT
* * ****
60287986 CCATATCCCAGATATGGTCTTACATGGGATCACATATCGATG
1 CCATATCCCAGACATGGACTTACACAAAATCACATATCGATG
* * * ** *
60288028 CTGATAGCCCAG-CTATGGTCTTACA-AGATGTCTCATATCGATG
1 C-CATATCCCAGAC-ATGGACTTACACA-AAATCACATATCGATG
* *
60288071 CCATGTCCTAGACATGGACTTACACAAAATCACATATCGATG
1 CCATATCCCAGACATGGACTTACACAAAATCACATATCGATG
* * *
60288113 CCATATCCCAGATATGGTCTTACACGAAATCACA
1 CCATATCCCAGACATGGACTTACACAAAATCACA
60288147 CATAACCCTA
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
42 59 0.63
43 34 0.37
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
CCATATCCCAGACATGGACTTACACAAAATCACATATCGATG
Found at i:60290659 original size:34 final size:34
Alignment explanation
Indices: 60290621--60290688 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
60290611 TAAGCATGAC
**
60290621 TTTTGCTA-CAGAATTGATCTATTATAAGCATATT
1 TTTTGCTATCA-AATTGAAATATTATAAGCATATT
* *
60290655 TTTTGCTATTATATTGAAATATTATAAGCATATT
1 TTTTGCTATCAAATTGAAATATTATAAGCATATT
60290689 GATTTTCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (34 bp):
TTTTGCTATCAAATTGAAATATTATAAGCATATT
Found at i:60290712 original size:34 final size:34
Alignment explanation
Indices: 60290640--60290704 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
60290630 AGAATTGATC
60290640 TATTATAAGCATATTTTTTGCTATTATATTGAAA
1 TATTATAAGCATATTTTTTGCTATTATATTGAAA
60290674 TATTATAAGCATATTGATTTT-C-ATTATATTG
1 TATTATAAGCATATT--TTTTGCTATTATATTG
60290705 TTTTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 24 0.83
35 1 0.03
36 4 0.14
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (34 bp):
TATTATAAGCATATTTTTTGCTATTATATTGAAA
Found at i:60291482 original size:17 final size:16
Alignment explanation
Indices: 60291457--60291500 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
60291447 TTTTAGGATC
* *
60291457 ATTAATTTGTTATTTT
1 ATTATTTTGTTATTGT
*
60291473 ATTTATTTTGATATTGT
1 A-TTATTTTGTTATTGT
60291490 ATTATTTTGTT
1 ATTATTTTGTT
60291501 TTGAATTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (16 bp):
ATTATTTTGTTATTGT
Found at i:60293338 original size:63 final size:63
Alignment explanation
Indices: 60293247--60293378 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 63
60293237 GTCTTGCCCA
* * * * * * * *
60293247 TGTGTCTCTATTAGGAACTCAGTGAGTTACACGGCCTGAACACATGCTCGTGTGTCTCAC-CTG
1 TGTGACTCTAATAGGAACTCAATAAGTTACACGACCTAAACACACGCCCGTGTGTCTCACTC-G
* *
60293310 TGTGACTCTAATATGAACTCAATAAGTTACATGACCTAAACACACGCCCGTGTGTCTCACTCG
1 TGTGACTCTAATAGGAACTCAATAAGTTACACGACCTAAACACACGCCCGTGTGTCTCACTCG
60293373 TGTGAC
1 TGTGAC
60293379 CTGTACATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 57 0.98
64 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (63 bp):
TGTGACTCTAATAGGAACTCAATAAGTTACACGACCTAAACACACGCCCGTGTGTCTCACTCG
Found at i:60294887 original size:40 final size:41
Alignment explanation
Indices: 60294843--60295006 Score: 158
Period size: 40 Copynumber: 4.1 Consensus size: 41
60294833 CGGAATTTAG
* * *
60294843 CCGGATATAACCACAAGCAC-AATTGCCTTCTGGTCTTAAC
1 CCGGATATAACAACTAGCACAAATTGCCTTCGGGTCTTAAC
* *** * *
60294883 CCGGATTTGGTAACTTGCACAAATT-CCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATTGCCTTCGGGTCTTAAC
* * *
60294923 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATTGCCTTCGGGTCTTAAC
* *
60294963 CCGGATATAATC-ACTAGCATAAA-TGCCTTCGGGACTTAAC
1 CCGGATATAA-CAACTAGCACAAATTGCCTTCGGGTCTTAAC
60295003 CCGG
1 CCGG
60295007 GTATCATTCA
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 95 0.94
41 5 0.05
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (41 bp):
CCGGATATAACAACTAGCACAAATTGCCTTCGGGTCTTAAC
Found at i:60294992 original size:80 final size:80
Alignment explanation
Indices: 60294830--60295006 Score: 187
Period size: 80 Copynumber: 2.2 Consensus size: 80
60294820 AACCGAGCTT
* * * * * **
60294830 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCTGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
* *
60294894 AACTTGCACAAATTC
66 AACTAGCACAAATGC
* ** *
60294909 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAA
* *
60294973 TCACTAGCATAAATGC
65 TAACTAGCACAAATGC
*
60294989 CTTCGGGACTTAACCCGG
1 CTTCGGGACTTAGCCCGG
60295007 GTATCATTCA
Statistics
Matches: 79, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
79 10 0.13
80 67 0.85
81 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:60299133 original size:4 final size:4
Alignment explanation
Indices: 60299124--60299154 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
60299114 TTCGTTATTA
60299124 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
60299155 AAGTTTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:60300246 original size:26 final size:24
Alignment explanation
Indices: 60300205--60300277 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 24
60300195 ATGAAGTTGA
*
60300205 AAAAGAAAGAAAAGAAAATGAAA-C
1 AAAA-AAAGAAAAGAAAAAGAAAGC
60300229 AGAAAAAAGAAATGAGAAAAAGAAAGC
1 A-AAAAAAGAAA--AGAAAAAGAAAGC
* *
60300256 AAAAATAGAAAAAGAAAGAGAA
1 AAAAAAAG-AAAAGAAAAAGAA
60300278 GAGAATACGA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 8 0.20
25 12 0.29
26 16 0.39
27 5 0.12
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.04
Consensus pattern (24 bp):
AAAAAAAGAAAAGAAAAAGAAAGC
Found at i:60303358 original size:19 final size:20
Alignment explanation
Indices: 60303317--60303359 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
60303307 AACTCTATCC
*
60303317 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCAGTTG
*
60303337 AGCTTAATTCAGCTC-GTTG
1 AGCTCAATTCAGCTCAGTTG
60303356 AGCT
1 AGCT
60303360 AGATATAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (20 bp):
AGCTCAATTCAGCTCAGTTG
Found at i:60305472 original size:15 final size:16
Alignment explanation
Indices: 60305452--60305489 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
60305442 AATTGGAAAG
60305452 ATGAAAAGTT-ATTAA
1 ATGAAAAGTTAATTAA
*
60305467 ATGAAAATTTAATTAA
1 ATGAAAAGTTAATTAA
60305483 ATGAAAA
1 ATGAAAA
60305490 AGAAAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (16 bp):
ATGAAAAGTTAATTAA
Found at i:60316336 original size:16 final size:17
Alignment explanation
Indices: 60316315--60316351 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
60316305 CTTTTATTAA
60316315 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
60316332 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
60316349 GTT
1 GTT
60316352 CTCATTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (17 bp):
GTTTTTAAGATTCATTT
Found at i:60325289 original size:127 final size:127
Alignment explanation
Indices: 60325063--60325317 Score: 483
Period size: 127 Copynumber: 2.0 Consensus size: 127
60325053 AGCGAGCATA
*
60325063 TCATGTTAAGGCTTTGGGGTGCAGGTGCTGACCTTGTGTACAGACCCATGAGTAGCTCAAATGCG
1 TCATGTTAAGGCTTTGGGGTGCAGGTGCTGACCTTGTGTACAAACCCATGAGTAGCTCAAATGCG
*
60325128 AGCATTACATAATATGTGGTAGCTTTAGTTACATACGTTACGTGCTATGAGTTGGTTCTAGC
66 AGCATTACATAATATGTGGTAGCTTTAGCTACATACGTTACGTGCTATGAGTTGGTTCTAGC
*
60325190 TCATGTTAAGGCTTTGGGGTGCAGGTGCTGACCTTGTGTACAAACCCGTGAGTAGCTCAAATGCG
1 TCATGTTAAGGCTTTGGGGTGCAGGTGCTGACCTTGTGTACAAACCCATGAGTAGCTCAAATGCG
60325255 AGCATTACATAATATGTGGTAGCTTTAGCTACATACGTTACGTGCTATGAGTTGGTTCTAGC
66 AGCATTACATAATATGTGGTAGCTTTAGCTACATACGTTACGTGCTATGAGTTGGTTCTAGC
60325317 T
1 T
60325318 GTGTATATGG
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (127 bp):
TCATGTTAAGGCTTTGGGGTGCAGGTGCTGACCTTGTGTACAAACCCATGAGTAGCTCAAATGCG
AGCATTACATAATATGTGGTAGCTTTAGCTACATACGTTACGTGCTATGAGTTGGTTCTAGC
Found at i:60328727 original size:12 final size:12
Alignment explanation
Indices: 60328712--60328740 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
60328702 AAAATATGTT
60328712 ATAAAATTTTCA
1 ATAAAATTTTCA
60328724 AT-AAATTTTCA
1 ATAAAATTTTCA
60328735 ATAAAA
1 ATAAAA
60328741 ATACTACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAAAATTTTCA
Found at i:60328927 original size:29 final size:30
Alignment explanation
Indices: 60328882--60328957 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
60328872 AATTTATGTA
*
60328882 ATTTTGAATATTT-AAAATTT-AGTTTTTAT
1 ATTTTTAAT-TTTAAAAATTTAAGTTTTTAT
* *
60328911 ATTTTTAATTTTAAAAATTTAATTTTTTTT
1 ATTTTTAATTTTAAAAATTTAAGTTTTTAT
*
60328941 ATTTTTAAATTTAAAAA
1 ATTTTTAATTTTAAAAA
60328958 ATTTTAAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 15 0.37
30 23 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
ATTTTTAATTTTAAAAATTTAAGTTTTTAT
Found at i:60330548 original size:47 final size:47
Alignment explanation
Indices: 60330474--60330564 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
60330464 TTTTTCTCAG
* * *
60330474 CATAGTTGTTCTTGGTAAAGATTGTTCCGAACAAGAGTTGTTATCAA
1 CATAATTGTTCTTGGTAAAGATTGTTCCAAACAAGAGCTGTTATCAA
* *
60330521 CATAATTGTTCTTTGTAAAGGTTGTTCCAAACAAGAGCTGTTAT
1 CATAATTGTTCTTGGTAAAGATTGTTCCAAACAAGAGCTGTTAT
60330565 GTGGTGATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (47 bp):
CATAATTGTTCTTGGTAAAGATTGTTCCAAACAAGAGCTGTTATCAA
Found at i:60341194 original size:2 final size:2
Alignment explanation
Indices: 60341187--60341216 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
60341177 GAGGAATTGG
60341187 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
60341217 GATAGTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60341395 original size:21 final size:17
Alignment explanation
Indices: 60341351--60341384 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60341341 GTATAAGTTA
60341351 AAAAAATAATTATTCAT
1 AAAAAATAATTATTCAT
60341368 AAAAAATAATTATTCAT
1 AAAAAATAATTATTCAT
60341385 TTATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAAATAATTATTCAT
Found at i:60342487 original size:7 final size:7
Alignment explanation
Indices: 60342475--60342499 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
60342465 AAACCTCATT
60342475 AAAATTC
1 AAAATTC
60342482 AAAATTC
1 AAAATTC
60342489 AAAATTC
1 AAAATTC
60342496 AAAA
1 AAAA
60342500 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTC
Found at i:60346084 original size:22 final size:21
Alignment explanation
Indices: 60346054--60346119 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
60346044 TACAAATTAA
60346054 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
60346076 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
60346097 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
60346116 ATCT
1 ATCT
60346120 ACGATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:60346106 original size:19 final size:19
Alignment explanation
Indices: 60346071--60346132 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
60346061 AGATTACAAG
60346071 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
60346092 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
60346111 ATCATATCTACGATTGCAT
1 ATCATATCTAAGATTGCAT
60346130 ATC
1 ATC
60346133 CTTAAAGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 31 0.77
20 1 0.03
21 8 0.20
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:60346733 original size:84 final size:84
Alignment explanation
Indices: 60346555--60347331 Score: 1194
Period size: 84 Copynumber: 9.3 Consensus size: 84
60346545 CATCTTTGAT
* * *
60346555 CCTACTGCTTAGGGGGTTAAGGTGCATCGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GATAAG
1 CCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
60346618 ATCTGCAAATTTAACCTGTTAC
63 ATCTGCAAATTTAACCTGTTAC
* *
60346640 CCTATTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATT
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
*
60346705 TGTAAATTTAACCTGTTAC
66 TGCAAATTTAACCTGTTAC
* ** *
60346724 CCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGCTCTGCTAGTGCTTAGGGAGATAAG
1 CCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
60346789 ATCTG-----TGAACCTGTTAC
63 ATCTGCAAATTTAACCTGTTAC
* * *
60346806 CCTATTGTTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
60346871 TGCAAATTTAACCTGTTAC
66 TGCAAATTTAACCTGTTAC
*
60346890 CCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
60346955 TGCAAATTTAACCTGTTAC
66 TGCAAATTTAACCTGTTAC
*
60346974 CCTACTGCTTAGGGGATTAAGGCGAGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
60347039 TGCAAATTTAACCTGTTAC
66 TGCAAATTTAACCTGTTAC
60347058 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
*
60347123 TGCAAATTTAACTTGTTAC
66 TGCAAATTTAACCTGTTAC
* * *
60347142 CCTACCGCTTAGGGGATTAAGACGAGTC-TCGATCTGTTCCACTACTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
* * *
60347206 CGCAGATTTAACCTGCTAC
66 TGCAAATTTAACCTGTTAC
* * * *
60347225 CCTACTGCTTAGGGGATTAAGAC-AGTCTTCGATCTGCTCTAATATTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
60347289 TGCAAATTTAACCTGTTAC
66 TGCAAATTTAACCTGTTAC
60347308 CCTACTGCTTAGGGGATTAAGGCG
1 CCTACTGCTTAGGGGATTAAGGCG
60347332 CTGAATTTTG
Statistics
Matches: 636, Mismatches: 44, Indels: 25
0.90 0.06 0.04
Matches are distributed among these distances:
79 35 0.06
81 1 0.00
82 66 0.10
83 144 0.23
84 334 0.53
85 22 0.03
87 34 0.05
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (84 bp):
CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TGCAAATTTAACCTGTTAC
Found at i:60347034 original size:334 final size:331
Alignment explanation
Indices: 60346555--60347331 Score: 1184
Period size: 334 Copynumber: 2.3 Consensus size: 331
60346545 CATCTTTGAT
* * *
60346555 CCTACTGCTTAGGGGGTTAAGGTGCATCGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GATAAG
1 CCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
60346618 ATCTGCAAATTTAACCTGTTACCCTATTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCAC
63 ATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCAC
* * *
60346683 TACTGCTTAGGGAGATAAGATTTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTG
128 TACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
** * **
60346748 AGTCGTCGTCGATCTGCTCTGCTAGTGCTTAGGGAGATAAGATCTG-TGAACCTGTTACCCTATT
193 AGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGATGAACCTGTTACCCTACC
* * * *
60346812 GTTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAAA
255 GCTTAGGGGATTAAGACGAGTC-TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCCGCAAA
*
60346877 TTTAACCTGTTAC
319 TTTAACCTGCTAC
*
60346890 CCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
*
60346955 TGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTTGATCTGCTCCACTAC
66 TGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTAC
60347020 TGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGT
131 TGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGT
* *
60347085 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACTTGTTACCCTACCGC
196 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG---A-TGAACCTGTTACCCTACCGC
* *
60347150 TTAGGGGATTAAGACGAGTCTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCCGCAGATTT
257 TTAGGGGATTAAGACGAGTCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCCGCAAATTT
60347215 AACCTGCTAC
322 AACCTGCTAC
* * * *
60347225 CCTACTGCTTAGGGGATTAAGAC-AGTCTTCGATCTGCTCTAATATTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
60347289 TGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
66 TGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
60347332 CTGAATTTTG
Statistics
Matches: 407, Mismatches: 28, Indels: 15
0.90 0.06 0.03
Matches are distributed among these distances:
331 35 0.09
332 26 0.06
333 3 0.01
334 217 0.53
335 92 0.23
336 34 0.08
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (331 bp):
CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTAC
TGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGT
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGATGAACCTGTTACCCTACCGCTTAG
GGGATTAAGACGAGTCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCCGCAAATTTAACC
TGCTAC
Found at i:60349690 original size:31 final size:30
Alignment explanation
Indices: 60349668--60349723 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 30
60349658 GCCGTATTTT
**
60349668 TTTCCAGCTTGCACACTTAGTGCC-ATATA
1 TTTCCAGCACGCACACTTAGTGCCGATATA
60349697 TTTCCAGCACGCACACTTAGTGCCGAT
1 TTTCCAGCACGCACACTTAGTGCCGAT
60349724 CTCGTCACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (30 bp):
TTTCCAGCACGCACACTTAGTGCCGATATA
Found at i:60357661 original size:31 final size:30
Alignment explanation
Indices: 60357639--60357694 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 30
60357629 GCCGTATTTT
**
60357639 TTTCCAGCTTGCACACTTAGTGCC-ATATA
1 TTTCCAGCACGCACACTTAGTGCCGATATA
60357668 TTTCCAGCACGCACACTTAGTGCCGAT
1 TTTCCAGCACGCACACTTAGTGCCGAT
60357695 CTCGTCACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (30 bp):
TTTCCAGCACGCACACTTAGTGCCGATATA
Found at i:60359440 original size:7 final size:7
Alignment explanation
Indices: 60359428--60359507 Score: 74
Period size: 7 Copynumber: 10.9 Consensus size: 7
60359418 CTCTCCATTT
60359428 TTTTTTC
1 TTTTTTC
60359435 TTTTTTC
1 TTTTTTC
60359442 TTTTTTC
1 TTTTTTC
60359449 TATTTTTTC
1 --TTTTTTC
*
60359458 TTTTTCTT
1 TTTTT-TC
60359466 TTTCTTTC
1 TTT-TTTC
60359474 TCTTTTTC
1 T-TTTTTC
60359482 TCTTTTTC
1 T-TTTTTC
60359490 --TTTTC
1 TTTTTTC
*
60359495 TTTTTCC
1 TTTTTTC
60359502 TTTTTT
1 TTTTTT
60359508 TTGAAATAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
5 5 0.08
7 28 0.45
8 18 0.29
9 11 0.18
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:60359440 original size:8 final size:8
Alignment explanation
Indices: 60359427--60359493 Score: 68
Period size: 8 Copynumber: 8.5 Consensus size: 8
60359417 CCTCTCCATT
60359427 TTTTTTTC
1 TTTTTTTC
60359435 -TTTTTTC
1 TTTTTTTC
60359442 -TTTTTTC
1 TTTTTTTC
60359449 TATTTTTTC
1 T-TTTTTTC
60359458 TTTTTCTT-
1 TTTTT-TTC
*
60359466 TTTCTTTC
1 TTTTTTTC
*
60359474 TCTTTTTC
1 TTTTTTTC
*
60359482 TCTTTTTC
1 TTTTTTTC
60359490 TTTT
1 TTTT
60359494 CTTTTTCCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
7 16 0.31
8 25 0.49
9 10 0.20
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:60359445 original size:6 final size:6
Alignment explanation
Indices: 60359425--60359506 Score: 73
Period size: 6 Copynumber: 13.7 Consensus size: 6
60359415 GGCCTCTCCA
* *
60359425 TTTT-T TTTTCTT TTTTCT TTTT-T CTAT-T TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
*
60359471 TTCTCT TTTTCT CTTTT-T CTTTTCT TTTTCCT TTTT
1 TTTTCT TTTTCT -TTTTCT -TTTTCT TTTT-CT TTTT
60359507 TTTGAAATAG
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
5 10 0.15
6 38 0.58
7 17 0.26
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:60359480 original size:26 final size:26
Alignment explanation
Indices: 60359427--60359508 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
60359417 CCTCTCCATT
*
60359427 TTTTTTTCTTTTT-TCTTT-TTTCT-
1 TTTTTTTCTTTTTCTTTTTCTTTCTC
*
60359450 ATTTTTTCTTTTTCTTTTTCTTTCTC
1 TTTTTTTCTTTTTCTTTTTCTTTCTC
* *
60359476 TTTTTCTCTTTTTC-TTTTCTTTTTCC
1 TTTTTTTCTTTTTCTTTTTCTTTCT-C
60359502 TTTTTTT
1 TTTTTTT
60359509 TGAAATAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 12 0.24
24 4 0.08
25 14 0.29
26 19 0.39
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTTTCTTTTTCTTTTTCTTTCTC
Found at i:60368800 original size:40 final size:40
Alignment explanation
Indices: 60368692--60368941 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
60368682 CGGGATTTAA
* * * * *
60368692 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
60368732 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
60368772 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
60368812 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
60368852 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
60368892 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
60368932 CCGGATATAT
1 CCGGATATAT
60368942 TTTCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:60370811 original size:29 final size:29
Alignment explanation
Indices: 60370778--60370851 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
60370768 GTGACGAGAT
60370778 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
60370807 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
60370836 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
60370852 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:60370867 original size:29 final size:29
Alignment explanation
Indices: 60370835--60370910 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
60370825 CTGGAAATAT
* *
60370835 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
60370864 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
60370893 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
60370911 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:60381766 original size:25 final size:23
Alignment explanation
Indices: 60381711--60381766 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
60381701 TATATATATA
*
60381711 ATTTATTTATTTTTTAAAAAACT
1 ATTTATATATTTTTTAAAAAACT
** *
60381734 ATACATATATTATTATTAAAATACT
1 ATTTATATATT-TT-TTAAAAAACT
60381759 ATTTATAT
1 ATTTATAT
60381767 GTTTATATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 8 0.32
24 2 0.08
25 15 0.60
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTATATATTTTTTAAAAAACT
Found at i:60391640 original size:29 final size:29
Alignment explanation
Indices: 60391607--60391680 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
60391597 GTGACGAGAT
60391607 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
60391636 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
60391665 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
60391681 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:60391696 original size:29 final size:28
Alignment explanation
Indices: 60391664--60391738 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
60391654 CTGGAAATAT
* *
60391664 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
60391693 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
60391721 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
60391739 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:60391707 original size:58 final size:57
Alignment explanation
Indices: 60391607--60391738 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
60391597 GTGACGAGAT
* * * * * *
60391607 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
60391665 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
60391722 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
60391739 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:60399516 original size:29 final size:29
Alignment explanation
Indices: 60399483--60399556 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
60399473 GTGACGAGAT
60399483 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
60399512 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
60399541 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
60399557 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:60399572 original size:29 final size:29
Alignment explanation
Indices: 60399540--60399615 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
60399530 CTGGAAATAT
* *
60399540 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
60399569 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
60399598 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
60399616 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:60401607 original size:21 final size:21
Alignment explanation
Indices: 60401547--60401599 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
60401537 CATTGAGTTC
60401547 TTGAGAAAATTGTTCTTGAGA
1 TTGAGAAAATTGTTCTTGAGA
*
60401568 TTGAGAAAATTGTTCTTGAGT
1 TTGAGAAAATTGTTCTTGAGA
60401589 TTGAGAAAATT
1 TTGAGAAAATT
60401600 TCAGTTGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.40
Consensus pattern (21 bp):
TTGAGAAAATTGTTCTTGAGA
Found at i:60403557 original size:93 final size:93
Alignment explanation
Indices: 60403445--60403615 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
60403435 GCCCATAAGT
* *
60403445 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60403510 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
60403538 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60403603 CGAGTTCGGATGC
66 CGAGTTCGGATGC
60403616 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60403612 original size:46 final size:46
Alignment explanation
Indices: 60403437--60403612 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
60403427 TGTAACCCGC
* * *
60403437 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
60403483 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
60403533 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
60403576 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60403613 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 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 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
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):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:60408403 original size:207 final size:206
Alignment explanation
Indices: 60407840--60408769 Score: 1454
Period size: 206 Copynumber: 4.5 Consensus size: 206
60407830 GCAGATCTGG
* **
60407840 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGAGTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* * * *
60407905 AATTTGG-TTTC-CGCATGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTT
65 GATTTGGCTTTCACG--TGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTC
*
60407968 AGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACC
128 AGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACC
*
60408033 TTCAGATGTTTATC
193 TTCAGATGTTTATA
60408047 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* *
60408112 ATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAA
66 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
60408177 GAACAAATCAAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGGA-ACATAGTAGATCCAACCTT
131 GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCA-GACACATAGCAGATCCAACCTT
60408241 CAGATGTTTATA
195 CAGATGTTTATA
* *
60408253 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGAGCTTACAAGGAGCAAAAAT-AAAGACATAGC
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGC--AAATCGAAGACATAGC
60408317 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
64 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* *
60408382 GAGAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAGACACATAGTAGATCCAACCT
129 GAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCT
60408447 TCAGATGTTTATA
194 TCAGATGTTTATA
60408460 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
60408525 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * * *
60408590 GAACAAATCGAAGTTTGGCATTTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAACTTTC
131 GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
* * *
60408655 AGACGATTAGA
196 AGATGTTTATA
* * * * * * *
60408666 CTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGGTCACAATGAGCAAAATCGAAGACATAGCA
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGC-AAATCGAAGACATAGCT
*
60408731 GATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAG
65 GATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAG
60408770 CATCTCTGTA
Statistics
Matches: 674, Mismatches: 41, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
205 4 0.01
206 405 0.60
207 259 0.38
208 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
AGATGTTTATA
Found at i:60408607 original size:413 final size:413
Alignment explanation
Indices: 60407840--60408769 Score: 1492
Period size: 413 Copynumber: 2.3 Consensus size: 413
60407830 GCAGATCTGG
*
60407840 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGAGTACAAGGAGC-AAATCGAAGACATAGC
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAGCAAAATCGAAGACATAGC
* * *
60407904 TAATTTGG-TTTC-CGCATGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGT
65 TGATTTGGCTTTCACG--TGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
* * *
60407967 TAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAAC
128 CAGAGAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAGACACATAGCAGATCCAAC
*
60408032 CTTCAGATGTTTATCCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAA
193 CTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAA
*
60408097 TCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCAT
258 TCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCAT
* * *
60408162 CTCTGTATTGTCAAAGAACAAATCAAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGGA-ACAT
323 CTCTGTATTGTCAAAGAACAAATCAAAGTTTGGCATTTCCATATTCGACAGAGAGCA-GACACAT
* * * *
60408226 AGTAGATCCAACCTTCAGATGTTTATA
387 AGCAGATCCAACCTTCAGACGATTAGA
* * * *
60408253 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGAGCTTACAAGGAGCAAAAAT-AAAGACATAGC
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAGC-AAAATCGAAGACATAGC
60408317 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
65 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
*
60408382 GAGAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAGACACATAGTAGATCCAACCT
130 GAGAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAGACACATAGCAGATCCAACCT
60408447 TCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATC
195 TCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATC
60408512 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCT
260 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCT
* *
60408577 CTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCCATATTCGACAGAGAGCAGACACATAGC
325 CTGTATTGTCAAAGAACAAATCAAAGTTTGGCATTTCCATATTCGACAGAGAGCAGACACATAGC
* *
60408642 AGATCTAACTTTCAGACGATTAGA
390 AGATCCAACCTTCAGACGATTAGA
* * * * * *
60408666 CTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGGTCACAATGAGCAAAATCGAAGACATAGCA
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAGCAAAATCGAAGACATAGCT
*
60408731 GATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAG
66 GATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAG
60408770 CATCTCTGTA
Statistics
Matches: 476, Mismatches: 35, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
412 43 0.09
413 423 0.89
414 8 0.02
415 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (413 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGATTACAAGGAGCAAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAATCAAAGTTTGGCGTCTCCAAATTCGACGGAGGGCAGACACATAGCAGATCCAACCTT
CAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCG
AAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTC
TGTATTGTCAAAGAACAAATCAAAGTTTGGCATTTCCATATTCGACAGAGAGCAGACACATAGCA
GATCCAACCTTCAGACGATTAGA
Found at i:60410473 original size:25 final size:24
Alignment explanation
Indices: 60410422--60410507 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 24
60410412 AAACTATACA
*
60410422 TATATTATTAT-TAAAAATACTAT-T
1 TATATT-TTATATAAAAAT-TTATAT
60410446 TATATGTTTATATAAAAATTTATAT
1 TATAT-TTTATATAAAAATTTATAT
* *
60410471 TATATTTTCCTAT--ATATTTATAT
1 TATATTTT-ATATAAAAATTTATAT
60410494 TATATTTATATATA
1 TATATTT-TATATA
60410508 TATATATATA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
23 19 0.37
24 16 0.31
25 17 0.33
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (24 bp):
TATATTTTATATAAAAATTTATAT
Found at i:60410505 original size:2 final size:2
Alignment explanation
Indices: 60410481--60410518 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
60410471 TATATTTTCC
* *
60410481 TA TA TA TT TA TA T- TA TA TT TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60410519 TACTTATCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:60410507 original size:23 final size:23
Alignment explanation
Indices: 60410452--60410516 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
60410442 TATTTATATG
* *
60410452 TTTATATAAAAATTTATATTATA
1 TTTATATATATATTTATATTATA
*
60410475 TTT-TCCTATATATTTATATTATA
1 TTTAT-ATATATATTTATATTATA
*
60410498 TTTATATATATATATATAT
1 TTTATATATATATTTATAT
60410517 ATTACTTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 1 0.03
23 33 0.94
24 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTATATATATATTTATATTATA
Found at i:60410532 original size:41 final size:42
Alignment explanation
Indices: 60410487--60410567 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 42
60410477 TTCCTATATA
*
60410487 TTTATAT-TATATTTATAT-ATATATATATATATTAC-TTATCT
1 TTTATATGT-TATGTATATCATATAT-TATATATTACATTATCT
*
60410528 TTTATATGTTATGTATATCATATATTATCTATTACATTAT
1 TTTATATGTTATGTATATCATATATTATATATTACATTAT
60410568 TTATGTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 24 0.69
42 11 0.31
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (42 bp):
TTTATATGTTATGTATATCATATATTATATATTACATTATCT
Found at i:60413197 original size:27 final size:28
Alignment explanation
Indices: 60413141--60413210 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
60413131 AAATTGGTAC
60413141 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
60413169 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
60413196 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
60413211 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:60415131 original size:23 final size:21
Alignment explanation
Indices: 60415080--60415141 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 21
60415070 TCAAAATGTG
* *
60415080 TAATATAAGTAAAGTAATTAT
1 TAATATAAGTAAAATAAGTAT
60415101 TGACATATAAGTAAAAATAAGTAT
1 T-A-ATATAAGT-AAAATAAGTAT
60415125 ATAATATAAGTTAAAAT
1 -TAATATAAG-TAAAAT
60415142 CTTTAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 20 0.59
24 11 0.32
25 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.34
Consensus pattern (21 bp):
TAATATAAGTAAAATAAGTAT
Found at i:60415169 original size:17 final size:16
Alignment explanation
Indices: 60415147--60415183 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
60415137 AAAATCTTTA
*
60415147 ATAATAATAT-ATAG-
1 ATAAAAATATAATAGT
60415161 ATAAAAATATAATAGT
1 ATAAAAATATAATAGT
60415177 ATAAAAA
1 ATAAAAA
60415184 ATGACATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
ATAAAAATATAATAGT
Found at i:60415279 original size:37 final size:33
Alignment explanation
Indices: 60415237--60415331 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 33
60415227 TATATAATAT
60415237 ATATAAATAATTAATAAATATATAATACAAGTAAAA
1 ATATAAATAA-TAATAAATA-ATAATA-AAGTAAAA
**
60415273 AGTATAAATAATAATGTAAATAATAATAATTTAAAA
1 A-TATAAATAATAA--TAAATAATAATAAAGTAAAA
60415309 ATATATAATAAATAAT-AATAATA
1 ATATA-AAT-AATAATAAATAATA
60415332 TGAAATAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
34 7 0.13
35 5 0.10
36 14 0.27
37 20 0.38
38 6 0.12
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (33 bp):
ATATAAATAATAATAAATAATAATAAAGTAAAA
Found at i:60415299 original size:15 final size:14
Alignment explanation
Indices: 60415279--60415341 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 14
60415269 AAAAAGTATA
60415279 AATAATAATGTAAAT
1 AATAATAAT-TAAAT
60415294 AATAATAATTTAAA-
1 AATAATAA-TTAAAT
60415308 AATATATAA-TAAAT
1 AATA-ATAATTAAAT
60415322 AATAATAATATGAAAT
1 AATAATAAT-T-AAAT
60415338 AATA
1 AATA
60415342 TAAGGTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.19
14 8 0.19
15 17 0.40
16 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATAATTAAAT
Found at i:60415321 original size:28 final size:28
Alignment explanation
Indices: 60415227--60415330 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 28
60415217 GGTACATATG
*
60415227 TATATAATATAT-ATAAATAA-TTAATAAA
1 TATATAATAAATAAT-AATAATTTAA-AAA
* *
60415255 TATATAATACAAGTAA-AA-AGTATAAATAA
1 TATATAATA-AA-TAATAATAATTTAAA-AA
*
60415284 TA-AT-GTAAATAATAATAATTTAAAAA
1 TATATAATAAATAATAATAATTTAAAAA
60415310 TATATAATAAATAATAATAAT
1 TATATAATAAATAATAATAAT
60415331 ATGAAATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
25 3 0.05
26 8 0.13
27 10 0.17
28 27 0.45
29 10 0.17
30 1 0.02
31 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (28 bp):
TATATAATAAATAATAATAATTTAAAAA
Found at i:60415489 original size:20 final size:19
Alignment explanation
Indices: 60415461--60415502 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
60415451 AAGAAGGTAT
60415461 TAAGTAAT-ATAATAAAATA
1 TAAGTAATAAT-ATAAAATA
60415480 TAAGTAAATAATATAAAATA
1 TAAGT-AATAATATAAAATA
60415500 TAA
1 TAA
60415503 TACATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAGTAATAATATAAAATA
Found at i:60417514 original size:205 final size:203
Alignment explanation
Indices: 60417186--60417732 Score: 700
Period size: 205 Copynumber: 2.7 Consensus size: 203
60417176 TCTGAAGGTG
* *** *
60417186 AGATCTACTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGACTTCGATTTGCTCTCTGACAA
1 AGATCTACTATGTGTCTGC-CCCCACCGAAATGGAGATGCCAGACTTCGATTTGC-CTCTGACAA
* * *
60417251 TACAGAGATGACAAATCATCTTAGATTCGCTTCATCGTAAACACGTGAAAGCCAAATCAACTATG
64 TACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATG
* *
60417316 TCTTCGATTTAATCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCAGTATAAACA
129 TCTTCGATTTAATCCTTCTAAACACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
60417381 TATGAAGGCC
194 TATGAAGGCC
* * * * *
60417391 AGATCTACTTTGTGTCTGCTCTCTACCGAATATGGAGACGCCAAACTTCGATTTGACCTCTGACA
1 AGATCTACTATGTGTCTGC-CCCCACCGAA-ATGGAGATGCCAGACTTCGATTTG-CCTCTGACA
* * *
60417456 ACACAGAGATGCCAAATCATCTTAG-TTTGCCTCATCGTAAGCACGTGAAAGCCAAATCAGCTAT
63 ATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTAT
** * *
60417520 GTCTTCGATTTGCTCCTTCTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAGAC
128 GTCTTCGATTTAATCCTTCTAAACACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAAC
* ***
60417585 ATCTGAAGTTT
193 ATATGAAGGCC
* * ** * * * *
60417596 GGATCTGCTATGTGTCTGCCCCCATTGAAGTGGAGATGCTAGACTTCGATTTGTTCTCTAACAAT
1 AGATCTACTATGTGTCTGCCCCCACCGAAATGGAGATGCCAGACTTCGATTTG-CCTCTGACAAT
* * *
60417661 ACAGAGATGCCAAATCATCTTAGATTTTCTTCAACGTAAACACGTGAAAGCCAAATTAGCTATGT
65 ACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGT
60417726 CTTCGAT
130 CTTCGAT
60417733 CTGCTCTCCG
Statistics
Matches: 293, Mismatches: 46, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
203 51 0.17
204 49 0.17
205 140 0.48
206 52 0.18
207 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (203 bp):
AGATCTACTATGTGTCTGCCCCCACCGAAATGGAGATGCCAGACTTCGATTTGCCTCTGACAATA
CAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTC
TTCGATTTAATCCTTCTAAACACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATA
TGAAGGCC
Found at i:60417780 original size:44 final size:44
Alignment explanation
Indices: 60417725--60417817 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
60417715 ATTAGCTATG
* * *
60417725 TCTTCGATCTGCTCTCCGCCAATACAAAGATGCCAAATCTGGTA
1 TCTTTGATCTGCTCTCCGACAATACAAAGATGCCAAATCTGCTA
* *
60417769 TCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTA
1 TCTTTGATCTGCTCTCCGACAATACAAAGATGCCAAATCTGCTA
60417813 TCTTT
1 TCTTT
60417818 AACTTGTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (44 bp):
TCTTTGATCTGCTCTCCGACAATACAAAGATGCCAAATCTGCTA
Found at i:60418011 original size:132 final size:132
Alignment explanation
Indices: 60417792--60418072 Score: 449
Period size: 132 Copynumber: 2.1 Consensus size: 132
60417782 CTCTGACAAT
* *
60417792 ACAGAGATGCCAAATCTGCTATCTTTAACTTGTTCCCTATAAACACAGGGATACCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATACCATGCTGAAAT
* * * *
60417857 CCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTATTAT-TTTCGATCTGTTCCCTATA
66 CCTCGATCTGCTTCACTGTAAGCACAGGAATGTAAGATCTACTATCTTT-GATCTGTTCCCTATA
60417921 AAC
130 AAC
*
60417924 ACAGGGATGCCAAATCTGCTATCTTCAACTTGCTT-CCTATAAACACAGGGATGCCATGCTGAAA
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTG-TTCCCTATAAACACAGGGATACCATGCTGAAA
* *
60417988 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTAAGATCTGCTATCTTTGATCTGTTCCCTATA
65 TCCTCGATCTGCTTCACTGTAAGCACAGGAATGTAAGATCTACTATCTTTGATCTGTTCCCTATA
60418053 AAC
130 AAC
60418056 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
60418073 TGTTTCTTTG
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
132 133 0.96
133 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (132 bp):
ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATACCATGCTGAAAT
CCTCGATCTGCTTCACTGTAAGCACAGGAATGTAAGATCTACTATCTTTGATCTGTTCCCTATAA
AC
Found at i:60418081 original size:44 final size:45
Alignment explanation
Indices: 60417753--60418086 Score: 214
Period size: 44 Copynumber: 7.6 Consensus size: 45
60417743 CCAATACAAA
* * * * *
60417753 GATGCCAAATCTGGTATCTTTGATCTGC-TCTCTGA-CAATACAGA
1 GATGCCAAATCTGCTATCTTTGATCTGCTTCCCT-ATAAACACAGG
*
60417797 GATGCCAAATCTGCTATCTTT-AACTTG-TTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTTGATC-TGCTTCCCTATAAACACAGG
* ** * * * * *
60417841 GATACC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACA-G
1 GATGCCAAAT-CTGCTATCTTTGATCTGCTTCCCTATAAACACAGG
* * **
60417884 GAGTGTCAGATCTATTAT-TTTCGATCTG-TTCCCTATAAACACAGG
1 GA-TGCCAAATCTGCTATCTTT-GATCTGCTTCCCTATAAACACAGG
* *
60417929 GATGCCAAATCTGCTATC-TTCAACTTGCTT-CCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTTGATC-TGCTTCCCTATAAACACAGG
** * * * *
60417973 GATGCC--ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGG
1 GATGCCAAAT-CTGCTATCTTTGATCTGCTTCCCTATAAACACAGG
* *
60418017 AATG-TAAGATCTGCTATCTTTGATCTG-TTCCCTATAAACACAGG
1 GATGCCAA-ATCTGCTATCTTTGATCTGCTTCCCTATAAACACAGG
*
60418061 GATGCCAAATCTTG-TTTCTTTGATCT
1 GATGCCAAATC-TGCTATCTTTGATCT
60418087 TCATTGTCCC
Statistics
Matches: 218, Mismatches: 50, Indels: 44
0.70 0.16 0.14
Matches are distributed among these distances:
42 4 0.02
43 28 0.13
44 149 0.68
45 33 0.15
46 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (45 bp):
GATGCCAAATCTGCTATCTTTGATCTGCTTCCCTATAAACACAGG
Found at i:60419044 original size:46 final size:46
Alignment explanation
Indices: 60418876--60419095 Score: 251
Period size: 46 Copynumber: 5.0 Consensus size: 46
60418866 ATTGACGTGA
* * * * * *
60418876 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
60418922 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
60418968 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
60419014 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
60419052 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
60419096 AGAGCACACT
Statistics
Matches: 152, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
38 32 0.21
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 106 0.70
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:60419060 original size:38 final size:38
Alignment explanation
Indices: 60419009--60419084 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
60418999 CATCTCATAT
*
60419009 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTACCATGGTATCTTTCAACCATGGTCTTACACA
60419047 CAGGTTACCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTACCATGGTATCTTTCAACCATGGTCTTACACA
60419085 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (38 bp):
CAGGTTACCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:60428722 original size:46 final size:46
Alignment explanation
Indices: 60428672--60428847 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
60428662 TATTTGGGCA
60428672 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
60428718 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
60428765 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
60428811 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60428848 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:60428827 original size:93 final size:93
Alignment explanation
Indices: 60428668--60428839 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
60428658 TGGATATTTG
* *
60428668 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
60428733 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
60428761 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
60428826 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
60428840 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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:60431819 original size:15 final size:15
Alignment explanation
Indices: 60431799--60431867 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
60431789 GTATCTTGGG
60431799 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
60431814 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
60431829 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
60431844 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
60431859 TTTCTTTAT
1 TTTCTTTAT
60431868 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:60431868 original size:30 final size:30
Alignment explanation
Indices: 60431790--60431877 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
60431780 CATAGTATCG
* * * *
60431790 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
60431820 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
60431850 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
60431878 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:60434314 original size:46 final size:46
Alignment explanation
Indices: 60434261--60434436 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
60434251 TATTTGGGCA
60434261 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
60434307 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
60434354 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
60434400 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60434437 GGGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:60434416 original size:93 final size:93
Alignment explanation
Indices: 60434257--60434428 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
60434247 GGGATATTTG
* *
60434257 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
60434322 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
60434350 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
60434415 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
60434429 ACTTATGGGG
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:60437405 original size:15 final size:15
Alignment explanation
Indices: 60437385--60437453 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
60437375 GTATCTTGGG
60437385 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
60437400 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
60437415 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
60437430 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
60437445 TTTCTTTAT
1 TTTCTTTAT
60437454 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:60437454 original size:30 final size:30
Alignment explanation
Indices: 60437376--60437463 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
60437366 CATAGTATCG
* * * *
60437376 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
60437406 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
60437436 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
60437464 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:60439892 original size:46 final size:46
Alignment explanation
Indices: 60439842--60440017 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
60439832 TATTTGGGCA
60439842 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
60439888 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
60439935 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
60439981 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60440018 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:60439997 original size:93 final size:93
Alignment explanation
Indices: 60439838--60440009 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
60439828 TGGATATTTG
* *
60439838 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
60439903 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
60439931 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
60439996 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
60440010 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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:60443703 original size:14 final size:14
Alignment explanation
Indices: 60443674--60443702 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
60443664 ATTCTAGTTC
60443674 AATTTCATTTAGAA
1 AATTTCATTTAGAA
60443688 AATTT-ATTTAGAA
1 AATTTCATTTAGAA
60443701 AA
1 AA
60443703 AGAATATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.41
Consensus pattern (14 bp):
AATTTCATTTAGAA
Found at i:60447672 original size:23 final size:21
Alignment explanation
Indices: 60447621--60447682 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 21
60447611 TCAAAATGTG
* *
60447621 TAATATAAGTAAAGTAATTAT
1 TAATATAAGTAAAATAAGTAT
60447642 TGACATATAAGTAAAAATAAGTAT
1 T-A-ATATAAGT-AAAATAAGTAT
60447666 ATAATATAAGTTAAAAT
1 -TAATATAAG-TAAAAT
60447683 CTTTAATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 20 0.59
24 11 0.32
25 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.34
Consensus pattern (21 bp):
TAATATAAGTAAAATAAGTAT
Found at i:60447715 original size:14 final size:16
Alignment explanation
Indices: 60447696--60447727 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60447686 TAATAACAAT
60447696 AATAT-ATAG-ATAAA
1 AATATAATAGTATAAA
60447710 AATATAATAGTATAAA
1 AATATAATAGTATAAA
60447726 AA
1 AA
60447728 AATGACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 4 0.25
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATATAATAGTATAAA
Found at i:60447741 original size:18 final size:18
Alignment explanation
Indices: 60447720--60447758 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
60447710 AATATAATAG
60447720 TATAAAAAAATGACATAA
1 TATAAAAAAATGACATAA
* * *
60447738 TATAAAATAATTATATAA
1 TATAAAAAAATGACATAA
60447756 TAT
1 TAT
60447759 GAAGTTATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
TATAAAAAAATGACATAA
Found at i:60447828 original size:37 final size:33
Alignment explanation
Indices: 60447782--60447876 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 33
60447772 TATATAATAT
60447782 ATATAAATAATTAATAAATATATAATACAAGTAAAA
1 ATATAAATAA-TAATAAATA-ATAATA-AAGTAAAA
**
60447818 AGTATAAATAATAATGTAAATAATAATAATTTAAAA
1 A-TATAAATAATAA--TAAATAATAATAAAGTAAAA
60447854 ATATATAATAAATAAT-AATAATA
1 ATATA-AAT-AATAATAAATAATA
60447877 TGAAATAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
34 7 0.13
35 5 0.10
36 14 0.27
37 20 0.38
38 6 0.12
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (33 bp):
ATATAAATAATAATAAATAATAATAAAGTAAAA
Found at i:60447844 original size:15 final size:14
Alignment explanation
Indices: 60447824--60447886 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 14
60447814 AAAAAGTATA
60447824 AATAATAATGTAAAT
1 AATAATAAT-TAAAT
60447839 AATAATAATTTAAA-
1 AATAATAA-TTAAAT
60447853 AATATATAA-TAAAT
1 AATA-ATAATTAAAT
60447867 AATAATAATATGAAAT
1 AATAATAAT-T-AAAT
60447883 AATA
1 AATA
60447887 TAAGGTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.19
14 8 0.19
15 17 0.40
16 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATAATTAAAT
Found at i:60447866 original size:28 final size:28
Alignment explanation
Indices: 60447772--60447875 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 28
60447762 GTTATATATG
*
60447772 TATATAATATAT-ATAAATAA-TTAATAAA
1 TATATAATAAATAAT-AATAATTTAA-AAA
* *
60447800 TATATAATACAAGTAA-AA-AGTATAAATAA
1 TATATAATA-AA-TAATAATAATTTAAA-AA
*
60447829 TA-AT-GTAAATAATAATAATTTAAAAA
1 TATATAATAAATAATAATAATTTAAAAA
60447855 TATATAATAAATAATAATAAT
1 TATATAATAAATAATAATAAT
60447876 ATGAAATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
25 3 0.05
26 8 0.13
27 10 0.17
28 27 0.45
29 10 0.17
30 1 0.02
31 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (28 bp):
TATATAATAAATAATAATAATTTAAAAA
Found at i:60448034 original size:20 final size:19
Alignment explanation
Indices: 60448006--60448047 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
60447996 AAGAAGGTAT
60448006 TAAGTAAT-ATAATAAAATA
1 TAAGTAATAAT-ATAAAATA
60448025 TAAGTAAATAATATAAAATA
1 TAAGT-AATAATATAAAATA
60448045 TAA
1 TAA
60448048 TACATATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAGTAATAATATAAAATA
Found at i:60457611 original size:12 final size:13
Alignment explanation
Indices: 60457589--60457620 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
60457579 TTCATTAAGT
60457589 AATTATTATTTAA
1 AATTATTATTTAA
60457602 AATT-TTATTTAA
1 AATTATTATTTAA
60457614 AA-TATTA
1 AATTATTA
60457621 GTATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 13 0.72
13 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTATTATTTAA
Found at i:60461408 original size:14 final size:14
Alignment explanation
Indices: 60461391--60461417 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60461381 CAAAGAAACA
60461391 AATTAGTTCTCTAT
1 AATTAGTTCTCTAT
60461405 AATTAGTTCTCTA
1 AATTAGTTCTCTA
60461418 AGTCATCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (14 bp):
AATTAGTTCTCTAT
Found at i:60462906 original size:64 final size:67
Alignment explanation
Indices: 60462828--60462961 Score: 175
Period size: 67 Copynumber: 2.0 Consensus size: 67
60462818 TACATGATAC
* * * * ** *
60462828 ATACTTTAACATTTCATGC-AAATATAATATAGAAAATGAT-AA-ATAACGACATAAATTACATA
1 ATACATTAACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTACATA
60462890 AT
66 AT
*
60462892 ATACATTAACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAATATAAATTACATA
1 ATACATTAACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTACATA
60462957 AT
66 AT
60462959 ATA
1 ATA
60462962 TATACAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
64 17 0.29
65 17 0.29
66 2 0.03
67 23 0.39
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.29
Consensus pattern (67 bp):
ATACATTAACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTACATA
AT
Found at i:60463437 original size:26 final size:26
Alignment explanation
Indices: 60463404--60463511 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
60463394 TGATACAAAT
*
60463404 TGATAATGGGTTCGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
60463430 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60463456 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
60463482 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60463508 TGAT
1 TGAT
60463512 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60465026 original size:26 final size:26
Alignment explanation
Indices: 60464997--60465049 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
60464987 TTTACAGTTT
*
60464997 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
60465023 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
60465049 T
1 T
60465050 TCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:60466569 original size:5 final size:5
Alignment explanation
Indices: 60466553--60466672 Score: 50
Period size: 5 Copynumber: 23.2 Consensus size: 5
60466543 AATAATAAAT
* * * *
60466553 AATAA AAT-- AATAA AATAA TATAA TATAT AATAA AATAAA AATAA TATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA
* * * * * *
60466602 TGAATAA TATATAT AATAA AATGA TATAA TATAT AATAA AAT-A TAT-A
1 --AATAA -A-ATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
60466649 AATAA AATATA TAATAA ATATAA A
1 AATAA AATA-A -AATAA A-ATAA A
60466673 TAATATAATA
Statistics
Matches: 88, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
3 3 0.03
4 6 0.07
5 54 0.61
6 14 0.16
7 11 0.12
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (5 bp):
AATAA
Found at i:60466607 original size:9 final size:8
Alignment explanation
Indices: 60466541--60466725 Score: 141
Period size: 8 Copynumber: 24.2 Consensus size: 8
60466531 AAAATTATAC
60466541 ATAATAAT
1 ATAATAAT
60466549 A-AATAAT
1 ATAATAAT
*
60466556 AAAATAAT
1 ATAATAAT
*
60466564 AAAATAAT
1 ATAATAAT
60466572 ATAAT-AT
1 ATAATAAT
*
60466579 ATAATAAA
1 ATAATAAT
60466587 ATAA-AA-
1 ATAATAAT
60466593 ATAAT-AT
1 ATAATAAT
60466600 AATGAATAAT
1 -AT-AATAAT
60466610 ATATATAAT
1 ATA-ATAAT
* *
60466619 AAAATGAT
1 ATAATAAT
60466627 ATAAT-AT
1 ATAATAAT
*
60466634 ATAATAAA
1 ATAATAAT
60466642 ATATATAA-
1 ATA-ATAAT
60466650 ATAA-AAT
1 ATAATAAT
60466657 AT-ATAAT
1 ATAATAAT
60466664 A-AAT-AT
1 ATAATAAT
60466670 A-AATAAT
1 ATAATAAT
60466677 ATAATAAAT
1 ATAAT-AAT
60466686 ATAAATAAT
1 AT-AATAAT
60466695 ATAATAA-
1 ATAATAAT
60466702 ATAATACAT
1 ATAATA-AT
60466711 A-AATAA-
1 ATAATAAT
60466717 A-AATAAT
1 ATAATAAT
60466724 AT
1 AT
60466726 GTATAATAAT
Statistics
Matches: 150, Mismatches: 6, Indels: 42
0.76 0.03 0.21
Matches are distributed among these distances:
6 20 0.13
7 43 0.29
8 55 0.37
9 27 0.18
10 5 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (8 bp):
ATAATAAT
Found at i:60466652 original size:63 final size:61
Alignment explanation
Indices: 60466541--60466725 Score: 182
Period size: 63 Copynumber: 2.9 Consensus size: 61
60466531 AAAATTATAC
* * *
60466541 ATAATAATAAATAATAAAATAATAAA-ATA-ATATAATATATAATAAAATAAAAATAATATAATG
1 ATAAT-ATATATAATAAAAT-ATAAATATATA-ATAAAATAT-AT-AAATAAAAATAATATAATA
60466604 A
61 A
60466605 ATAATATATATAATAAAATGATATAATATATAATAAAATATATAAAT-AAAAT-ATATAATAA
1 ATAATATATATAATAAAAT-ATA-AATATATAATAAAATATATAAATAAAAATAATATAATAA
* *
60466666 ATATAAATAATATAAT-AAATATAAATAATATAATAAATAATACATAAATAAAAATAATAT
1 ATA-ATAT-ATATAATAAAATATAAAT-ATATAAT-AA-AATATATAAATAAAAATAATAT
60466726 GTATAATAAT
Statistics
Matches: 105, Mismatches: 6, Indels: 19
0.81 0.05 0.15
Matches are distributed among these distances:
60 3 0.03
61 21 0.20
62 14 0.13
63 37 0.35
64 14 0.13
65 15 0.14
66 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (61 bp):
ATAATATATATAATAAAATATAAATATATAATAAAATATATAAATAAAAATAATATAATAA
Found at i:60466716 original size:18 final size:17
Alignment explanation
Indices: 60466541--60466724 Score: 134
Period size: 18 Copynumber: 10.4 Consensus size: 17
60466531 AAAATTATAC
60466541 ATAATAATAAATAAT-A
1 ATAATAATAAATAATAA
60466557 A-AATAATAAAATAATATA
1 ATAATAAT-AAATAATA-A
60466575 ATATATAAT-AA-AATAA
1 ATA-ATAATAAATAATAA
60466591 A-AATAATATAATGAATAA
1 ATAATAATA-AAT-AATAA
*
60466609 TATATATAATAAAATGATATA
1 -ATA-ATAAT-AAATAATA-A
60466630 ATATATAATAAAATATATAA
1 ATA-ATAAT-AAATA-ATAA
*
60466650 ATAA-AATATATAATAA
1 ATAATAATAAATAATAA
60466666 AT-ATAAATAATATAATAA
1 ATAAT-AATAA-ATAATAA
60466684 AT-ATAAATAATATAATAA
1 ATAAT-AATAA-ATAATAA
60466702 ATAATACATAAATAA-AA
1 ATAATA-ATAAATAATAA
60466719 ATAATA
1 ATAATA
60466725 TGTATAATAA
Statistics
Matches: 144, Mismatches: 4, Indels: 39
0.77 0.02 0.21
Matches are distributed among these distances:
14 5 0.03
15 8 0.06
16 18 0.12
17 20 0.14
18 44 0.31
19 9 0.06
20 27 0.19
21 12 0.08
22 1 0.01
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.32
Consensus pattern (17 bp):
ATAATAATAAATAATAA
Found at i:60466720 original size:97 final size:99
Alignment explanation
Indices: 60466560--60466734 Score: 188
Period size: 97 Copynumber: 1.8 Consensus size: 99
60466550 AATAATAAAA
*
60466560 TAATAAAATAATATAAT-ATATAATAAAATAAAAATAATATAATGAATAAT-ATATATAATAAAA
1 TAATAAAATAATATAATAATATAATAAAATAAAAATAATATAAT-AATAATAATACATAA-AAAA
* * *
60466623 TGATATAATATATAATAAAATATATAAATAAAATATA
64 -GAAATAATATATAATAAAATATATAAAAAAAATAAA
* *
60466660 TAAT-AAAT-ATA-AATAATATAAT-AAATATAAATAATATAAT-A-AATAATACATAAATAA-A
1 TAATAAAATAATATAATAATATAATAAAATAAAAATAATATAATAATAATAATACATAAAAAAGA
60466718 AATAATATGTATAATAA
66 AATAATA--TATAATAA
60466735 TTTTTACATA
Statistics
Matches: 67, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
92 7 0.10
94 14 0.21
95 8 0.12
97 20 0.30
98 10 0.15
99 4 0.06
100 4 0.06
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.33
Consensus pattern (99 bp):
TAATAAAATAATATAATAATATAATAAAATAAAAATAATATAATAATAATAATACATAAAAAAGA
AATAATATATAATAAAATATATAAAAAAAATAAA
Found at i:60466819 original size:29 final size:27
Alignment explanation
Indices: 60466763--60466823 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 27
60466753 ATGTTTATAG
*
60466763 TAAAAAAATAATAATATATAAAATATT
1 TAAAAAAATAATAATATATAAAAAATT
*
60466790 TAAAATAAATAAATTATATATAAAAAATT
1 TAAAA-AAAT-AATAATATATAAAAAATT
60466819 TAAAA
1 TAAAA
60466824 GGGGTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 4 0.13
29 21 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
TAAAAAAATAATAATATATAAAAAATT
Found at i:60467015 original size:30 final size:30
Alignment explanation
Indices: 60466981--60467038 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
60466971 ATAATGGCCA
*
60466981 TTAGGACTAAATTGA-AACAAAAATAAAAGG
1 TTAGGACCAAATT-ATAACAAAAATAAAAGG
* *
60467011 TTAGGGCCAAATTATAATAAAAATAAAA
1 TTAGGACCAAATTATAACAAAAATAAAA
60467039 TGAAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.22
Consensus pattern (30 bp):
TTAGGACCAAATTATAACAAAAATAAAAGG
Found at i:60468286 original size:45 final size:45
Alignment explanation
Indices: 60468236--60468362 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
60468226 TAATATCCTT
*
60468236 GATCTGCTCCCCGTCAAATACAGAGACACCAAATCTGCTATCTTC
1 GATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGCTATCTTC
* * * * * * *
60468281 GATCTGCT--TCGATGTAATCACACAAATATCAGATCTGCTATCTTC
1 GATCTGCTCCCCG-TCTAAT-ACAGAGACACCAAATCTGCTATCTTC
* *
60468326 AATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
1 GATCTGCTCCCCGTCTAATACAGAGACACCAAATCTG
60468363 TAGTTTTTGA
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
43 2 0.03
44 4 0.07
45 48 0.79
46 5 0.08
47 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (45 bp):
GATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGCTATCTTC
Found at i:60468394 original size:90 final size:90
Alignment explanation
Indices: 60468237--60468446 Score: 298
Period size: 90 Copynumber: 2.3 Consensus size: 90
60468227 AATATCCTTG
*
60468237 ATCTGCTCCCCGTCAAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTTCGATGTAATCAC
1 ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTTCGATGTAATCAC
60468302 ACAAATATCAGATCTGCTATCTTCA
66 ACAAATATCAGATCTGCTATCTTCA
* * * *
60468327 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG-TAGTTTTTGATCTGCTTTGATGTAAAT-
1 ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGCTA-TCTTCGATCTGCTTCGATGT-AATC
* * **
60468390 ACACAAATGTCAGATTTGCTATCTTTG
64 ACACAAATATCAGATCTGCTATCTTCA
*
60468417 ATCAGCTCCCCGTCTAATACAGAGACACCA
1 ATCTGCTCCCCGTCTAATACAGAGACACCA
60468447 TGTAACACCC
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
89 2 0.02
90 102 0.95
91 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (90 bp):
ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTTCGATGTAATCAC
ACAAATATCAGATCTGCTATCTTCA
Found at i:60469915 original size:40 final size:40
Alignment explanation
Indices: 60469871--60469981 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 40
60469861 GTTATAATAG
* *
60469871 CTCGCACAAATGCCTTCGGGACTTAACCCGATTTTGGTAA
1 CTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAA
* * *
60469911 CTCGCACAAATGCCTTCGGGAATTGACCCGAATTTAGTCA
1 CTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAA
* * *
60469951 CTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 C-TCGCACAAATGCCTTCGGGACTTAACCCG
60469982 GATACCATTC
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 36 0.60
41 24 0.40
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAA
Found at i:60474806 original size:40 final size:40
Alignment explanation
Indices: 60474740--60474906 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
60474730 AAATTGAATG
* * *
60474740 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
60474779 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
60474819 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
60474859 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
60474899 ATATCCGG
1 ATATCCGG
60474907 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:60487420 original size:40 final size:39
Alignment explanation
Indices: 60487309--60487458 Score: 140
Period size: 40 Copynumber: 3.8 Consensus size: 39
60487299 TTAATCACGT
* * *
60487309 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
60487349 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
60487389 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
60487429 GCATATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATGCCTTCGGGTCTTAGCCCGGATAT
60487459 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
38 13 0.14
39 11 0.12
40 67 0.74
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:60492842 original size:49 final size:49
Alignment explanation
Indices: 60492786--60493000 Score: 385
Period size: 49 Copynumber: 4.4 Consensus size: 49
60492776 TACATATATG
* * * *
60492786 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
60492835 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
60492884 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
60492933 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
60492982 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
60493001 TAATGTAAAA
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 160 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:60493159 original size:37 final size:37
Alignment explanation
Indices: 60493102--60493185 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
60493092 GGAATATGTT
*
60493102 CCGGGTGAGA-CCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
60493138 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
60493175 CCGGGTAAGAC
1 CCGGGTAAGAC
60493186 TTCTTTTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 9 0.20
37 36 0.80
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:60496233 original size:42 final size:42
Alignment explanation
Indices: 60496101--60496273 Score: 141
Period size: 42 Copynumber: 4.1 Consensus size: 42
60496091 TAAGATGCCA
* * ** * *
60496101 ATGCCATGTCCCAGACGTGGTCTTACATGGGATCTCACATTG
1 ATGCCATATCCCAGACATGGTCTTACATGAAATCTCATATCG
* * * * * *
60496143 ATGTCATATCCTAGATATGGTCTTATATGAAATTTCATTTCG
1 ATGCCATATCCCAGACATGGTCTTACATGAAATCTCATATCG
* * * *
60496185 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCA
1 ATGCCATATCCCAGACATGGTCTTACATGAAATCTCATATCG
* * * * *
60496227 ACGCCATATCTCAGATATGGTCTTACATGATAA-CACATAACG
1 ATGCCATATCCCAGACATGGTCTTACATGA-AATCTCATATCG
60496269 ATGCC
1 ATGCC
60496274 GATGTCATAT
Statistics
Matches: 98, Mismatches: 32, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
42 96 0.98
43 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACATGAAATCTCATATCG
Found at i:60496243 original size:84 final size:84
Alignment explanation
Indices: 60496101--60496256 Score: 215
Period size: 84 Copynumber: 1.9 Consensus size: 84
60496091 TAAGATGCCA
* ** ** * *
60496101 ATGCCATGTCCCAGACGTGGTCTTACATGGGATCTCACATTGATGTCATATCCTAGATATGGTCT
1 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCTAGATATGGTCT
*
60496166 TATATGAAATTTCATTTCG
66 TACATGAAATTTCATTTCG
*
60496185 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCAACGCCATAT-CTCAGATATGGTC
1 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCT-AGATATGGTC
60496249 TTACATGA
65 TTACATGA
60496257 TAACACATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 2 0.03
84 60 0.97
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (84 bp):
ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCTAGATATGGTCT
TACATGAAATTTCATTTCG
Found at i:60496271 original size:84 final size:84
Alignment explanation
Indices: 60496101--60496279 Score: 200
Period size: 84 Copynumber: 2.1 Consensus size: 84
60496091 TAAGATGCCA
* ** ** * *
60496101 ATGCCATGTCCCAGACGTGGTCTTACATGGGATCTCACATTGATGTCATATCCTAGATATGGTCT
1 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCTAGATATGGTCT
* ** **
60496166 TATATGAAATTTCATTTCG
66 TACATGAAATCACATAACG
*
60496185 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCAACGCCATAT-CTCAGATATGGTC
1 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCT-AGATATGGTC
60496249 TTACATGATAA-CACATAACG
65 TTACATGA-AATCACATAACG
60496269 ATGCCGATGTC
1 ATGCC-ATGTC
60496280 ATATCCCAGA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
83 2 0.03
84 70 0.89
85 7 0.09
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (84 bp):
ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCTAGATATGGTCT
TACATGAAATCACATAACG
Found at i:60498749 original size:44 final size:44
Alignment explanation
Indices: 60498686--60498814 Score: 222
Period size: 44 Copynumber: 2.9 Consensus size: 44
60498676 TATGTATGAG
*
60498686 GCATTCGAGCTCATTGAGTTGGTCCGAGTTCATTATAGATGCGA
1 GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATAGATGCGA
* *
60498730 GCATCTGAGCTCGTTGAGTTGGTCCGAGTTCATTATAGATGCGA
1 GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATAGATGCGA
*
60498774 GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATGGATG
1 GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATAGATG
60498815 TGATACATGT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (44 bp):
GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATAGATGCGA
Found at i:60509392 original size:10 final size:10
Alignment explanation
Indices: 60509366--60509455 Score: 51
Period size: 10 Copynumber: 9.0 Consensus size: 10
60509356 ACTTACAACA
*
60509366 TTTA-AATTC
1 TTTATAATTT
*
60509375 TTTCTAATTT
1 TTTATAATTT
*
60509385 TTTATAATTG
1 TTTATAATTT
60509395 TTTATAATTT
1 TTTATAATTT
* *
60509405 TTAACAAATTTT
1 TTTA-TAA-TTT
*
60509417 TTTACAAATTT
1 TTTA-TAATTT
* *
60509428 TTAATTATTT
1 TTTATAATTT
*
60509438 TTTAT--GTT
1 TTTATAATTT
60509446 TTTATAATTT
1 TTTATAATTT
60509456 ATAAAAAAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
8 7 0.11
9 3 0.05
10 34 0.55
11 8 0.13
12 10 0.16
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATAATTT
Found at i:60511565 original size:128 final size:128
Alignment explanation
Indices: 60511337--60511721 Score: 725
Period size: 128 Copynumber: 3.0 Consensus size: 128
60511327 GATGTGAAAG
* * * *
60511337 TTAATATCAGCGTGTGTTGTTCATGTCATGTGATAGAGTTTATAATGTGCTAATAATGTGAATAT
1 TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGTGTTTATAATGAGCTAATAATATGAATAT
*
60511402 ATAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
66 ACAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
60511465 TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGTGTTTATAATGAGCTAATAATATGAATAT
1 TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGTGTTTATAATGAGCTAATAATATGAATAT
60511530 ACAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
66 ACAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
60511593 TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGTGTTTATAATGAGCTAATAATATGAATAT
1 TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGTGTTTATAATGAGCTAATAATATGAATAT
60511658 ACAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
66 ACAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
60511721 T
1 T
60511722 GTGTTATTAT
Statistics
Matches: 252, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 252 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (128 bp):
TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGTGTTTATAATGAGCTAATAATATGAATAT
ACAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
Found at i:60514405 original size:40 final size:40
Alignment explanation
Indices: 60514346--60514487 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
60514336 AAATTGAATG
* * *
60514346 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
60514386 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
60514426 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
60514466 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
60514488 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:60514488 original size:40 final size:39
Alignment explanation
Indices: 60514385--60514513 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
60514375 TGCTGGAAAT
* * *
60514385 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
60514425 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
60514465 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
60514505 TATATCCGG
1 TATATCCGG
60514514 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:60518707 original size:18 final size:18
Alignment explanation
Indices: 60518686--60518728 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
60518676 ATAAACTTAA
60518686 ATATGTTATGAATATGTT
1 ATATGTTATGAATATGTT
60518704 ATATGTTATGAATATGTT
1 ATATGTTATGAATATGTT
*
60518722 ACATGTT
1 ATATGTT
60518729 TGCTTAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (18 bp):
ATATGTTATGAATATGTT
Found at i:60531953 original size:40 final size:40
Alignment explanation
Indices: 60531860--60531999 Score: 228
Period size: 40 Copynumber: 3.5 Consensus size: 40
60531850 TATGTGCATA
60531860 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC-AAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
60531899 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
60531939 GCATTTGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* * *
60531979 GCATTTGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
60532000 TCCGAGCCAA
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 36 0.38
40 59 0.62
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.32
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:60536708 original size:40 final size:40
Alignment explanation
Indices: 60536662--60536884 Score: 362
Period size: 40 Copynumber: 5.6 Consensus size: 40
60536652 TATTCGAATG
*
60536662 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
60536702 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
60536741 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
60536781 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
60536821 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
60536861 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
60536885 CTTGGGTTTG
Statistics
Matches: 172, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 54 0.31
40 115 0.67
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:60536850 original size:80 final size:80
Alignment explanation
Indices: 60536662--60536884 Score: 362
Period size: 79 Copynumber: 2.8 Consensus size: 80
60536652 TATTCGAATG
* *
60536662 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTATTGACTATATCCGGGCTAAGT-CCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
60536726 TTTGTGCTATTGACT
66 TTTGTGCTATTGACT
*
60536741 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
60536806 TTTGTGCTATTGACT
66 TTTGTGCTATTGACT
* * *
60536821 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGC
60536884 A
65 A
60536885 CTTGGGTTTG
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
79 69 0.51
80 64 0.47
81 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTATTGACT
Found at i:60536878 original size:119 final size:119
Alignment explanation
Indices: 60536662--60536884 Score: 369
Period size: 119 Copynumber: 1.9 Consensus size: 119
60536652 TATTCGAATG
* *
60536662 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTATTGACTATATCCGGGCTAAGTCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGCCCGAAGGCAT
* *
60536727 TTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTGTGCGATTGACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
*
60536781 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAG-CCCGAAGGCA
60536846 TTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGGCA
65 TTTGTGCGA-TTGACTATATCCGGGCTAAATCCCGAAGGCA
60536885 CTTGGGTTTG
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
119 69 0.71
120 25 0.26
121 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (119 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGCCCGAAGGCAT
TTGTGCGATTGACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:60538598 original size:92 final size:93
Alignment explanation
Indices: 60538486--60538655 Score: 265
Period size: 92 Copynumber: 1.8 Consensus size: 93
60538476 GCCCCTAAGT
*
60538486 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCACATCCATAAGTCAACTC-AACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCACATCCATAAGTCAACTCGAACTCAACTCA
60538549 ACGAGC-TCGGATGCCTAGTTACATCTCAC
65 ACGA-CTTCGGATGCCTAGTTACATCTCAC
* * *
60538578 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTCAACTCGAACTCAACTCAA
60538643 CGACTTCGGATGC
66 CGACTTCGGATGC
60538656 TCAACCATCC
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
92 47 0.66
93 24 0.34
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTCAACTCGAACTCAACTCAA
CGACTTCGGATGCCTAGTTACATCTCAC
Found at i:60538652 original size:46 final size:47
Alignment explanation
Indices: 60538481--60538645 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 47
60538471 AACCCGCCCC
*
60538481 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCACATCCA
* *
60538527 TAAGTCAACTC-AACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-A-TTCACATCCA
* * *
60538574 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCACATCCA
60538619 TAAGTGAACTCGGACTCAACTCAACGA
1 TAAGTGAACTCGGACTCAACTCAACGA
60538646 CTTCGGATGC
Statistics
Matches: 99, Mismatches: 10, Indels: 20
0.77 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 20 0.20
46 39 0.39
47 23 0.23
48 2 0.02
49 4 0.04
50 2 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCACATCCA
Found at i:60541614 original size:15 final size:14
Alignment explanation
Indices: 60541589--60541634 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
60541579 AAACCAGGAT
*
60541589 TAAGAAGTCCAAGA
1 TAAGAAATCCAAGA
60541603 TAGAGAAATCCAAGA
1 TA-AGAAATCCAAGA
60541618 TAAGGAAATCCAAGA
1 TAA-GAAATCCAAGA
60541633 TA
1 TA
60541635 CAATATCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 3 0.10
15 26 0.90
ACGTcount: A:0.52, C:0.13, G:0.20, T:0.15
Consensus pattern (14 bp):
TAAGAAATCCAAGA
Found at i:60542857 original size:14 final size:14
Alignment explanation
Indices: 60542840--60542870 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
60542830 CTTTATGAAT
60542840 TTCTTTTTATCACA
1 TTCTTTTTATCACA
60542854 TTCTTTTTATCACA
1 TTCTTTTTATCACA
60542868 TTC
1 TTC
60542871 ACTTAATCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (14 bp):
TTCTTTTTATCACA
Found at i:60544952 original size:16 final size:16
Alignment explanation
Indices: 60544933--60544964 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60544923 AATTATTTTA
60544933 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
60544949 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
60544965 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:60552317 original size:47 final size:47
Alignment explanation
Indices: 60552265--60552557 Score: 469
Period size: 47 Copynumber: 6.2 Consensus size: 47
60552255 AAGATATGTG
60552265 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
60552312 TATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * *
60552359 TATGAGATAACGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
60552406 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * * * *
60552453 TATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
60552500 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
60552547 AATGTGATAAG
1 TATGTGATAAG
60552558 TCCCGAAGGG
Statistics
Matches: 224, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 224 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:60558284 original size:50 final size:50
Alignment explanation
Indices: 60558202--60558398 Score: 180
Period size: 50 Copynumber: 3.9 Consensus size: 50
60558192 AAGACAGTTT
* * * * * * * *
60558202 TAGGTCACGTGTGTAGTACTAATTGGAAGCTACTACGTGTACCAGATTGA
1 TAGGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAA
* * *
60558252 TAGGTTTCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAA
1 TAGGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAA
* * * * * * *
60558301 CTTTGATTACGTGTGTAGCACTAAGTGCAGGCTACTATGTGTTCCAGATTTA
1 --TAGGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAA
** *
60558353 TAGGTCGCATGTGTAGTACTAAGTGCATGCTACTATGCGTACCAGA
1 TAGGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
60558399 GAGCTTCGGT
Statistics
Matches: 114, Mismatches: 30, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
49 3 0.03
50 72 0.63
51 36 0.32
52 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (50 bp):
TAGGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAA
Found at i:60558335 original size:101 final size:101
Alignment explanation
Indices: 60558208--60558395 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 101
60558198 GTTTTAGGTC
* * * **
60558208 ACGTGTGTAGTACTAATTGGAAGCTACTACGTGTACCAGATTGATAGGTTTCATGTGTAGTACTA
1 ACGTGTGTAGCACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTA
60558273 AGTGCAGGCTACTATGCATACCCGTTAACTTTGATT
66 AGTGCAGGCTACTATGCATACCCGTTAACTTTGATT
* * * *
60558309 ACGTGTGTAGCACTAAGTGCAGGCTACTATGTGTTCCAGATTTATAGGTCGCATGTGTAGTACTA
1 ACGTGTGTAGCACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTA
* *
60558374 AGTGCATGCTACTATGCGTACC
66 AGTGCAGGCTACTATGCATACC
60558396 AGAGAGCTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (101 bp):
ACGTGTGTAGCACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTA
AGTGCAGGCTACTATGCATACCCGTTAACTTTGATT
Done.