Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 100 of 163
Found at i:32250482 original size:16 final size:17
Alignment explanation
Indices: 32250446--32250482 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
32250436 TAATATAATT
32250446 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
32250463 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
32250478 TATAA
1 TATAA
32250483 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:32251881 original size:7 final size:7
Alignment explanation
Indices: 32251869--32251912 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
32251859 TATTAGTTAT
32251869 ATACATA
1 ATACATA
32251876 ATACATA
1 ATACATA
32251883 ATACATA
1 ATACATA
32251890 ATACATA
1 ATACATA
32251897 ATACATA
1 ATACATA
32251904 ATACATA
1 ATACATA
32251911 AT
1 AT
32251913 CCTAAATACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (7 bp):
ATACATA
Found at i:32252994 original size:110 final size:110
Alignment explanation
Indices: 32252771--32252999 Score: 442
Period size: 110 Copynumber: 2.1 Consensus size: 110
32252761 CTTAAATAAT
32252771 ATTTAAAAATTAAATTTAACACTTACCATTTTCATTTGTTCGACGGATATGTGCTTGTCATCAAG
1 ATTTAAAAATTAAATTTAACACTTACCATTTTCATTTGTTCGACGGATATGTGCTTGTCATCAAG
32252836 ACGAATCAATTCTCCAGCCATTGCTAAATTCGTACAAATTTTTAG
66 ACGAATCAATTCTCCAGCCATTGCTAAATTCGTACAAATTTTTAG
32252881 ATTTAAAAATTAAATTTAACACTTACCATTTTCATTTGTTCGACGGATATGTGCTTGTCATCAAG
1 ATTTAAAAATTAAATTTAACACTTACCATTTTCATTTGTTCGACGGATATGTGCTTGTCATCAAG
32252946 ACGAATCAATTCTCCAG-CATTGCTAAATTCGTACAAATTTTTACG
66 ACGAATCAATTCTCCAGCCATTGCTAAATTCGTACAAATTTTTA-G
32252991 ATTTAAAAA
1 ATTTAAAAA
32253000 AAAATAAAAT
Statistics
Matches: 118, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
109 26 0.22
110 92 0.78
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (110 bp):
ATTTAAAAATTAAATTTAACACTTACCATTTTCATTTGTTCGACGGATATGTGCTTGTCATCAAG
ACGAATCAATTCTCCAGCCATTGCTAAATTCGTACAAATTTTTAG
Found at i:32253083 original size:11 final size:11
Alignment explanation
Indices: 32253067--32253116 Score: 75
Period size: 11 Copynumber: 4.6 Consensus size: 11
32253057 AAATAGGGAT
32253067 TTGAGAGGAAA
1 TTGAGAGGAAA
*
32253078 TTGAGAGCAAA
1 TTGAGAGGAAA
*
32253089 TTGAGTGGAAA
1 TTGAGAGGAAA
32253100 TTGAGAGGAAA
1 TTGAGAGGAAA
32253111 TT-AGAG
1 TTGAGAG
32253117 AAAGGATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
10 4 0.11
11 31 0.89
ACGTcount: A:0.42, C:0.02, G:0.34, T:0.22
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:32264285 original size:44 final size:44
Alignment explanation
Indices: 32264222--32264310 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
32264212 TAATGCATAT
32264222 GTAAGAACAAAACCTGTGTTCATTCCAAAGTGCCACCTATTTAA
1 GTAAGAACAAAACCTGTGTTCATTCCAAAGTGCCACCTATTTAA
*
32264266 GTAAGAACAAAACCTGTGTTTATTCCAAAGTGCCACCTATTTAA
1 GTAAGAACAAAACCTGTGTTCATTCCAAAGTGCCACCTATTTAA
32264310 G
1 G
32264311 ATTTGGCCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (44 bp):
GTAAGAACAAAACCTGTGTTCATTCCAAAGTGCCACCTATTTAA
Found at i:32266958 original size:31 final size:29
Alignment explanation
Indices: 32266920--32266996 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
32266910 CTAACGGCTC
* *
32266920 AGTGACTAAAATGTTACAACATGATAACATA
1 AGTGACTAAAATGTAAC-ACATCA-AACATA
* **
32266951 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACATCAAACATA
*
32266980 AGTGACTAAAATATAAC
1 AGTGACTAAAATGTAAC
32266997 TTGAGCAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 21 0.54
30 3 0.08
31 15 0.38
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACATCAAACATA
Found at i:32268948 original size:31 final size:29
Alignment explanation
Indices: 32268910--32268986 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
32268900 CTAACGGCTC
* *
32268910 AGTGACTAAAATGTTACAACATGATAACATA
1 AGTGACTAAAATGTAAC-ACATCA-AACATA
* **
32268941 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACATCAAACATA
*
32268970 AGTGACTAAAATATAAC
1 AGTGACTAAAATGTAAC
32268987 TTGAGCAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 21 0.54
30 3 0.08
31 15 0.38
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACATCAAACATA
Found at i:32271322 original size:13 final size:14
Alignment explanation
Indices: 32271278--32271329 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
32271268 AAAAAAAAAC
* *
32271278 ATTTTAATTTTCCT
1 ATTTTATTTTTACT
* *
32271292 ATTATTATTATTATT
1 ATT-TTATTTTTACT
32271307 A-TTTATTTTTACT
1 ATTTTATTTTTACT
32271320 ATTTTATTTT
1 ATTTTATTTT
32271330 ATTTTCATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 10 0.33
14 12 0.40
15 8 0.27
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTATTTTTACT
Found at i:32271345 original size:6 final size:6
Alignment explanation
Indices: 32271291--32271347 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
32271281 TTAATTTTCC
* * *
32271291 TATTAT TATTAT TATTATT TATTTT TACTATTT TA-TTT TATTTT CATTTT
1 TATTTT TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT TATTTT
32271341 TATTTT T
1 TATTTT T
32271348 GCAGGAAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.11
6 28 0.64
7 6 0.14
8 5 0.11
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (6 bp):
TATTTT
Found at i:32271786 original size:1 final size:1
Alignment explanation
Indices: 32271780--32271831 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
32271770 TCTTTTCAAC
* * * * *
32271780 AAAAAAAAAAACAAAAAAAAACAAAACAAAAAAATAAAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
32271832 TACTCCTTTG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:32271800 original size:15 final size:15
Alignment explanation
Indices: 32271780--32271831 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
32271770 TCTTTTCAAC
32271780 AAAAAAAAAAACAAA
1 AAAAAAAAAAACAAA
*
32271795 AAAAAACAAAACAAA
1 AAAAAAAAAAACAAA
*
32271810 AAAATAAAAAAATAAA
1 AAAA-AAAAAAACAAA
32271826 AAAAAA
1 AAAAAA
32271832 TACTCCTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 20 0.61
16 13 0.39
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAACAAA
Found at i:32271802 original size:22 final size:21
Alignment explanation
Indices: 32271777--32271831 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
32271767 AAATCTTTTC
32271777 AACAAAAAAAAAAACAAAAAAA
1 AACAAAAAAAAAAA-AAAAAAA
* *
32271799 AACAAAACAAAAAAATAAAAA
1 AACAAAAAAAAAAAAAAAAAA
*
32271820 AATAAAAAAAAA
1 AACAAAAAAAAA
32271832 TACTCCTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.89, C:0.07, G:0.00, T:0.04
Consensus pattern (21 bp):
AACAAAAAAAAAAAAAAAAAA
Found at i:32271833 original size:10 final size:10
Alignment explanation
Indices: 32271782--32271831 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
32271772 TTTTCAACAA
32271782 AAAAAAAAAC
1 AAAAAAAAAC
32271792 AAAAAAAAAC
1 AAAAAAAAAC
32271802 AAAACAAAAA-
1 AAAA-AAAAAC
*
32271812 AATAAAAAAAT
1 AA-AAAAAAAC
32271823 AAAAAAAAA
1 AAAAAAAAA
32271832 TACTCCTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 28 0.76
11 9 0.24
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:32280185 original size:26 final size:26
Alignment explanation
Indices: 32280150--32280206 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
32280140 TTTTTCTCAA
* *
32280150 TAAAATTTTGATAATTTTACCCTCGG
1 TAAAAATTTGATAATTTTACCCCCGG
*
32280176 TAAAAATTTGATGATTTTACCCCCGG
1 TAAAAATTTGATAATTTTACCCCCGG
32280202 TAAAA
1 TAAAA
32280207 TTTCAAGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (26 bp):
TAAAAATTTGATAATTTTACCCCCGG
Found at i:32288847 original size:42 final size:42
Alignment explanation
Indices: 32288800--32288880 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
32288790 AAGATAACAC
*
32288800 AAATTAAAAAACAATGAAGAAAAATATTTTT-GGATTTTTTAA
1 AAATT-AAAAACAAAGAAGAAAAATATTTTTGGGATTTTTTAA
* * *
32288842 AAATTAAAGACAAAGATGGAAAATATTTTTGGGATTTTT
1 AAATTAAAAACAAAGAAGAAAAATATTTTTGGGATTTTT
32288881 GATTTTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 21 0.62
42 13 0.38
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (42 bp):
AAATTAAAAACAAAGAAGAAAAATATTTTTGGGATTTTTTAA
Found at i:32289596 original size:20 final size:21
Alignment explanation
Indices: 32289559--32289598 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
32289549 TGCTTCTTAG
32289559 AAGGTGGATATCGCGATACCT
1 AAGGTGGATATCGCGATACCT
* *
32289580 AAGG-GGATATTGTGATACC
1 AAGGTGGATATCGCGATACC
32289599 ACAAAAGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (21 bp):
AAGGTGGATATCGCGATACCT
Found at i:32302436 original size:46 final size:45
Alignment explanation
Indices: 32302384--32302580 Score: 234
Period size: 46 Copynumber: 4.6 Consensus size: 45
32302374 TTTGAGTACT
32302384 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
**
32302430 TCTGATCAAGAAACAAAGTGATAA---GT-G----GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
* *
32302467 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
** **
32302513 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
32302558 TCTGATCAAG-GAC-AAGTGATAAG
1 TCTGATCAAGTGACAAAGTGATAAG
32302581 AGGTCATATG
Statistics
Matches: 131, Mismatches: 11, Indels: 21
0.80 0.07 0.13
Matches are distributed among these distances:
37 31 0.24
40 2 0.02
41 1 0.01
42 1 0.01
43 12 0.09
44 1 0.01
45 21 0.16
46 62 0.47
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
Found at i:32302461 original size:37 final size:37
Alignment explanation
Indices: 32302420--32302494 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
32302410 GGTAGTTTTA
32302420 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
** *
32302457 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
32302494 G
1 G
32302495 TAGCTTCAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:32302488 original size:83 final size:83
Alignment explanation
Indices: 32302384--32302540 Score: 251
Period size: 83 Copynumber: 1.9 Consensus size: 83
32302374 TTTGAGTACT
* *
32302384 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGAAACAAAGT
32302449 GATAAGTGGCTACACTTA
66 GATAAGTGGCTACACTTA
* ****
32302467 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGGTAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGAAACAAAGT
32302532 GATAAGTGG
66 GATAAGTGG
32302541 TAGCCTAGCT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (83 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGAAACAAAGT
GATAAGTGGCTACACTTA
Found at i:32307054 original size:20 final size:20
Alignment explanation
Indices: 32307029--32307091 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
32307019 CTCATAATTT
32307029 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCAGTA
* * * *
32307049 CCCCTGATTGCACAT-ACGTG
1 CCCCTGTTTGTACTTCA-GTA
32307069 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCAGTA
32307089 CCC
1 CCC
32307092 TTGATTGACC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.16, C:0.35, G:0.16, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCAGTA
Found at i:32307059 original size:40 final size:40
Alignment explanation
Indices: 32307015--32307134 Score: 136
Period size: 40 Copynumber: 3.0 Consensus size: 40
32307005 TAATTAAATT
* * *
32307015 ATTGCTCATAATTTCCCCTGTTTGTACTTCAGTACCCCTG
1 ATTGCACATAAGTGCCCCTGTTTGTACTTCAGTACCCCTG
* *
32307055 ATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCTTG
1 ATTGCACATAAGTGCCCCTGTTTGTACTTCAGTACCCCTG
* * **
32307095 ATTG-ACCATACGTG-CCCTATTTGTACTTTTGTACCCCTG
1 ATTGCA-CATAAGTGCCCCTGTTTGTACTTCAGTACCCCTG
32307134 A
1 A
32307135 ACACACTTTC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 23 0.33
40 47 0.67
ACGTcount: A:0.18, C:0.29, G:0.15, T:0.38
Consensus pattern (40 bp):
ATTGCACATAAGTGCCCCTGTTTGTACTTCAGTACCCCTG
Found at i:32307129 original size:39 final size:40
Alignment explanation
Indices: 32307029--32307134 Score: 153
Period size: 40 Copynumber: 2.7 Consensus size: 40
32307019 CTCATAATTT
32307029 CCCCTGTTTGTACTTCAGTACCCCTGATTGCACATACGTG
1 CCCCTGTTTGTACTTCAGTACCCCTGATTGCACATACGTG
*
32307069 CCCCTGTTTGTACTTCAGTACCCTTGATTG-ACCATACGTG
1 CCCCTGTTTGTACTTCAGTACCCCTGATTGCA-CATACGTG
* **
32307109 -CCCTATTTGTACTTTTGTACCCCTGA
1 CCCCTGTTTGTACTTCAGTACCCCTGA
32307135 ACACACTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
39 23 0.38
40 37 0.62
ACGTcount: A:0.17, C:0.31, G:0.16, T:0.36
Consensus pattern (40 bp):
CCCCTGTTTGTACTTCAGTACCCCTGATTGCACATACGTG
Found at i:32314950 original size:15 final size:15
Alignment explanation
Indices: 32314930--32314961 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32314920 GTAGCTAAGG
*
32314930 TTGTAAGAGGTTCCA
1 TTGTAAAAGGTTCCA
32314945 TTGTAAAAGGTTCCA
1 TTGTAAAAGGTTCCA
32314960 TT
1 TT
32314962 TGATAAGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (15 bp):
TTGTAAAAGGTTCCA
Found at i:32321605 original size:23 final size:23
Alignment explanation
Indices: 32321579--32321653 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
32321569 GGATCAATTC
32321579 GTTTAGCATTTGCAAACATGTTT
1 GTTTAGCATTTGCAAACATGTTT
* * **
32321602 GTTTGGTATTCACAAACATGTTCT
1 GTTTAGCATTTGCAAACATGTT-T
* * ** *
32321626 TTTTAACATTTGTGAATATGTTT
1 GTTTAGCATTTGCAAACATGTTT
32321649 GTTTA
1 GTTTA
32321654 CGTTCTCGAA
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
23 23 0.62
24 14 0.38
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (23 bp):
GTTTAGCATTTGCAAACATGTTT
Found at i:32323904 original size:21 final size:21
Alignment explanation
Indices: 32323878--32323919 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
32323868 AAATGCAACT
32323878 CATGAACCATTATCATGTGAG
1 CATGAACCATTATCATGTGAG
32323899 CATGAACCATTATCATGTGAG
1 CATGAACCATTATCATGTGAG
32323920 AAACAACTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (21 bp):
CATGAACCATTATCATGTGAG
Found at i:32337174 original size:8 final size:7
Alignment explanation
Indices: 32337141--32337172 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
32337131 CTCATTTTAG
32337141 TTTATTTT
1 TTTA-TTT
32337149 TTTATTT
1 TTTATTT
32337156 TTTATTT
1 TTTATTT
32337163 TTTATTT
1 TTTATTT
32337170 TTT
1 TTT
32337173 TAATGTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTATTT
Found at i:32343460 original size:26 final size:25
Alignment explanation
Indices: 32343411--32343479 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 25
32343401 TCCATTATAT
* * *
32343411 GGCTCTTCGTTAGCTTCCCGATTAAA
1 GGCTCTTTGTGAGCTTCCCAATT-AA
*
32343437 GGCTCTTTGTGAGCTTCCTAATTAA
1 GGCTCTTTGTGAGCTTCCCAATTAA
* *
32343462 TGCTCTCTG-GAGCTTCCC
1 GGCTCTTTGTGAGCTTCCC
32343480 GATATGGATC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 8 0.22
25 9 0.25
26 19 0.53
ACGTcount: A:0.16, C:0.28, G:0.20, T:0.36
Consensus pattern (25 bp):
GGCTCTTTGTGAGCTTCCCAATTAA
Found at i:32347880 original size:5 final size:5
Alignment explanation
Indices: 32347874--32347912 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
32347864 GAAATTCAAG
*
32347874 TCGAG TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGA
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGA
32347913 CAGAAATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (5 bp):
TCGAA
Found at i:32348337 original size:18 final size:18
Alignment explanation
Indices: 32348310--32348349 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
32348300 CACCAATCTG
32348310 TTATTCGAGTTATTCAAA
1 TTATTCGAGTTATTCAAA
* *
32348328 TTATTTGAGTTATTCGAA
1 TTATTCGAGTTATTCAAA
32348346 TTAT
1 TTAT
32348350 AAAATTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCAAA
Found at i:32351550 original size:3 final size:3
Alignment explanation
Indices: 32351542--32351568 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32351532 GATGCTATAT
32351542 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
32351569 TACTAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32359897 original size:20 final size:20
Alignment explanation
Indices: 32359874--32359924 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
32359864 GAAAAACAAG
32359874 AAAATAACAACAAAAC-GGTA
1 AAAATAACAACAAAACAGG-A
* *
32359894 AAAACTAGCAATAAAACAGGA
1 AAAA-TAACAACAAAACAGGA
*
32359915 AAAAGAACAA
1 AAAATAACAA
32359925 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.32
21 15 0.60
22 2 0.08
ACGTcount: A:0.67, C:0.14, G:0.12, T:0.08
Consensus pattern (20 bp):
AAAATAACAACAAAACAGGA
Found at i:32360827 original size:21 final size:21
Alignment explanation
Indices: 32360803--32360898 Score: 108
Period size: 21 Copynumber: 4.7 Consensus size: 21
32360793 TGGTTAAGAG
32360803 TTAAAAATAAAAAAATATTAA
1 TTAAAAATAAAAAAATATTAA
32360824 TTAAAAATAAAAAAATATTAA
1 TTAAAAATAAAAAAATATTAA
**
32360845 TTAAAAATAAAAGTA-ATTAA
1 TTAAAAATAAAAAAATATTAA
* ** *
32360865 --AAATATCATCAAAACATTAA
1 TTAAAAAT-AAAAAAATATTAA
32360885 TTAAAAATAAAAAA
1 TTAAAAATAAAAAA
32360899 GCTTGAAACA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.08
19 3 0.05
20 10 0.16
21 38 0.62
22 5 0.08
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (21 bp):
TTAAAAATAAAAAAATATTAA
Found at i:32361227 original size:132 final size:132
Alignment explanation
Indices: 32360986--32361358 Score: 532
Period size: 132 Copynumber: 2.8 Consensus size: 132
32360976 GCAATTATCT
* * * * *
32360986 AACCATTTAACAAAACAAGCTAATATGTTAAAAATATTAATTAAAAATAAAAGAAAAGCTTGAAG
1 AACCATCTAACCAAAGAA-CTAATATGTTAAAAA-ATTAATTAAAAAT-TAA-AAAAGTTTGAAG
* * * * *
32361051 CAATATGAAATAAAACAAAATGCAAATGTGAGTAGGAGAGGAATTAAACTCAAGACTTAAGGATG
62 CAACATGAAATAAAA-AAAATACAAATGTGAGTAGGAGAAGAATTAAACTCAAGACTCAAGGATA
32361116 TAATTGC
126 TAATTGC
*
32361123 AACTATCTAACCAAAGAACTAATATGTTAAAAAATTAATTAAAAATTAAAAAAGTTTGAAGCAAC
1 AACCATCTAACCAAAGAACTAATATGTTAAAAAATTAATTAAAAATTAAAAAAGTTTGAAGCAAC
**
32361188 ATGAAATAAAAAAAATACAAATGTGAGTAGGAGAAGAATTAAACTTGAGACTCAAGGATATAATT
66 ATGAAATAAAAAAAATACAAATGTGAGTAGGAGAAGAATTAAACTCAAGACTCAAGGATATAATT
32361253 GC
131 GC
* *
32361255 AACCATCTAACCAAAGAACTAATATGTTCAAAAAATTAATTAAAATTTTAAAAAGTTTGAAGCAA
1 AACCATCTAACCAAAGAACTAATATGTT-AAAAAATTAATTAAAAATTAAAAAAGTTTGAAGCAA
* *
32361320 CATGAAAT-GAAAAAATACAAATGTGAGTAAGAGAAGAAT
65 CATGAAATAAAAAAAATACAAATGTGAGTAGGAGAAGAAT
32361359 CGAACCTAAA
Statistics
Matches: 217, Mismatches: 18, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
132 106 0.49
133 67 0.31
134 2 0.01
135 13 0.06
136 15 0.07
137 14 0.06
ACGTcount: A:0.53, C:0.09, G:0.14, T:0.24
Consensus pattern (132 bp):
AACCATCTAACCAAAGAACTAATATGTTAAAAAATTAATTAAAAATTAAAAAAGTTTGAAGCAAC
ATGAAATAAAAAAAATACAAATGTGAGTAGGAGAAGAATTAAACTCAAGACTCAAGGATATAATT
GC
Found at i:32361398 original size:132 final size:130
Alignment explanation
Indices: 32361005--32361399 Score: 436
Period size: 132 Copynumber: 3.0 Consensus size: 130
32360995 ACAAAACAAG
** * *
32361005 CTAATATGTTAAAAATATTAATTAAAAATAAAAGAAAAGCTTGAAGCAATATGAAATAAAACAAA
1 CTAATATGTTAAAAA-ATTAATT-AAAATTTAA-AAAAGTTTGAAGCAACATGAAATAAAA-AAA
* * ** ***
32361070 ATGCAAATGTGAGTAGGAGAGGAATTAAA-CTCAAGACTTAAGGATGTAATTGCAACTATCTAAC
62 ATACAAATGTGAGTAGGAGAAGAA-TAAACCT-AAGACTTAAGGATAAAAGCACAAC-ATCTAAC
32361134 CAAAGAA
124 CAAAGAA
*
32361141 CTAATATGTTAAAAAATTAATTAAAAATTAAAAAAGTTTGAAGCAACATGAAATAAAAAAAATAC
1 CTAATATGTTAAAAAATTAATTAAAATTTAAAAAAGTTTGAAGCAACATGAAATAAAAAAAATAC
* * * * *
32361206 AAATGTGAGTAGGAGAAGAATTAAACTTGAGACTCAAGGATATAATTGCA-ACCATCTAACCAAA
66 AAATGTGAGTAGGAGAAGAA-TAAACCTAAGACTTAAGGATA-AA-AGCACAACATCTAACCAAA
32361270 GAA
128 GAA
* *
32361273 CTAATATGTTCAAAAAATTAATTAAAATTTTAAAAAGTTTGAAGCAACATGAAAT-GAAAAAATA
1 CTAATATGTT-AAAAAATTAATTAAAATTTAAAAAAGTTTGAAGCAACATGAAATAAAAAAAATA
* * * * *
32361337 CAAATGTGAGTAAGAGAAGAATCGAACCTAAAACTTGAGGATAAAAGCACTAACATTTAACCA
65 CAAATGTGAGTAGGAGAAGAAT-AAACCTAAGACTTAAGGATAAAAGCAC-AACATCTAACCA
32361400 TCATACCAAA
Statistics
Matches: 222, Mismatches: 30, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
130 3 0.01
131 3 0.01
132 117 0.53
133 71 0.32
134 6 0.03
135 7 0.03
136 15 0.07
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (130 bp):
CTAATATGTTAAAAAATTAATTAAAATTTAAAAAAGTTTGAAGCAACATGAAATAAAAAAAATAC
AAATGTGAGTAGGAGAAGAATAAACCTAAGACTTAAGGATAAAAGCACAACATCTAACCAAAGAA
Found at i:32366264 original size:20 final size:22
Alignment explanation
Indices: 32366231--32366270 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
32366221 TATTTACATA
*
32366231 AAAAAATATTTAAAA-AGAAAC
1 AAAAAATATGTAAAAGAGAAAC
32366252 AAAAAA-ATGTAAAAGAGAA
1 AAAAAATATGTAAAAGAGAA
32366271 GTAAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAAAATATGTAAAAGAGAAAC
Found at i:32385959 original size:53 final size:53
Alignment explanation
Indices: 32385875--32386033 Score: 221
Period size: 53 Copynumber: 3.0 Consensus size: 53
32385865 CCATGGCATT
*
32385875 GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATCATATGGAAA
1 GAAGACCATATCGTGTAAGACTGTAACTGGTGGGTTATGACATCATATGGAAA
* * * * *
32385928 GAATACCATATTGTGTAAGACTATAACTGGTGGGTCATGAAATCATATGGAAA
1 GAAGACCATATCGTGTAAGACTGTAACTGGTGGGTTATGACATCATATGGAAA
* * *
32385981 GAAGACCATATCATGTAAGA-TCGTAACTGATGGGTTATGGCATCATATGGAAA
1 GAAGACCATATCGTGTAAGACT-GTAACTGGTGGGTTATGACATCATATGGAAA
32386034 AATTAAAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 1 0.01
53 90 0.99
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (53 bp):
GAAGACCATATCGTGTAAGACTGTAACTGGTGGGTTATGACATCATATGGAAA
Found at i:32399279 original size:17 final size:17
Alignment explanation
Indices: 32399260--32399303 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
32399250 ATAAAGTTTG
32399260 AAATATAGGCTAAATTGA
1 AAAT-TAGGCTAAATTGA
* *
32399278 AAATTATGCTAAATTTCA
1 AAATTAGGCTAAA-TTGA
32399296 AAATTAGG
1 AAATTAGG
32399304 AAATTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.32
Consensus pattern (17 bp):
AAATTAGGCTAAATTGA
Found at i:32408503 original size:9 final size:9
Alignment explanation
Indices: 32408489--32408520 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
32408479 TTCAATTTGA
32408489 TTTTTCTTT
1 TTTTTCTTT
32408498 TTTTTCTTT
1 TTTTTCTTT
32408507 TTTTTCTTT
1 TTTTTCTTT
32408516 CTTTT
1 -TTTT
32408521 GTTCTTTCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:32424600 original size:10 final size:10
Alignment explanation
Indices: 32424585--32424609 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32424575 GTCGAATCAC
32424585 AACTTCTTGT
1 AACTTCTTGT
32424595 AACTTCTTGT
1 AACTTCTTGT
32424605 AACTT
1 AACTT
32424610 GGGTAGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (10 bp):
AACTTCTTGT
Found at i:32427852 original size:23 final size:22
Alignment explanation
Indices: 32427810--32427852 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
32427800 ACTAAGTATG
*
32427810 ATTGAAAGATAGAGTTAAAAAA
1 ATTGAAAGATAGAGTGAAAAAA
32427832 ATTGAAAAGAATAG-GTGAAAA
1 ATTG-AAAG-ATAGAGTGAAAA
32427853 TTGGGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (22 bp):
ATTGAAAGATAGAGTGAAAAAA
Found at i:32442824 original size:22 final size:21
Alignment explanation
Indices: 32442783--32442826 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
32442773 GAGACCAAAT
*
32442783 ATTTCAAAGAAGTTTGAGAGA
1 ATTTCAAAGAAGATTGAGAGA
*
32442804 ATTTGAAAGAGAGATTGAGAGA
1 ATTTCAAAGA-AGATTGAGAGA
32442826 A
1 A
32442827 AATAGATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.25
Consensus pattern (21 bp):
ATTTCAAAGAAGATTGAGAGA
Found at i:32451718 original size:31 final size:32
Alignment explanation
Indices: 32451683--32451751 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
32451673 AGTGAAATAT
32451683 AAAATAAAAATTAA-GAAATA-AATTATATTTA
1 AAAATAAAAATTAACGAAATATAATTATA-TTA
* * *
32451714 AAAATGAGAATTAACTAAATATAATTATATTA
1 AAAATAAAAATTAACGAAATATAATTATATTA
32451746 AAAATA
1 AAAATA
32451752 GGTTTAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 12 0.38
32 13 0.41
33 7 0.22
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (32 bp):
AAAATAAAAATTAACGAAATATAATTATATTA
Found at i:32451750 original size:17 final size:16
Alignment explanation
Indices: 32451692--32451751 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
32451682 TAAAATAAAA
32451692 ATTAAGAAATAAATTAT
1 ATTAA-AAATAAATTAT
32451709 ATTTAAAAATGAGAATTA-
1 A-TTAAAAAT-A-AATTAT
* *
32451727 ACTAAATAT-AATTAT
1 ATTAAAAATAAATTAT
32451742 ATTAAAAATA
1 ATTAAAAATA
32451752 GGTTTAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
17 11 0.32
18 6 0.18
19 5 0.15
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTAAAAATAAATTAT
Found at i:32459542 original size:131 final size:130
Alignment explanation
Indices: 32459302--32459699 Score: 476
Period size: 131 Copynumber: 3.0 Consensus size: 130
32459292 GTTTATCTAA
* * *
32459302 CATGAAAAATTTTCTTTGAGTTAGCTGATTTAATATCGTTACTCTAAATAGCTCGCTGATTTAAT
1 CATGAAAAATTTTCTTTGAGTTACCTGATTTAATATCGCTACTCTAAATAGCTCACTGATTTAAT
* * *
32459367 ATCACAACTAATAATGTTAAGGCTCACTAATTTAAAATCACAGCCTAAGTTCATTCGATTTAATA
66 ATCGCAACTAATAATGTTAAGGCTCTC-AATTTAATATCACAGCCTAAGTTCATTCGATTTAATA
32459432 T
130 T
* * * * *
32459433 CATGAAAAATTTTCTTTGAGTTACCCGATTTAATATCACTACTTTAAATAACTTACTGATTTAAT
1 CATGAAAAATTTTCTTTGAGTTACCTGATTTAATATCGCTACTCTAAATAGCTCACTGATTTAAT
* * * * * * * **
32459498 ATTGCAGCTGATAATGTTAAAGCTCGTCGATTTAATATCGCAGCC-AAGTTTATTTAATTTAATA
66 ATCGCAACTAATAATGTTAAGGCTC-TCAATTTAATATCACAGCCTAAGTTCATTCGATTTAATA
32459562 T
130 T
* ** * *
32459563 CAT-AAATAATTTTATTTGAGTTATTTGATTTAATATTGCTACTCTAAATAGCTCACTGATATAA
1 CATGAAA-AATTTTCTTTGAGTTACCTGATTTAATATCGCTACTCTAAATAGCTCACTGATTTAA
* * * * *
32459627 GATCGCAACTAATAATGTTAAGGCTCATTAATTTAATATTATAGCCTAAGTTCATTCGATTTAAC
65 TATCGCAACTAATAATGTTAAGGCTC-TCAATTTAATATCACAGCCTAAGTTCATTCGATTTAAT
32459692 AT
129 AT
32459694 CATGAA
1 CATGAA
32459700 CGATCTCATC
Statistics
Matches: 218, Mismatches: 45, Indels: 7
0.81 0.17 0.03
Matches are distributed among these distances:
129 3 0.01
130 102 0.47
131 110 0.50
132 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (130 bp):
CATGAAAAATTTTCTTTGAGTTACCTGATTTAATATCGCTACTCTAAATAGCTCACTGATTTAAT
ATCGCAACTAATAATGTTAAGGCTCTCAATTTAATATCACAGCCTAAGTTCATTCGATTTAATAT
Found at i:32459742 original size:131 final size:129
Alignment explanation
Indices: 32459327--32459743 Score: 383
Period size: 131 Copynumber: 3.2 Consensus size: 129
32459317 TTGAGTTAGC
** * *
32459327 TGATTTAATATCGTTACTCTAAATAGCTCGCTGATTTAATATCACAACTAATAATGTTAAGGCTC
1 TGATTTAATATCACTACTCTAAATAGCTCACTGATTTAATATCGCAACTAATAATGTTAAGGCTC
* * * *
32459392 ACTAATTTAAAATCACAGCCTAAGTTCATTCGATTTAATATCATGAAAAATTTTCTTTGAGTTAC
66 ATTAATTTAATATCACAGCCTAAGTTCATTCGATTTAATATCATGAAAAATTATCTAT--GTTAC
*
32459457 C
129 T
* * * * * * * *
32459458 CGATTTAATATCACTACTTTAAATAACTTACTGATTTAATATTGCAGCTGATAATGTTAAAGCTC
1 TGATTTAATATCACTACTCTAAATAGCTCACTGATTTAATATCGCAACTAATAATGTTAAGGCTC
* ** * * ** *
32459523 GTCGATTTAATATCGCAGCC-AAGTTTATTTAATTTAATATCAT-AAATAATTTTATTTGA-GTT
66 ATTAATTTAATATCACAGCCTAAGTTCATTCGATTTAATATCATGAAA-AA--TTATCT-ATGTT
*
32459585 ATT
127 ACT
** * *
32459588 TGATTTAATATTGCTACTCTAAATAGCTCACTGATATAAGATCGCAACTAATAATGTTAAGGCTC
1 TGATTTAATATCACTACTCTAAATAGCTCACTGATTTAATATCGCAACTAATAATGTTAAGGCTC
* * * ** *
32459653 ATTAATTTAATATTATAGCCTAAGTTCATTCGATTTAACATCATGAACGATCTCATCTATGTTAG
66 ATTAATTTAATATCACAGCCTAAGTTCATTCGATTTAATATCATGAAAAAT-T-ATCTATGTTAC
32459718 T
129 T
**
32459719 TGATTTCCTAATCACTACT-TAAATA
1 TGATTTAAT-ATCACTACTCTAAATA
32459744 ATATTTGTTA
Statistics
Matches: 220, Mismatches: 56, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
129 4 0.02
130 95 0.43
131 108 0.49
132 13 0.06
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (129 bp):
TGATTTAATATCACTACTCTAAATAGCTCACTGATTTAATATCGCAACTAATAATGTTAAGGCTC
ATTAATTTAATATCACAGCCTAAGTTCATTCGATTTAATATCATGAAAAATTATCTATGTTACT
Found at i:32464121 original size:15 final size:15
Alignment explanation
Indices: 32464101--32464130 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32464091 AACAGAAACG
*
32464101 TGAGGATGAAGAAGA
1 TGAGGAGGAAGAAGA
32464116 TGAGGAGGAAGAAGA
1 TGAGGAGGAAGAAGA
32464131 AGTACCAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.43, T:0.10
Consensus pattern (15 bp):
TGAGGAGGAAGAAGA
Found at i:32469114 original size:3 final size:3
Alignment explanation
Indices: 32469087--32469143 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
32469077 ATTTCCATTT
* * * * *
32469087 CCA CCT CCA CCT CCA CCA CCT CCA CCA CCA CCA CCA CCC CCA CC- CCC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
32469134 CCA CCA CCA C
1 CCA CCA CCA C
32469144 AACTACNNNN
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.23, C:0.72, G:0.00, T:0.05
Consensus pattern (3 bp):
CCA
Found at i:32469941 original size:3 final size:3
Alignment explanation
Indices: 32469935--32469994 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
32469925 ATTTCCTCCT
* *
32469935 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCT CCA CCT CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
*
32469983 CCT CCA CCA CCA
1 CCA CCA CCA CCA
32469995 TTTCCTCCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.28, C:0.67, G:0.00, T:0.05
Consensus pattern (3 bp):
CCA
Found at i:32471009 original size:2 final size:2
Alignment explanation
Indices: 32471002--32471026 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32470992 TGCTTTCTAA
32471002 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32471027 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32478559 original size:51 final size:51
Alignment explanation
Indices: 32478500--32478768 Score: 351
Period size: 51 Copynumber: 5.2 Consensus size: 51
32478490 TGATCAGTGA
*
32478500 CAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACAAATGG
1 CAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAATGG
* * * * *
32478551 CAAGTGATAAGTGATAGCTTCAGCTATACTTATCTAATCAGTGACAAGTGG
1 CAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAATGG
* *
32478602 CAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGA
1 CAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGAC-----A-AA-TGG
*
32478660 CAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAATGG
1 CAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAATGG
* * *
32478711 CAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCGGGGACAAATGA
1 CAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAATGG
*
32478761 TAAGTGAT
1 CAAGTGAT
32478769 CATACGCAAG
Statistics
Matches: 192, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
50 35 0.18
51 107 0.56
52 2 0.01
53 1 0.01
56 1 0.01
57 1 0.01
58 45 0.23
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
CAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAATGG
Found at i:32478653 original size:7 final size:7
Alignment explanation
Indices: 32478641--32478672 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
32478631 TTATCTGATC
32478641 AGTGACA
1 AGTGACA
32478648 AGTGACA
1 AGTGACA
32478655 AGTGACA
1 AGTGACA
*
32478662 AGTGATA
1 AGTGACA
32478669 AGTG
1 AGTG
32478673 GTAGCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:32478691 original size:109 final size:107
Alignment explanation
Indices: 32478495--32478767 Score: 360
Period size: 109 Copynumber: 2.6 Consensus size: 107
32478485 ACTTCTGATC
* * *
32478495 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGAC----AAA-TGGCAAG
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAATGAAAGTGACAAG
* *
32478555 TGATAAGTGATAGCTTCAGCTATACTTATCTAATCAGTGACA
66 TGATAAGTGATAGCTTCAGCTACACTTATCTAATCAATGACA
*
32478597 AGTGGCAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGACA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAA-TGA-AAGTGACA
* * *
32478662 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
64 AGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAATGACA
* * *
32478706 AATGGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCGGGGACAAATGATAAGTGA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGAC-AATGA-AAGTGA
32478768 TCATACGCAA
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
102 47 0.32
107 1 0.01
108 35 0.23
109 66 0.44
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (107 bp):
AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAATGAAAGTGACAAG
TGATAAGTGATAGCTTCAGCTACACTTATCTAATCAATGACA
Found at i:32478847 original size:15 final size:15
Alignment explanation
Indices: 32478827--32478857 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32478817 CAATTTTCCA
32478827 TAATCGTTCCCTAAT
1 TAATCGTTCCCTAAT
32478842 TAATCGTTCCCTAAT
1 TAATCGTTCCCTAAT
32478857 T
1 T
32478858 TGATTAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (15 bp):
TAATCGTTCCCTAAT
Found at i:32482995 original size:13 final size:13
Alignment explanation
Indices: 32482977--32483001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32482967 TTTTTCATCT
32482977 AATTTGATATTTG
1 AATTTGATATTTG
32482990 AATTTGATATTT
1 AATTTGATATTT
32483002 TTTTTCTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
AATTTGATATTTG
Found at i:32489519 original size:15 final size:15
Alignment explanation
Indices: 32489499--32489529 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32489489 ACCTACTTTG
32489499 TATATTTCACTATTT
1 TATATTTCACTATTT
32489514 TATATTTCACTATTT
1 TATATTTCACTATTT
32489529 T
1 T
32489530 CAAGTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (15 bp):
TATATTTCACTATTT
Found at i:32491414 original size:13 final size:13
Alignment explanation
Indices: 32491398--32491425 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32491388 TTTTATTTTA
32491398 TTATTTTTCATCT
1 TTATTTTTCATCT
32491411 TTATTTTTCATCT
1 TTATTTTTCATCT
32491424 TT
1 TT
32491426 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTCATCT
Found at i:32496585 original size:24 final size:24
Alignment explanation
Indices: 32496558--32496609 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
32496548 TTAGTAAGTC
*
32496558 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
32496582 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
32496606 AAAT
1 AAAT
32496610 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:32499945 original size:58 final size:58
Alignment explanation
Indices: 32499883--32500018 Score: 236
Period size: 58 Copynumber: 2.3 Consensus size: 58
32499873 GGTACGTTGC
*
32499883 GTAAGACCATGGATGAAAGATGCCATGACAACATGGTAAAATGTATAAGGTATACAGT
1 GTAAGACCATGGATGAAAGATGCCATGACAACATGGTAAAAGGTATAAGGTATACAGT
* *
32499941 GTAAGACCATGGATGAAAGATGTCATGACAACATGGTAAAAGGTATAAGGTATACGGT
1 GTAAGACCATGGATGAAAGATGCCATGACAACATGGTAAAAGGTATAAGGTATACAGT
*
32499999 GTAAGACCATAGATGAAAGA
1 GTAAGACCATGGATGAAAGA
32500019 GGCTATTACA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 74 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (58 bp):
GTAAGACCATGGATGAAAGATGCCATGACAACATGGTAAAAGGTATAAGGTATACAGT
Found at i:32503440 original size:19 final size:19
Alignment explanation
Indices: 32503407--32503451 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
32503397 TATATTTTTC
** *
32503407 AAATTTTTTTTAAAATTTA
1 AAATTTTTTGAAAAATATA
*
32503426 GAATTTTTTGAAAAATATA
1 AAATTTTTTGAAAAATATA
32503445 AAATTTT
1 AAATTTT
32503452 AAATTTTCAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
AAATTTTTTGAAAAATATA
Found at i:32503463 original size:18 final size:17
Alignment explanation
Indices: 32503441--32503494 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
32503431 TTTTGAAAAA
32503441 TATAAAATTTTAAATTT
1 TATAAAATTTTAAATTT
*
32503458 TCATAAATATTTTGAATTT
1 T-ATAAA-ATTTTAAATTT
*
32503477 TA-AAAATATTATAATTT
1 TATAAAATTTTA-AATTT
32503494 T
1 T
32503495 TTTAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.13
17 10 0.32
18 6 0.19
19 11 0.35
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TATAAAATTTTAAATTT
Found at i:32503469 original size:19 final size:18
Alignment explanation
Indices: 32503441--32503486 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
32503431 TTTTGAAAAA
32503441 TATAAA-ATTTTAAATTT
1 TATAAATATTTTAAATTT
*
32503458 TCATAAATATTTTGAATTT
1 T-ATAAATATTTTAAATTT
*
32503477 TAAAAATATT
1 TATAAATATT
32503487 ATAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 13 0.52
19 11 0.44
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TATAAATATTTTAAATTT
Found at i:32503494 original size:17 final size:18
Alignment explanation
Indices: 32503444--32503494 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
32503434 TGAAAAATAT
*
32503444 AAAATTTTA-AATTTTCA
1 AAAATATTATAATTTTCA
* *
32503461 TAAATATTTTGAATTTT-A
1 AAAATATTAT-AATTTTCA
32503479 AAAATATTATAATTTT
1 AAAATATTATAATTTT
32503495 TTTAATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 12 0.44
18 9 0.33
19 6 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
AAAATATTATAATTTTCA
Found at i:32504606 original size:18 final size:20
Alignment explanation
Indices: 32504575--32504616 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
32504565 CACCAAATAT
*
32504575 AAATATTATAAAAATTATAA
1 AAATATTATAAAAATTAAAA
32504595 AAATATT-T-AAAATTAAAA
1 AAATATTATAAAAATTAAAA
32504613 AAAT
1 AAAT
32504617 TCCTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
19 1 0.05
20 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATATTATAAAAATTAAAA
Found at i:32506137 original size:100 final size:97
Alignment explanation
Indices: 32505948--32506335 Score: 510
Period size: 100 Copynumber: 4.0 Consensus size: 97
32505938 ATTTTTAGAT
* * *
32505948 TTTAGGG-TTTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGG-T--TT-AG---GTTAATTAT
1 TTTAGGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
* *
32506005 AAATTT-TAAAAAATTAGATTAGGGTTTAGTG
66 AAATTTAAAAAAAATTAGATTAGGGTTTAGGG
*
32506036 TTTATGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
*
32506101 AAATTTTGAAAAAAAAATTAGATTAGGGTTTAGTG
66 AAA-TTT--AAAAAAAATTAGATTAGGGTTTAGGG
*
32506136 TTTAGGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
* *
32506201 AAATTTAAAAAATAGATTAGGGTTTAGTGTTTAGGG
66 AAATTTAAAAAA-A-ATTA--GATTAGGGTTTAGGG
* * *
32506237 TTTAGGGTTTTTAAGGAAAAAA-TAAATAAATTAAGGTTT-GTGATTACTTGAGTAAATTAATTA
1 TTTAGGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAG-GGTTACTTGAGTAAATTAATTA
32506300 TAAATTTAAAAAAAATTAGATTAGGGTTTAGGG
65 TAAATTTAAAAAAAATTAGATTAGGGTTTAGGG
32506333 TTT
1 TTT
32506336 TAAAGAAAAA
Statistics
Matches: 267, Mismatches: 16, Indels: 26
0.86 0.05 0.08
Matches are distributed among these distances:
88 6 0.02
89 34 0.13
90 1 0.00
92 2 0.01
93 2 0.01
96 27 0.10
97 9 0.03
98 5 0.02
99 9 0.03
100 139 0.52
101 33 0.12
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.39
Consensus pattern (97 bp):
TTTAGGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
AAATTTAAAAAAAATTAGATTAGGGTTTAGGG
Found at i:32506220 original size:50 final size:50
Alignment explanation
Indices: 32506060--32506227 Score: 136
Period size: 44 Copynumber: 3.4 Consensus size: 50
32506050 GAAAAAAATT
32506060 AAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTGAAAAAA
1 AAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA-TTT----AAA
* * * * ** *
32506115 AAATTAGATTAGGGTTTAGTGTT--TAGGGT-TTTTAA-GA-AAA---AAA
1 AAA-TAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAA
32506158 TCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAA
1 --AAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAA
*
32506210 AAATAGATTAGGGTTTAG
1 AAATAAATTAGGGTTTAG
32506228 TGTTTAGGGT
Statistics
Matches: 87, Mismatches: 15, Indels: 27
0.67 0.12 0.21
Matches are distributed among these distances:
43 3 0.03
44 17 0.20
45 3 0.03
46 4 0.05
47 4 0.05
48 1 0.01
49 3 0.03
50 17 0.20
51 3 0.03
52 4 0.05
53 4 0.05
54 4 0.05
55 3 0.03
56 17 0.20
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (50 bp):
AAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAA
Found at i:32506232 original size:7 final size:7
Alignment explanation
Indices: 32506217--32506246 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
32506207 AAAAAATAGA
32506217 TTAGGGT
1 TTAGGGT
*
32506224 TTAGTGT
1 TTAGGGT
32506231 TTAGGGT
1 TTAGGGT
32506238 TTAGGGT
1 TTAGGGT
32506245 TT
1 TT
32506247 TTAAGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (7 bp):
TTAGGGT
Found at i:32506646 original size:126 final size:126
Alignment explanation
Indices: 32506406--32506820 Score: 636
Period size: 126 Copynumber: 3.3 Consensus size: 126
32506396 TAATTTAAAA
* *
32506406 AAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTG-AAAAATAATTTTGGGAAGAGGTTT
1 AAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGTTT
* * *
32506470 ATGAG-AAATAGTGTCAAAAACGCTTTAAGTAGGATGCATTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
* * *
32506530 AAACTCCCACGTGGATGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTGT
1 AAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGTTT
* *
32506595 CTAAGCAAATAGTGTAAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
* * * * *
32506656 AAGCTCCCATGTGGACGCTCTTTTACTATAGTAGTTCCTGAAAAAATAATTTTGATAAGATGTTT
1 AAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGTTT
* *
32506721 CTGAGCAAATAGTGTCAAAAACACTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
* * *
32506782 AAGCTCTCACGTGGACGCTCTTTTGCTATAGTAGTTCCT
1 AAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT
32506821 ATTTGGCCTG
Statistics
Matches: 264, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
124 38 0.14
125 24 0.09
126 202 0.77
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (126 bp):
AAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGTTT
CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
Found at i:32507838 original size:243 final size:243
Alignment explanation
Indices: 32507398--32507856 Score: 756
Period size: 243 Copynumber: 1.9 Consensus size: 243
32507388 ATGAGACATG
*
32507398 CACCTCGGTGGGTCGGTGTTTGATGCTGAAAATACGTACTGGGGAACGACATCAACTTCTAGTAG
1 CACCTCGGTGGGTCGATGTTTGATGCTGAAAATACGTACTGGGGAACGACATCAACTTCTAGTAG
* * * *
32507463 TTGGCAATCTACATCTAATTGGAGATGTTATGAAACGCCCAGAAGAAGGGATGATGTATTCCCTA
66 TTGGCAATCTACATCCAAATGGAGACGTTATGAAACGCCCAGAAGAAGGGATAATGTATTCCCTA
* * * *
32507528 CAACGTCTACCGGTGAGGGGACCTCGTACGTTGCATATGATGGTGGGTTAGAATATGAGTCCGAT
131 CAACGTCCACCGGTGAGGGGACCTCGTACGTTACAGATGATGGTGGGTTAGAAGATGAGTCCGAT
32507593 GTGGATCCACCTCAAGAGCCCGAACCTGATGGTGCAGAAGTTACACAA
196 GTGGATCCACCTCAAGAGCCCGAACCTGATGGTGCAGAAGTTACACAA
* *
32507641 CACCTCGGTGGGTTGATGTTTGATGCTGAAAATACGTACTGGGGAACGACATCAACTTCTAGTGG
1 CACCTCGGTGGGTCGATGTTTGATGCTGAAAATACGTACTGGGGAACGACATCAACTTCTAGTAG
* *
32507706 TTGGCAATCTACGTCCAAATGGGGACGTTATGAAACGCCCAGAAGAAGGGATAATGTATTCCCTA
66 TTGGCAATCTACATCCAAATGGAGACGTTATGAAACGCCCAGAAGAAGGGATAATGTATTCCCTA
** * *
32507771 GGACGTCCACCGGTGAGGGGACCTTGTACGTTACAGATGATGGTGGGTTAGAAGATGAGTTCGAT
131 CAACGTCCACCGGTGAGGGGACCTCGTACGTTACAGATGATGGTGGGTTAGAAGATGAGTCCGAT
*
32507836 GTGGATCCACCTCGAGAGCCC
196 GTGGATCCACCTCAAGAGCCC
32507857 AGCCCCAATG
Statistics
Matches: 198, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
243 198 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (243 bp):
CACCTCGGTGGGTCGATGTTTGATGCTGAAAATACGTACTGGGGAACGACATCAACTTCTAGTAG
TTGGCAATCTACATCCAAATGGAGACGTTATGAAACGCCCAGAAGAAGGGATAATGTATTCCCTA
CAACGTCCACCGGTGAGGGGACCTCGTACGTTACAGATGATGGTGGGTTAGAAGATGAGTCCGAT
GTGGATCCACCTCAAGAGCCCGAACCTGATGGTGCAGAAGTTACACAA
Found at i:32510300 original size:21 final size:21
Alignment explanation
Indices: 32510246--32510301 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
32510236 CAGCTTTCGA
* * *
32510246 TGAGGGTTGTGGTTGCTCCGG
1 TGAGGATTCTGGTTCCTCCGG
32510267 TGAGGATTCTGGTTCCTCCGG
1 TGAGGATTCTGGTTCCTCCGG
*
32510288 TAGGGGATT-TGGTT
1 T-GAGGATTCTGGTT
32510302 ATCAATGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 24 0.80
22 6 0.20
ACGTcount: A:0.09, C:0.14, G:0.41, T:0.36
Consensus pattern (21 bp):
TGAGGATTCTGGTTCCTCCGG
Found at i:32510570 original size:18 final size:18
Alignment explanation
Indices: 32510544--32510586 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32510534 GACTAGAAAA
* * *
32510544 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGAT
32510562 AGGATACATAAAAGGGAT
1 AGGATACATAAAAGGGAT
32510580 AGGATAC
1 AGGATAC
32510587 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGAT
Found at i:32511226 original size:7 final size:7
Alignment explanation
Indices: 32511216--32511248 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
32511206 TTATATACAT
32511216 AATACTA
1 AATACTA
32511223 AATACTA
1 AATACTA
32511230 AATACTA
1 AATACTA
32511237 AATACTA
1 AATACTA
32511244 AATAC
1 AATAC
32511249 GAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:32521780 original size:16 final size:17
Alignment explanation
Indices: 32521759--32521799 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
32521749 AGTATTTTTA
*
32521759 AGAATATCATCATATT-
1 AGAATAACATCATATTG
*
32521775 AGAATAACATCATGTTG
1 AGAATAACATCATATTG
32521792 AGAATAAC
1 AGAATAAC
32521800 CTTGGAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
AGAATAACATCATATTG
Found at i:32522766 original size:3 final size:3
Alignment explanation
Indices: 32522758--32522786 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32522748 TGTATATTAA
32522758 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
32522787 AAGAGCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:32531378 original size:22 final size:22
Alignment explanation
Indices: 32531352--32531395 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32531342 TTATCCTTTC
*
32531352 CCCTTTTAGTCGAGGATTCTAG
1 CCCTTTTAGTCAAGGATTCTAG
32531374 CCCTTTTAGTCAAGGATTCTAG
1 CCCTTTTAGTCAAGGATTCTAG
32531396 TATGACGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (22 bp):
CCCTTTTAGTCAAGGATTCTAG
Found at i:32551659 original size:16 final size:16
Alignment explanation
Indices: 32551620--32551652 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
32551610 CGTTTGGTTC
32551620 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
32551636 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
32551652 G
1 G
32551653 GCGTAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:32551702 original size:45 final size:44
Alignment explanation
Indices: 32551638--32551733 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 44
32551628 GGAATAGAGC
32551638 TGTAATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGAA
*
32551683 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAA
*
32551727 TGGAATG
1 TGTAATG
32551734 ATATTGTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAA
Found at i:32554343 original size:49 final size:49
Alignment explanation
Indices: 32554271--32554374 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
32554261 GAAAAAAAAC
* * * *
32554271 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
32554320 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
32554369 AAATTA
1 AAATTA
32554375 TAACACTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
Found at i:32557686 original size:20 final size:21
Alignment explanation
Indices: 32557661--32557700 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
32557651 ATAAACAGAA
32557661 ACAG-AAAACATCAACTTAAT
1 ACAGAAAAACATCAACTTAAT
32557681 ACAGAAAAACATCAACTTAA
1 ACAGAAAAACATCAACTTAA
32557701 CAGAAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.57, C:0.20, G:0.05, T:0.17
Consensus pattern (21 bp):
ACAGAAAAACATCAACTTAAT
Found at i:32557720 original size:12 final size:12
Alignment explanation
Indices: 32557705--32557731 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32557695 ACTTAACAGA
32557705 AACCAAAACATG
1 AACCAAAACATG
32557717 AACCAAAACATG
1 AACCAAAACATG
32557729 AAC
1 AAC
32557732 TTAACAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.26, G:0.07, T:0.07
Consensus pattern (12 bp):
AACCAAAACATG
Found at i:32557840 original size:45 final size:45
Alignment explanation
Indices: 32557712--32557832 Score: 206
Period size: 45 Copynumber: 2.7 Consensus size: 45
32557702 AGAAACCAAA
* * *
32557712 ACATGAACCAAAACATGAACTTAACAGAAGCATGAACATTATAAT
1 ACATAAACCAAAACATGAACTTAACAGAAACATGAACATTATAAC
32557757 ACATAAACCAAAACATGAACTTAACAGAAACATGAACATTATAAC
1 ACATAAACCAAAACATGAACTTAACAGAAACATGAACATTATAAC
*
32557802 ACATAAACCTAAACATGAACTTAACAGAAAC
1 ACATAAACCAAAACATGAACTTAACAGAAAC
32557833 CAAAACATGA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.54, C:0.20, G:0.08, T:0.18
Consensus pattern (45 bp):
ACATAAACCAAAACATGAACTTAACAGAAACATGAACATTATAAC
Found at i:32557852 original size:113 final size:113
Alignment explanation
Indices: 32557717--32557957 Score: 455
Period size: 113 Copynumber: 2.1 Consensus size: 113
32557707 CCAAAACATG
* *
32557717 AACCAAAACATGAACTTAACAGAAGCATGAACATTATAATACATAAACCAAAACATGAACTTAAC
1 AACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAAC
*
32557782 AGAAACATGAACATTATAACACATAAACCTAAACATGAACTTAACAGA
66 AGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAACAGA
32557830 AACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAAC
1 AACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAAC
32557895 AGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAACAGA
66 AGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAACAGA
32557943 AACCAAAACATGAAC
1 AACCAAAACATGAAC
32557958 ATTATAACAC
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 125 1.00
ACGTcount: A:0.55, C:0.20, G:0.07, T:0.17
Consensus pattern (113 bp):
AACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAAC
AGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAACAGA
Found at i:32557857 original size:17 final size:16
Alignment explanation
Indices: 32557833--32557906 Score: 59
Period size: 17 Copynumber: 4.8 Consensus size: 16
32557823 TAACAGAAAC
32557833 CAAAACATGAACTTAA
1 CAAAACATGAACTTAA
32557849 CAGAAACATGAACATT-A
1 CA-AAACATGAAC-TTAA
* * *
32557866 TAACACAT-AA---AC
1 CAAAACATGAACTTAA
32557878 CAAAACATGAACTTAA
1 CAAAACATGAACTTAA
32557894 CAGAAACATGAAC
1 CA-AAACATGAAC
32557907 ATTATAACAC
Statistics
Matches: 44, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
12 6 0.14
13 2 0.05
15 2 0.05
16 10 0.23
17 22 0.50
18 2 0.05
ACGTcount: A:0.55, C:0.20, G:0.08, T:0.16
Consensus pattern (16 bp):
CAAAACATGAACTTAA
Found at i:32557908 original size:68 final size:68
Alignment explanation
Indices: 32557761--32557900 Score: 271
Period size: 68 Copynumber: 2.1 Consensus size: 68
32557751 TATAATACAT
*
32557761 AAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCTAAACATGAACTTAA
1 AAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAA
32557826 CAG
66 CAG
32557829 AAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAA
1 AAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAA
32557894 CAG
66 CAG
32557897 AAAC
1 AAAC
32557901 ATGAACATTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.56, C:0.21, G:0.07, T:0.16
Consensus pattern (68 bp):
AAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACATAAACCAAAACATGAACTTAA
CAG
Found at i:32557958 original size:51 final size:45
Alignment explanation
Indices: 32557829--32557945 Score: 234
Period size: 45 Copynumber: 2.6 Consensus size: 45
32557819 AACTTAACAG
32557829 AAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACAT
1 AAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACAT
32557874 AAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACAT
1 AAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACAT
32557919 AAACCAAAACATGAACTTAACAGAAAC
1 AAACCAAAACATGAACTTAACAGAAAC
32557946 CAAAACATGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.56, C:0.21, G:0.07, T:0.16
Consensus pattern (45 bp):
AAACCAAAACATGAACTTAACAGAAACATGAACATTATAACACAT
Found at i:32559247 original size:5 final size:5
Alignment explanation
Indices: 32559237--32559262 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32559227 TTGATTTTAC
32559237 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
32559263 ACAAGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:32559331 original size:17 final size:18
Alignment explanation
Indices: 32559309--32559349 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
32559299 AAATGGAGAA
32559309 AAGAAAAGAAACGT-GAG
1 AAGAAAAGAAACGTAGAG
*
32559326 AAGAAAAGAAGCGTACGAG
1 AAGAAAAGAAACGTA-GAG
32559345 AAGAA
1 AAGAA
32559350 GAAGCAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.59, C:0.07, G:0.29, T:0.05
Consensus pattern (18 bp):
AAGAAAAGAAACGTAGAG
Found at i:32573006 original size:49 final size:48
Alignment explanation
Indices: 32572936--32573042 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 48
32572926 ATTTTTAAAA
*
32572936 CTATTTCC-TTTTTTGTCTTTCTTTTTCTTGGTGATGTTT-TTCCTTCC
1 CTATTTCCTTTTTTTGTCTTTCTTTTTCATGGTGATGTTTCTT-CTTCC
* *
32572983 CTATTTCCTTCTTTTTTTTTTTCTTTTTCATGGTGATGTTTCTTCTTCC
1 CTATTTCCTT-TTTTTGTCTTTCTTTTTCATGGTGATGTTTCTTCTTCC
*
32573032 CAATTTCCTTT
1 CTATTTCCTTT
32573043 GCTCTTCTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
47 8 0.15
48 2 0.04
49 41 0.77
50 2 0.04
ACGTcount: A:0.07, C:0.21, G:0.08, T:0.64
Consensus pattern (48 bp):
CTATTTCCTTTTTTTGTCTTTCTTTTTCATGGTGATGTTTCTTCTTCC
Found at i:32574960 original size:29 final size:27
Alignment explanation
Indices: 32574926--32574991 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 27
32574916 AATAACATTT
*
32574926 TTAAAAATCCTATCGCTGCTTTAATTTAC
1 TTAAAAACCCTATCGCTGCTTTAA-TT-C
* * *
32574955 TTAAAAACCCTGTGGTTGCTTTAATTC
1 TTAAAAACCCTATCGCTGCTTTAATTC
32574982 TTAAAAACCC
1 TTAAAAACCC
32574992 AATGTGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 11 0.33
28 2 0.06
29 20 0.61
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (27 bp):
TTAAAAACCCTATCGCTGCTTTAATTC
Found at i:32577099 original size:32 final size:33
Alignment explanation
Indices: 32577052--32577140 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 33
32577042 GTATATGCTT
*
32577052 TATATATTGCCGAATTGATTTAAATATAG-AT-A
1 TATATATTGTCGAATTGATTTAAATAT-GTATAA
* * **
32577084 TATACATTGTCGAATTAATTTTTATATGTATACA
1 TATATATTGTCGAATTGATTTAAATATGTATA-A
*
32577118 TATATATTGTTGAATTGATTTAA
1 TATATATTGTCGAATTGATTTAA
32577141 GCATTGGATG
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
31 1 0.02
32 24 0.55
34 19 0.43
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (33 bp):
TATATATTGTCGAATTGATTTAAATATGTATAA
Found at i:32578954 original size:5 final size:5
Alignment explanation
Indices: 32578944--32578974 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
32578934 TACCTTATTT
*
32578944 GGAGA GGAGA GGAGA GGAGG GGAGA GGAGA G
1 GGAGA GGAGA GGAGA GGAGA GGAGA GGAGA G
32578975 TATAGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (5 bp):
GGAGA
Found at i:32582440 original size:15 final size:15
Alignment explanation
Indices: 32582415--32582449 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
32582405 AACTCTATTT
*
32582415 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
32582429 TAATTAATATTAAGA
1 TAATTAATATTAAGA
32582444 TAATTA
1 TAATTA
32582450 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:32583460 original size:11 final size:11
Alignment explanation
Indices: 32583429--32583462 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
32583419 AGGGATAGGA
**
32583429 TATTCTTTTAC
1 TATTCTTTTTT
32583440 TATTCTTTTTT
1 TATTCTTTTTT
32583451 TATTCTTTTTT
1 TATTCTTTTTT
32583462 T
1 T
32583463 CTTTACACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTCTTTTTT
Found at i:32586108 original size:22 final size:20
Alignment explanation
Indices: 32586065--32586108 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
32586055 AGCATAAAAC
*
32586065 ATATAAAAAATACATTGTTA
1 ATATAAAAAATACATTATTA
*
32586085 ATATAAAAAAATATATTATATA
1 ATAT-AAAAAATACATTAT-TA
32586107 AT
1 AT
32586109 CTATTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATAAAAAATACATTATTA
Found at i:32590117 original size:13 final size:14
Alignment explanation
Indices: 32590087--32590124 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
32590077 TAAAAATAAT
32590087 TTAAATTTTATCTA
1 TTAAATTTTATCTA
32590101 TTAAATTTTAT-TA
1 TTAAATTTTATCTA
32590114 TTAAATATTTA
1 TTAAAT-TTTA
32590125 ATTCAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAAATTTTATCTA
Found at i:32590580 original size:23 final size:23
Alignment explanation
Indices: 32590554--32590604 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
32590544 TCTAGAGACT
* *
32590554 GGATTCTTGTTTC-TTTCTTGATA
1 GGATTCTTGCTTCAATTCTTGA-A
*
32590577 GGATTTTTGCTTCAATTCTTGAA
1 GGATTCTTGCTTCAATTCTTGAA
32590600 GGATT
1 GGATT
32590605 GTGGAAGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.18, C:0.12, G:0.20, T:0.51
Consensus pattern (23 bp):
GGATTCTTGCTTCAATTCTTGAA
Found at i:32591094 original size:17 final size:17
Alignment explanation
Indices: 32591072--32591169 Score: 54
Period size: 17 Copynumber: 5.4 Consensus size: 17
32591062 GGTTAACGTC
32591072 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
32591089 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
32591108 CTTATGTAATAG-TTTTAA
1 -TTATGTAAT-GTTTTTAA
* **
32591126 TTATGTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
*
32591145 TTTATGTAATGCTTTTAA
1 -TTATGTAATGTTTTTAA
32591163 TTATGTA
1 TTATGTA
32591170 GTGATTTAAT
Statistics
Matches: 58, Mismatches: 15, Indels: 16
0.65 0.17 0.18
Matches are distributed among these distances:
16 1 0.02
17 24 0.41
18 8 0.14
19 7 0.12
20 17 0.29
21 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:32591151 original size:20 final size:18
Alignment explanation
Indices: 32591087--32591178 Score: 64
Period size: 17 Copynumber: 5.0 Consensus size: 18
32591077 TAATGTTTTT
*
32591087 AATTATGTAGTGATTCAA
1 AATTATGTAGTGATTTAA
* *
32591105 AGACTTATGTAAT-AGTTT-T
1 A-A-TTATGTAGTGA-TTTAA
32591124 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
* * *
32591142 AGATTTATGTAATGCTTT-T
1 A-A-TTATGTAGTGATTTAA
32591161 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
32591179 TTCGGGTAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
17 23 0.42
18 5 0.09
19 5 0.09
20 22 0.40
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (18 bp):
AATTATGTAGTGATTTAA
Found at i:32591176 original size:37 final size:36
Alignment explanation
Indices: 32591071--32591178 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 36
32591061 CGGTTAACGT
*
32591071 CTTATGTAATGTTTTTAATTATGTAGTGATTCAAAGA
1 CTTATGTAATG-TTTTAATTATGTAGTGATTTAAAGA
32591108 CTTATGTAATAGTTTTAATTATGTAGTGATTTAAAGA
1 CTTATGTAAT-GTTTTAATTATGTAGTGATTTAAAGA
*
32591145 TTTATGTAATGCTTTTAATTATGTAGTGATTTAA
1 CTTATGTAATG-TTTTAATTATGTAGTGATTTAA
32591179 TTCGGGTAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
36 1 0.01
37 65 0.97
38 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (36 bp):
CTTATGTAATGTTTTAATTATGTAGTGATTTAAAGA
Found at i:32591194 original size:9 final size:9
Alignment explanation
Indices: 32591176--32591256 Score: 99
Period size: 9 Copynumber: 8.6 Consensus size: 9
32591166 TGTAGTGATT
32591176 TAATTCGGG
1 TAATTCGGG
*
32591185 TAATTTGGG
1 TAATTCGGG
32591194 TAATTTTCGGG
1 TAA--TTCGGG
*
32591205 TAACTCGGG
1 TAATTCGGG
32591214 TAATTTTCGGG
1 TAA--TTCGGG
32591225 TAATTCGGG
1 TAATTCGGG
32591234 TAATTCGGG
1 TAATTCGGG
*
32591243 TAATTCAGG
1 TAATTCGGG
32591252 TAATT
1 TAATT
32591257 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
9 47 0.75
11 16 0.25
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:32591204 original size:20 final size:20
Alignment explanation
Indices: 32591179--32591258 Score: 119
Period size: 20 Copynumber: 4.1 Consensus size: 20
32591169 AGTGATTTAA
*
32591179 TTCGGGTAATTTGGGTAATT
1 TTCGGGTAATTCGGGTAATT
*
32591199 TTCGGGTAACTCGGGTAATT
1 TTCGGGTAATTCGGGTAATT
32591219 TTCGGGTAATTCGGGTAA--
1 TTCGGGTAATTCGGGTAATT
*
32591237 TTCGGGTAATTCAGGTAATT
1 TTCGGGTAATTCGGGTAATT
32591257 TT
1 TT
32591259 TAACCAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
18 17 0.31
20 37 0.69
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.40
Consensus pattern (20 bp):
TTCGGGTAATTCGGGTAATT
Found at i:32591231 original size:29 final size:29
Alignment explanation
Indices: 32591180--32591247 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
32591170 GTGATTTAAT
32591180 TCGGGTAA-TTTGGGTAATTTTCGGGTAAC
1 TCGGGTAATTTTGGGTAA-TTTCGGGTAAC
*
32591209 TCGGGTAATTTTCGGGTAA-TTCGGGTAAT
1 TCGGGTAATTTT-GGGTAATTTCGGGTAAC
32591238 TCGGGTAATT
1 TCGGGTAATT
32591248 CAGGTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 27 0.75
30 3 0.08
31 6 0.17
ACGTcount: A:0.21, C:0.10, G:0.31, T:0.38
Consensus pattern (29 bp):
TCGGGTAATTTTGGGTAATTTCGGGTAAC
Found at i:32594276 original size:39 final size:39
Alignment explanation
Indices: 32594220--32594415 Score: 259
Period size: 39 Copynumber: 5.0 Consensus size: 39
32594210 CGATGAGGAC
* * * *
32594220 CTGCCCCTTGCAAAACTTGAATCTCTGCCCAGGAAGTCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
* *
32594259 CTGCCCCTCGCAGAACTTGAATCTCTGCCCTGAAAATCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
* * *
32594298 CTGCCCCTAGCTGAACTTGAATCTTTGCCCTGAAAATCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
32594337 CTGCCCCTAGCAGAACTTGAATCTCTG-CCATGAAAATCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCA-GAAAATCA
** * *
32594376 CTGCCCCCCGCAGAACTTGAATCTCTTCCCTGAAAATCA
1 CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
32594415 C
1 C
32594416 GGTGCCTTGG
Statistics
Matches: 140, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 2 0.01
39 136 0.97
40 2 0.01
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (39 bp):
CTGCCCCTAGCAGAACTTGAATCTCTGCCCAGAAAATCA
Found at i:32601673 original size:16 final size:16
Alignment explanation
Indices: 32601652--32601705 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
32601642 AGCTACTAAC
*
32601652 ATTTTAGATTATTTGT
1 ATTTTAGATTATTTAT
* *
32601668 ATTTTAG-TCACTTAT
1 ATTTTAGATTATTTAT
* *
32601683 ATTTTAAATTATTTTT
1 ATTTTAGATTATTTAT
32601699 ATTTTAG
1 ATTTTAG
32601706 TCACCTTGAT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (16 bp):
ATTTTAGATTATTTAT
Found at i:32601674 original size:31 final size:31
Alignment explanation
Indices: 32601646--32601709 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
32601636 TAATTTAGCT
*
32601646 ACTAACATTTTAGATTATTTGTATTTTAGTC
1 ACTAACATTTTAAATTATTTGTATTTTAGTC
* * *
32601677 ACTTATATTTTAAATTATTTTTATTTTAGTC
1 ACTAACATTTTAAATTATTTGTATTTTAGTC
32601708 AC
1 AC
32601710 CTTGATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (31 bp):
ACTAACATTTTAAATTATTTGTATTTTAGTC
Found at i:32602141 original size:26 final size:24
Alignment explanation
Indices: 32602092--32602141 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
32602082 TCTATATTTT
* *
32602092 ATAAAAAATATTTAAAAATTTAAA
1 ATAAAAAATATTCAAAAATATAAA
32602116 ATAAAAAATATATCAAAATATATAAA
1 ATAAAAAATAT-TCAAAA-ATATAAA
32602142 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 5 0.23
26 6 0.27
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
ATAAAAAATATTCAAAAATATAAA
Found at i:32604955 original size:31 final size:31
Alignment explanation
Indices: 32604885--32604956 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
32604875 ATTTAATGGA
* *
32604885 GAGTGACCAAAATAGAAACAATTTAAAACGT
1 GAGTGACTAAAATAGAAACAATCTAAAACGT
* ** *
32604916 GAGGGACTAAAATAGAAATTATCTAAAATGT
1 GAGTGACTAAAATAGAAACAATCTAAAACGT
*
32604947 TAGTGACTAA
1 GAGTGACTAA
32604957 GTTGAAAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.24
Consensus pattern (31 bp):
GAGTGACTAAAATAGAAACAATCTAAAACGT
Found at i:32621247 original size:57 final size:59
Alignment explanation
Indices: 32621180--32621290 Score: 163
Period size: 57 Copynumber: 1.9 Consensus size: 59
32621170 ATTTCCAAGC
* * * * *
32621180 CATTTTCATTTTGGAGAAAGCCACA-TTCATTTCTAAATGTTT-CTATTTCTCTTTTTT
1 CATTTTCATTTAGGAGAAAACCACATTTCATTTCCAAACGTTTCCCATTTCTCTTTTTT
32621237 CATTTTCATTTAGGAGAAAACCACATTTCATTTCCAAACGTTTCCCATTTCTCT
1 CATTTTCATTTAGGAGAAAACCACATTTCATTTCCAAACGTTTCCCATTTCTCT
32621291 ATTTCTATTC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 23 0.49
58 15 0.32
59 9 0.19
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (59 bp):
CATTTTCATTTAGGAGAAAACCACATTTCATTTCCAAACGTTTCCCATTTCTCTTTTTT
Found at i:32621302 original size:57 final size:57
Alignment explanation
Indices: 32621184--32621304 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
32621174 CCAAGCCATT
* * * * * * *
32621184 TTCATTTTGGAGAAAGCCACATTCATTTCTAAATGTTTCTATTTCTCTTTTTTCATT
1 TTCATTTAGGAGAAAACCACATTCATTTCCAAACGTTTCCATTTCTCTTATTTCATA
32621241 TTCATTTAGGAGAAAACCACATTTCATTTCCAAACGTTTCCCATTTCTC-TATTTC-TA
1 TTCATTTAGGAGAAAACCACA-TTCATTTCCAAACGTTT-CCATTTCTCTTATTTCATA
32621298 TTCATTT
1 TTCATTT
32621305 TTATTAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
57 27 0.49
58 20 0.36
59 8 0.15
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.47
Consensus pattern (57 bp):
TTCATTTAGGAGAAAACCACATTCATTTCCAAACGTTTCCATTTCTCTTATTTCATA
Found at i:32626998 original size:27 final size:27
Alignment explanation
Indices: 32626960--32627014 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
32626950 CTGTAACCAT
32626960 TAAGAAAGGTTTTTCTTTCTATCTATC
1 TAAGAAAGGTTTTTCTTTCTATCTATC
*
32626987 TAAGAAATGTTTTTCTTTCTATCTATC
1 TAAGAAAGGTTTTTCTTTCTATCTATC
32627014 T
1 T
32627015 TCTAATTCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (27 bp):
TAAGAAAGGTTTTTCTTTCTATCTATC
Found at i:32628500 original size:4 final size:4
Alignment explanation
Indices: 32628491--32628743 Score: 299
Period size: 4 Copynumber: 62.8 Consensus size: 4
32628481 TTTATTACCG
* *
32628491 TACA TACA TACA TACG TACA TACA TACA TACA TACA TACA TACG TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
32628539 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * *
32628587 TACA TACA TACA TGCA TGCA TGCA TGCA TACA TGCA TACAA TGCA TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC-A TACA TACA
* * * * * * * * *
32628636 TGCA TACAA TGCA TCCA TGCA TACA TGCA TCCA TGCA TACA TGCA TCCA
1 TACA TAC-A TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
32628685 TGCA TCCA TGCA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
32628733 TACA TACA TAC
1 TACA TACA TAC
32628744 TCACCTAAAT
Statistics
Matches: 219, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
4 213 0.97
5 6 0.03
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:32635195 original size:102 final size:102
Alignment explanation
Indices: 32635019--32635222 Score: 372
Period size: 102 Copynumber: 2.0 Consensus size: 102
32635009 TAAAGTTACC
* *
32635019 CCCTCTATTTTTCTTACAGGTAATCCCCAGTCTTAATGACCGGTGCTGTGAGAGACTCGGAAGTG
1 CCCTCTATTTTTCTTACAGGTAATCCCCAGTCTTAAGGACCGGTGCTGCGAGAGACTCGGAAGTG
32635084 GCCACACAACCGCACCTGCTACTATACTGGATTTTTT
66 GCCACACAACCGCACCTGCTACTATACTGGATTTTTT
* *
32635121 CCCTCTGTTTTTCTTACAGGTAATCCCCAGTCTTAAGGACCGGTGCTGCGAGAGACTCGGAGGTG
1 CCCTCTATTTTTCTTACAGGTAATCCCCAGTCTTAAGGACCGGTGCTGCGAGAGACTCGGAAGTG
32635186 GCCACACAACCGCACCTGCTACTATACTGGATTTTTT
66 GCCACACAACCGCACCTGCTACTATACTGGATTTTTT
32635223 TACTTATATT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 98 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (102 bp):
CCCTCTATTTTTCTTACAGGTAATCCCCAGTCTTAAGGACCGGTGCTGCGAGAGACTCGGAAGTG
GCCACACAACCGCACCTGCTACTATACTGGATTTTTT
Found at i:32639888 original size:17 final size:17
Alignment explanation
Indices: 32639866--32639898 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32639856 AAAAATAAAT
*
32639866 AAATAAATAACGAAAAG
1 AAATAAATAAAGAAAAG
32639883 AAATAAATAAAGAAAA
1 AAATAAATAAAGAAAA
32639899 ATAAACAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (17 bp):
AAATAAATAAAGAAAAG
Found at i:32652341 original size:21 final size:21
Alignment explanation
Indices: 32652291--32652334 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
32652281 GGGATTGAAA
32652291 TAATGTAAAACAAGACAAAAT
1 TAATGTAAAACAAGACAAAAT
*
32652312 TAATGTAAAACAAGATAAAAT
1 TAATGTAAAACAAGACAAAAT
32652333 TA
1 TA
32652335 GGTTAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.23
Consensus pattern (21 bp):
TAATGTAAAACAAGACAAAAT
Found at i:32657525 original size:26 final size:26
Alignment explanation
Indices: 32657496--32657547 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
32657486 AAGAACCTAA
32657496 CAACCAATGACTTAAATAAAAATTTT
1 CAACCAATGACTTAAATAAAAATTTT
32657522 CAACCAATGACTTAAATAAAAATTTT
1 CAACCAATGACTTAAATAAAAATTTT
32657548 TGAATAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (26 bp):
CAACCAATGACTTAAATAAAAATTTT
Found at i:32657569 original size:31 final size:31
Alignment explanation
Indices: 32657531--32657591 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
32657521 TCAACCAATG
*
32657531 ACTTAAATAAAAATTTTTGAATAGTTTAATA
1 ACTTAAATAAAAATTTTTAAATAGTTTAATA
32657562 ACTTAAATAAAAATTTTTAAATAGTTTAAT
1 ACTTAAATAAAAATTTTTAAATAGTTTAAT
32657592 GATTCTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (31 bp):
ACTTAAATAAAAATTTTTAAATAGTTTAATA
Found at i:32664264 original size:72 final size:73
Alignment explanation
Indices: 32664183--32664328 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 73
32664173 TTGTAGACAT
32664183 AAATTTAAATGTCTATAATTTATCGATTAATGTTATTAATTTTAATTGTGGTAATACCACT-GTA
1 AAATTTAAATGTCTATAATTTATCGATTAATGTTATTAATTTTAATTGTGGTAATACCACTAGTA
32664247 TTCCTATG
66 TTCCTATG
32664255 AAATTTAAATGTCTATAATTTATCGATTAATGTTATTAATTTTAATTGTGGTAATACCACTGAGT
1 AAATTTAAATGTCTATAATTTATCGATTAATGTTATTAATTTTAATTGTGGTAATACCACT-AGT
32664320 ATTCCTATG
65 ATTCCTATG
32664329 TATGTTATTA
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
72 61 0.85
74 11 0.15
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.45
Consensus pattern (73 bp):
AAATTTAAATGTCTATAATTTATCGATTAATGTTATTAATTTTAATTGTGGTAATACCACTAGTA
TTCCTATG
Found at i:32664296 original size:36 final size:36
Alignment explanation
Indices: 32664184--32664296 Score: 90
Period size: 36 Copynumber: 3.1 Consensus size: 36
32664174 TGTAGACATA
32664184 AATTTAAATGTCTATAATTTATCGATTAATGTTATT
1 AATTTAAATGTCTATAATTTATCGATTAATGTTATT
* ** * * ** *
32664220 AATTTTAATTGT-GGTAA--TA-CCACTGTATTCCTATGA
1 AA-TTTAAATGTCTATAATTTATCGA-T-TAATGTTAT-T
32664256 AATTTAAATGTCTATAATTTATCGATTAATGTTATT
1 AATTTAAATGTCTATAATTTATCGATTAATGTTATT
32664292 AATTT
1 AATTT
32664297 TAATTGTGGT
Statistics
Matches: 53, Mismatches: 16, Indels: 16
0.62 0.19 0.19
Matches are distributed among these distances:
33 2 0.04
34 3 0.06
35 14 0.26
36 15 0.28
37 14 0.26
38 3 0.06
39 2 0.04
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (36 bp):
AATTTAAATGTCTATAATTTATCGATTAATGTTATT
Found at i:32667410 original size:37 final size:35
Alignment explanation
Indices: 32667369--32667462 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 35
32667359 TATATGTGTG
*
32667369 GAATTGAATTGAATAT-TGACTTGAAAAATGGAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTG-AAAATGAAAAAGT
*
32667406 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATGAAAAAGT
*
32667443 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
32667463 ATTTGGAGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
36 15 0.30
37 15 0.30
38 6 0.12
39 14 0.28
ACGTcount: A:0.44, C:0.01, G:0.23, T:0.32
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:32667654 original size:37 final size:39
Alignment explanation
Indices: 32667595--32667695 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 39
32667585 CGAATAGATT
* * * *
32667595 CGATGAGGTACTGGGTACCAACT-TT-CTTC-AGCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
32667632 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
32667671 CGATGAGGCACTGGGTGCCATACTA
1 CGATGAGGCACTGGGTGCCA-ACTA
32667696 GAGTGTTTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
37 19 0.37
38 2 0.04
39 23 0.44
40 8 0.15
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.28
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:32670254 original size:16 final size:17
Alignment explanation
Indices: 32670235--32670269 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
32670225 AATATTAATT
*
32670235 AATTAATTAATTTT-TC
1 AATTAAATAATTTTCTC
32670251 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
32670268 AA
1 AA
32670270 CCCAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Done.