Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold154
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: 1945843
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 156 characters in sequence are not A, C, G, or T
File 3 of 12
Found at i:309208 original size:23 final size:23
Alignment explanation
Indices: 309178--309240 Score: 65
Period size: 28 Copynumber: 2.5 Consensus size: 23
309168 AGTTCATCTC
309178 TTCAAAGCCCACAATGGCA-CCTT
1 TTCAAAGCCCACAATGGCATCC-T
309201 TTCAAAGCCTACAAGTCAATGGCATCCT
1 TTCAAAGCC--C-A--CAATGGCATCCT
309229 TTCAAAGCCCAC
1 TTCAAAGCCCAC
309241 GAGCCGGCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
23 10 0.29
25 2 0.06
26 2 0.06
28 18 0.53
29 2 0.06
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (23 bp):
TTCAAAGCCCACAATGGCATCCT
Found at i:309286 original size:29 final size:29
Alignment explanation
Indices: 309192--309550 Score: 401
Period size: 28 Copynumber: 12.4 Consensus size: 29
309182 AAGCCCACAA
* *
309192 TGGCAC-CTTTTCAAAGCCTACAAGTCAA
1 TGGCACTCTTTTCAAAGCCCACAAGTCAG
* * * *
309220 TGGCA-TCCTTTCAAAGCCCACGAGCCGG
1 TGGCACTCTTTTCAAAGCCCACAAGTCAG
* *
309248 CGGCAACTCTTTTCAAAGCCCATAAGTCAG
1 TGGC-ACTCTTTTCAAAGCCCACAAGTCAG
*
309278 TGGCACTCTTTTCAAAGCCCATAAGTCAG
1 TGGCACTCTTTTCAAAGCCCACAAGTCAG
* *
309307 TGGCA-TCCTTTCAAAGCCCACAAGTCAA
1 TGGCACTCTTTTCAAAGCCCACAAGTCAG
309335 TGGCAC-C-TTTCAAAGCCCACAAGTCAG
1 TGGCACTCTTTTCAAAGCCCACAAGTCAG
* *
309362 TGGCAC-CCTTTCAAAGCCCACAAGTTAG
1 TGGCACTCTTTTCAAAGCCCACAAGTCAG
* *
309390 TGGCATTCTTTTCAAAGCCCACAGGTCAG
1 TGGCACTCTTTTCAAAGCCCACAAGTCAG
*
309419 TGGCAC-CCTTTCAAAGCCCACAAGTCAG
1 TGGCACTCTTTTCAAAGCCCACAAGTCAG
* *
309447 TGGCACTCTTTTCAAAGCCCATAAGCCAG
1 TGGCACTCTTTTCAAAGCCCACAAGTCAG
** *
309476 TAGTAACTCTTTTCAAAGCCCACACGAGTCGG
1 T-GGCACTCTTTTCAAAGCCCACA--AGTCAG
*
309508 TGGCAACTCTTTTCAAAGCCCACACAAGTTAG
1 TGGC-ACTCTTTTCAAAG-CC-CACAAGTCAG
309540 TGGCAC-CTTTT
1 TGGCACTCTTTT
309551 TAAAAAAAGC
Statistics
Matches: 281, Mismatches: 37, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
27 26 0.09
28 100 0.36
29 75 0.27
30 45 0.16
31 3 0.01
32 26 0.09
33 2 0.01
34 4 0.01
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (29 bp):
TGGCACTCTTTTCAAAGCCCACAAGTCAG
Found at i:309326 original size:57 final size:57
Alignment explanation
Indices: 309192--309549 Score: 384
Period size: 57 Copynumber: 6.2 Consensus size: 57
309182 AAGCCCACAA
* * * * * *
309192 TGGCA-CCTTTTCAAAGCCTACAAGTCAATGGCA-TCCTTTCAAAGCCCACGAGCCGG
1 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
* * * *
309248 CGGCAACTCTTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTCAG
1 TGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
*
309307 TGGCATCCTTTCAAAGCCCACAAGTCAATGGCAC-C-TTTCAAAGCCCACAAGTCAG
1 TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
* * * *
309362 TGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATTCTTTTCAAAGCCCACAGGTCAG
1 TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
* * *
309419 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGCCAG
1 TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
** * * *
309476 TAGTAACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAG
1 T-GGCA-TCCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTCAG
309540 TGGCA-CCTTT
1 TGGCATCCTTT
309550 TTAAAAAAAG
Statistics
Matches: 253, Mismatches: 36, Indels: 21
0.82 0.12 0.07
Matches are distributed among these distances:
55 49 0.19
56 5 0.02
57 99 0.39
58 25 0.10
59 37 0.15
61 13 0.05
62 13 0.05
63 4 0.02
64 8 0.03
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (57 bp):
TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
Found at i:309677 original size:45 final size:46
Alignment explanation
Indices: 309616--309738 Score: 122
Period size: 49 Copynumber: 2.6 Consensus size: 46
309606 ATCGCTACCA
* *
309616 TTGAATCAGTATATTGGCACCTTT-ATTAGCCCAATGTCGCTGGCC
1 TTGAATCAGCACATTGGCACCTTTCATTAGCCCAATGTCGCTGGCC
* * **
309661 TTGAATCAGCACATTGGTCCACTTTTCCCTTAGCTTAATGTCGCTGGCC
1 TTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATGTCGCTGGCC
**
309710 TTGAATTGGCACATTGGCACTCCTTTCAT
1 TTGAATCAGCACATTGGCA--CCTTTCAT
309739 CTCTAAGTCT
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
45 15 0.24
47 8 0.13
48 2 0.03
49 37 0.60
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (46 bp):
TTGAATCAGCACATTGGCACCTTTCATTAGCCCAATGTCGCTGGCC
Found at i:310459 original size:20 final size:20
Alignment explanation
Indices: 310436--310509 Score: 114
Period size: 20 Copynumber: 3.7 Consensus size: 20
310426 AAGTACCCAG
310436 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
310456 ATGTATCGATACATTC-CCA
1 ATGTATCGATACATTCTTCA
*
310475 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTCTTCA
310496 ATGTATCGATACAT
1 ATGTATCGATACAT
310510 CTAGTTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 2 0.04
20 45 0.92
21 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:310486 original size:40 final size:40
Alignment explanation
Indices: 310431--310509 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
310421 TAGAAAAGTA
310431 CCCAGATGTATCGATACATTCTTCAATGTATCGATACATT
1 CCCAGATGTATCGATACATTCTTCAATGTATCGATACATT
*
310471 CCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
1 CCCAGATGTATCGATACATTCTTCAATGTATCGATACAT
310510 CTAGTTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (40 bp):
CCCAGATGTATCGATACATTCTTCAATGTATCGATACATT
Found at i:313763 original size:20 final size:20
Alignment explanation
Indices: 313738--313795 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
313728 TGTTGAACTC
*
313738 AATGTATTGATGCATTTATG
1 AATGTATTGATACATTTATG
* *
313758 AATGTATCGATACA-TTCTG
1 AATGTATTGATACATTTATG
*
313777 AATTGTCTTGATACATTTA
1 AA-TGTATTGATACATTTA
313796 CATATGTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 6 0.20
20 22 0.73
21 2 0.07
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (20 bp):
AATGTATTGATACATTTATG
Found at i:313809 original size:20 final size:21
Alignment explanation
Indices: 313759--313809 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
313749 GCATTTATGA
313759 ATGTATCGATACATTCTGAAT
1 ATGTATCGATACATTCTGAAT
* *
313780 -TGTCTTGATACATT-T-ACAT
1 ATGTATCGATACATTCTGA-AT
313799 ATGTATCGATA
1 ATGTATCGATA
313810 TAAATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 20 0.83
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTCTGAAT
Found at i:314889 original size:87 final size:87
Alignment explanation
Indices: 314797--314961 Score: 226
Period size: 87 Copynumber: 1.9 Consensus size: 87
314787 GTAAACTTTG
* **
314797 ACCCTAAACTTTTCAAAATTACATTTTAA-TCTTTAAACCTTTT-AAAAGCGTACTTTGACCATA
1 ACCCTAAACTTTTCAAAATTACATATTAACTC-TTAAA-CTTTTCAAAAGCACACTTTGACCATA
*
314860 AAACTTTTCAAAATTTCATTTTAA
64 AAACTTTTAAAAATTTCATTTTAA
* * * *
314884 ACCCTAAACTTTTCAAAATTACATATTAACTCTTAGACTTTTCAAAATCACACTTTGACCCTTAA
1 ACCCTAAACTTTTCAAAATTACATATTAACTCTTAAACTTTTCAAAAGCACACTTTGACCATAAA
314949 ACTTTTAAAAATT
66 ACTTTTAAAAATT
314962 ACACTTTGGA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
86 5 0.07
87 61 0.90
88 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (87 bp):
ACCCTAAACTTTTCAAAATTACATATTAACTCTTAAACTTTTCAAAAGCACACTTTGACCATAAA
ACTTTTAAAAATTTCATTTTAA
Found at i:314965 original size:29 final size:29
Alignment explanation
Indices: 314745--314969 Score: 172
Period size: 29 Copynumber: 7.8 Consensus size: 29
314735 ACTAAATTCC
* * *
314745 TAAATTTTTCAAAATTACGCTTTGATCC-
1 TAAACTTTTCAAAATTACACTTTGACCCT
* * *
314773 TAAACTTTTGAAAAGTAAACTTTGACCC-
1 TAAACTTTTCAAAATTACACTTTGACCCT
* * * *
314801 TAAACTTTTCAAAATTACATTTTAATCTT
1 TAAACTTTTCAAAATTACACTTTGACCCT
**** *
314830 TAAACCTTTT-AAAAGCGTACTTTGACCAT
1 TAAA-CTTTTCAAAATTACACTTTGACCCT
* * * *
314859 AAAACTTTTCAAAATTTCATTTTAAACCC-
1 TAAACTTTTCAAAATTACACTTT-GACCCT
* *
314888 TAAACTTTTCAAAATTACA-TATTAACTCT
1 TAAACTTTTCAAAATTACACT-TTGACCCT
* *
314917 TAGACTTTTCAAAATCACACTTTGACCCT
1 TAAACTTTTCAAAATTACACTTTGACCCT
*
314946 TAAACTTTTAAAAATTACACTTTG
1 TAAACTTTTCAAAATTACACTTTG
314970 GAGAATCGGT
Statistics
Matches: 151, Mismatches: 39, Indels: 13
0.74 0.19 0.06
Matches are distributed among these distances:
28 53 0.35
29 89 0.59
30 9 0.06
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.39
Consensus pattern (29 bp):
TAAACTTTTCAAAATTACACTTTGACCCT
Found at i:316262 original size:6 final size:6
Alignment explanation
Indices: 316222--316259 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
316212 AAATAAAACA
*
316222 TAAAAT TAAAA- GAAAAT TAAAAT TAAAAT TAATAAT TA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAA-AAT TA
316260 TAAACAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 4 0.14
6 19 0.68
7 5 0.18
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (6 bp):
TAAAAT
Found at i:322661 original size:20 final size:20
Alignment explanation
Indices: 322632--322708 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
322622 GTAAAAAGAT
322632 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
322652 AGAATATATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
322672 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
*
322692 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
322709 CTAGGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:322977 original size:29 final size:29
Alignment explanation
Indices: 322916--323908 Score: 1380
Period size: 29 Copynumber: 34.6 Consensus size: 29
322906 AGCTGCCCCT
*
322916 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * * *
322944 ATTGTGGGTTTTGAAAAGAGTGCCATTAA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
322973 CTTGTTGGCTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * *
323002 TTTGTGGGTTTTG-AAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323030 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323058 CTTGTGGGCTTTGAAAAGAGTCACCACCGA
1 CTTGTGGGCTTTGAAAAGAGT-GCCACTGA
*
323088 CTCGTGTGGGCTTTGAAAAGAGTGCCATTGA
1 CT--TGTGGGCTTTGAAAAGAGTGCCACTGA
*
323119 CTTGTGGGCTTTGAAATG-GTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323147 CTTGTGAGCTTTGAAAAGAGTGCCACTAA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * *
323176 ATTGTGGGCTTTG-AAAGGGTGCCACTGT
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
323204 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * *
323233 TTTGTGGGTTTTAAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323262 CTTGTGGGCTATG-AAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323290 CTTGTGGGCTTTGAAAAGAGTGCCACTAA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323319 TTTGTGGGCTTTGAAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323348 CTTGTAGGCTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323377 CTTGTGGGCTTTGAAAAGAGTGCCACTAA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323406 CTTGTGGGCTTTGAAAA-TGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * *
323434 CTTGTAGGCTTTG-AAAGGGCGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323462 CTTGTGGGCTTTGAAAATAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323491 TTTGTGGGCTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323520 TTTGTGGGCTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323549 ATTGTGGGCTTTG-AAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323577 CTTGTGGGCTTTGAAAAGAGTTCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323606 TTTGTGGGTTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323635 CTTGTGGCCTTTGAAAGGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323664 CTTGTGGGCTTTGAAAGGAGTGCCACTAA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323693 CTTGTGGGATTTG-AAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
323721 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * *
323750 TTTATGGGCTTTGAAAAGAGTGCCACTTA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323779 TTTGTGGGCTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323808 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
*
323836 CTTGTGGGCTTTGAAAAGAGTGCCACCGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323865 CTTGTGGTCTTTG-AAAGAGTGCCACCGA
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
323893 CTTGTGGGCTTTGAAA
1 CTTGTGGGCTTTGAAA
323909 GGGATGAACA
Statistics
Matches: 855, Mismatches: 96, Indels: 27
0.87 0.10 0.03
Matches are distributed among these distances:
27 3 0.00
28 285 0.33
29 533 0.62
30 8 0.01
31 7 0.01
32 19 0.02
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (29 bp):
CTTGTGGGCTTTGAAAAGAGTGCCACTGA
Found at i:323024 original size:86 final size:86
Alignment explanation
Indices: 322916--323908 Score: 1384
Period size: 86 Copynumber: 11.5 Consensus size: 86
322906 AGCTGCCCCT
* * * * * *
322916 CTTGTGGGCTTTGAAAGGGTGCCACTGAATTGTGGGTTTTGAAAAGAGTGCCATTAACTTGTTGG
1 CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
322981 CTTTGAAAAGAGTGCCACTGA
66 CTTTGAAAAGAGTGCCACTGA
* * * *
323002 TTTGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGG
1 CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
* *
323066 CTTTGAAAAGAGTCACCACCGA
66 CTTTGAAAAGAGT-GCCACTGA
* *
323088 CTCGTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAATG-GTGCCACTGACTTGT
1 CT--TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGT
* *
323152 GAGCTTTGAAAAGAGTGCCACTAA
63 GGGCTTTGAAAAGAGTGCCACTGA
* * * *
323176 ATTGTGGGCTTTGAAAGGGTGCCACTGTCTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGG
1 CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
* *
323241 TTTTAAAAAGAGTGCCACTGA
66 CTTTGAAAAGAGTGCCACTGA
* * * *
323262 CTTGTGGGCTATGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTGTGGG
1 CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
*
323327 CTTTGAAAAGGGTGCCACTGA
66 CTTTGAAAAGAGTGCCACTGA
* *
323348 CTTGTAGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGG
1 CTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
*
323413 GCTTTGAAAA-TGTGCCACTGA
65 GCTTTGAAAAGAGTGCCACTGA
* * * * *
323434 CTTGTAGGCTTTGAAAGGGCGCCACTGACTTGTGGGCTTTGAAAATAGTGCCACTGATTTGTGGG
1 CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
323499 CTTTGAAAAGAGTGCCACTGA
66 CTTTGAAAAGAGTGCCACTGA
* * *
323520 TTTGTGGGCTTTGAAAAGAGTGCCACTGAATTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGG
1 CTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
*
323584 GCTTTGAAAAGAGTTCCACTGA
65 GCTTTGAAAAGAGTGCCACTGA
* * * *
323606 TTTGTGGGTTTTGAAAAGAGTGCCACTGACTTGTGGCCTTTGAAAGGAGTGCCACTGACTTGTGG
1 CTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
* *
323671 GCTTTGAAAGGAGTGCCACTAA
65 GCTTTGAAAAGAGTGCCACTGA
* * * *
323693 CTTGTGGGATTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTATGGG
1 CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
*
323758 CTTTGAAAAGAGTGCCACTTA
66 CTTTGAAAAGAGTGCCACTGA
* *
323779 TTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGG
1 CTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
*
323843 GCTTTGAAAAGAGTGCCACCGA
65 GCTTTGAAAAGAGTGCCACTGA
* *
323865 CTTGTGGTCTTTGAAAGAGTGCCACCGACTTGTGGGCTTTGAAA
1 CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
323909 GGGATGAACA
Statistics
Matches: 811, Mismatches: 84, Indels: 24
0.88 0.09 0.03
Matches are distributed among these distances:
85 144 0.18
86 431 0.53
87 161 0.20
88 16 0.02
89 56 0.07
90 3 0.00
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (86 bp):
CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
CTTTGAAAAGAGTGCCACTGA
Found at i:323342 original size:115 final size:116
Alignment explanation
Indices: 322916--323908 Score: 1346
Period size: 115 Copynumber: 8.6 Consensus size: 116
322906 AGCTGCCCCT
* * * * *
322916 CTTGTGGGCTTTG-AAAGGGTGCCACTGAATTGTGGGTTTTGAAAAGAGTGCCATTAACTTGTTG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGG
* * *
322980 GCTTTGAAAAGAGTGCCACTGATTTGTGGGTTTTG-AAAGGGTGCCACTGA
66 GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * **
323030 CTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTCACCACCGACTCGTG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGT-GCCACTAACT--TG
* *
323094 TGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAATG-GTGCCACTGA
63 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * * * **
323147 CTTGTGAGCTTTGAAAAGAGTGCCACTAAATTGTGGGCTTTG-AAAGGGTGCCACTGTCTTGTGG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGG
* * *
323211 GCTTTGAAAAGAGTGCCACTGATTTGTGGGTTTTAAAAAGAGTGCCACTGA
66 GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * *
323262 CTTGTGGGCTATG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTGTGG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGG
* *
323326 GCTTTGAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAAGAGTGCCACTGA
66 GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * * *
323377 CTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAA-TGTGCCACTGACTTGTAG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGG
* * *
323441 GCTTTG-AAAGGGCGCCACTGACTTGTGGGCTTTGAAAATAGTGCCACTGA
66 GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
* *
323491 TTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGAA-TTGTG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT-AACTTGTG
* *
323555 GGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTCCACTGA
65 GGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * * * *
323606 TTTGTGGGTTTTGAAAAGAGTGCCACTGACTTGTGGCCTTTGAAAGGAGTGCCACTGACTTGTGG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGG
* * * *
323671 GCTTTGAAAGGAGTGCCACTAACTTGTGGGATTTG-AAAGGGTGCCACTGA
66 GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * * *
323721 CTTGTGGGCTTTGAAAAGAGTGCCACTGATTTATGGGCTTTGAAAAGAGTGCCACTTATTTGTGG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGG
*
323786 GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGA
66 GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * **
323836 CTTGTGGGCTTTGAAAAGAGTGCCACCGACTTGTGGTCTTTG-AAAGAGTGCCACCGACTTGTGG
1 CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGG
323900 GCTTTGAAA
66 GCTTTGAAA
323909 GGGATGAACA
Statistics
Matches: 781, Mismatches: 86, Indels: 24
0.88 0.10 0.03
Matches are distributed among these distances:
114 225 0.29
115 402 0.51
116 62 0.08
117 64 0.08
118 28 0.04
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (116 bp):
CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGG
GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
Found at i:325155 original size:22 final size:22
Alignment explanation
Indices: 325110--325171 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
325100 CCCTTCTCTT
*
325110 TTTTTGCTATTTTTTCTTGGTTTG
1 TTTTTG-T-TTTTTTTTTGGTTTG
*
325134 TTTTTGTTTTTTTTTTGTTTTG
1 TTTTTGTTTTTTTTTTGGTTTG
*
325156 -CTTTGTTTTGTTTTTT
1 TTTTTGTTTT-TTTTTT
325172 TAGGTGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.24
22 19 0.56
23 1 0.03
24 6 0.18
ACGTcount: A:0.02, C:0.05, G:0.15, T:0.79
Consensus pattern (22 bp):
TTTTTGTTTTTTTTTTGGTTTG
Found at i:332948 original size:13 final size:13
Alignment explanation
Indices: 332930--332955 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
332920 TACAAATAGT
332930 ATGTATCGATACA
1 ATGTATCGATACA
332943 ATGTATCGATACA
1 ATGTATCGATACA
332956 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:335183 original size:84 final size:84
Alignment explanation
Indices: 335010--335174 Score: 217
Period size: 84 Copynumber: 2.0 Consensus size: 84
335000 ACTCAAAGAA
* * * * *
335010 GAAAATAAATCAATAAGTGTAGAGAATGATTTTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAATTAGAGAAGAA
*
335075 TATGAAAGAGTTGCAAAAT
66 TAAGAAAGAGTTGCAAAAT
* * *
335094 GAAAATAAATCAATGAGTTTAGAAAATAATTCTT-TTAAAAAGAAAATAAATGAATTAGAGGAGA
1 GAAAATAAATCAATAAGTGTAGAAAATAATT-TTCTTAAAAAGAAAATAAATGAATTAGAGAAGA
335158 A-AAGAAATGAGTTGCAA
65 ATAAGAAA-GAGTTGCAA
335175 GTGGAAAATG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 5 0.07
84 63 0.90
85 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.19, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAATTAGAGAAGAA
TAAGAAAGAGTTGCAAAAT
Found at i:336627 original size:13 final size:13
Alignment explanation
Indices: 336609--336633 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
336599 TTTTCCAGAT
336609 TGTATCGATACAA
1 TGTATCGATACAA
336622 TGTATCGATACA
1 TGTATCGATACA
336634 TTACTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:338497 original size:13 final size:13
Alignment explanation
Indices: 338479--338504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
338469 TACAAATAGT
338479 ATGTATCGATACA
1 ATGTATCGATACA
338492 ATGTATCGATACA
1 ATGTATCGATACA
338505 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:340898 original size:20 final size:20
Alignment explanation
Indices: 340873--340926 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
340863 AAAACCCTTA
340873 AAAGTATCGATACACAATT-C
1 AAAGTATCGATACA-AATTGC
*
340893 AAAGTATCGATACAAGTTGC
1 AAAGTATCGATACAAATTGC
*
340913 AATGTATCGATACA
1 AAAGTATCGATACA
340927 TGAAAAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAGTATCGATACAAATTGC
Found at i:341016 original size:13 final size:13
Alignment explanation
Indices: 340998--341023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
340988 TACACAAAGT
340998 ATGTATCGATACA
1 ATGTATCGATACA
341011 ATGTATCGATACA
1 ATGTATCGATACA
341024 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:341021 original size:32 final size:33
Alignment explanation
Indices: 340980--341043 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
340970 TAGCCAAACT
**
340980 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
341012 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
341044 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:341110 original size:104 final size:105
Alignment explanation
Indices: 341052--341273 Score: 376
Period size: 104 Copynumber: 2.1 Consensus size: 105
341042 CATTGGCTTG
341052 TAACGGCTAGAAACGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTATCGATAC-AT
1 TAACGGCTAGAAACGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTATCGATACAAT
* *
341116 TCACACAAGAAATCATTAAAATAAGCTCCAAACAAGCCAA
66 TCACACAAGAAATCATAAAAATAAGATCCAAACAAGCCAA
341156 TAACGGCTAGAAACGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTATCGATAC-AT
1 TAACGGCTAGAAACGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTATCGATACAAT
** * *
341220 TCACACGGGAAATCATTAAAATAAGCTCCAAACAAGCCAA
66 TCACACAAGAAATCATAAAAATAAGATCCAAACAAGCCAA
341260 TAACGGCTAGAAAC
1 TAACGGCTAGAAAC
341274 TCCACTAATC
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 116 1.00
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.24
Consensus pattern (105 bp):
TAACGGCTAGAAACGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTATCGATACAAT
TCACACAAGAAATCATAAAAATAAGATCCAAACAAGCCAA
Found at i:345149 original size:15 final size:15
Alignment explanation
Indices: 345129--345159 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
345119 TAAAAATGTC
*
345129 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
345144 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
345159 C
1 C
345160 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:347257 original size:13 final size:13
Alignment explanation
Indices: 347239--347276 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
347229 CATTTTTCTT
347239 TGTATCGATACAA
1 TGTATCGATACAA
*
347252 TGTATCGATACAC
1 TGTATCGATACAA
347265 TGTATCGATACA
1 TGTATCGATACA
347277 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:347440 original size:20 final size:20
Alignment explanation
Indices: 347397--347442 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
347387 AAATCTTTTG
347397 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
347418 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
347438 CAAAA
1 CAAAA
347443 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:349850 original size:13 final size:13
Alignment explanation
Indices: 349832--349857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
349822 TACACAAAGT
349832 ATGTATCGATACA
1 ATGTATCGATACA
349845 ATGTATCGATACA
1 ATGTATCGATACA
349858 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:349855 original size:32 final size:33
Alignment explanation
Indices: 349814--349877 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
349804 TAGCCAAACT
**
349814 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
349846 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
349878 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:357055 original size:97 final size:96
Alignment explanation
Indices: 356967--357288 Score: 329
Period size: 97 Copynumber: 3.4 Consensus size: 96
356957 AATGGAGCTA
* * * * *
356967 GAGTATCTCTTCAGAAGAATGGGGTTGGAGTATCTCCGACGATGATAATTTAGGCAAAAATAAGA
1 GAGTATCTCTTCAGAAAAATGGGGTTAGAGTATCCCCAATGATGATAATTTAGGCAAAAATAAGA
* * *
357032 TTTAAATCTTAACAAATGCAAAAACAT-GGTTG
66 TTTAAATCTTGATAAATTC-AAAA-ATGGGTTG
* * * * * * *
357064 GAGTATAC-CATT-GGAAGAATTGGGTTGGAGTATCCCTAATGATGATAATTTGGGTAAAAATAA
1 GAGTAT-CTC-TTCAGAAAAATGGGGTTAGAGTATCCCCAATGATGATAATTTAGGCAAAAATAA
* *
357127 GATTTAAATCTTGATAAGTTCAAAAA-----CG
64 GATTTAAATCTTGATAAATTCAAAAATGGGTTG
* *
357155 GAGTATC-CTCTCGGAAAAATGGGGTTAGAGTATCCCCAATTATGATAATTTAGGCAAAAATAAG
1 GAGTATCTCT-TCAGAAAAATGGGGTTAGAGTATCCCCAATGATGATAATTTAGGCAAAAATAAG
357219 ATTTAAATCTTGATAAATTCAAAAATGGGATTG
65 ATTTAAATCTTGATAAATTCAAAAATGGG-TTG
* * *
357252 GAGTATCCCTTTAGAAAAATAGGGTTAGAGTATCCCC
1 GAGTATCTCTTCAGAAAAATGGGGTTAGAGTATCCCC
357289 GATAAATAAA
Statistics
Matches: 189, Mismatches: 25, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
89 1 0.01
90 3 0.02
91 76 0.40
95 1 0.01
96 4 0.02
97 99 0.52
98 5 0.03
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (96 bp):
GAGTATCTCTTCAGAAAAATGGGGTTAGAGTATCCCCAATGATGATAATTTAGGCAAAAATAAGA
TTTAAATCTTGATAAATTCAAAAATGGGTTG
Found at i:357214 original size:91 final size:92
Alignment explanation
Indices: 356967--357243 Score: 319
Period size: 91 Copynumber: 3.0 Consensus size: 92
356957 AATGGAGCTA
* * * *
356967 GAGTAT-CTCTTCAGAAGAATGGGGTTGGAGTATCTCCGACGATGATAATTTAGGCAAAAATAAG
1 GAGTATCCTC-TCGGAAGAATGGGGTTGGAGTATCCCCAATGATGATAATTTAGGCAAAAATAAG
* * *
357031 ATTTAAATCTTAACAAATGCAAAAACATGGTTG
65 ATTTAAATCTTGATAAATTCAAAAAC-----TG
* * * *
357064 GAGTATACCAT-T-GGAAGAATTGGGTTGGAGTATCCCTAATGATGATAATTTGGGTAAAAATAA
1 GAGTAT-CC-TCTCGGAAGAATGGGGTTGGAGTATCCCCAATGATGATAATTTAGGCAAAAATAA
*
357127 GATTTAAATCTTGATAAGTTCAAAAAC-G
64 GATTTAAATCTTGATAAATTCAAAAACTG
* * *
357155 GAGTATCCTCTCGGAAAAATGGGGTTAGAGTATCCCCAATTATGATAATTTAGGCAAAAATAAGA
1 GAGTATCCTCTCGGAAGAATGGGGTTGGAGTATCCCCAATGATGATAATTTAGGCAAAAATAAGA
357220 TTTAAATCTTGATAAATTCAAAAA
66 TTTAAATCTTGATAAATTCAAAAA
357244 TGGGATTGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
89 1 0.01
90 3 0.02
91 76 0.49
97 72 0.46
98 1 0.01
99 1 0.01
100 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.29
Consensus pattern (92 bp):
GAGTATCCTCTCGGAAGAATGGGGTTGGAGTATCCCCAATGATGATAATTTAGGCAAAAATAAGA
TTTAAATCTTGATAAATTCAAAAACTG
Found at i:357293 original size:91 final size:89
Alignment explanation
Indices: 357010--357293 Score: 229
Period size: 91 Copynumber: 3.1 Consensus size: 89
357000 CTCCGACGAT
* * * *
357010 GATAATTTAGGCAAAAATAAGATTTAAATCTTAACAAATGCAAAAACATGG-TTGGAGTATACCA
1 GATAATTTAGGCAAAAATAAGATTTAAATCTTGATAAATTC-AAAA-ATGGATTGGAGTAT-CCT
* * * *
357074 TTGGAAGAATTGGGTTGGAGTATCCCTAATGAT
63 TTGGAAAAATAGGGTTAGAGTATCCC------C
* * * * *
357107 GATAATTTGGGTAAAAATAAGATTTAAATCTTGATAAGTTC-AAAA---A-CGGAGTATCCTCTC
1 GATAATTTAGGCAAAAATAAGATTTAAATCTTGATAAATTCAAAAATGGATTGGAGTATCCT-TT
*
357167 GGAAAAATGGGGTTAGAGTATCCCC
65 GGAAAAATAGGGTTAGAGTATCCCC
357192 AATTATGATAATTTAGGCAAAAATAAGATTTAAATCTTGATAAATTCAAAAATGGGATTGGAGTA
1 ------GATAATTTAGGCAAAAATAAGATTTAAATCTTGATAAATTCAAAAAT-GGATTGGAGTA
*
357257 TCCCTTTAGAAAAATAGGGTTAGAGTATCCCC
59 T-CCTTTGGAAAAATAGGGTTAGAGTATCCCC
357289 GATAA
1 GATAA
357294 ATAAAATTTT
Statistics
Matches: 152, Mismatches: 20, Indels: 36
0.73 0.10 0.17
Matches are distributed among these distances:
90 2 0.01
91 72 0.47
92 4 0.03
94 1 0.01
95 3 0.02
96 1 0.01
97 66 0.43
98 3 0.02
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (89 bp):
GATAATTTAGGCAAAAATAAGATTTAAATCTTGATAAATTCAAAAATGGATTGGAGTATCCTTTG
GAAAAATAGGGTTAGAGTATCCCC
Found at i:360893 original size:13 final size:13
Alignment explanation
Indices: 360867--360920 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 13
360857 GGTTCAACAT
360867 AAAAAAGAGA-AA
1 AAAAAAGAGAGAA
360879 AAAAAAGAGAG--
1 AAAAAAGAGAGAA
*
360890 AAAAAAGGGAGAA
1 AAAAAAGAGAGAA
**
360903 CGAAAAGAGAGAA
1 AAAAAAGAGAGAA
360916 AAAAA
1 AAAAA
360921 TAGAAACACA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
11 10 0.30
12 10 0.30
13 13 0.39
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAAAAGAGAGAA
Found at i:362702 original size:97 final size:97
Alignment explanation
Indices: 362572--363374 Score: 1251
Period size: 97 Copynumber: 8.3 Consensus size: 97
362562 AATTTTATTT
* * * *
362572 ATCGAGGATACTCCAACCCTATTCC-TCTGAGGGGATACTCTAACCCCGCTTTTAAACACATCAA
1 ATCGGGGACACTCCAACCCCATTCCTTC-GAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
362636 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
65 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
* **
362669 ATCGGGGACACCCCAACCCCATTCCTTCGAGGGGATACTCCAACCCTACTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
*
362734 GTTTAAATCTTATTCTAACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* * * *
362766 ATCGAGGACACTCCAACCCTATTCCTTCAAGGGGATACTCCAACCCCACTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
*
362831 GTTTAAATCTTATTCTCACTTAAATTGTCATT
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* *
362863 ATCGGGGACACTACAACCCCATTCC-TCTAAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
1 ATCGGGGACACTCCAACCCCATTCCTTC-GAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
*
362927 AGTTTAAATCTTATTCTGACTTAAATTGTCATC
65 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
* * *
362960 ATCGGGGACACCCCAACCCCATTCCTTTGAGGGGATACTCTAACCCCGCTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
*
363025 GTTTAAATCTTATTCTCACTTAAATTGTCATT
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* *
363057 ATCGGGGACACCCCAACCCCATTCCTTCGAGGGGATACTCCAA-CCCGTTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
363121 GTTTAAATCTTA---T-ACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* *
363149 ATCGGGGACACTCCAACCCCATTCCTTCAAGGGGATACTCCAACCCCACTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
* * *
363214 CTTTAAATCTTATTCTCACTTATATTGTCATT
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* * *
363246 ATTGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAAGCCCGCTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
363311 GTTTAAATCTTATTCTCACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* *
363343 ATTGGGGACACTCCAACCCCATTCCTCCGAGG
1 ATCGGGGACACTCCAACCCCATTCCTTCGAGG
363375 AAAGACTCTA
Statistics
Matches: 651, Mismatches: 47, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
92 55 0.08
93 31 0.05
96 35 0.05
97 527 0.81
98 3 0.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.30
Consensus pattern (97 bp):
ATCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTGTCATC
Found at i:363296 original size:383 final size:385
Alignment explanation
Indices: 362584--363395 Score: 1387
Period size: 383 Copynumber: 2.1 Consensus size: 385
362574 CGAGGATACT
*
362584 CCAACCCTATTCCTCTGAGGGGATACTCTAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTA
1 CCAACCCCATTCCTCTGAGGGGATACTCTAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTA
362649 TTCTCACTTAAATTGTCATCATCGGGGACACCCCAACCCCATTCCTTCGAGGGGATACTCCAACC
66 TTCTCACTTAAATTGTCATCATCGGGGACACCCCAACCCCATTCCTTCGAGGGGATACTCCAACC
362714 CTACTTTTAAACACATCAAAGTTTAAATCTTATTCTAACTTAAATTGTCATCATCGAGGACACTC
131 CTA-TTTTAAACACATCAAAGTTTAAATCTTA-T-TAACTTAAATTGTCATCATCGAGGACACTC
* *
362779 CAACCCTATTCCTTCAAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTTAAATCTTAT
193 CAACCCCATTCCTTCAAGGGGATACTCCAACCCCACTTTTAAACACATCAAACTTTAAATCTTAT
*
362844 TCTCACTTAAATTGTCATTATCGGGGACACTACAACCCCATTCCTCTAAGGGGATACTCCAACCC
258 TCTCACTTAAATTGTCATTATCGGGGACACTACAACCCCATTCCTCCAAGGGGATACTCCAACCC
*
362909 CGCTTTTAAACACATCAAAGTTTAAATCTTATTCTGACTTAAATTGTCATCATCGGGGACACC
323 CGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCGGGGACACC
*
362972 CCAACCCCATTCCTTTGAGGGGATACTCTAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTA
1 CCAACCCCATTCCTCTGAGGGGATACTCTAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTA
*
363037 TTCTCACTTAAATTGTCATTATCGGGGACACCCCAACCCCATTCCTTCGAGGGGATACTCCAACC
66 TTCTCACTTAAATTGTCATCATCGGGGACACCCCAACCCCATTCCTTCGAGGGGATACTCCAACC
*
363102 CGT-TTTTAAACACATCAAAGTTTAAATCTTA-T-ACTTAAATTGTCATCATCGGGGACACTCCA
131 C-TATTTTAAACACATCAAAGTTTAAATCTTATTAACTTAAATTGTCATCATCGAGGACACTCCA
363164 ACCCCATTCCTTCAAGGGGATACTCCAACCCCACTTTTAAACACATCAAACTTTAAATCTTATTC
195 ACCCCATTCCTTCAAGGGGATACTCCAACCCCACTTTTAAACACATCAAACTTTAAATCTTATTC
* * * * *
363229 TCACTTATATTGTCATTATTGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAAGCCCG
260 TCACTTAAATTGTCATTATCGGGGACACTACAACCCCATTCCTCCAAGGGGATACTCCAACCCCG
* *
363294 CTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATTGGGGACACT
325 CTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCGGGGACACC
* ** * *
363355 CCAACCCCATTCCTCCGAGGAAAGACTCTAACCCCGTTTTT
1 CCAACCCCATTCCTCTGAGGGGATACTCTAACCCCGCTTTT
363396 CAATCAAAAA
Statistics
Matches: 402, Mismatches: 21, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
383 244 0.61
384 1 0.00
387 28 0.07
388 128 0.32
389 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.30
Consensus pattern (385 bp):
CCAACCCCATTCCTCTGAGGGGATACTCTAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTA
TTCTCACTTAAATTGTCATCATCGGGGACACCCCAACCCCATTCCTTCGAGGGGATACTCCAACC
CTATTTTAAACACATCAAAGTTTAAATCTTATTAACTTAAATTGTCATCATCGAGGACACTCCAA
CCCCATTCCTTCAAGGGGATACTCCAACCCCACTTTTAAACACATCAAACTTTAAATCTTATTCT
CACTTAAATTGTCATTATCGGGGACACTACAACCCCATTCCTCCAAGGGGATACTCCAACCCCGC
TTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCGGGGACACC
Found at i:364430 original size:20 final size:21
Alignment explanation
Indices: 364405--364455 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
364395 TTCAAGCATA
*
364405 TATCGATACATTGACTTATT-
1 TATCGATACATTCACTTATTG
364425 TATCGATACATTCACTTATTG
1 TATCGATACATTCACTTATTG
*
364446 TATCAATACA
1 TATCGATACA
364456 AATCGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (21 bp):
TATCGATACATTCACTTATTG
Found at i:364795 original size:24 final size:23
Alignment explanation
Indices: 364768--364841 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 23
364758 ACAAATATAA
364768 ATTATATTTTATTATATTTATTAT
1 ATTAT-TTTTATTATATTTATTAT
* *
364792 ATTAGTTTTATATT-TATTAAATAT
1 ATTA-TTTT-TATTATATTTATTAT
*
364816 GTTATTTTTATATAATATTT-TTAT
1 ATTATTTTTAT-T-ATATTTATTAT
364840 AT
1 AT
364842 CGTATTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
22 3 0.08
23 5 0.13
24 22 0.56
25 9 0.23
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (23 bp):
ATTATTTTTATTATATTTATTAT
Found at i:365389 original size:3 final size:3
Alignment explanation
Indices: 365333--365376 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
365323 TAAAAATACA
365333 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
365377 ATAACATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:366749 original size:40 final size:40
Alignment explanation
Indices: 366684--366767 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
366674 TAGATTATTA
* * * *
366684 AAAATGACCTAAATGATCCCAATATTTATAAAATTATATC
1 AAAATGACCTAAATGAACCCAATATTCACAAAATTACATC
* *
366724 AAAATGACCTAAAT-AACCCTCATATTCACAAAATTGCATC
1 AAAATGACCTAAATGAACCC-AATATTCACAAAATTACATC
366764 AAAA
1 AAAA
366768 ATCCTTAGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 4 0.11
40 33 0.89
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (40 bp):
AAAATGACCTAAATGAACCCAATATTCACAAAATTACATC
Found at i:366874 original size:58 final size:58
Alignment explanation
Indices: 366724--366917 Score: 239
Period size: 58 Copynumber: 3.3 Consensus size: 58
366714 AAATTATATC
* * * * *
366724 AAAATGACCTAAATAACCCTCATATTCACAAAATTGCATCAAAAATCCTTAGATCATAG
1 AAAATGACCTAAATGACCCTAACATTCATAAAATTGCATC-AAAGTCCTTAGATCATAG
* * * *
366783 AAAATGGCTTAAATGAACCCCAACATTCATAAAATTGTATCAAAGTCCTTAGATCAT-G
1 AAAATGACCTAAATG-ACCCTAACATTCATAAAATTGCATCAAAGTCCTTAGATCATAG
* *
366841 AAAAATGACCTAAATGACTCTAACATTCATAAAATTACATCAAAGTACC-TAGATCATAG
1 -AAAATGACCTAAATGACCCTAACATTCATAAAATTGCATCAAAGT-CCTTAGATCATAG
366900 AAAATGACCTAAATGACC
1 AAAATGACCTAAATGACC
366918 TAAATGACAT
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
58 52 0.45
59 43 0.37
60 20 0.17
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.25
Consensus pattern (58 bp):
AAAATGACCTAAATGACCCTAACATTCATAAAATTGCATCAAAGTCCTTAGATCATAG
Found at i:366915 original size:9 final size:9
Alignment explanation
Indices: 366901--366925 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
366891 AGATCATAGA
366901 AAATGACCT
1 AAATGACCT
366910 AAATGACCT
1 AAATGACCT
366919 AAATGAC
1 AAATGAC
366926 ATTAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (9 bp):
AAATGACCT
Found at i:366972 original size:58 final size:57
Alignment explanation
Indices: 366910--367047 Score: 140
Period size: 58 Copynumber: 2.4 Consensus size: 57
366900 AAAATGACCT
* * *
366910 AAATGACCT-AAATGACATTAAAAATGCT-TGAAATG-TTATAAAA-ACTCTAAGTCATGGA
1 AAATGA-CTAAAATGACA-TAAAAAT-ATATGAAATGACTA-AAAATAC-CTAAGTCATAGA
* *
366968 AAATGAATCAAATGACATAAAAATATATGAAATGACCTAAAAATACCTAAGTCATAGA
1 AAATGACTAAAATGACATAAAAATATATGAAATGA-CTAAAAATACCTAAGTCATAGA
*
367026 AAATGACTAAAATGACCTAAAA
1 AAATGACTAAAATGACATAAAA
367048 GTGCATGGGA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
56 1 0.01
57 15 0.22
58 48 0.71
59 4 0.06
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (57 bp):
AAATGACTAAAATGACATAAAAATATATGAAATGACTAAAAATACCTAAGTCATAGA
Found at i:368518 original size:17 final size:17
Alignment explanation
Indices: 368477--368521 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
368467 TCGGCACCCC
*
368477 TTTTTTATTATTTATTA
1 TTTTTTATTATTTATGA
368494 TTTATTTATT-TTTATGA
1 TTT-TTTATTATTTATGA
368511 TCTTTTTATTA
1 T-TTTTTATTA
368522 AGTCCTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTTATTATTTATGA
Found at i:374215 original size:11 final size:11
Alignment explanation
Indices: 374199--374240 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
374189 GCTAATTTTT
*
374199 TCTTTTCTCTC
1 TCTTTTTTCTC
* *
374210 TATTTTTTTTC
1 TCTTTTTTCTC
374221 T-TTTTTTCTC
1 TCTTTTTTCTC
374231 TCTTTTTTCT
1 TCTTTTTTCT
374241 AAGCTTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (11 bp):
TCTTTTTTCTC
Found at i:374225 original size:21 final size:20
Alignment explanation
Indices: 374194--374238 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
374184 ATTTTGCTAA
374194 TTTTTTCTTTTCTCTCTATT
1 TTTTTTCTTTTCTCTCTATT
* *
374214 TTTTTTCTTTTTTTCTCTCTT
1 TTTTTTC-TTTTCTCTCTATT
374235 TTTT
1 TTTT
374239 CTAAGCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTCTTTTCTCTCTATT
Found at i:376183 original size:24 final size:20
Alignment explanation
Indices: 376169--376253 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
376159 TTTTACCTAG
376169 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
376189 ATATATCGATACATTCTGTCTTTTACCCA
1 ATGTATCGATACA-----T-TTTT---CA
376218 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
376239 ATGTATCGATACATT
1 ATGTATCGATACATT
376254 CTGTCTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
20 27 0.51
21 2 0.04
24 4 0.08
25 2 0.04
26 4 0.08
29 2 0.04
30 12 0.23
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:376285 original size:51 final size:51
Alignment explanation
Indices: 376158--376303 Score: 258
Period size: 50 Copynumber: 2.9 Consensus size: 51
376148 AAAAGTCACA
* *
376158 TTTTTACCTAGATGTATCGATACATTTTTCAATATATCGATACATTCTGTC
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTC
376209 -TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTC
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTC
*
376259 TTTTTACCCGGATGTATCGATACATTTTTCAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
376304 CTAGTTAAAA
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 48 0.53
51 43 0.47
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (51 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTC
Found at i:376948 original size:20 final size:22
Alignment explanation
Indices: 376909--376948 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
376899 TAGCTTTGAC
*
376909 CATGCATTTTTTTACTATGTTT
1 CATGCATTTTTTAACTATGTTT
376931 CATGCA-TTTTTAAC-ATGT
1 CATGCATTTTTTAACTATGT
376949 CTAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.53
Consensus pattern (22 bp):
CATGCATTTTTTAACTATGTTT
Found at i:388644 original size:71 final size:71
Alignment explanation
Indices: 388551--389071 Score: 413
Period size: 71 Copynumber: 7.4 Consensus size: 71
388541 CAAGACGTTT
* * *
388551 TTTTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTAT-TTTCTCTAGTCCTTAAAGAGTA
1 TTTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTCTCTAGTCCTTAAAGAGCA
388615 GGATGTC
66 GGATG-C
* * * * *
388622 TTTTTTTCTTCAAAGCTCACACAAGCTGGTGACATCATTTATCTTTTTC-AGT-CTTCAAAGAGG
1 TTTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTCTCTAGTCCTT-AAAGAGC
** *
388685 AAAACG-
65 AGGATGC
* * ** * * * *
388691 TATTTTTCTTAAAAGCCCACACAAGCTAATGGCATCACTTATC-TTCTCCAATCCTCAAAGAGTA
1 TTTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTCTCTAGTCCTTAAAGAGCA
388755 GGATG-
66 GGATGC
* * * *
388760 TTTTTTT-TT-ATA-CCCACACAAACTGGTGGCATCACTTATCTAT-TCTAGTCCTTTAAGAGCA
1 TTTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTCTCTAGTCCTTAAAGAGCA
** *
388821 AAACTAC
66 GGA-TGC
* * * * * *
388828 TTTTCTTCTTCAAAGCCCACATAAGCTGGTGGCACCACTTATCTTTTTC-AATCTTTAAAGAGCA
1 TTTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTCTCTAGTCCTTAAAGAGCA
*
388892 TGATGC
66 GGATGC
** * *** * *
388898 TTTTTCTTCTTCAAAGCATACATAAGCCATTAGCATCACTTATC-TTCTCTAGTCCTCAAAGAGC
1 TTTTT-TTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTCTCTAGTCCTTAAAGAGC
* *
388962 AAGATTCC
65 AGGA-TGC
* * * * * * **
388970 TTTTCTTT-TTTAAAGCCCATACAAGCTGGTGGGATCACTTATCTTT-TTTAGTCCTCAAAAAAT
1 TTTT-TTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTCTCTAGTCCTTAAAGAGC
389033 AGGATGCC
65 AGGATG-C
*
389041 TTTTTTTCTTCAAAGCCCACACAAGTTGGTG
1 TTTTTTTCTTCAAAGCCCACACAAGCTGGTG
389072 ACACCTACTT
Statistics
Matches: 351, Mismatches: 81, Indels: 36
0.75 0.17 0.08
Matches are distributed among these distances:
66 39 0.11
67 4 0.01
68 12 0.03
69 55 0.16
70 21 0.06
71 202 0.58
72 17 0.05
73 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (71 bp):
TTTTTTTCTTCAAAGCCCACACAAGCTGGTGGCATCACTTATCTTTCTCTAGTCCTTAAAGAGCA
GGATGC
Found at i:389124 original size:50 final size:50
Alignment explanation
Indices: 389048--389143 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
389038 GCCTTTTTTT
** *
389048 CTTCAAAGCCCACACAAGTTGGTGACACCTACTTACCTTTAGTCCTTCTA
1 CTTCAAAGCCCACACAAACTGATGACACCTACTTACCTTTAGTCCTTCTA
*
389098 CTTCAAAGCCCACACAAACTGATGACACGTACTTACCTTTAGTCCT
1 CTTCAAAGCCCACACAAACTGATGACACCTACTTACCTTTAGTCCT
389144 CAAAGAGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.28
Consensus pattern (50 bp):
CTTCAAAGCCCACACAAACTGATGACACCTACTTACCTTTAGTCCTTCTA
Found at i:389262 original size:68 final size:68
Alignment explanation
Indices: 389102--389264 Score: 202
Period size: 68 Copynumber: 2.4 Consensus size: 68
389092 CTTCTACTTC
* * * * * * * * *
389102 AAAGCCCACACAAACTGATGACACGTACTTACCTTTAGTCCTCAAAGAGTAAGACACTTACTTAT
1 AAAGCCCACACAAGCTGATGGCACCTACATACCCTCAATCCTCAAAGAGTAAGACACTTACCTAC
*
389167 CTT
66 CTA
* *
389170 AAAGCCCACACAAGCT-AGTAGCACCTACATACCCTCAATCCTCAAAGAGTAGGACACTTACCTA
1 AAAGCCCACACAAGCTGA-TGGCACCTACATACCCTCAATCCTCAAAGAGTAAGACACTTACCTA
389234 CCTA
65 CCTA
389238 AAAGCCCACACAAGCTGATGGCACCTA
1 AAAGCCCACACAAGCTGATGGCACCTA
389265 TCCATTTTAG
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
67 1 0.01
68 78 0.98
69 1 0.01
ACGTcount: A:0.36, C:0.31, G:0.13, T:0.20
Consensus pattern (68 bp):
AAAGCCCACACAAGCTGATGGCACCTACATACCCTCAATCCTCAAAGAGTAAGACACTTACCTAC
CTA
Found at i:389410 original size:73 final size:73
Alignment explanation
Indices: 389226--389398 Score: 231
Period size: 73 Copynumber: 2.4 Consensus size: 73
389216 GAGTAGGACA
* * * *
389226 CTTACCTACCTAAAAGCCCACACAAGCTGATGGCACCTATCCATTTTAGTCCTCGAAGAGCAGAA
1 CTTACCTACCTAAAAGCCCACACAAGCTGATGGCACCTATCCACTTCAGTCCTCAAAAAGCAGAA
** *
389291 TGTTTTTT
66 TACTTTTC
* * * *
389299 CTTACCTACCTCAAAGCCCACACAAGCTGATGGCACCTATCTACTTCAGTCCTCAAAAAGTAGGA
1 CTTACCTACCTAAAAGCCCACACAAGCTGATGGCACCTATCCACTTCAGTCCTCAAAAAGCAGAA
389364 TACTTTTC
66 TACTTTTC
389372 CTTACCTACCCT-AAAGCCCACACAAGC
1 CTTACCTA-CCTAAAAGCCCACACAAGC
389399 CAATGACACC
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 85 0.97
74 3 0.03
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (73 bp):
CTTACCTACCTAAAAGCCCACACAAGCTGATGGCACCTATCCACTTCAGTCCTCAAAAAGCAGAA
TACTTTTC
Found at i:389434 original size:73 final size:73
Alignment explanation
Indices: 389226--389423 Score: 177
Period size: 73 Copynumber: 2.7 Consensus size: 73
389216 GAGTAGGACA
* ** * * * * * * * *
389226 CTTACCTACCTAAAAGCCCACACAAGCTGATGGCACCTATCC-ATTTTAGTCCTCGAAGAGCAGA
1 CTTACCTACCTCAAAGCCCACACAAGCCAATGACACCTA-CCTACTTCAATCCTCAAAAAGTAGG
** *
389290 ATGTTTTTT
65 ATACTTTTC
** * * *
389299 CTTACCTACCTCAAAGCCCACACAAGCTGATGGCACCTATCTACTTCAGTCCTCAAAAAGTAGGA
1 CTTACCTACCTCAAAGCCCACACAAGCCAATGACACCTACCTACTTCAATCCTCAAAAAGTAGGA
389364 TACTTTTC
66 TACTTTTC
389372 CTTACCTACC-CTAAAGCCCACACAAGCCAATGACACCTACCTA-TTACAATCC
1 CTTACCTACCTC-AAAGCCCACACAAGCCAATGACACCTACCTACTT-CAATCC
389424 CTAAGGAGTA
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
72 4 0.04
73 102 0.96
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.25
Consensus pattern (73 bp):
CTTACCTACCTCAAAGCCCACACAAGCCAATGACACCTACCTACTTCAATCCTCAAAAAGTAGGA
TACTTTTC
Found at i:391685 original size:13 final size:13
Alignment explanation
Indices: 391664--391715 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
391654 CCGTTAAAAG
391664 CAATGTATCGATA
1 CAATGTATCGATA
*
391677 CAATTTATC-AT-
1 CAATGTATCGATA
391688 --AT--ATCGATA
1 CAATGTATCGATA
391697 CAATGTATCGATA
1 CAATGTATCGATA
391710 CAATGT
1 CAATGT
391716 GCCATGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
7 3 0.09
8 2 0.06
9 2 0.06
11 2 0.06
12 2 0.06
13 21 0.66
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:391701 original size:33 final size:33
Alignment explanation
Indices: 391664--391732 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
391654 CCGTTAAAAG
* *
391664 CAATGTATCGATACAATTTATCATATATCGATA
1 CAATGTATCGATACAATGTACCATATATCGATA
* *
391697 CAATGTATCGATACAATGTGCCATGTATCGATA
1 CAATGTATCGATACAATGTACCATATATCGATA
391730 CAA
1 CAA
391733 ACAGTGGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATATATCGATA
Found at i:391784 original size:20 final size:20
Alignment explanation
Indices: 391761--391815 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
391751 CTGCCAGTTT
**
391761 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
391781 CATGTATCGATAC-AGTGAA
1 CATGTATCGATACAATTGAA
391800 CATGTATCGATACAAT
1 CATGTATCGATACAAT
391816 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:391819 original size:13 final size:13
Alignment explanation
Indices: 391801--391827 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
391791 TACAGTGAAC
391801 ATGTATCGATACA
1 ATGTATCGATACA
391814 ATGTATCGATACA
1 ATGTATCGATACA
391827 A
1 A
391828 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:392402 original size:21 final size:21
Alignment explanation
Indices: 392378--392426 Score: 82
Period size: 20 Copynumber: 2.4 Consensus size: 21
392368 GGCTCTCGTT
392378 AAAAAAATTTTCCCTTTGATA
1 AAAAAAATTTTCCCTTTGATA
*
392399 AAAAAAA-TTTCCCTTTGATG
1 AAAAAAATTTTCCCTTTGATA
392419 AAAAAAAT
1 AAAAAAAT
392427 GGTTAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (21 bp):
AAAAAAATTTTCCCTTTGATA
Found at i:394181 original size:22 final size:20
Alignment explanation
Indices: 394136--394210 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 20
394126 TTTGTTGATG
*
394136 ATTTTGATGAAAAATGAAGT
1 ATTTTGATGAAAAATGAAGA
394156 ATTTTGAAGTGAAAAAT-AAGA
1 ATTTTG-A-TGAAAAATGAAGA
* *
394177 AATTTGA--AAAAGATTTGATGA
1 ATTTTGATGAAAA-A--TGAAGA
394198 ATTTTGATGAAAA
1 ATTTTGATGAAAA
394211 GACGTTAGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
20 8 0.19
21 18 0.42
22 8 0.19
23 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (20 bp):
ATTTTGATGAAAAATGAAGA
Found at i:394182 original size:21 final size:22
Alignment explanation
Indices: 394143--394184 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
394133 ATGATTTTGA
* *
394143 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
394165 TGAAAAAT-AAGAAATTTGAA
1 TGAAAAATGAAGAAATTTGAA
394185 AAAGATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:397223 original size:38 final size:38
Alignment explanation
Indices: 397172--397250 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
397162 TTTAAAAGTA
*
397172 TTTCTTTTATGCTTACCCTTAATACATGCATCACATAC
1 TTTCTTTTATGCTTACCCTTAATACATGCATCACAAAC
397210 TTTCTTTTATGCTTACCCTTAATACATGCATCACAAAC
1 TTTCTTTTATGCTTACCCTTAATACATGCATCACAAAC
397248 TTT
1 TTT
397251 ATCGTAATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (38 bp):
TTTCTTTTATGCTTACCCTTAATACATGCATCACAAAC
Found at i:400475 original size:20 final size:21
Alignment explanation
Indices: 400450--400543 Score: 119
Period size: 20 Copynumber: 4.7 Consensus size: 21
400440 GTTAGAAGCA
400450 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGCA-C
*
400470 ATGTATTGATACAATGTGCA-
1 ATGTATCGATACAATGTGCAC
400490 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGCA-C
400510 ATGTATCGATACAATGTGC-C
1 ATGTATCGATACAATGTGCAC
400530 ATGTATCGATACAA
1 ATGTATCGATACAA
400544 ATAGTGGCAG
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.03
19 1 0.02
20 58 0.88
21 2 0.03
22 3 0.05
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATGTGCAC
Found at i:400502 original size:40 final size:40
Alignment explanation
Indices: 400447--400543 Score: 176
Period size: 40 Copynumber: 2.4 Consensus size: 40
400437 GCCGTTAGAA
*
400447 GCAATGTATCGATACAATTCATCATGTATTGATACAATGT
1 GCAATGTATCGATACAATTCATCATGTATCGATACAATGT
400487 GCAATGTATCGATACAATTCATCATGTATCGATACAATGT
1 GCAATGTATCGATACAATTCATCATGTATCGATACAATGT
*
400527 GCCATGTATCGATACAA
1 GCAATGTATCGATACAA
400544 ATAGTGGCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (40 bp):
GCAATGTATCGATACAATTCATCATGTATCGATACAATGT
Found at i:402762 original size:89 final size:88
Alignment explanation
Indices: 402625--402871 Score: 273
Period size: 89 Copynumber: 2.8 Consensus size: 88
402615 GGTACTTTAG
* * *
402625 CCTCGTTCTAACAAAAATTCAAATTTTCGTTCATATAATTTTATCCTTGGGGAAACTTTATCCCC
1 CCTCGTTCTAACAAAAATTCAAATTTCCCTTCATATAATTTTATCCTTGGGGAAACTCTATCCCC
*
402690 ACTACTCTGAAGGGATACTCCAA
66 ACTACTCTGAAGGGATACTCAAA
* * *
402713 CCTCGTTCTAACAAAAAATTCAAATTTCCCTTCATATAATTTTATCCTTGGAGAAACTCCATTCC
1 CCTCGTTCTAAC-AAAAATTCAAATTTCCCTTCATATAATTTTATCCTTGGGGAAACTCTATCCC
* * *
402778 CATTACTCCGACA-AGATACTCAAA
65 CACTACTCTGA-AGGGATACTCAAA
* ** ** * * * *
402802 CC-CTGCTCTCCCAAAAATTCAAATTTACTTTTCATATAGTTTTATCTTTAGGAAAACTCTATCC
1 CCTC-GTTCTAACAAAAATTCAAATTT-CCCTTCATATAATTTTATCCTTGGGGAAACTCTATCC
402866 CCACTA
64 CCACTA
402872 TTTCGAAGAG
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
88 27 0.20
89 104 0.79
90 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (88 bp):
CCTCGTTCTAACAAAAATTCAAATTTCCCTTCATATAATTTTATCCTTGGGGAAACTCTATCCCC
ACTACTCTGAAGGGATACTCAAA
Found at i:402884 original size:89 final size:86
Alignment explanation
Indices: 402583--402884 Score: 234
Period size: 89 Copynumber: 3.4 Consensus size: 86
402573 ATTTTCAATT
* * * * ** * *
402583 TTGGAAAAACTTTATCCCCACTATTTCGAGGGGGTACTTTAGCCTCGTTCTAA-CAAAAATTCAA
1 TTGG-AAAACTCTATCCCCACTA-TTCGAAGAGATACTCAAACCTCGCTCTAACCAAAAATTCAA
*
402647 ATTTTCGTTCATATAATTTTATCC
64 A-TTTCCTTCATATAATTTTATCC
* * * * * * *
402671 TTGGGGAAACTTTATCCCCACTACTCTGAAGGGATACTCCAACCTCGTTCTAACAAAAAATTCAA
1 TT-GGAAAACTCTATCCCCACTATTC-GAAGAGATACTCAAACCTCGCTCTAACCAAAAATTCAA
402736 ATTTCCCTTCATATAATTTTATCC
64 ATTT-CCTTCATATAATTTTATCC
* * * * *
402760 TTGGAGAAACTCCATTCCCATTACTCCGACA-AGATACTCAAACC-CTGCTCT-CCCAAAAATTC
1 TTGGA-AAACTCTATCCCCACTA-TTCGA-AGAGATACTCAAACCTC-GCTCTAACCAAAAATTC
* * *
402822 AAATTTACTTTTCATATAGTTTTATCT
62 AAATTT-C-CTTCATATAATTTTATCC
402849 TTAGGAAAACTCTATCCCCACTATTTCGAAGAGATA
1 TT-GGAAAACTCTATCCCCACTA-TTCGAAGAGATA
402885 TTTCAACCCC
Statistics
Matches: 173, Mismatches: 30, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
87 2 0.01
88 63 0.36
89 103 0.60
90 5 0.03
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (86 bp):
TTGGAAAACTCTATCCCCACTATTCGAAGAGATACTCAAACCTCGCTCTAACCAAAAATTCAAAT
TTCCTTCATATAATTTTATCC
Found at i:406667 original size:19 final size:19
Alignment explanation
Indices: 406643--406690 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
406633 TATCGATACA
*
406643 TTGTATGGATACAATTTGT
1 TTGTATCGATACAATTTGT
406662 TTGTATCGATACAATTTGT
1 TTGTATCGATACAATTTGT
406681 TTGTATCGAT
1 TTGTATCGAT
406691 GAATCTAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (19 bp):
TTGTATCGATACAATTTGT
Found at i:410028 original size:25 final size:26
Alignment explanation
Indices: 409994--410044 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
409984 TCACCAAAAG
409994 TAACATTTCCACCCTCTTTTG-CTCC
1 TAACATTTCCACCCTCTTTTGTCTCC
410019 TAACATTTCCACCCTCTTTTGTCTCC
1 TAACATTTCCACCCTCTTTTGTCTCC
410045 GATCATATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.16, C:0.39, G:0.04, T:0.41
Consensus pattern (26 bp):
TAACATTTCCACCCTCTTTTGTCTCC
Found at i:412462 original size:9 final size:9
Alignment explanation
Indices: 412448--412472 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
412438 ATGACTGGAT
412448 TTCTCTTAC
1 TTCTCTTAC
412457 TTCTCTTAC
1 TTCTCTTAC
412466 TTCTCTT
1 TTCTCTT
412473 GCTGTTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (9 bp):
TTCTCTTAC
Found at i:415556 original size:13 final size:13
Alignment explanation
Indices: 415540--415573 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
415530 ATTAAATTTT
415540 TTTATTATTAATA
1 TTTATTATTAATA
*
415553 TTTATGATTAATA
1 TTTATTATTAATA
415566 TTTATTAT
1 TTTATTAT
415574 AATTAATCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
TTTATTATTAATA
Found at i:415573 original size:29 final size:28
Alignment explanation
Indices: 415511--415580 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
415501 TAATATAATC
*
415511 TTATAATTATT-ATTTTATAATTAAATT
1 TTATTATTATTAATTTTATAATTAAATT
* *
415538 TTTTTATTATTAATATTTATGATT-AATAT
1 TTATTATTATTAAT-TTTATAATTAAAT-T
*
415567 TTATTATAATTAAT
1 TTATTATTATTAAT
415581 CGATATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 9 0.26
28 5 0.14
29 21 0.60
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (28 bp):
TTATTATTATTAATTTTATAATTAAATT
Found at i:416737 original size:19 final size:17
Alignment explanation
Indices: 416705--416739 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
416695 TTATTAGTCG
416705 TATAAATATAAATATAA
1 TATAAATATAAATATAA
416722 TATAAATTATTAAATATA
1 TATAAA-TA-TAAATATA
416740 TTAAAATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TATAAATATAAATATAA
Found at i:416744 original size:17 final size:19
Alignment explanation
Indices: 416708--416754 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
416698 TTAGTCGTAT
416708 AAATA-TAAATATAATATA
1 AAATATTAAATATAATATA
*
416726 AATTATTAAATAT-AT-TA
1 AAATATTAAATATAATATA
*
416743 AAATCTTAAATA
1 AAATATTAAATA
416755 AAAATATGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 12 0.48
18 6 0.24
19 7 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATTAAATATAATATA
Found at i:417071 original size:5 final size:5
Alignment explanation
Indices: 417061--417092 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
417051 TATAATTATG
*
417061 TAATA TAATA TAATA TAATA TAATA TGATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TA
417093 TCATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:419101 original size:100 final size:102
Alignment explanation
Indices: 418951--419150 Score: 235
Period size: 100 Copynumber: 2.0 Consensus size: 102
418941 CTGCACAGAG
* ** * **
418951 CTCAATGACATTATCACCTGATAATATACGTAAAAGATTTGATCAGATA-TTTCGTTGTAATGTG
1 CTCAATGACATTATCACC-GATAATATACATAAAAGATTCAATCAAATATTTTC-TTAAAATGTG
** * * *
419015 AGATTTGTATGCAATAAATTACTTTATGGGAATCTTTTT
64 AGATTTACATACAATAAATTACTTAATGAGAATCTTTTT
* * *
419054 CTCAATGACATTATCA-C-ATGATATACATAAAAGATTCAATTAAATATTTTCTTAAAATGTGTG
1 CTCAATGACATTATCACCGATAATATACATAAAAGATTCAATCAAATATTTTCTTAAAATGTGAG
419117 ATTTACATACAATAAATTACTTAATGAGAATCTT
66 ATTTACATACAATAAATTACTTAATGAGAATCTT
419151 ATTGAATATG
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
100 61 0.74
101 4 0.05
102 1 0.01
103 16 0.20
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (102 bp):
CTCAATGACATTATCACCGATAATATACATAAAAGATTCAATCAAATATTTTCTTAAAATGTGAG
ATTTACATACAATAAATTACTTAATGAGAATCTTTTT
Found at i:419312 original size:2 final size:2
Alignment explanation
Indices: 419305--419371 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
419295 GACGGCTTCT
*
419305 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
419347 TA TA TA TA TA TA TA TG TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
419372 TTAAAAAACT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:425333 original size:21 final size:20
Alignment explanation
Indices: 425294--425332 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
425284 TTTTTAAATT
425294 TATTTACAAAATTTCTTTTG
1 TATTTACAAAATTTCTTTTG
425314 TATTTACAAACATTT-TTTT
1 TATTTACAAA-ATTTCTTTT
425333 TAGAATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (20 bp):
TATTTACAAAATTTCTTTTG
Found at i:427133 original size:13 final size:12
Alignment explanation
Indices: 427113--427231 Score: 55
Period size: 13 Copynumber: 10.5 Consensus size: 12
427103 TACAATTCCT
427113 CATGTATCGATA
1 CATGTATCGATA
427125 CATTGTATCGATA
1 CA-TGTATCGATA
* *
427138 CA-AT-TC-CT-
1 CATGTATCGATA
427146 CATGTATCGATA
1 CATGTATCGATA
427158 CATTGTATCGAT-
1 CA-TGTATCGATA
*
427170 -AT-AAT-GATA
1 CATGTATCGATA
427179 CATTGTATCGATA
1 CA-TGTATCGATA
* *
427192 CA-AT-TC-CT-
1 CATGTATCGATA
427200 CATGTATCGATA
1 CATGTATCGATA
*
427212 CATTGTATTGATA
1 CA-TGTATCGATA
427225 CAATGTA
1 C-ATGTA
427232 CCATGTATCG
Statistics
Matches: 79, Mismatches: 11, Indels: 33
0.64 0.09 0.27
Matches are distributed among these distances:
8 7 0.09
9 6 0.08
10 10 0.13
11 6 0.08
12 8 0.10
13 41 0.52
14 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:427137 original size:33 final size:33
Alignment explanation
Indices: 427095--427170 Score: 152
Period size: 33 Copynumber: 2.3 Consensus size: 33
427085 TTAGAAGCAA
427095 TGTATCGATACAATTCCTCATGTATCGATACAT
1 TGTATCGATACAATTCCTCATGTATCGATACAT
427128 TGTATCGATACAATTCCTCATGTATCGATACAT
1 TGTATCGATACAATTCCTCATGTATCGATACAT
427161 TGTATCGATA
1 TGTATCGATA
427171 TAATGATACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATTCCTCATGTATCGATACAT
Found at i:427187 original size:54 final size:54
Alignment explanation
Indices: 427121--427247 Score: 213
Period size: 54 Copynumber: 2.4 Consensus size: 54
427111 CTCATGTATC
*
427121 GATACATTGTATCGATACAATTCCTCATGTATCGATACATTGTATCGATATAAT
1 GATACATTGTATCGATACAATTCCTCATGTATCGATACATTGTATCGATACAAT
*
427175 GATACATTGTATCGATACAATTCCTCATGTATCGATACATTGTATTGATACAAT
1 GATACATTGTATCGATACAATTCCTCATGTATCGATACATTGTATCGATACAAT
427229 G-TACCA-TGTATCGATACAA
1 GATA-CATTGTATCGATACAA
427248 ACAGTGGTAG
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
53 15 0.21
54 55 0.79
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.35
Consensus pattern (54 bp):
GATACATTGTATCGATACAATTCCTCATGTATCGATACATTGTATCGATACAAT
Found at i:427217 original size:33 final size:33
Alignment explanation
Indices: 427148--427246 Score: 112
Period size: 33 Copynumber: 3.0 Consensus size: 33
427138 CAATTCCTCA
* * *
427148 TGTATCGATACATTGTATCGATATAAT-GATACAT
1 TGTATCGATACAATGTA-CCATGT-ATCGATACAT
*
427182 TGTATCGATACAAT-TCCTCATGTATCGATACAT
1 TGTATCGATACAATGTAC-CATGTATCGATACAT
*
427215 TGTATTGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
427247 AACAGTGGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
32 3 0.05
33 38 0.68
34 15 0.27
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:427305 original size:20 final size:20
Alignment explanation
Indices: 427280--427333 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
427270 CAGTTTCATA
**
427280 TATCGATACAATTGTTTATG
1 TATCGATACAATTGTACATG
*
427300 TATCGATACAA-TGAACATG
1 TATCGATACAATTGTACATG
427319 TATCGATAC-ATTGTA
1 TATCGATACAATTGTA
427334 TCGATACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.59
20 11 0.38
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
TATCGATACAATTGTACATG
Found at i:427335 original size:13 final size:13
Alignment explanation
Indices: 427317--427341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
427307 ACAATGAACA
427317 TGTATCGATACAT
1 TGTATCGATACAT
427330 TGTATCGATACA
1 TGTATCGATACA
427342 AAGCATAATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:427361 original size:33 final size:32
Alignment explanation
Indices: 427298--427362 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
427288 CAATTGTTTA
* *
427298 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCAATACAT
427330 TGTATCGATACAAAGCATA-ATGTATCAATACAT
1 TGTATCGATACAAAG-A-ACATGTATCAATACAT
427363 CTGGGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCAATACAT
Found at i:429873 original size:13 final size:13
Alignment explanation
Indices: 429855--429914 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
429845 ATAGTAACCC
429855 ATGTATCGATACA
1 ATGTATCGATACA
429868 ATGTATCGATACA
1 ATGTATCGATACA
*
429881 A---A--GA-ATA
1 ATGTATCGATACA
*
429888 TTGTATCGATACA
1 ATGTATCGATACA
429901 ATGTATCGATACA
1 ATGTATCGATACA
429914 A
1 A
429915 AGAATATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
10 2 0.05
12 2 0.05
13 29 0.78
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:429894 original size:20 final size:20
Alignment explanation
Indices: 429869--429933 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
429859 ATCGATACAA
429869 TGTATCGATACAAAGAATAT
1 TGTATCGATACAAAGAATAT
429889 TGTATCGATAC-----A-A-
1 TGTATCGATACAAAGAATAT
429902 TGTATCGATACAAAGAATAT
1 TGTATCGATACAAAGAATAT
429922 TGTATCGATACA
1 TGTATCGATACA
429934 TCTGGGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 23 0.61
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAAGAATAT
Found at i:429898 original size:33 final size:33
Alignment explanation
Indices: 429856--429933 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
429846 TAGTAACCCA
429856 TGTATCGATACAATGTATCGATACAAAGAATAT
1 TGTATCGATACAATGTATCGATACAAAGAATAT
429889 TGTATCGATACAATGTATCGATACAAAGAATAT
1 TGTATCGATACAATGTATCGATACAAAGAATAT
429922 TGTATCGATACA
1 TGTATCGATACA
429934 TCTGGGTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACAAAGAATAT
Found at i:436161 original size:20 final size:19
Alignment explanation
Indices: 436135--436187 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
436125 CTGCCAGTTT
* *
436135 CATGTATCGATACAATTAT
1 CATGTATCGATACAATGAA
* *
436154 CTATGTATTGATATAATGAA
1 C-ATGTATCGATACAATGAA
436174 CATGTATCGATACA
1 CATGTATCGATACA
436188 TTGTATCAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:440155 original size:82 final size:82
Alignment explanation
Indices: 440038--440200 Score: 242
Period size: 82 Copynumber: 2.0 Consensus size: 82
440028 TAAGAATTAA
* * *
440038 TTATTTTCATCAATATTTTATATTATTGTTTACTAAATTGAATAAATAATTATGGAAA-TAAGAT
1 TTATTTTCATCAATATTTTAAATTATTGTTGACTAAATTGAATAAATAATTATAGAAATTAA-AT
440102 ATATATACATAATAATTTAT
65 ATATAT--ATAATAATTTAT
*
440122 TTATTTTCATC-AT-TTTTAAATTATTGTTGACTAAATTGATTAAATAATTATAGAAATTAAATA
1 TTATTTTCATCAATATTTTAAATTATTGTTGACTAAATTGAATAAATAATTATAGAAATTAAATA
440185 TATATATAATAATTTA
66 TATATATAATAATTTA
440201 AAAGTAAATA
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
80 11 0.15
82 47 0.64
83 5 0.07
84 11 0.15
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (82 bp):
TTATTTTCATCAATATTTTAAATTATTGTTGACTAAATTGAATAAATAATTATAGAAATTAAATA
TATATATAATAATTTAT
Found at i:440524 original size:2 final size:2
Alignment explanation
Indices: 440517--440548 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
440507 CAGTTAAACA
440517 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
440549 TCTTTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:440803 original size:91 final size:92
Alignment explanation
Indices: 440640--440823 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 92
440630 ATTCGAATAA
* *
440640 TCTTATAAAATATATTTAAAGTAGGCCTAATCTGTTTATCAATTCGGGGTAATTTGGTAATAAAC
1 TCTTATAAAATATATTTAAAGTAGCCCCAA-CTGTTTATCAATTCGGGGTAATTTGGTAATAAAC
*
440705 ATAAAATTGAGGTCCAATTGTTTTAAGG
65 ATAAAATTGAGGTCCAACTGTTTTAAGG
*
440733 TCTTATAAAATATATTTAAAGTAGTCCCCAA-TGTTTTTCAATT-GGGGTAATTTGGTAATAAAC
1 TCTTATAAAATATATTTAAAGTAG-CCCCAACTGTTTATCAATTCGGGGTAATTTGGTAATAAAC
*
440796 ATCAAATTGAGGTCCAACTGTTTTAAGG
65 ATAAAATTGAGGTCCAACTGTTTTAAGG
440824 GTAATTCTGT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
91 46 0.54
92 11 0.13
93 24 0.28
94 4 0.05
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (92 bp):
TCTTATAAAATATATTTAAAGTAGCCCCAACTGTTTATCAATTCGGGGTAATTTGGTAATAAACA
TAAAATTGAGGTCCAACTGTTTTAAGG
Found at i:441069 original size:22 final size:20
Alignment explanation
Indices: 441044--441105 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 20
441034 ATGCTATAAT
441044 TATATATAAGATGTTATATATA
1 TATATATAA-AT-TTATATATA
*
441066 TATATATAAATTTTTATATA
1 TATATATAAATTTATATATA
*
441086 T-TA-AT-TATTTATAT-TA
1 TATATATAAATTTATATATA
441102 TATA
1 TATA
441106 AATTTTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 3 0.08
17 9 0.25
18 2 0.06
19 2 0.06
20 9 0.25
21 2 0.06
22 9 0.25
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TATATATAAATTTATATATA
Found at i:441083 original size:20 final size:22
Alignment explanation
Indices: 441044--441086 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
441034 ATGCTATAAT
441044 TATATATAAGATGTTATATATA
1 TATATATAAGATGTTATATATA
*
441066 TATATATAA-AT-TTTTATATA
1 TATATATAAGATGTTATATATA
441086 T
1 T
441087 TAATTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
TATATATAAGATGTTATATATA
Found at i:441104 original size:32 final size:33
Alignment explanation
Indices: 441057--441118 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
441047 ATATAAGATG
441057 TTATATATATATATATAAATTTTTATATATTAA
1 TTATATATATATATATAAATTTTTATATATTAA
* *
441090 TTATTTATAT-TATATAAATTTTTTTATAT
1 TTATATATATATATATAAATTTTTATATAT
441119 ATGAACTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
TTATATATATATATATAAATTTTTATATATTAA
Found at i:441314 original size:17 final size:18
Alignment explanation
Indices: 441283--441320 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
441273 TACTATTATT
* *
441283 TTTTCTTTTTATATCGTA
1 TTTTATTTTTATATCATA
441301 TTTTATTTTT-TATCATA
1 TTTTATTTTTATATCATA
441318 TTT
1 TTT
441321 ATGTGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTATTTTTATATCATA
Found at i:441917 original size:25 final size:24
Alignment explanation
Indices: 441889--441936 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
441879 ATTAATAAAA
*
441889 AATATAAAAATATTTCTCAATTATC
1 AATATAAAAATAATTCTC-ATTATC
* *
441914 AATATATATATAATTCTCATTAT
1 AATATAAAAATAATTCTCATTAT
441937 TTTTTGCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (24 bp):
AATATAAAAATAATTCTCATTATC
Found at i:442209 original size:8 final size:8
Alignment explanation
Indices: 442195--442324 Score: 54
Period size: 8 Copynumber: 15.0 Consensus size: 8
442185 CAATAGTATA
442195 ATATAAAT
1 ATATAAAT
*
442203 ATATAAAA
1 ATATAAAT
*
442211 ATTTTAAAATT
1 A-TAT-AAA-T
*
442222 TATATTAAT
1 -ATATAAAT
442231 AT-TAAAT
1 ATATAAAT
442238 AT-T-AAT
1 ATATAAAT
442244 ATATTAAAATT
1 ATA-T-AAA-T
442255 TATATAAAT
1 -ATATAAAT
442264 ATATATAAT
1 ATATA-AAT
442273 ATA-ATAA-
1 ATATA-AAT
*
442280 ATATAATT
1 ATATAAAT
442288 ATAATAAAAT
1 AT-AT-AAAT
442298 ATATAAATAT
1 ATAT-AA-AT
442308 AATATAAAT
1 -ATATAAAT
442317 ATATAAAT
1 ATATAAAT
442325 TATTTAATAT
Statistics
Matches: 97, Mismatches: 8, Indels: 34
0.70 0.06 0.24
Matches are distributed among these distances:
6 5 0.05
7 11 0.11
8 31 0.32
9 19 0.20
10 19 0.20
11 8 0.08
12 4 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATATAAAT
Found at i:442253 original size:33 final size:34
Alignment explanation
Indices: 442214--442313 Score: 111
Period size: 33 Copynumber: 3.0 Consensus size: 34
442204 TATAAAAATT
*
442214 TTAAAATTTATATTAATAT-TA-AATATTAATATA
1 TTAAAATTTATATAAATATATATAATA-TAATATA
442247 TTAAAATTTATATAAATATATATAATATAATA-A
1 TTAAAATTTATATAAATATATATAATATAATATA
* *
442280 ATATAA-TTATAATAAA-ATATATAAATATAATATA
1 TTAAAATTTAT-ATAAATATATAT-AATATAATATA
442314 AATATATAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
32 10 0.17
33 37 0.63
34 8 0.14
35 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (34 bp):
TTAAAATTTATATAAATATATATAATATAATATA
Found at i:442283 original size:24 final size:23
Alignment explanation
Indices: 442256--442322 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
442246 ATTAAAATTT
442256 ATATAAATATATATAATATAATAA
1 ATATAAATATA-ATAATATAATAA
* *
442280 ATATAATTATAATAAAATATATAA
1 ATATAAATATAATAATATA-ATAA
442304 ATAT-AATATAA-ATATATAA
1 ATATAAATATAATA-ATATAA
442323 ATTATTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 2 0.05
23 17 0.46
24 18 0.49
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATATAAATATAATAATATAATAA
Found at i:442296 original size:44 final size:43
Alignment explanation
Indices: 442149--442324 Score: 154
Period size: 43 Copynumber: 4.1 Consensus size: 43
442139 TAAAAAATTA
* * *
442149 AAATATAATATAAAATAAAATTTAATATAAAAATA-ACAATAGTAT
1 AAATATAAT-TATAATAAAATTT-ATATAAATATATATAATA-TAT
* *
442194 -AATATAAATAT-ATAAAAATTT-TA-AAATTTATATTAATAT-T
1 AAATATAATTATAAT-AAAATTTATATAAATATATA-TAATATAT
*
442234 AAATATTAA-TATATTAAAATTTATATAAATATATATAATATAAT
1 AAATA-TAATTATAATAAAATTTATATAAATATATATAATAT-AT
442278 AAATATAATTATAATAAAA--TATATAAATATAATATAAATATAT
1 AAATATAATTATAATAAAATTTATATAAATAT-ATAT-AATATAT
442321 AAAT
1 AAAT
442325 TATTTAATAT
Statistics
Matches: 110, Mismatches: 8, Indels: 28
0.75 0.05 0.19
Matches are distributed among these distances:
40 6 0.05
41 18 0.16
42 29 0.26
43 30 0.27
44 27 0.25
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (43 bp):
AAATATAATTATAATAAAATTTATATAAATATATATAATATAT
Found at i:442338 original size:42 final size:42
Alignment explanation
Indices: 442222--442324 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
442212 TTTTAAAATT
*
442222 TATAT-TAATAT--TAAATATTAA-TATATTAAAATTTATATAAA
1 TATATATAATATAATAAATA-TAATTATAATAAAA--TATATAAA
442263 TATATATAATATAATAAATATAATTATAATAAAATATATAAA
1 TATATATAATATAATAAATATAATTATAATAAAATATATAAA
442305 TATAATATAA-ATATATAAAT
1 TAT-ATATAATATA-ATAAAT
442325 TATTTAATAT
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
41 5 0.09
42 20 0.36
43 15 0.27
44 15 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (42 bp):
TATATATAATATAATAAATATAATTATAATAAAATATATAAA
Found at i:442341 original size:35 final size:34
Alignment explanation
Indices: 442235--442341 Score: 85
Period size: 38 Copynumber: 3.0 Consensus size: 34
442225 ATTAATATTA
442235 AATATTAATATATTAAA--ATTT-ATATAAATATATAT
1 AATA-TAATATA-TAAATTATTTAATATAAA-A-ATAT
* * *
442270 AATATAATAAATATAATTATAATAAAATATATAAATAT
1 AATATAATATATA-AATTAT--T-TAATATAAAAATAT
442308 AATATAAATATATAAATTATTTAATATAAAAATA
1 AATAT-AATATATAAATTATTTAATATAAAAATA
442342 AATGGGGAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
33 2 0.03
34 8 0.14
35 15 0.26
36 3 0.05
38 16 0.28
39 8 0.14
40 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
AATATAATATATAAATTATTTAATATAAAAATAT
Found at i:443418 original size:25 final size:26
Alignment explanation
Indices: 443373--443434 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
443363 ATATGATATA
*
443373 ATAAATATGATTATAATATAAAATAAT
1 ATAAATAT-ATTATAAAATAAAATAAT
*
443400 ATAAATATATTA-AAAATAAAATTAT
1 ATAAATATATTATAAAATAAAATAAT
*
443425 ATAATTATAT
1 ATAAATATAT
443435 AAATTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 20 0.62
26 4 0.12
27 8 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
ATAAATATATTATAAAATAAAATAAT
Found at i:443504 original size:25 final size:26
Alignment explanation
Indices: 443476--443578 Score: 79
Period size: 25 Copynumber: 3.9 Consensus size: 26
443466 TAAATTTAAA
*
443476 TATATTTTGATAT-TTATATTATATT
1 TATATTTTTATATATTATATTATATT
**
443501 TATATTTTT-TATAAAATATTATATTT
1 TATATTTTTATATATTATATTATA-TT
*
443527 TATCATATTTTAT-T-TTACATTATAATT
1 TAT-AT-TTTTATATATTATATTAT-ATT
* *
443554 TATTTTTTTATATCTTATAATTATA
1 TATATTTTTATATATTAT-ATTATA
443579 ATAAATTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
24 3 0.05
25 22 0.36
26 7 0.11
27 17 0.28
28 11 0.18
29 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (26 bp):
TATATTTTTATATATTATATTATATT
Found at i:443505 original size:27 final size:26
Alignment explanation
Indices: 443475--443578 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 26
443465 ATAAATTTAA
*
443475 ATATATTTTGATATTTATATTATATTT
1 ATAT-TTTTTATATTTATATTATATTT
**
443502 ATATTTTTTATA-AAATATTATATTTT
1 ATATTTTTTATATTTATATTATA-TTT
* *
443528 ATCATATTTTAT-TTTACATTATAATTT
1 AT-ATTTTTTATATTTATATTAT-ATTT
443555 AT-TTTTTTATATCTTATAATTATA
1 ATATTTTTTATAT-TTAT-ATTATA
443579 ATAAATTTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
25 15 0.25
26 13 0.21
27 27 0.44
28 6 0.10
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (26 bp):
ATATTTTTTATATTTATATTATATTT
Found at i:443507 original size:17 final size:17
Alignment explanation
Indices: 443485--443594 Score: 59
Period size: 17 Copynumber: 6.5 Consensus size: 17
443475 ATATATTTTG
443485 ATATTTATATTATATTT
1 ATATTTATATTATATTT
* * *
443502 ATATTTTTTATAAAATATT
1 ATA-TTTATATTATAT-TT
*
443521 ATATTT-TATCATATTT
1 ATATTTATATTATATTT
*
443537 -TATTTTACATTATAATTT
1 ATA-TTTATATTAT-ATTT
443555 AT-TTT-T-TTATATCTT
1 ATATTTATATTATAT-TT
* * *
443570 ATAATTATAATAAATTT
1 ATATTTATATTATATTT
*
443587 AAATTTAT
1 ATATTTAT
443595 CTGTTTAAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
14 2 0.03
15 10 0.14
16 7 0.10
17 25 0.36
18 20 0.29
19 6 0.09
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATTTATATTATATTT
Found at i:443513 original size:20 final size:20
Alignment explanation
Indices: 443488--443541 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
443478 TATTTTGATA
443488 TTTATATTATATTTATATTT
1 TTTATATTATATTTATATTT
**
443508 TTTATAAAATA-TTATATTT
1 TTTATATTATATTTATATTT
* *
443527 TATCATATTTTATTT
1 T-TTATATTATATTT
443542 TACATTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 9 0.35
20 15 0.58
21 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATATTATATTTATATTT
Found at i:445245 original size:18 final size:17
Alignment explanation
Indices: 445218--445255 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
445208 AAGCTTATCA
445218 TTTCACGTATTAAAAGG
1 TTTCACGTATTAAAAGG
445235 TTTCGACGTATTAAAAGG
1 TTTC-ACGTATTAAAAGG
445253 TTT
1 TTT
445256 TATGATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (17 bp):
TTTCACGTATTAAAAGG
Found at i:446730 original size:85 final size:86
Alignment explanation
Indices: 446587--446762 Score: 291
Period size: 85 Copynumber: 2.1 Consensus size: 86
446577 TATTTGAAAG
* * *
446587 TTAACTTTTAAATCATAAAGATTTTATTTTATTAATTTTTTATTTAAGTTATTAAATTATAATTT
1 TTAACATTTAAAGCATAAAAATTTTATTTTATTAATTTTTTATTTAAGTTATTAAATTATAATTT
**
446652 TAATTAC-AAAAGTCATTAAT
66 TAATTACAAAAAACCATTAAT
*
446672 TTAACATTTAAAGCGTAAAAATTTTATTTTATTAATTTTTTATTTAAGTTATTAAATTATAATTT
1 TTAACATTTAAAGCATAAAAATTTTATTTTATTAATTTTTTATTTAAGTTATTAAATTATAATTT
446737 TAATTACAAAAAACCATTAAT
66 TAATTACAAAAAACCATTAAT
446758 TTAAC
1 TTAAC
446763 GTTACATTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 68 0.81
86 16 0.19
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.49
Consensus pattern (86 bp):
TTAACATTTAAAGCATAAAAATTTTATTTTATTAATTTTTTATTTAAGTTATTAAATTATAATTT
TAATTACAAAAAACCATTAAT
Found at i:447259 original size:29 final size:28
Alignment explanation
Indices: 447234--447322 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
447224 ATGTATTGAT
* *
447234 ATTATATTTATTTATTTTATTATATTATA
1 ATTATATTAATATATTTT-TTATATTATA
447263 ATTATATTAATATATTTTTTAT-TTAT-
1 ATTATATTAATATATTTTTTATATTATA
* * * *
447289 ATAAATTTTAATATATTTATAAT-TTAT-
1 AT-TATATTAATATATTTTTTATATTATA
447316 ATTATAT
1 ATTATAT
447323 AAATTTTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.10
27 26 0.51
28 4 0.08
29 16 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTATATTAATATATTTTTTATATTATA
Found at i:447299 original size:27 final size:28
Alignment explanation
Indices: 447242--447348 Score: 99
Period size: 32 Copynumber: 3.5 Consensus size: 28
447232 ATATTATATT
*
447242 TATTTATTTTATTATATTATAATTATATTAATA
1 TATTTA-TTTATT-TA-TATAA--ATTTTAATA
447275 TATTT-TTTATTTATATAAATTTTAATA
1 TATTTATTTATTTATATAAATTTTAATA
*
447302 TATTTATAATTTATATTATATAAATTTTAAAA
1 TA-TT-T-ATTTAT-TTATATAAATTTTAATA
*
447334 TATTTATGTATTTAT
1 TATTTATTTATTTAT
447349 GTCATATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
27 10 0.15
28 6 0.09
29 11 0.17
30 3 0.05
31 13 0.20
32 18 0.27
33 5 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (28 bp):
TATTTATTTATTTATATAAATTTTAATA
Found at i:447314 original size:16 final size:18
Alignment explanation
Indices: 447288--447340 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
447278 TTTTTATTTA
447288 TATAAATTTTAATATATT
1 TATAAATTTTAATATATT
*
447306 TAT-AA-TTT-ATAT-TA
1 TATAAATTTTAATATATT
*
447320 TATAAATTTTAAAATATT
1 TATAAATTTTAATATATT
447338 TAT
1 TAT
447341 GTATTTATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 4 0.14
15 6 0.21
16 6 0.21
17 5 0.18
18 7 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATAAATTTTAATATATT
Found at i:447321 original size:32 final size:31
Alignment explanation
Indices: 447280--447340 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 31
447270 TAATATATTT
*
447280 TTTATTTATATAAATTTTAATATATTTATAA
1 TTTATTTATATAAATTTTAAAATATTTATAA
447311 TTTATATTATATAAATTTTAAAATATTTAT
1 TTTAT-TTATATAAATTTTAAAATATTTAT
447341 GTATTTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTATTTATATAAATTTTAAAATATTTATAA
Found at i:447587 original size:30 final size:29
Alignment explanation
Indices: 447545--447636 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 29
447535 TTATTTTATG
* *
447545 TTAAAAACTTATTTAAGTACAAATTAAAAA
1 TTAAATACTTATTTAA-TATAAATTAAAAA
*
447575 TT-AATGACTTATTTGAATATAAATTAAAAG
1 TTAAAT-ACTTATTT-AATATAAATTAAAAA
*
447605 TTAAATATTTATTTAAATATAAATTAAAAA
1 TTAAATACTTATTT-AATATAAATTAAAAA
447635 TT
1 TT
447637 TATTTACATA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 2 0.04
30 46 0.87
31 5 0.09
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (29 bp):
TTAAATACTTATTTAATATAAATTAAAAA
Found at i:447632 original size:23 final size:22
Alignment explanation
Indices: 447594--447671 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 22
447584 TATTTGAATA
*
447594 TAAATTAAAAGTTAAATATTTATT
1 TAAA-TAAAA-TTAAAAATTTATT
447618 TAAATATAAATTAAAAATTTATT
1 TAAATA-AAATTAAAAATTTATT
* * *
447641 TACATACAATATAAAAATTTATA
1 TAAATAAAAT-TAAAAATTTATT
447664 TAAATAAA
1 TAAATAAA
447672 TAGGTAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
22 3 0.07
23 36 0.78
24 7 0.15
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (22 bp):
TAAATAAAATTAAAAATTTATT
Found at i:448658 original size:36 final size:36
Alignment explanation
Indices: 448564--448658 Score: 88
Period size: 36 Copynumber: 2.7 Consensus size: 36
448554 TATATAAGTG
* * *
448564 AACTATAAATATATTA-AAATTTACAAAAATATATA
1 AACTATAAATATAATATAAATATACAAAAATAAATA
* * * *
448599 AACTTTGAATATAAT-TATGATATACAAAAATAAATTC
1 AACTATAAATATAATATA-AATATACAAAAATAAA-TA
448636 AA-TATAAATATAATATAAATATA
1 AACTATAAATATAATATAAATATA
448659 TAATTTTTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
35 13 0.28
36 28 0.61
37 5 0.11
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (36 bp):
AACTATAAATATAATATAAATATACAAAAATAAATA
Found at i:449552 original size:17 final size:17
Alignment explanation
Indices: 449530--449566 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
449520 TAGTTTGTTG
449530 TTTTA-TTAAATTTTATT
1 TTTTATTTAAA-TTTATT
449547 TTTTATTTAAATTTATT
1 TTTTATTTAAATTTATT
449564 TTT
1 TTT
449567 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTTAAATTTATT
Found at i:449587 original size:20 final size:19
Alignment explanation
Indices: 449551--449593 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
449541 TTTATTTTTT
449551 ATTTAAATTTATTTTTAAA
1 ATTTAAATTTATTTTTAAA
449570 ATTTAATATTT-TTGTTTAAA
1 ATTTAA-ATTTATT-TTTAAA
449590 ATTT
1 ATTT
449594 TTTAAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTAAATTTATTTTTAAA
Found at i:450203 original size:15 final size:15
Alignment explanation
Indices: 450163--450205 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
450153 GTGAATCGAT
*
450163 AAAAAAAGAAGAAAG
1 AAAAAAAGAAAAAAG
450178 -AAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
*
450192 AAAAAAACAAAAAA
1 AAAAAAAGAAAAAA
450206 TCCAAGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:450203 original size:21 final size:21
Alignment explanation
Indices: 450164--450205 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
450154 TGAATCGATA
*
450164 AAAAAAGAAGAAAGAAAAAAG
1 AAAAAAGAAGAAAAAAAAAAG
*
450185 AAAAAAGAAAAAAACAAAAAA
1 AAAAAAGAAGAAAA-AAAAAA
450206 TCCAAGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAGAAAAAAAAAAG
Found at i:450205 original size:7 final size:7
Alignment explanation
Indices: 450164--450197 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
450154 TGAATCGATA
450164 AAAAAAG
1 AAAAAAG
*
450171 AAGAAAG
1 AAAAAAG
450178 AAAAAAG
1 AAAAAAG
450185 AAAAAAG
1 AAAAAAG
450192 AAAAAA
1 AAAAAA
450198 ACAAAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Done.