Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 146 of 344
Found at i:48719033 original size:27 final size:26
Alignment explanation
Indices: 48718989--48719040 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
48718979 CTCGCTGCAA
*
48718989 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
48719016 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
48719041 GCAGTCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:48721866 original size:31 final size:30
Alignment explanation
Indices: 48721809--48721867 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
48721799 GTAAATACTC
* *
48721809 AAAATTTAAGGGATTAAAGTGTAAATATGA
1 AAAATTTAAGGGACTAAAGTGCAAATATGA
48721839 AAAATTTGAAGGG-CTAATAGTGCAAATAT
1 AAAATTT-AAGGGACTAA-AGTGCAAATAT
48721868 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (30 bp):
AAAATTTAAGGGACTAAAGTGCAAATATGA
Found at i:48722153 original size:11 final size:11
Alignment explanation
Indices: 48722137--48722161 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48722127 ATATGATATT
48722137 TTATTATTTTA
1 TTATTATTTTA
48722148 TTATTATTTTA
1 TTATTATTTTA
48722159 TTA
1 TTA
48722162 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:48727476 original size:26 final size:26
Alignment explanation
Indices: 48727446--48727500 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
48727436 CACATATCAC
48727446 TTTTACATATTTTGAAATTTAATCCT
1 TTTTACATATTTTGAAATTTAATCCT
48727472 TTTTACATATTTTGAAATTTAATCCT
1 TTTTACATATTTTGAAATTTAATCCT
48727498 TTT
1 TTT
48727501 CTTTCTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTTACATATTTTGAAATTTAATCCT
Found at i:48727564 original size:17 final size:18
Alignment explanation
Indices: 48727542--48727582 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
48727532 TATTTCCTTA
*
48727542 TCATTTCCATATATC-CT
1 TCATTTACATATATCACT
*
48727559 TCATTTACATATTTCACT
1 TCATTTACATATATCACT
48727577 TCATTT
1 TCATTT
48727583 TCACATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (18 bp):
TCATTTACATATATCACT
Found at i:48740048 original size:18 final size:19
Alignment explanation
Indices: 48740020--48740059 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
48740010 CTATAGACAT
48740020 TAAATAAATATTAAAATAC
1 TAAATAAATATTAAAATAC
48740039 TAAA-AAATATTAAAATAC
1 TAAATAAATATTAAAATAC
48740057 TAA
1 TAA
48740060 CTCACTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAATAAATATTAAAATAC
Found at i:48753694 original size:53 final size:54
Alignment explanation
Indices: 48753625--48753831 Score: 227
Period size: 53 Copynumber: 3.8 Consensus size: 54
48753615 TTCCTTTTTA
* * *
48753625 AACTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
48753678 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * * *
48753732 AAGTTTATCAATGCCATGTCTTAACATGATCTTACATGATTTCCTTGCCTTGTAG
1 AA-CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
48753787 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
48753832 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.37
54 37 0.30
55 40 0.33
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:48756806 original size:81 final size:81
Alignment explanation
Indices: 48756670--48756831 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
48756660 GAACCCAAAG
* *
48756670 GAACTTCGAGTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAGAGGTTTGGTTA
1 GAACTTCGACTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTA
48756735 TCTAAACTAATTACTA
66 TCTAAACTAATTACTA
* *
48756751 GAACTTCGACTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTT
1 GAACTTCGACTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTA
48756816 TCTAAACTAATTACTA
66 TCTAAACTAATTACTA
48756832 ACTAAGGATG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (81 bp):
GAACTTCGACTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTA
TCTAAACTAATTACTA
Found at i:48762135 original size:28 final size:28
Alignment explanation
Indices: 48762095--48762173 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
48762085 GCAATCAAAT
* *
48762095 ATGGCACTCAGTGTACAAAATATTAAGA
1 ATGGCACTTAGTGTGCAAAATATTAAGA
* * **
48762123 ATGGCACTTAGTGTGCGAGATATTGTGA
1 ATGGCACTTAGTGTGCAAAATATTAAGA
**
48762151 ATGAAACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCAAAATAT
48762174 CGAATGATTC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCAAAATATTAAGA
Found at i:48762614 original size:21 final size:22
Alignment explanation
Indices: 48762583--48762623 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
48762573 TAATGTATTG
*
48762583 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
48762605 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
48762624 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:48765298 original size:55 final size:55
Alignment explanation
Indices: 48765164--48765306 Score: 137
Period size: 55 Copynumber: 2.6 Consensus size: 55
48765154 TACATAGGTC
* * * *
48765164 CACGCCCGTGTTCGTTTTGGCAGTGTCGACCACAGATGGATGGCACGGGCGTGTTG
1 CACGCCCGTGTT-GTTTTGGCAGTTTCAACCACAGATGCAAGGCACGGGCGTGTTG
** ** * * *
48765220 CACGCCCGTGTT-TCTTTCTCAGTTTCAACCATGGTTTCAAGGCACGGGGGTGTCT-
1 CACGCCCGTGTTGT-TTTGGCAGTTTCAACCACAGATGCAAGGCACGGGCGTGT-TG
*
48765275 CACGCCCGTGTTGTTTTGGCAGTTTCATCCAC
1 CACGCCCGTGTTGTTTTGGCAGTTTCAACCAC
48765307 GGCCATATCG
Statistics
Matches: 69, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
54 1 0.01
55 54 0.78
56 14 0.20
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTGGCAGTTTCAACCACAGATGCAAGGCACGGGCGTGTTG
Found at i:48781448 original size:28 final size:28
Alignment explanation
Indices: 48781417--48781494 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
48781407 TCAAATATGG
* *
48781417 CACTCAGTGTACGAAATATTGAGAATGC
1 CACTCAGTGTGCGAAATATTGAGAATGA
*
48781445 CACTTAGTGTGC-AAGATATTGAGAATGA
1 CACTCAGTGTGCGAA-ATATTGAGAATGA
*
48781473 CACTGAGTGTGCGAAATATTGA
1 CACTCAGTGTGCGAAATATTGA
48781495 ATGATTCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 2 0.05
28 40 0.91
29 2 0.05
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (28 bp):
CACTCAGTGTGCGAAATATTGAGAATGA
Found at i:48795975 original size:43 final size:43
Alignment explanation
Indices: 48795892--48795977 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
48795882 AAATCGTACA
* *
48795892 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCGCATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
48795935 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACATATCG
48795978 GAATCACATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:48798895 original size:35 final size:35
Alignment explanation
Indices: 48798856--48798922 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
48798846 TTAGTAAATT
48798856 TGCATGTAAATAAATAACAACATTCTAAATGATAA
1 TGCATGTAAATAAATAACAACATTCTAAATGATAA
48798891 TGCATGTAAATAAATAACAACATTCTAAATGA
1 TGCATGTAAATAAATAACAACATTCTAAATGA
48798923 ATTATCAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (35 bp):
TGCATGTAAATAAATAACAACATTCTAAATGATAA
Found at i:48799183 original size:55 final size:53
Alignment explanation
Indices: 48799058--48799188 Score: 140
Period size: 53 Copynumber: 2.4 Consensus size: 53
48799048 TACCATTGTG
* * *
48799058 ATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCACTGCC
1 ATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACAACTGCC
* * * * *
48799111 ATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAGCTTATCAAC-GCC
1 ATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCA-CAACTGCC
48799166 ATGTCTTGACATGGTCTTACATG
1 ATGTCTTGACATGGTCTTACATG
48799189 ATTTTCGTGC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.03
53 30 0.47
54 1 0.02
55 28 0.44
56 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (53 bp):
ATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACAACTGCC
Found at i:48800919 original size:42 final size:42
Alignment explanation
Indices: 48800852--48800958 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
48800842 ATTAAGATGC
* ** * **
48800852 CAATGCCATGTCCCAGACGTGATCTTACATGGGATCTCACAT
1 CAATGCCATATCCCAGATATGATCTTACACGAAATCTCACAT
* * * *
48800894 CGATGCCATATCCCAGATATTATCTTATACGAAATCTCATAT
1 CAATGCCATATCCCAGATATGATCTTACACGAAATCTCACAT
*
48800936 CAACGCCATATCCCAGATATGAT
1 CAATGCCATATCCCAGATATGAT
48800959 AACACATAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGATCTTACACGAAATCTCACAT
Found at i:48807607 original size:19 final size:20
Alignment explanation
Indices: 48807583--48807620 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48807573 GGTACCACCA
48807583 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
48807602 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
48807621 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:48808425 original size:30 final size:30
Alignment explanation
Indices: 48808391--48808450 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
48808381 ATTTAATATG
48808391 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
48808421 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
48808451 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:48815148 original size:19 final size:20
Alignment explanation
Indices: 48815124--48815161 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48815114 GGTACCACCA
48815124 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
48815143 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
48815162 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:48815554 original size:46 final size:46
Alignment explanation
Indices: 48815386--48815558 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
48815376 AAACCGCCCC
* * * *
48815386 TAAGTGAACTCGGACTCAACTCAATGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
* * * *
48815432 TAAATGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC-ATTTGCATCCA
* *
48815480 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
48815525 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48815559 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 2 0.02
46 56 0.54
47 27 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:48815554 original size:93 final size:93
Alignment explanation
Indices: 48815391--48815561 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
48815381 GCCCCTAAGT
* *
48815391 GAACTCGGACTCAACTCAATGAGCTCGAGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
48815456 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* * *
48815484 GAACTCGGACTCAACTCAACGAGTTCG-GACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
* *
48815548 ATGAGTTCGGATGC
65 ACGAGTTCGAATGC
48815562 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:48816015 original size:30 final size:30
Alignment explanation
Indices: 48815981--48816040 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
48815971 ATTTAATACG
48815981 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
48816011 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
48816041 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:48818107 original size:96 final size:96
Alignment explanation
Indices: 48817936--48818115 Score: 270
Period size: 96 Copynumber: 1.9 Consensus size: 96
48817926 GTGTCCGAGG
* * ** * *
48817936 AAGTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACAATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
48818001 AAAAGTCGAAGCCAAGAGGGAAAATAGGAGC
66 AAAAGCCGAAGCCAAGAGGGAAAATAGGAGC
* *
48818032 AAGTCTGTCATCGAAGGGAACAATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTTGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACAATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
48818097 TAAAGCCGAAGCCAAGAGG
66 AAAAGCCGAAGCCAAGAGG
48818116 AGCAAAAAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.33, T:0.14
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACAATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGGAAAATAGGAGC
Found at i:48819562 original size:19 final size:20
Alignment explanation
Indices: 48819540--48819578 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
48819530 TTTAAATAAT
48819540 TTTTTAT-TTTTTAAAACTA
1 TTTTTATATTTTTAAAACTA
48819559 TTTTTATAATTTTTAAAACT
1 TTTTTAT-ATTTTTAAAACT
48819579 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTATATTTTTAAAACTA
Found at i:48819570 original size:9 final size:9
Alignment explanation
Indices: 48819558--48819594 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
48819548 TTTTAAAACT
*
48819558 ATTTTTATA
1 ATTTTTAAA
48819567 ATTTTTAAA
1 ATTTTTAAA
*
48819576 ACTTTTAAA
1 ATTTTTAAA
48819585 ATTTTTAAA
1 ATTTTTAAA
48819594 A
1 A
48819595 AATTAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:48820956 original size:6 final size:6
Alignment explanation
Indices: 48820945--48820998 Score: 81
Period size: 6 Copynumber: 8.7 Consensus size: 6
48820935 GAAGAGGTAG
*
48820945 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAATAAA ATAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT A-AAAAT
48820995 AAAA
1 AAAA
48820999 TATTTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 36 0.82
7 6 0.14
8 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:48824101 original size:18 final size:18
Alignment explanation
Indices: 48824077--48824132 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
48824067 ATGGGGTAAT
48824077 AGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
*
48824095 CGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
48824113 AGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
48824131 AG
1 AG
48824133 ATGGGGTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (18 bp):
AGGCCTAGTGATTACTCC
Found at i:48829084 original size:20 final size:21
Alignment explanation
Indices: 48829059--48829100 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
48829049 TTTGTCTATT
48829059 TATTTATTTATTA-TT-TTAAA
1 TATTTATTT-TTAGTTCTTAAA
48829079 TATTTATTTTTAGTTCTTAAA
1 TATTTATTTTTAGTTCTTAAA
48829100 T
1 T
48829101 TTCTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTATTTTTAGTTCTTAAA
Found at i:48829855 original size:26 final size:26
Alignment explanation
Indices: 48829825--48829877 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
48829815 AAATAAATTA
48829825 TGTAAACCTTTTTACAATAATAAGTC
1 TGTAAACCTTTTTACAATAATAAGTC
48829851 TGTAAACCTTTTTACAATAATAAGTC
1 TGTAAACCTTTTTACAATAATAAGTC
48829877 T
1 T
48829878 AAGTACTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (26 bp):
TGTAAACCTTTTTACAATAATAAGTC
Found at i:48829969 original size:13 final size:13
Alignment explanation
Indices: 48829935--48829976 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
48829925 TGCTGAAATA
*
48829935 AAAATAAATAATG
1 AAAATAAATAATC
48829948 AAAATAAATAATC
1 AAAATAAATAATC
*
48829961 AAGAA-AAATAAAC
1 AA-AATAAATAATC
48829974 AAA
1 AAA
48829977 CAAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 1 0.04
13 23 0.88
14 2 0.08
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (13 bp):
AAAATAAATAATC
Found at i:48832368 original size:18 final size:18
Alignment explanation
Indices: 48832345--48832382 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
48832335 TGTTCTTAGG
*
48832345 AAAACC-TCTATTTGCATA
1 AAAACCGTCAATTT-CATA
48832363 AAAACCGTCAATTTCATA
1 AAAACCGTCAATTTCATA
48832381 AA
1 AA
48832383 TTAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (18 bp):
AAAACCGTCAATTTCATA
Found at i:48832706 original size:24 final size:24
Alignment explanation
Indices: 48832679--48832731 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
48832669 ATATACACAG
*
48832679 TCAGAAGCAGATATAGTTTCAAAT
1 TCAGAAGCAGATATAGATTCAAAT
** * *
48832703 TCAGATTCAGATCTAGATTCAGAT
1 TCAGAAGCAGATATAGATTCAAAT
48832727 TCAGA
1 TCAGA
48832732 TTATAGAAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (24 bp):
TCAGAAGCAGATATAGATTCAAAT
Found at i:48832712 original size:6 final size:6
Alignment explanation
Indices: 48832696--48832733 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
48832686 CAGATATAGT
*
48832696 TTCAAA TTCAGA TTCAGA -TCTAGA TTCAGA TTCAGA TT
1 TTCAGA TTCAGA TTCAGA TTC-AGA TTCAGA TTCAGA TT
48832734 ATAGAAGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 2 0.07
6 25 0.86
7 2 0.07
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (6 bp):
TTCAGA
Found at i:48834027 original size:55 final size:55
Alignment explanation
Indices: 48833958--48834088 Score: 199
Period size: 55 Copynumber: 2.4 Consensus size: 55
48833948 CCCTTAGCCC
* *
48833958 GTGTGCAACACTGACTATAAAACACGACCATGACACACGCCCATGTGGCCTGCCA
1 GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCATGTGGCCTGCCA
* * * *
48834013 GTGTACAACACTGACTTTAAAACACGACCATGACACACTCCCGTGTGGTCTGCCC
1 GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCATGTGGCCTGCCA
*
48834068 GTGTTCAACACTGACTTTAAA
1 GTGTACAACACTGACTTTAAA
48834089 TTTTAAGTGC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (55 bp):
GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCATGTGGCCTGCCA
Found at i:48835058 original size:47 final size:46
Alignment explanation
Indices: 48834849--48835167 Score: 222
Period size: 49 Copynumber: 6.7 Consensus size: 46
48834839 GGGATATGTT
* *
48834849 GCCGATGCCATGT-CCTGAACATGGTCTTACACTGGCTATCATCATCGAG
1 GCCGATG-CATGTCCCAG-ACAT-GTCTTACACTGGCTATCATC-TTGAG
** * ** * * *
48834898 GTTGATGCCATGTCCTAGACATGGTCTTATGCTAGCTCTCGTCTAT-ACG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCT-TGA-G
* * * * *
48834947 TGCTGATGCGTGTCCCAGACACGTCTTACACTAG--AACAGCTCTT-A-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCA--TCTTGAG
* *
48834992 GCCGATGCATGTCTCAGACACGTCTTACACTGGCTATCATCGTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATC-TTGAG
* * *
48835039 GTCGATGCATGTCCCAGACATGTCTTACACTGG-TGCTCATTCTCT-AC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-ATCA-TCT-TGAG
* * *
48835086 ACCGATGTCATGTCCCAGACATGGTCTTACACTGGCTATCATATTGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTTGAG
48835134 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
48835168 ACACAAATAA
Statistics
Matches: 216, Mismatches: 36, Indels: 39
0.74 0.12 0.13
Matches are distributed among these distances:
44 31 0.14
45 2 0.01
46 19 0.09
47 57 0.26
48 40 0.19
49 58 0.27
50 9 0.04
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTTGAG
Found at i:48835144 original size:95 final size:94
Alignment explanation
Indices: 48834993--48835166 Score: 278
Period size: 95 Copynumber: 1.8 Consensus size: 94
48834983 CAGCTCTTAG
* * *
48834993 CCGATGCATGTCTCAGACACGTCTTACACTGGCTATCATCGTTGAGGTCGATGCATGTCCCAGAC
1 CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATTGAGGCCGATGCATGTCCCAGAC
48835058 ATGTCTTACACTGGTGCTCATTCTCTACA
66 ATGTCTTACACTGGTGCTCATTCTCTACA
* *
48835087 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTATCAT-ATTGTGGCCGATGCATGTCCCAG
1 CCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCATTGAGGCCGATGCATGTCCCAG
48835151 ACATGTCTTACACTGG
64 ACATGTCTTACACTGG
48835167 CACACAAATA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
94 6 0.08
95 48 0.66
96 19 0.26
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATTGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGTGCTCATTCTCTACA
Found at i:48843134 original size:40 final size:40
Alignment explanation
Indices: 48843079--48843212 Score: 200
Period size: 40 Copynumber: 3.4 Consensus size: 40
48843069 TGATAACCGA
48843079 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
48843119 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * *
48843159 GCTAAGTCCCGAAGGCAGTTGAGTGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
* *
48843198 GCTAAATCCCAAAGG
1 GCTAAGTCCCGAAGG
48843213 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 16 0.18
40 72 0.82
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:48844657 original size:55 final size:55
Alignment explanation
Indices: 48844592--48844722 Score: 208
Period size: 55 Copynumber: 2.4 Consensus size: 55
48844582 CCCTTAGCCT
* * *
48844592 GTGTGCAACACTGACTTTAAAACACGGCCATGACACATGCCCGTGTGGCCTGCCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCATGTGGCCTGCCC
* *
48844647 GTGTACAACACTGAATTTAAAACATGGCCATGACACACGCCCATGTGGCCTGCCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCATGTGGCCTGCCC
*
48844702 GTGTTCAACACTGACTTTAAA
1 GTGTACAACACTGACTTTAAA
48844723 TTTAAGTGCA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (55 bp):
GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCATGTGGCCTGCCC
Found at i:48845684 original size:47 final size:46
Alignment explanation
Indices: 48845480--48845796 Score: 246
Period size: 47 Copynumber: 6.7 Consensus size: 46
48845470 GATATATTAT
* *
48845480 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCATTGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATC-TCGAGGC
** * * * * * **
48845529 TAATGCCATGTTCCAGACATGGTCTTATATTGGCTCTCGTCTATACGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGA-G-GC
* * * * * *
48845579 TGGTGCGT-TCCCCAGACATGTCTTACACTAGC-A-CAACTCTTA-GC
1 CGATGCATGT-CCCAGACATGTCTTACACTGGCTATCATCTC-GAGGC
*
48845623 CGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATC-TCGAGGC
** * *
48845670 CGATGCATGTCCCAGACATGTCTTACACTGGCGCTCATTCTCTACGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCA-TCTCGAGGC
* * *
48845717 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATTGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAGGC
**
48845765 TAATGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
48845797 ACATAGATAA
Statistics
Matches: 214, Mismatches: 42, Indels: 27
0.76 0.15 0.10
Matches are distributed among these distances:
44 27 0.13
45 2 0.01
46 20 0.09
47 64 0.30
48 36 0.17
49 60 0.28
50 5 0.02
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAGGC
Found at i:48845772 original size:95 final size:91
Alignment explanation
Indices: 48845589--48845799 Score: 280
Period size: 95 Copynumber: 2.3 Consensus size: 91
48845579 TGGTGCGTTC
*
48845589 CCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGG
1 CCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGG
* *
48845654 CTATCATCGTCGAGGCCGATGCATGT
66 CTATCATCATCGAGGCCAATGCATGT
* * * *
48845680 CCCAGACATGTCTTACACTGGCGCTCATTCTCTACGCCGATGCCATGTCCCAGACATGGTCTTAC
1 CCCAGACATGTCTTACACTGGCAC-AACTCT-TA-GCCGATG-CATGTCCCAGACA-CGTCTTAC
* * *
48845745 ACTGGCTATCAT-ATTGTGGCTAATGCATGT
61 ACTGGCTATCATCATCGAGGCCAATGCATGT
48845775 CCCAGACATGTCTTACACTGGCACA
1 CCCAGACATGTCTTACACTGGCACA
48845800 TAGATAATCT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
91 22 0.21
92 4 0.04
93 2 0.02
94 7 0.07
95 49 0.48
96 19 0.18
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (91 bp):
CCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGG
CTATCATCATCGAGGCCAATGCATGT
Found at i:48850283 original size:49 final size:49
Alignment explanation
Indices: 48850202--48850378 Score: 171
Period size: 49 Copynumber: 3.6 Consensus size: 49
48850192 TGTTGTGTGT
* * * *
48850202 CAGTGTAATACCTGTTTGGGACATGGCATCGACAATGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
* ** * *
48850251 CACG-GTAAGACCTGTCTGGGATACGGCATCGACCTTGATATATGAAAGT
1 CA-GTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
* * ** **
48850300 CAGTGTAAGACCTGTCTGGGACATGACATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
*
48850347 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACACGGCATCG
48850379 GCATCTTATC
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 16 0.15
48 19 0.18
49 71 0.66
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
Found at i:48856993 original size:16 final size:15
Alignment explanation
Indices: 48856954--48857016 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
48856944 TTTGATAATG
*
48856954 TATCTTGGATTTCTA
1 TATCTTGGATTTCTT
* *
48856969 AATCATGGAATTTCTT
1 TATCTTGG-ATTTCTT
*
48856985 TATCTTGGATATCTT
1 TATCTTGGATTTCTT
* *
48857000 TGTCTT-GACTTCTT
1 TATCTTGGATTTCTT
48857014 TAT
1 TAT
48857017 ATGGATTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
14 8 0.22
15 17 0.46
16 12 0.32
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:48859030 original size:31 final size:31
Alignment explanation
Indices: 48858995--48859059 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
48858985 AAGTAAGTGA
48858995 TTTAGATGCCTATTTTTGATAATTTTTGTAC
1 TTTAGATGCCTATTTTTGATAATTTTTGTAC
48859026 TTTAGATGCCTATTTTTGATAATTTTTGTAC
1 TTTAGATGCCTATTTTTGATAATTTTTGTAC
48859057 TTT
1 TTT
48859060 TGGAACCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.57
Consensus pattern (31 bp):
TTTAGATGCCTATTTTTGATAATTTTTGTAC
Found at i:48860043 original size:49 final size:49
Alignment explanation
Indices: 48859937--48860158 Score: 150
Period size: 49 Copynumber: 4.6 Consensus size: 49
48859927 TATGTGTGCT
* * ** * *
48859937 AGTGTAAAACATGTCTGGGACAT-GCATC-AGCCTCGGGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAGATGA-AAGCC
* *
48859985 AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * * * * *
48860034 AGTTTAAGACATGTCTGGGATACGGCATTGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * **
48860083 AGTGTAAGACCTGTCTGGGACGTGACATCGGCTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
48860130 AGTGCAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACC-TGTCTGGGACATGGCAT
48860159 GTAACACCCC
Statistics
Matches: 134, Mismatches: 34, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
47 15 0.11
48 36 0.27
49 80 0.60
50 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:48861058 original size:40 final size:40
Alignment explanation
Indices: 48860835--48861044 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
48860825 TCCTCGTTCA
* * * * *
48860835 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
48860874 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
48860914 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
48860954 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
48860994 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
48861034 AAGGCCTTCGG
1 AATGCCTTCGG
48861045 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 33 0.21
40 123 0.79
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:48861083 original size:80 final size:80
Alignment explanation
Indices: 48860840--48861097 Score: 234
Period size: 80 Copynumber: 3.2 Consensus size: 80
48860830 GTTCAAATGC
* * * * * * * * *
48860840 CTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACGTAACCCGGATTTAAC
1 CTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAAT
* * *
48860904 AACTCGCACGAATGC
66 AACTAGCACGAAAGA
* * * *
48860919 CTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAT
1 CTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAAT
* * *
48860984 AACTCGCACGAATGC
66 AACTAGCACGAAAGA
* * ** *
48860999 CTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATAT
1 CTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAA
**
48861063 TCGCTTAGCAC-AAAGA
65 TAAC-TAGCACGAAAGA
*
48861079 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGGA
48861098 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 32 0.21
80 117 0.76
81 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAAT
AACTAGCACGAAAGA
Found at i:48861083 original size:120 final size:119
Alignment explanation
Indices: 48860840--48861097 Score: 286
Period size: 120 Copynumber: 2.2 Consensus size: 119
48860830 GTTCAAATGC
* * *
48860840 CTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGATTTAACA
1 CTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGATTTAACA
* * * * * * *
48860905 ACTCGCACGAATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGC
66 ACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCACGAAAGA
* * * **
48860959 CTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACGTAACCCGGATTTAAC
* ** * **
48861024 ATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCAC-AAAGA
65 AACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCACGAAAGA
48861079 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
48861098 CAGCATTCAA
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
119 32 0.28
120 77 0.68
121 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
CTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGATTTAACA
ACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCACGAAAGA
Found at i:48868301 original size:40 final size:40
Alignment explanation
Indices: 48868078--48868287 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
48868068 TCCTCGTTCA
* * * * *
48868078 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
48868117 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
48868157 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
48868197 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
48868237 AATGCCTTCGGGGCTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
48868277 AAGGCCTTCGG
1 AATGCCTTCGG
48868288 ATCTTAGTCC
Statistics
Matches: 155, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 33 0.21
40 122 0.79
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:48868324 original size:80 final size:80
Alignment explanation
Indices: 48868081--48868340 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
48868071 TCGTTCAAAT
* * * * * * * *
48868081 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACGTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* * *
48868145 ACAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * * *
48868160 GCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
48868225 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * * **
48868240 GCCTTCGGGGCTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* **
48868304 ATTCGCTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
48868320 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
48868341 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
79 34 0.22
80 116 0.75
81 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:48868324 original size:120 final size:118
Alignment explanation
Indices: 48868076--48868340 Score: 289
Period size: 120 Copynumber: 2.2 Consensus size: 118
48868066 GCTCCTCGTT
* * *
48868076 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGA
* * * * *
48868141 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * * * *
48868195 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGGCTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACGTAACCCGG
** * ** * **
48868260 ATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
48868316 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
48868341 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
119 35 0.29
120 79 0.66
121 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:48871848 original size:13 final size:13
Alignment explanation
Indices: 48871830--48871855 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48871820 TTTTGGTTTA
48871830 GTTTTGAATCAAT
1 GTTTTGAATCAAT
48871843 GTTTTGAATCAAT
1 GTTTTGAATCAAT
48871856 CCCGATGTAT
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTGAATCAAT
Found at i:48885607 original size:43 final size:42
Alignment explanation
Indices: 48885560--48885658 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
48885550 TCTCAGACGT
* ** *
48885560 GGTCTTACATGTCATCAAACAGCGATGCC-ACTGTCCTAGACAA
1 GGTCTTACATGTAATCAAACA-CGACACCGA-TGTCCCAGACAA
* * *
48885603 GGTCTTACATGAAATCAAATACGACACCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAACACGACACCGATGTCCCAGACAA
48885645 GGTCTTACATGTAA
1 GGTCTTACATGTAA
48885659 AACAGAAGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.60
43 19 0.40
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAACACGACACCGATGTCCCAGACAA
Found at i:48887041 original size:23 final size:23
Alignment explanation
Indices: 48887015--48887120 Score: 203
Period size: 23 Copynumber: 4.6 Consensus size: 23
48887005 AGTCAAGCCT
48887015 CACACGCCCGTGTGAAGGCAAGG
1 CACACGCCCGTGTGAAGGCAAGG
48887038 CACACGCCCGTGTGAAGGCAAGG
1 CACACGCCCGTGTGAAGGCAAGG
48887061 CACACGCCCGTGTGAAGGCAAGG
1 CACACGCCCGTGTGAAGGCAAGG
48887084 CACACGCCCGTGTGAAGGCAAGG
1 CACACGCCCGTGTGAAGGCAAGG
*
48887107 CACATGCCCGTGTG
1 CACACGCCCGTGTG
48887121 CTTTGGGACA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
23 82 1.00
ACGTcount: A:0.25, C:0.31, G:0.34, T:0.10
Consensus pattern (23 bp):
CACACGCCCGTGTGAAGGCAAGG
Found at i:48889004 original size:19 final size:19
Alignment explanation
Indices: 48888969--48889006 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
48888959 ATGTGGGGCC
*
48888969 CACGAGCCCATTTGGCCCA
1 CACGAGCCCATTAGGCCCA
48888988 CACGA-CCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
48889007 ACGTGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.13
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:48889510 original size:85 final size:85
Alignment explanation
Indices: 48889367--48889545 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
48889357 GGCCGGCCAT
48889367 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48889432 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
48889452 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48889517 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
48889537 GGGCATGGG
1 GAGCATGGG
48889546 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:48891779 original size:47 final size:47
Alignment explanation
Indices: 48891728--48892216 Score: 627
Period size: 47 Copynumber: 10.1 Consensus size: 47
48891718 TTAGGATTTT
* * *
48891728 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
48891775 ATGTGATGAATGTGAACCCATATATATATGTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATA--TGTGTGATAAGGCCGAATGGCCA
*
48891828 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
48891875 CTGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
48891922 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
** *
48891973 ATGTGATGAATGTGAACCTGTATATATATATTCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATAT-GT-GTGATAAGGCCGAATGGCCA
*
48892026 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
48892073 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
48892120 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
48892167 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
48892214 ATG
1 ATG
48892217 CGAAACGTGT
Statistics
Matches: 400, Mismatches: 29, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
47 253 0.63
48 1 0.00
49 11 0.03
50 2 0.00
51 57 0.14
52 2 0.00
53 74 0.19
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:48891847 original size:147 final size:145
Alignment explanation
Indices: 48891728--48892216 Score: 627
Period size: 147 Copynumber: 3.3 Consensus size: 145
48891718 TTAGGATTTT
* *
48891728 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
** *
48891793 CATATATATATGTGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG--CGTAT-GT
66 C-TATATATA--TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATATT
48891855 GTGATAAGGCCGAATGGCCA
128 GTGATAAGG-CGAAT-GCCA
* *
48891875 CTGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
48891940 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATT
66 C-TATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG-A-ATATATATT
48892005 CGTGATAAGGCCGAATGGCCA
128 -GTGATAAGG-CGAAT-GCCA
48892026 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*** * * *
48892089 C-ATGCGTATGTGTGATAAGGCCGGATGGCCAATGTGATGAATGTGAACATG--CATATA-TGAG
66 CTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATATTGTG
48892150 ATAAGGCCGAATGGCCA
131 ATAAGG-CGAAT-GCCA
** * * *
48892167 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
48892217 CGAAACGTGT
Statistics
Matches: 313, Mismatches: 23, Indels: 18
0.88 0.06 0.05
Matches are distributed among these distances:
141 64 0.20
142 1 0.00
143 5 0.02
145 42 0.13
147 115 0.37
149 4 0.01
150 1 0.00
151 81 0.26
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (145 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATATTGTG
ATAAGGCGAATGCCA
Found at i:48891989 original size:198 final size:194
Alignment explanation
Indices: 48891728--48892183 Score: 734
Period size: 198 Copynumber: 2.3 Consensus size: 194
48891718 TTAGGATTTT
* * * *
48891728 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
48891793 CATATATATATGTGT-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGT
66 CATATATATATAT-TCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGT
*
48891857 GATAAGGCCGAATGGCCACTGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
130 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
*
48891922 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
**
48891987 AACCTGTATATATATATTCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATG
62 AACCCATATATATATATTCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATG
* *
48892052 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGG
127 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGA
48892117 CCA
192 CCA
* * *
48892120 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
48892184 ATGAATATAT
Statistics
Matches: 242, Mismatches: 15, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
194 58 0.24
196 2 0.01
197 1 0.00
198 181 0.75
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (194 bp):
ATGTGATGAATGTGAACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CATATATATATATTCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
Found at i:48892053 original size:23 final size:23
Alignment explanation
Indices: 48892026--48892100 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
48892016 CGAATGGCCA
48892026 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
48892049 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
48892073 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
48892096 ATGTG
1 ATGTG
48892101 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:48892279 original size:46 final size:46
Alignment explanation
Indices: 48892190--48892280 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
48892180 GAACATGAAT
* * * *
48892190 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
48892236 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
48892281 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:48892570 original size:37 final size:37
Alignment explanation
Indices: 48892425--48892569 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
48892415 GGAAATATAT
48892425 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
48892462 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
48892499 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
48892536 TCCAGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
48892570 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:48894268 original size:40 final size:40
Alignment explanation
Indices: 48893825--48894256 Score: 675
Period size: 40 Copynumber: 10.8 Consensus size: 40
48893815 GAGAATTGAG
* * *
48893825 AGTGATATATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48893865 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
48893905 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48893945 AGTGATATAACCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48893985 AGTGGTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
48894025 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
48894065 AGTGATATATCCGGGCTAAGTCTCGGGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48894105 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** *
48894145 AGTGATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** *
48894185 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
48894225 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCA
48894257 ATCATGCTGG
Statistics
Matches: 361, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 361 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:48894537 original size:58 final size:57
Alignment explanation
Indices: 48894468--48894576 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
48894458 CGAATGATTA
* *
48894468 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
48894526 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
48894577 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:48896110 original size:41 final size:41
Alignment explanation
Indices: 48896065--48896196 Score: 94
Period size: 39 Copynumber: 3.1 Consensus size: 41
48896055 AAAACATGTC
48896065 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
* * ** * *
48896106 ATAAAGA-GCAT-GGGT-G-GACAAGATGTTATGG-TTAAAAACA
1 ATAAACATG-TTGGGGTAGTG-CATTATG-TAAGGATTAATAA-A
48896146 TGTCATAAACATGTTGGGGTAGTGCATTATGGTAAGGATTAATAAA
1 ----ATAAACATGTTGGGGTAGTGCATTAT-GTAAGGATTAATAAA
48896192 ATAAA
1 ATAAA
48896197 GGGCATGGGC
Statistics
Matches: 65, Mismatches: 12, Indels: 27
0.62 0.12 0.26
Matches are distributed among these distances:
38 1 0.02
39 12 0.18
40 10 0.15
41 7 0.11
42 5 0.08
44 7 0.11
45 5 0.08
46 10 0.15
47 8 0.12
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.29
Consensus pattern (41 bp):
ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
Found at i:48896169 original size:85 final size:86
Alignment explanation
Indices: 48896026--48896205 Score: 335
Period size: 85 Copynumber: 2.1 Consensus size: 86
48896016 GCCCGGCCAT
48896026 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48896091 -GTAAGGATTAATAAAATAAA
66 GGTAAGGATTAATAAAATAAA
*
48896111 GAGCATGGGTGGACAAGATGTTATGGTTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48896176 GGTAAGGATTAATAAAATAAA
66 GGTAAGGATTAATAAAATAAA
*
48896197 GGGCATGGG
1 GAGCATGGG
48896206 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
85 64 0.70
86 28 0.30
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (86 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GGTAAGGATTAATAAAATAAA
Found at i:48898437 original size:47 final size:47
Alignment explanation
Indices: 48898386--48898814 Score: 566
Period size: 47 Copynumber: 9.1 Consensus size: 47
48898376 TTAGGATTTT
*
48898386 ATGTGATTG-ATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGA-TGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
48898433 ATGTGATGAATGTGAACCCATATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
48898484 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
48898531 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
48898578 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
48898629 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
48898676 ATGTGATGAATGTGAACCTGTATAT-TGCTGATAAGG-CGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATGTG-TGATAAGGCCGAATGGCCA
48898721 ATGTGATGAATGTGAACATGC-TA--TGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
48898765 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
48898812 ATG
1 ATG
48898815 CGAAACGTGT
Statistics
Matches: 340, Mismatches: 27, Indels: 30
0.86 0.07 0.08
Matches are distributed among these distances:
42 8 0.02
43 9 0.03
44 24 0.07
45 23 0.07
46 10 0.03
47 177 0.52
49 4 0.01
51 85 0.25
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:48898498 original size:98 final size:94
Alignment explanation
Indices: 48898386--48898814 Score: 575
Period size: 98 Copynumber: 4.5 Consensus size: 94
48898376 TTAGGATTTT
*
48898386 ATGTGATTG-ATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGA-TGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-
***
48898450 CCATATATATATGTGTGATAAGGCCGAATGGCCA
64 -C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
48898484 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
48898549 TGCGTATGTGTGATAAGGCCGAATGACCA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
**
48898578 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
48898643 AACATGCGTATGTGTGATAAGGCTGAATGGCCA
62 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
48898676 ATGTGATGAATGTGAACCTGTATAT-TGCTGATAAGG-CGAATGG-CAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATGCATATGTG-TGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
48898738 ATGC-TA--TGTGATAAGGCCGAATGGCCA
65 ATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
48898765 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCCAATG
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
48898815 CGAAACGTGT
Statistics
Matches: 303, Mismatches: 19, Indels: 25
0.87 0.05 0.07
Matches are distributed among these distances:
89 50 0.17
90 9 0.03
91 7 0.02
92 23 0.08
93 9 0.03
94 56 0.18
96 3 0.01
97 2 0.01
98 144 0.48
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:48898503 original size:145 final size:144
Alignment explanation
Indices: 48898387--48898811 Score: 609
Period size: 145 Copynumber: 3.0 Consensus size: 144
48898377 TAGGATTTTA
* *
48898387 TGTGATTGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCC
1 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCC
48898452 ATATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
66 ATATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
48898517 AGGCCGAATGGCCAC
131 AGG-CGAATGGCCAC
48898532 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCC
1 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCC
*
48898597 GTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
66 ATATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
*
48898662 AGGCTGAATGGCCAA
131 AGGC-GAATGGCCAC
* * ** *
48898677 TGTGATGAATGTGAACCTGTATAT-TGCTGATAAGG-CGAATG-GCAATGTGATGAATGTGAA--
1 TGTGATGGATGTGAACATGCGTATGTG-TGATAAGGCCGAATGACCAATGTGATGAATGTGAACC
** ** * *
48898737 C--AT-GCTA--TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGT
65 CATATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
48898797 AAGGCCGAATGGCCA
130 AAGG-CGAATGGCCA
48898812 ATGCGAAACG
Statistics
Matches: 262, Mismatches: 15, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
136 62 0.24
137 1 0.00
138 2 0.01
139 2 0.01
141 1 0.00
143 18 0.07
144 9 0.03
145 167 0.64
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.27
Consensus pattern (144 bp):
TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACCC
ATATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AGGCGAATGGCCAC
Found at i:48898877 original size:46 final size:46
Alignment explanation
Indices: 48898788--48898878 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
48898778 GAACATGAAT
* * * *
48898788 ATATGTGGTAAGGCCGAATGGCCAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCCAATGCGAAACATGTACGAGATGG
* * * *
48898834 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCCAATGCGAAACATGTACGAGATG
48898879 TGTATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.32, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCCAATGCGAAACATGTACGAGATGG
Found at i:48899168 original size:37 final size:37
Alignment explanation
Indices: 48899025--48899167 Score: 250
Period size: 37 Copynumber: 3.9 Consensus size: 37
48899015 AAATATATTT
48899025 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
48899062 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
*
48899099 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* * *
48899136 CGGGTAAGACCCGATAACTTCATGTGGAGATT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATT
48899168 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
Found at i:48903549 original size:12 final size:12
Alignment explanation
Indices: 48903534--48903592 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
48903524 ATATAATTTT
*
48903534 AGATTCAGATTC
1 AGATTTAGATTC
* *
48903546 AGATTCAGATCC
1 AGATTTAGATTC
*
48903558 AGATTTAGATTT
1 AGATTTAGATTC
*
48903570 AGATTTAGATCC
1 AGATTTAGATTC
48903582 AGATTTAGATT
1 AGATTTAGATT
48903593 TACATAAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (12 bp):
AGATTTAGATTC
Found at i:48903593 original size:6 final size:6
Alignment explanation
Indices: 48903531--48903594 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
48903521 TAGATATAAT
* * * **
48903531 TTTAGA TTCAGA TTCAGA TTCAGA TCCAGA TTTAGA TTTAGA TTTAGA
1 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA
**
48903579 TCCAGA TTTAGA TTTA
1 TTTAGA TTTAGA TTTA
48903595 CATAAATCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (6 bp):
TTTAGA
Found at i:48903593 original size:24 final size:24
Alignment explanation
Indices: 48903534--48903594 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
48903524 ATATAATTTT
* *
48903534 AGATTCAGATTCAGATTCAGATCC
1 AGATTTAGATTTAGATTCAGATCC
*
48903558 AGATTTAGATTTAGATTTAGATCC
1 AGATTTAGATTTAGATTCAGATCC
48903582 AGATTTAGATTTA
1 AGATTTAGATTTA
48903595 CATAAATCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (24 bp):
AGATTTAGATTTAGATTCAGATCC
Found at i:48903594 original size:18 final size:18
Alignment explanation
Indices: 48903531--48903592 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
48903521 TAGATATAAT
48903531 TTTAGATTCAGATTCAGA
1 TTTAGATTCAGATTCAGA
* * *
48903549 TTCAGATCCAGATTTAGA
1 TTTAGATTCAGATTCAGA
* *
48903567 TTTAGATTTAGATCCAGA
1 TTTAGATTCAGATTCAGA
48903585 TTTAGATT
1 TTTAGATT
48903593 TACATAAATC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (18 bp):
TTTAGATTCAGATTCAGA
Found at i:48905772 original size:19 final size:19
Alignment explanation
Indices: 48905715--48905773 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
48905705 TCATAGATGC
48905715 GTAACAGAGGCACCAAAGT
1 GTAACAGAGGCACCAAAGT
* * * *
48905734 GCAAATAGAGACACCGAAGT
1 G-TAACAGAGGCACCAAAGT
*
48905754 GTAACAGAGGCACTAAAGT
1 GTAACAGAGGCACCAAAGT
48905773 G
1 G
48905774 AAATCTCGTA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.42, C:0.19, G:0.27, T:0.12
Consensus pattern (19 bp):
GTAACAGAGGCACCAAAGT
Found at i:48906766 original size:14 final size:14
Alignment explanation
Indices: 48906749--48906778 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48906739 TTACTTGTTT
48906749 TTATGTTTTAATTA
1 TTATGTTTTAATTA
*
48906763 TTATTTTTTAATTA
1 TTATGTTTTAATTA
48906777 TT
1 TT
48906779 TTACTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTATGTTTTAATTA
Found at i:48909160 original size:40 final size:40
Alignment explanation
Indices: 48908962--48909165 Score: 261
Period size: 40 Copynumber: 5.1 Consensus size: 40
48908952 CGGATGATAA
* *
48908962 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATA-T
* *
48909002 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATA-T
* *
48909042 CCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATAT
*
48909082 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTGACTATAT
* ** *
48909122 CCGGGCTAAGTCCCGAAGGCATTTGAGGGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATAT
48909162 CCGG
1 CCGG
48909166 TTAAAGCCGA
Statistics
Matches: 149, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
39 2 0.01
40 142 0.95
41 5 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATAT
Found at i:48917157 original size:40 final size:41
Alignment explanation
Indices: 48916999--48917162 Score: 221
Period size: 40 Copynumber: 4.1 Consensus size: 41
48916989 CGGATGATAA
* *
48916999 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATT
* *
48917039 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATT
*
48917079 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATA-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATATT
* *
48917119 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATA-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATT
48917159 CCGG
1 CCGG
48917163 TTAAAGCCGA
Statistics
Matches: 112, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.02
40 106 0.95
41 4 0.04
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATT
Found at i:48918578 original size:18 final size:18
Alignment explanation
Indices: 48918555--48918589 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48918545 TATTATACAC
*
48918555 ATATACATATACATATAG
1 ATATACAAATACATATAG
*
48918573 ATATACAAATATATATA
1 ATATACAAATACATATA
48918590 TAACTATGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (18 bp):
ATATACAAATACATATAG
Found at i:48922201 original size:14 final size:14
Alignment explanation
Indices: 48922182--48922209 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48922172 TAACATGATG
48922182 TTTAACATTTTCAA
1 TTTAACATTTTCAA
48922196 TTTAACATTTTCAA
1 TTTAACATTTTCAA
48922210 ACAATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAACATTTTCAA
Found at i:48923732 original size:27 final size:27
Alignment explanation
Indices: 48923713--48923871 Score: 219
Period size: 27 Copynumber: 5.8 Consensus size: 27
48923703 ATTACCAAAG
48923713 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
48923740 TACCCTCGATTTATATAGAATTACCGTTT
1 TACCCTCGA-TT-TACAGAATTACCATTT
* *
48923769 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
48923796 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
48923823 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
48923850 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
48923872 TAAAATACCC
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
27 94 0.78
28 4 0.03
29 22 0.18
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:48923880 original size:27 final size:27
Alignment explanation
Indices: 48923668--48924017 Score: 161
Period size: 27 Copynumber: 12.9 Consensus size: 27
48923658 AATACTTTAG
* * ** *
48923668 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
48923695 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ***
48923722 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* **** *
48923749 TTTATATAGAATTACCGTTTTACCCTTGA
1 TTTACA-A-AATTACCAAAATACCCTCGA
* * *** *
48923778 TTTATAGAATTACCATTTTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* * ****
48923805 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ****
48923832 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
48923859 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGA
* *
48923886 TTTACAAAATTACCAAAATATCCCTAGC
1 TTTACAAAATTACCAAAATA-CCCTCGA
*
48923914 TTGT--AAAATTACCAAAATACCACT-GG
1 TT-TACAAAATTACCAAAATACC-CTCGA
*** * *
48923940 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
**
48923967 TTTGTAAAATTACCAAAATACCC-CTGA
1 TTTACAAAATTACCAAAATACCCTC-GA
*
48923994 TTTAGAAAATTA-CAGAAATACCCT
1 TTTACAAAATTACCA-AAATACCCT
48924018 TGACTTTCTA
Statistics
Matches: 266, Mismatches: 46, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.00
26 10 0.04
27 223 0.84
28 7 0.03
29 25 0.09
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:48923881 original size:54 final size:54
Alignment explanation
Indices: 48923689--48923900 Score: 226
Period size: 54 Copynumber: 3.9 Consensus size: 54
48923679 ACTAAAATGT
* * *
48923689 CCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTATAAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTAC
*** * *
48923743 CCTCGATTTATATAGAATTACCGTTTTACCCTTGATTTATAGAATTACCATTTTAC
1 CCTCGATTTATA-A-AATTACCAAATTACCCTCGATTTACAGAATTACCATTTTAC
* * *** *
48923799 CCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTATAAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTAC
* * * * * *
48923853 CCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 CCTCGATTTATAAAATTACCAAATTACCCTCGATTTACAGAATTACCA
48923901 AAATATCCCT
Statistics
Matches: 131, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
54 84 0.64
55 1 0.01
56 46 0.35
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.37
Consensus pattern (54 bp):
CCTCGATTTATAAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTAC
Found at i:48923922 original size:54 final size:53
Alignment explanation
Indices: 48923864--48924102 Score: 187
Period size: 54 Copynumber: 4.4 Consensus size: 53
48923854 CTCGATTTAC
*
48923864 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATATCCCTAGCTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTAGCTTGT
*** * **
48923918 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCT-AGCTTGT
* * * * *
48923972 AAAATTACCAAAATACCCCTGATTTAGAAAATTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAATACCCTAG-C-TTGT
* * ** * *
48924027 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGT
1 -AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAATACCC-TAGCTTGT
* * *
48924082 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
48924103 TAGGATGAAA
Statistics
Matches: 143, Mismatches: 31, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
53 6 0.04
54 91 0.64
55 9 0.06
56 35 0.24
57 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTAGCTTGT
Found at i:48924067 original size:27 final size:27
Alignment explanation
Indices: 48923850--48924102 Score: 149
Period size: 27 Copynumber: 9.3 Consensus size: 27
48923840 ATTACCGTTT
* * *
48923850 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
48923877 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* *
48923904 TATCCCTAGCTTGT--AAAATTACCAAAA
1 TA-CCCTTGGTT-TACAAAATTACCAAAA
*** *
48923931 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
*** **
48923958 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
48923985 TACCCCTGATTTAGAAAATTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* *
48924012 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
48924041 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
** * *
48924068 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
48924095 CACCCTTG
1 TACCCTTG
48924103 TAGGATGAAA
Statistics
Matches: 180, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.01
26 8 0.04
27 136 0.76
28 14 0.08
29 21 0.12
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:48924082 original size:110 final size:108
Alignment explanation
Indices: 48923832--48924073 Score: 247
Period size: 108 Copynumber: 2.2 Consensus size: 108
48923822 TTACCCTCGA
* *** * ** * * *
48923832 TTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATT
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATT
*
48923897 ACCAAAATATCCCTAGCTTGTAAAATTACCAAAATACCACTGG
66 ACCAAAATATCCCTAGCTTCTAAAATTACCAAAATACCACTGG
*** *
48923940 TTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTAGAAAATT
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATT
* * *
48924005 A-CAGAAATA-CCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGG
66 ACCA-AAATATCCCTAG-C-TTCT-AAAATTACCA-AAATACCACTGG
*
48924050 TTTACAAAATTACTGAAATACCCT
1 TTTACAAAATTACCGAAATACCCT
48924074 TGGTTTGTAG
Statistics
Matches: 107, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
107 7 0.07
108 58 0.54
109 4 0.04
110 38 0.36
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (108 bp):
TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATT
ACCAAAATATCCCTAGCTTCTAAAATTACCAAAATACCACTGG
Found at i:48925040 original size:25 final size:25
Alignment explanation
Indices: 48925002--48925071 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
48924992 AGGAAGTGCT
* *
48925002 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
* *
48925027 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
48925052 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCTAGTT
48925072 ATTAAAGGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:48925342 original size:31 final size:30
Alignment explanation
Indices: 48925291--48925373 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
48925281 TGCTTACAGT
48925291 AAAGGCTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
*
48925321 AAAGGCTTTGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCC-AGTGATATGATTTATGA
48925352 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
48925374 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 17 0.35
31 30 0.61
32 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATGA
Found at i:48929093 original size:17 final size:17
Alignment explanation
Indices: 48929073--48929109 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
48929063 TTATCGTTTG
48929073 TTTATTTTTCTTATTTA
1 TTTATTTTTCTTATTTA
*
48929090 TTTATTTTTGTTATTTA
1 TTTATTTTTCTTATTTA
48929107 TTT
1 TTT
48929110 GTATCTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATTTTTCTTATTTA
Found at i:48931279 original size:22 final size:22
Alignment explanation
Indices: 48931251--48931295 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
48931241 ATCAAAATTA
*
48931251 TAACATAAACAGTGTGTGTGGC
1 TAACATAAACAGTATGTGTGGC
48931273 TAACATAAACAGTATGTGTGGC
1 TAACATAAACAGTATGTGTGGC
48931295 T
1 T
48931296 TTCTCTGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (22 bp):
TAACATAAACAGTATGTGTGGC
Found at i:48931680 original size:27 final size:26
Alignment explanation
Indices: 48931632--48931691 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
48931622 ACGAGGCTAC
*
48931632 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
48931659 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
48931685 CATATAT
1 CAGATAT
48931692 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:48931780 original size:27 final size:26
Alignment explanation
Indices: 48931732--48931783 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
48931722 GCGAGGCTGC
*
48931732 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
48931758 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
48931784 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:48932383 original size:26 final size:27
Alignment explanation
Indices: 48932354--48932407 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
48932344 TCACACAAGT
*
48932354 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
48932380 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
48932407 T
1 T
48932408 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:48932438 original size:27 final size:26
Alignment explanation
Indices: 48932408--48932522 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 26
48932398 GGGGCAAAAT
*
48932408 GGTAATTTTACTCCACAAGGGTATCTC
1 GGTAATTTTAC-CCACAAGGGTATTTC
* * *
48932435 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACC-CACAAGGGTATTTC
48932462 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCC-ACAAGGGTATTTC
* * *
48932489 GATAATTCTACCTTAC-AGAGGTATTTC
1 GGTAATTTTACC-CACAAG-GGTATTTC
48932516 GGTAATT
1 GGTAATT
48932523 CTACAACTTA
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
26 6 0.08
27 62 0.87
28 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (26 bp):
GGTAATTTTACCCACAAGGGTATTTC
Found at i:48932495 original size:54 final size:54
Alignment explanation
Indices: 48932408--48932526 Score: 177
Period size: 54 Copynumber: 2.2 Consensus size: 54
48932398 GGGGCAAAAT
* * *
48932408 GGTAATTTTACTCC-ACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTAC-CCTACAAGGGTATCTCGATAATTCTACCTTACAGAGGTATTTC
* *
48932462 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCTTACAGAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTCGATAATTCTACCTTACAGAGGTATTTC
48932516 GGTAATTCTAC
1 GGTAATTCTAC
48932527 AACTTATCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 2 0.03
54 56 0.97
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATCTCGATAATTCTACCTTACAGAGGTATTTC
Found at i:48932523 original size:27 final size:27
Alignment explanation
Indices: 48932427--48932526 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
48932417 ACTCCACAAG
* *
48932427 GGTATCTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCTTACAGA
* *
48932454 GGTATTTCGGTATTTCTACCCTACA-A
1 GGTATTTCGGTAATTCTACCTTACAGA
*
48932480 GGGTATTTCGATAATTCTACCTTACAGA
1 -GGTATTTCGGTAATTCTACCTTACAGA
48932508 GGTATTTCGGTAATTCTAC
1 GGTATTTCGGTAATTCTAC
48932527 AACTTATCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
27 62 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCTTACAGA
Found at i:48932723 original size:27 final size:27
Alignment explanation
Indices: 48932684--48932924 Score: 367
Period size: 27 Copynumber: 8.9 Consensus size: 27
48932674 AGCTGACGCC
*
48932684 ACCCTACAGGGGTATTTCAGTATTTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
* *
48932711 ACCCTACAAGGGTATTTCGGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
48932738 ACCCTACAGGGGTATTTCAGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
48932765 ACCCTACAGGGGTATTTC-GATAATTCT
1 ACCCTACAGGGGTATTTCAG-TAATTCT
*
48932792 ACCTTACAGGGGTATTTCAGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
48932819 ACCCTACAGGGGTATTTCAGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
* * *
48932846 ACCTTATAGGGGTATTCCAGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
*
48932873 ACCCTACAGGGGTATTTCGGTAATTCT
1 ACCCTACAGGGGTATTTCAGTAATTCT
* * *
48932900 ACCTTACAAGGGTATTTCGGTAATT
1 ACCCTACAGGGGTATTTCAGTAATT
48932925 GTACAAATCA
Statistics
Matches: 196, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
26 1 0.01
27 194 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
ACCCTACAGGGGTATTTCAGTAATTCT
Found at i:48932766 original size:54 final size:54
Alignment explanation
Indices: 48932688--48932951 Score: 395
Period size: 54 Copynumber: 4.9 Consensus size: 54
48932678 GACGCCACCC
* * *
48932688 TACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
1 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
*
48932742 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCT
1 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
*
48932796 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT
1 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
* *
48932850 TATAGGGGTATTCCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
1 TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
* * * ** *
48932904 TACAAGGGTATTTCGGTAATTGTA-CAAATCAGGGGTATTTTGGTAATT
1 TACAGGGGTATTTCAGTAATTCTACCCTA-CAGGGGTATTTCGGTAATT
48932952 TTACAAACTA
Statistics
Matches: 192, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
53 2 0.01
54 190 0.99
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (54 bp):
TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT
Found at i:48932939 original size:27 final size:27
Alignment explanation
Indices: 48932688--48932978 Score: 325
Period size: 27 Copynumber: 10.8 Consensus size: 27
48932678 GACGCCACCC
* * *
48932688 TACAGGGGTATTTCAGTATTTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCA
* *
48932715 TACAAGGGTATTTCGGTAATTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCA
* *
48932742 TACAGGGGTATTTCAGTAATTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCA
* *
48932769 TACAGGGGTATTTCGATAATTCTACCT
1 TACAGGGGTATTTCGGTAATTCTACCA
* *
48932796 TACAGGGGTATTTCAGTAATTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCA
* *
48932823 TACAGGGGTATTTCAGTAATTCTACCT
1 TACAGGGGTATTTCGGTAATTCTACCA
* * * *
48932850 TATAGGGGTATTCCAGTAATTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCA
*
48932877 TACAGGGGTATTTCGGTAATTCTACCT
1 TACAGGGGTATTTCGGTAATTCTACCA
* *
48932904 TACAAGGGTATTTCGGTAATTGTA-CA
1 TACAGGGGTATTTCGGTAATTCTACCA
* * *
48932930 AATCAGGGGTATTTTGGTAATTTTA-CA
1 TA-CAGGGGTATTTCGGTAATTCTACCA
* *
48932957 AACTAGGGGTATTTTGGTAATT
1 TAC-AGGGGTATTTCGGTAATT
48932979 TTGCTAATCG
Statistics
Matches: 236, Mismatches: 26, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
26 3 0.01
27 233 0.99
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
TACAGGGGTATTTCGGTAATTCTACCA
Found at i:48932979 original size:27 final size:27
Alignment explanation
Indices: 48932908--48933033 Score: 148
Period size: 27 Copynumber: 4.7 Consensus size: 27
48932898 CTACCTTACA
* *
48932908 AGGGTATTTCGGTAATTGTACAAATCAG
1 AGGGTATTTTGGTAATTTTACAAAT-AG
48932936 -GGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTTGGTAATTTTACAAA-TAG
* * *
48932963 -GGGTATTTTGGTAATTTTGCTAATCG
1 AGGGTATTTTGGTAATTTTACAAATAG
* * *
48932989 AGGGTATTTTGGTAATTTTGCTAATTG
1 AGGGTATTTTGGTAATTTTACAAATAG
48933016 AGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
48933034 GGTAAACTAA
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
26 2 0.02
27 87 0.97
28 1 0.01
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.43
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATAG
Found at i:48933021 original size:54 final size:53
Alignment explanation
Indices: 48932879--48933033 Score: 159
Period size: 54 Copynumber: 2.9 Consensus size: 53
48932869 TTCTACCCTA
* * ** * * *
48932879 CAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCGGTAATTGTACAAAT
1 CAGGGGTATTTTGGTAATTTTA-CAAACTAGGGTATTTTGGTAATTTTACAAAT
* *
48932933 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCTAAT
1 CAGGGGTATTTTGGTAATTTTACAAACTA-GGGTATTTTGGTAATTTTACAAAT
* * *
48932987 C-GAGGGTATTTTGGTAATTTTGCTAATTGAGGGTATTTTGGTAATTT
1 CAG-GGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTGGTAATTT
48933034 GGTAAACTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
53 5 0.06
54 80 0.93
55 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (53 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAAT
Found at i:48936927 original size:13 final size:13
Alignment explanation
Indices: 48936891--48936927 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
48936881 GAAAAATGAA
*
48936891 TATATGAAAAGGT
1 TATATGAAATGGT
*
48936904 TATATGGAATGGT
1 TATATGAAATGGT
48936917 TATATGAAATG
1 TATATGAAATG
48936928 AATATTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (13 bp):
TATATGAAATGGT
Found at i:48939256 original size:3 final size:3
Alignment explanation
Indices: 48939248--48939274 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
48939238 GGCTGGAGAA
48939248 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
48939275 TTGGTGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48939914 original size:20 final size:19
Alignment explanation
Indices: 48939878--48939928 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
48939868 ACGGGCTATT
*
48939878 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
48939897 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
48939917 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
48939929 GTTACTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:48945175 original size:54 final size:54
Alignment explanation
Indices: 48945117--48945219 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
48945107 TTAACACCCT
48945117 AGGGGCAAAATGGTAATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTAC
1 AGGGGCAAAATGGT-ATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
* *** * * *
48945171 AGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTAC
1 AGGGGCAAAATGGTATTTCTACCCCACAAGGGTATCTCGATAATTCTAC
48945220 AACTTGGGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.10
54 37 0.90
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (54 bp):
AGGGGCAAAATGGTATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
Found at i:48945217 original size:27 final size:27
Alignment explanation
Indices: 48945128--48945219 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
48945118 GGGGCAAAAT
* * *
48945128 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48945155 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48945182 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
48945209 GGTAATTCTAC
1 GGTAATTCTAC
48945220 AACTTGGGCC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:48951211 original size:40 final size:40
Alignment explanation
Indices: 48951149--48951366 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
48951139 AAACCAAGTA
* * ** * * *
48951149 CCTTCGGGATTTA-ACCGGATATAGCCACTGGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** *
48951188 CCTTCGGGACTTAGCCCGGATATAGTAGTTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48951228 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48951268 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCA-ACAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA-AATG
* *
48951308 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48951348 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48951367 TTATCATCCG
Statistics
Matches: 160, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 14 0.09
40 145 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48961848 original size:25 final size:25
Alignment explanation
Indices: 48961804--48961854 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
48961794 CCCTTATAAT
*
48961804 GTGAAAATGACCTTTTTACCCCTAG
1 GTGAAAATGACCTTTATACCCCTAG
*
48961829 GTGAAAATGA-CTATTATACCCTTAG
1 GTGAAAATGACCT-TTATACCCCTAG
48961854 G
1 G
48961855 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (25 bp):
GTGAAAATGACCTTTATACCCCTAG
Found at i:48961913 original size:10 final size:10
Alignment explanation
Indices: 48961898--48961932 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
48961888 TTTGTACATA
48961898 ATATGCCATG
1 ATATGCCATG
48961908 ATATGCACATG
1 ATATGC-CATG
48961919 ATATGCCATG
1 ATATGCCATG
48961929 ATAT
1 ATAT
48961933 ATACATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:48961917 original size:21 final size:21
Alignment explanation
Indices: 48961893--48961932 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48961883 ACTGATTTGT
48961893 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
*
48961914 ACATGATATGCCATGATAT
1 ACATAATATGCCATGATAT
48961933 ATACATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:48961938 original size:21 final size:20
Alignment explanation
Indices: 48961892--48961944 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
48961882 TACTGATTTG
*
48961892 TACATAATATGCCATGATATG
1 TACAT-ATATGCCATGATATA
*
48961913 CACATGATATGCCATGATATA
1 TACAT-ATATGCCATGATATA
48961934 TACATATATGC
1 TACATATATGC
48961945 ACGGGTTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Found at i:48965019 original size:56 final size:56
Alignment explanation
Indices: 48964933--48965052 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
48964923 ACAAGGGATG
48964933 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
48964989 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
48965045 ATGGGCAA
1 ATGGGCAA
48965053 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:48966809 original size:47 final size:48
Alignment explanation
Indices: 48966687--48967273 Score: 820
Period size: 47 Copynumber: 12.4 Consensus size: 48
48966677 AAGAGCTCGT
* *
48966687 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* **
48966734 AGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAA-
1 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
48966783 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
48966830 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
48966877 AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* * *
48966927 A-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* * * *
48966974 A-TGCATATATGAGGTAAGGCCGAATGGCCAATGTGATGAATGCGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
48967021 A-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
48967068 A-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
48967115 A-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
48967162 A-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* * *
48967208 AGTGTATATATGTGGTAAGGCCGAATGGCCAATGTGATGGATGTGGA-
1 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
*
48967255 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
48967274 TCCCGAAGGG
Statistics
Matches: 505, Mismatches: 29, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 412 0.82
49 91 0.18
50 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (48 bp):
AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
Found at i:48967034 original size:25 final size:25
Alignment explanation
Indices: 48967005--48967129 Score: 72
Period size: 25 Copynumber: 5.2 Consensus size: 25
48966995 GAATGGCCAA
48967005 TGTGATGAATGCGAACATGTGTATG
1 TGTGATGAATGCGAACATGTGTATG
* * *
48967030 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-CGAACATGTG-TATG
*
48967052 TGTGATGAATGTGAACATGTGTATG
1 TGTGATGAATGCGAACATGTGTATG
* * *
48967077 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-CGAACATGTG-TATG
*
48967099 TGTGATGAATGTGAACATGTGTATG
1 TGTGATGAATGCGAACATGTGTATG
48967124 TGTGAT
1 TGTGAT
48967130 AAGGCCGAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 28
0.62 0.13 0.25
Matches are distributed among these distances:
22 16 0.23
23 16 0.23
24 16 0.23
25 23 0.32
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.30
Consensus pattern (25 bp):
TGTGATGAATGCGAACATGTGTATG
Found at i:48969646 original size:40 final size:41
Alignment explanation
Indices: 48969557--48969866 Score: 169
Period size: 40 Copynumber: 7.7 Consensus size: 41
48969547 CGAATGATGT
*
48969557 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
48969597 CCGGACTAAGAT-CCGAAGGCATTTGTG-TGAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
** ** *
48969637 CCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAAGTGACCATAA
* * ** *
48969677 CCGGGCTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TGTAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAAGTGACCATAA
** ** *
48969717 CCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAAGTGACCATAA
** ** *
48969757 CCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAAGTGACCATAA
* * * *
48969797 CCGGGCTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TATAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAAGTGACCATAA
* ** *
48969837 CCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCT
48969867 GGTGTTATAT
Statistics
Matches: 243, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.00
40 223 0.92
41 18 0.07
42 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:48969692 original size:80 final size:80
Alignment explanation
Indices: 48969556--48969911 Score: 416
Period size: 80 Copynumber: 4.5 Consensus size: 80
48969546 TCGAATGATG
** * *
48969556 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATATCCGGGCTAAG-TCCCGAAGAGC
* *
48969617 ATTTGTG-TGAGTTACTATA
63 ATTCGTGCT-AGTGA-TATA
* * *
48969636 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
*
48969701 CGTGCTAGTGATGTA
66 CGTGCTAGTGATATA
*
48969716 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
* *
48969781 CATGCTAGTGATGTA
66 CGTGCTAGTGATATA
* * * **
48969796 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
* *
48969861 CGTGCTGGTGTTATA
66 CGTGCTAGTGATATA
* * * *
48969876 TCCGGGCTAGGTCTCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
48969912 CGTGTATTCG
Statistics
Matches: 243, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
79 1 0.00
80 216 0.89
81 19 0.08
82 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
CGTGCTAGTGATATA
Found at i:48969769 original size:120 final size:120
Alignment explanation
Indices: 48969556--48969911 Score: 443
Period size: 120 Copynumber: 3.0 Consensus size: 120
48969546 TCGAATGATG
* * * * *
48969556 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGA-TCCGAAG-GC
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAA-ACCCCGAAGAGC
** * *
48969617 ATTTGTG-TGAGTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
63 ATTCATGCT-AGTGA-TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* **
48969676 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATT
*
48969741 CATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
66 CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
48969796 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATT
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATT
* * * * * * *
48969861 CGTGCTGGTGTTATATCCGGGCTAGGTCTCGAAGAGCAATCATGCTGGTGA
66 CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
48969912 CGTGTATTCG
Statistics
Matches: 207, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
120 181 0.87
121 18 0.09
122 8 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATT
CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:48969876 original size:40 final size:40
Alignment explanation
Indices: 48969637--48969911 Score: 406
Period size: 40 Copynumber: 6.9 Consensus size: 40
48969627 GTTACTATAA
48969637 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* *
48969677 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
48969717 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
48969757 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * *
48969797 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* ** * * * *
48969837 CCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * * *
48969877 CCGGGCTAGGTCTCGAAGAGCAATCATGCTGGTGA
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
48969912 CGTGTATTCG
Statistics
Matches: 214, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
Found at i:48970258 original size:43 final size:43
Alignment explanation
Indices: 48970197--48970302 Score: 187
Period size: 43 Copynumber: 2.5 Consensus size: 43
48970187 GTGGAATTCA
*
48970197 TGTAAGACTTCGTCTGGGACGAAGGCATTGATTTGAGATAGTG
1 TGTAAGACCTCGTCTGGGACGAAGGCATTGATTTGAGATAGTG
48970240 TGTAAGACCTCGTCTGGGACGAAGGCATTGATTTGAGATAGTG
1 TGTAAGACCTCGTCTGGGACGAAGGCATTGATTTGAGATAGTG
48970283 TGTAAGACCAT-GTCTGGGAC
1 TGTAAGACC-TCGTCTGGGAC
48970303 ATGGCATCGG
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
43 60 0.98
44 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.28
Consensus pattern (43 bp):
TGTAAGACCTCGTCTGGGACGAAGGCATTGATTTGAGATAGTG
Found at i:48971306 original size:56 final size:56
Alignment explanation
Indices: 48971220--48971339 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
48971210 ACAAGGGATG
48971220 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
48971276 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
48971332 ATGGGCAA
1 ATGGGCAA
48971340 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Done.