Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 148 of 163
Found at i:48756952 original size:31 final size:31
Alignment explanation
Indices: 48756912--48756977 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
48756902 AAAATCTCAA
* *
48756912 AATTTGAAAAGTACAATGG-CTAAAATTGACC
1 AATTCGAAAAGCACAA-GGACTAAAATTGACC
* *
48756943 AATTCGAAAAGCATAAGGACTAAAATTGATC
1 AATTCGAAAAGCACAAGGACTAAAATTGACC
48756974 AATT
1 AATT
48756978 AATGTATAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (31 bp):
AATTCGAAAAGCACAAGGACTAAAATTGACC
Found at i:48757274 original size:51 final size:51
Alignment explanation
Indices: 48757193--48757309 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
48757183 TTAGGTATAA
* * *
48757193 TAACAAATTTAGCTCTCAAAATTTACACATTTTGTCAA-TTTGATCTTGATT
1 TAACAAATTTAGCTCACAAAATTTACACATTCTATCAATTTTG-TCTTGATT
* * *
48757244 TAACAAATTTAGC-CAACAATATTTATACATTCTATTAATTTTGTCTTGATT
1 TAACAAATTTAGCTC-ACAAAATTTACACATTCTATCAATTTTGTCTTGATT
48757295 TAACAAATTTAGCTC
1 TAACAAATTTAGCTC
48757310 GTGATATTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 1 0.02
51 51 0.89
52 5 0.09
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (51 bp):
TAACAAATTTAGCTCACAAAATTTACACATTCTATCAATTTTGTCTTGATT
Found at i:48765486 original size:118 final size:120
Alignment explanation
Indices: 48765239--48765593 Score: 343
Period size: 118 Copynumber: 3.0 Consensus size: 120
48765229 TGTGATGTCT
* * * *** * * * * *
48765239 TGTCCCTTTATTACCTTGAAGGCTAAGATGAGAGGTCTCATCCCCTTTGATAGAATCAACCGAAG
1 TGTCCCTTTATGACCTTGAAGACCAAGGCAAGAGGACTTATCCCCTTAGGTAGAATCAACCAAAG
* * * *
48765304 GCCAATGTGTGAGGTCTCATC-CCTTTGAGGGATTGGC-AAAGTTGTTAGGTCT--
66 GCCAATGTGTGAGGTCTCATCTTCTTTGAGGAATTGGCTAAA-ATGTAAGGTCTCA
* *
48765356 TGTCCCTTTTATGACCTTGAAGGCCAATGCAAGAGGACTTATCCTCCTT-GGTAGAATCAACCAA
1 TGTCCC-TTTATGACCTTGAAGACCAAGGCAAGAGGACTTATCC-CCTTAGGTAGAATCAACCAA
*
48765420 AGGCCAATGTGTGAGGTCTCATCTTCATTGAGGAATTGGCTAAAATGTAAGGTCTCA
64 AGGCCAATGTGTGAGGTCTCATCTTCTTTGAGGAATTGGCTAAAATGTAAGGTCTCA
* * * *
48765477 T-TCCC-TTATGCCCTTGAAGACCAAGGCGAGAGGTCTTATCCCCTTAGGTAGAATCAAACGAAA
1 TGTCCCTTTATGACCTTGAAGACCAAGGCAAGAGGACTTATCCCCTTAGGTAGAATC-AACCAAA
* * * * **
48765540 -GTCAA-GTGTGAGGTCTCAT-TTCCTTTTAGGAAATGACTAAGGTGTAAGGTCTCA
65 GGCCAATGTGTGAGGTCTCATCTT-CTTTGAGGAATTGGCTAAAATGTAAGGTCTCA
48765594 CCCCTATTGG
Statistics
Matches: 201, Mismatches: 28, Indels: 18
0.81 0.11 0.07
Matches are distributed among these distances:
116 2 0.01
117 50 0.25
118 109 0.54
119 32 0.16
120 7 0.03
121 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (120 bp):
TGTCCCTTTATGACCTTGAAGACCAAGGCAAGAGGACTTATCCCCTTAGGTAGAATCAACCAAAG
GCCAATGTGTGAGGTCTCATCTTCTTTGAGGAATTGGCTAAAATGTAAGGTCTCA
Found at i:48770451 original size:122 final size:120
Alignment explanation
Indices: 48770134--48770437 Score: 362
Period size: 122 Copynumber: 2.5 Consensus size: 120
48770124 ACCTAATGGC
* *
48770134 TTAAATGAAAACTTTTGATTAGTTTAGTGACCATTTTGTAACTTTTTGAAGTTACAAATAACGAT
1 TTAAATAAAAACTTTTGAATAGTTTAGTGACCATTTTGTAACTTTTTGAAGTT--AAATAACGAT
* * *
48770199 TTTAACTTTCTGCGAAGAGAGAAGGCTATATAACAATAATTTTAACAATCTAATGAA
64 TTTAAATTTCTGCGAAGAGAGAAGGCTATACAACAACAATTTTAACAATCTAATGAA
** * * *
48770256 TTAAATAAAAACTTTAAAATAGTTTAATGATCATTTTGTAACTTTTTGAAGCTGTAAATAATGAT
1 TTAAATAAAAACTTTTGAATAGTTTAGTGACCATTTTGTAACTTTTTGAAG-T-TAAATAACGAT
* * * * *
48770321 TTTAAATTTTTGC-AGATAGAGAAGGCTATACAATAACGATTTTAAC-AGCTTAAT-AA
64 TTTAAATTTCTGCGA-AGAGAGAAGGCTATACAACAACAATTTTAACAATC-TAATGAA
** *
48770377 TTTAAATAAAATTTTTTGAATAGTTTAGTGACCATTTTGTAACTTTTTGAAGTTGAATAAC
1 -TTAAATAAAAACTTTTGAATAGTTTAGTGACCATTTTGTAACTTTTTGAAGTTAAATAAC
48770438 CAAAACATAA
Statistics
Matches: 154, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
120 6 0.04
121 6 0.04
122 140 0.91
123 1 0.01
124 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (120 bp):
TTAAATAAAAACTTTTGAATAGTTTAGTGACCATTTTGTAACTTTTTGAAGTTAAATAACGATTT
TAAATTTCTGCGAAGAGAGAAGGCTATACAACAACAATTTTAACAATCTAATGAA
Found at i:48782863 original size:2 final size:2
Alignment explanation
Indices: 48782856--48782883 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48782846 CCTTCTAGAA
48782856 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
48782884 ATTTGACCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:48785677 original size:86 final size:87
Alignment explanation
Indices: 48785576--48785757 Score: 339
Period size: 86 Copynumber: 2.1 Consensus size: 87
48785566 AATAAAATAA
48785576 AACAAACAATTTGAAGGTAAATCTTAAAATAACATATAAAAGAAATAAATTAAACTAAACAGTAT
1 AACAAACAATTTGAAGGTAAATCTTAAAATAACATATAAAAGAAATAAATTAAACTAAACAGTAT
48785641 GGATATATATTAGAACAGACAT
66 GGATATATATTAGAACAGACAT
48785663 AACAAACAA-TTGAAGGTAAATCTTAAAATAACATATAAAAGAAATAAATTAAACTAAACAGTAT
1 AACAAACAATTTGAAGGTAAATCTTAAAATAACATATAAAAGAAATAAATTAAACTAAACAGTAT
48785727 GGATATATATTAGAACAGACAT
66 GGATATATATTAGAACAGACAT
* *
48785749 CATAAACAA
1 AACAAACAA
48785758 AAATTCAAAA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
86 84 0.90
87 9 0.10
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (87 bp):
AACAAACAATTTGAAGGTAAATCTTAAAATAACATATAAAAGAAATAAATTAAACTAAACAGTAT
GGATATATATTAGAACAGACAT
Found at i:48787486 original size:44 final size:44
Alignment explanation
Indices: 48787390--48787555 Score: 199
Period size: 44 Copynumber: 3.8 Consensus size: 44
48787380 ACTTGATGCG
* * * * * *
48787390 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTA
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGAT-TATCGAATTCA
* * * *
48787434 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGAATTCA
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTATCGAATTCA
* **
48787478 ATCTGCTCCACTGCAACCTCAGGGAAATTGGATTATCGAATTCA
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTATCGAATTCA
48787522 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATT
48787556 TACTTCTCCA
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 3 0.03
44 102 0.97
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTATCGAATTCA
Found at i:48787577 original size:44 final size:44
Alignment explanation
Indices: 48787529--48787643 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 44
48787519 TCAATCTGCT
*
48787529 CCACTGCAACCTCAGGGAGATAAGA-TT-TACTTCTCCAGTCGGCC
1 CCACTGCAACCTCAGGGAGATAAGACTTGT-CTTCT-CAGTCGACC
** * * * *
48787573 CCACTGTGACTTCAAGGG-GATAAGACTTGTTTTCTCAGTCTACT
1 CCACTGCAACCTC-AGGGAGATAAGACTTGTCTTCTCAGTCGACC
48787617 CCACTGCAACCTCAGGGAGATAAGACT
1 CCACTGCAACCTCAGGGAGATAAGACT
48787644 ATTGTTTTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
43 4 0.07
44 42 0.74
45 10 0.18
46 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (44 bp):
CCACTGCAACCTCAGGGAGATAAGACTTGTCTTCTCAGTCGACC
Found at i:48787808 original size:87 final size:87
Alignment explanation
Indices: 48787697--48788218 Score: 873
Period size: 87 Copynumber: 6.0 Consensus size: 87
48787687 TGTAATCTTC
* *
48787697 GATCTGCTTCACTGTTAACGCAGGAAAGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
48787762 ATGGAGGCAAGGCTTTGTTTTT
66 ATGGAGGCAAGGCTTTGTTTTT
* *
48787784 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCTCTGCAACCG
1 GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
48787849 ATGGAGGCAAGGCTTTGTTTTTT
66 ATGGAGGCAAGGCTTTG-TTTTT
* * *
48787872 GATATGCTTCGCTGTTAACTCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
*
48787937 ATGGAGGCAAGGCTTTTTTTTT
66 ATGGAGGCAAGGCTTTGTTTTT
* * *
48787959 AATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCCTTGACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
*
48788024 ATAGAGGCAAGGCTTTGTTTTT
66 ATGGAGGCAAGGCTTTGTTTTT
* * * *
48788046 TATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCCTTGACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
*
48788111 ATAGAGGCAAGGCTTTGTTTTT
66 ATGGAGGCAAGGCTTTGTTTTT
48788133 GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
*
48788198 ATGGAGGCAAAGCTTTGTTTT
66 ATGGAGGCAAGGCTTTGTTTT
48788219 CAATTTTCAC
Statistics
Matches: 408, Mismatches: 26, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
87 327 0.80
88 81 0.20
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (87 bp):
GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
ATGGAGGCAAGGCTTTGTTTTT
Found at i:48787999 original size:175 final size:174
Alignment explanation
Indices: 48787701--48788218 Score: 874
Period size: 175 Copynumber: 3.0 Consensus size: 174
48787691 ATCTTCGATC
* *
48787701 TGCTTCACTGTTAACGCAGGAAAGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
1 TGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
*
48787766 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAA
66 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAA
*
48787831 CCAGCTCCTCTGCAACCGATGGAGGCAAGGCTTTGTTTTTTGATA
131 CCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTT-ATA
* *
48787876 TGCTTCGCTGTTAACTCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGG
1 TGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
* * * *
48787941 AGGCAAGGCTTTTTTTTTAATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCCTTGA
66 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAA
* *
48788006 CCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTTTATC
131 CCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTTATA
* * * *
48788050 TACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCCTTGACCAGCTCCACTGCAACCGATAG
1 TGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
48788115 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAA
66 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAA
*
48788180 CCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTT
131 CCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
48788219 CAATTTTCAC
Statistics
Matches: 319, Mismatches: 24, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
174 159 0.50
175 160 0.50
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (174 bp):
TGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAA
CCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTTATA
Found at i:48789452 original size:13 final size:13
Alignment explanation
Indices: 48789434--48789501 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
48789424 TTAGCCTCTC
*
48789434 CATTTTTATTTTT
1 CATTTTTATTCTT
*
48789447 CATTTTCATTCTT
1 CATTTTTATTCTT
48789460 CATTTTTCATTCTT
1 CATTTTT-ATTCTT
48789474 -ATTTTTATT-TT
1 CATTTTTATTCTT
*
48789485 --TTTTCATT-TT
1 CATTTTTATTCTT
48789495 CATTTTT
1 CATTTTT
48789502 TGACTCAGAG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
10 9 0.19
11 2 0.04
12 7 0.15
13 23 0.49
14 6 0.13
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (13 bp):
CATTTTTATTCTT
Found at i:48789494 original size:6 final size:6
Alignment explanation
Indices: 48789443--48789500 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
48789433 CCATTTTTAT
*
48789443 TTTTCA TTTTCA TTCTTCA TTTTTCA TTCTT-A TTTTTA TTTT-- TTTTCA
1 TTTTCA TTTTCA TT-TTCA -TTTTCA TT-TTCA TTTTCA TTTTCA TTTTCA
48789491 TTTTCA TTTT
1 TTTTCA TTTT
48789501 TTGACTCAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.09
5 2 0.04
6 28 0.61
7 10 0.22
8 2 0.04
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTCA
Found at i:48789501 original size:7 final size:7
Alignment explanation
Indices: 48789434--48789485 Score: 58
Period size: 6 Copynumber: 8.0 Consensus size: 7
48789424 TTAGCCTCTC
48789434 CATTTTT
1 CATTTTT
48789441 -ATTTTT
1 CATTTTT
48789447 CA-TTTT
1 CATTTTT
*
48789453 CATTCTT
1 CATTTTT
48789460 CATTTTT
1 CATTTTT
*
48789467 CATTCTT
1 CATTTTT
48789474 -ATTTTT
1 CATTTTT
48789480 -ATTTTT
1 CATTTTT
48789486 TTTCATTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
6 23 0.59
7 16 0.41
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:48805141 original size:16 final size:18
Alignment explanation
Indices: 48805120--48805156 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
48805110 GCAATATACC
48805120 AAATATTA-T-TCTTTAA
1 AAATATTATTATCTTTAA
48805136 AAATATTATTATCTTTAA
1 AAATATTATTATCTTTAA
48805154 AAA
1 AAA
48805157 AAACTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATATTATTATCTTTAA
Found at i:48806123 original size:4 final size:4
Alignment explanation
Indices: 48806116--48806141 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
48806106 AGATTCTCTC
48806116 TCTT TCTT TCTT TCTT TCTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TC
48806142 CCTTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:48808876 original size:11 final size:11
Alignment explanation
Indices: 48808851--48808891 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
48808841 ATTATGGTAA
48808851 AAAAATAAAAT
1 AAAAATAAAAT
48808862 -AAAATAAAAT
1 AAAAATAAAAT
*
48808872 AAAAATATTAA-
1 AAAAATA-AAAT
48808883 AAAAATAAA
1 AAAAATAAA
48808892 CATGTGAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 11 0.42
11 13 0.50
12 2 0.08
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:48817303 original size:40 final size:40
Alignment explanation
Indices: 48817233--48817308 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
48817223 ATTTCAACAC
* * *
48817233 TTATATGCACGAAATTAACAAAATTGAATAATCCAACAAT
1 TTATATGCACGAAATTAACAAAAATAAATAACCCAACAAT
*
48817273 TTATATGCAAC-AAATTAATAAAAATAAATAACCCAA
1 TTATATGC-ACGAAATTAACAAAAATAAATAACCCAA
48817309 AGGCAAAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.94
41 2 0.06
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.26
Consensus pattern (40 bp):
TTATATGCACGAAATTAACAAAAATAAATAACCCAACAAT
Found at i:48820328 original size:28 final size:30
Alignment explanation
Indices: 48820272--48820348 Score: 113
Period size: 28 Copynumber: 2.6 Consensus size: 30
48820262 CACAAGAATA
48820272 AGTTGCTCACACAAGCTAACAGTATATTAG
1 AGTTGCTCACACAAGCTAACAGTATATTAG
* * *
48820302 GGTTGCTCACACAAGTTGACA-T-TATTAG
1 AGTTGCTCACACAAGCTAACAGTATATTAG
48820330 AGTTGCTCACACAAGCTAA
1 AGTTGCTCACACAAGCTAA
48820349 ACCTACGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 22 0.54
29 1 0.02
30 18 0.44
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (30 bp):
AGTTGCTCACACAAGCTAACAGTATATTAG
Found at i:48829555 original size:2 final size:2
Alignment explanation
Indices: 48829548--48829573 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48829538 AAATATTGTA
48829548 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
48829574 GAAAATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48834036 original size:29 final size:29
Alignment explanation
Indices: 48833972--48834050 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
48833962 GTGAATGTTT
* *
48833972 TCAATTTAGTCTTTATA-TTTTAATTTGA
1 TCAATTTAGTTTTTGTATTTTTAATTTGA
*
48834000 TCATATTTAGTTTTTGTATTTTTCAA-TTGG
1 TCA-ATTTAGTTTTTGTATTTTT-AATTTGA
*
48834030 TCAATTTTAGTTTATGTATTT
1 TCAA-TTTAGTTTTTGTATTT
48834051 AAAAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
28 3 0.07
29 13 0.30
30 25 0.58
31 2 0.05
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.59
Consensus pattern (29 bp):
TCAATTTAGTTTTTGTATTTTTAATTTGA
Found at i:48837318 original size:53 final size:53
Alignment explanation
Indices: 48837226--48837327 Score: 136
Period size: 52 Copynumber: 1.9 Consensus size: 53
48837216 AGTTAGGCCT
*
48837226 TGAAATTGGTAATTATTCCCCATTGAGGTCTGAA-CTTTTTTGTCCAAGATTC
1 TGAAATTGGCAATTATTCCCCATTGAGGTCTGAATCTTTTTTGTCCAAGATTC
* * *
48837278 TGAACTTGGCAATTTTTCCCACATTGAGG-CTTGAATTTTTTTTGTCCAAG
1 TGAAATTGGCAATTATTCCC-CATTGAGGTC-TGAATCTTTTTTGTCCAAG
48837328 TTAGTCCCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 18 0.42
53 12 0.28
54 13 0.30
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (53 bp):
TGAAATTGGCAATTATTCCCCATTGAGGTCTGAATCTTTTTTGTCCAAGATTC
Found at i:48839631 original size:18 final size:18
Alignment explanation
Indices: 48839605--48839640 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48839595 TTTTTTTTCA
* *
48839605 GGAATAATATAGAAAAAT
1 GGAACAATAAAGAAAAAT
48839623 GGAACAATAAAGAAAAAT
1 GGAACAATAAAGAAAAAT
48839641 TTTTTAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.03, G:0.17, T:0.17
Consensus pattern (18 bp):
GGAACAATAAAGAAAAAT
Found at i:48840590 original size:27 final size:27
Alignment explanation
Indices: 48840537--48840591 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
48840527 AATAAAAAAT
* * *
48840537 ATAAAACTTTAAAAATTATAATTTTTA
1 ATAAAAATTTAAAAATGATAATCTTTA
48840564 ATAAAAATTATAAAAATGA-AATCTTTA
1 ATAAAAATT-TAAAAATGATAATCTTTA
48840591 A
1 A
48840592 AATTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (27 bp):
ATAAAAATTTAAAAATGATAATCTTTA
Found at i:48843678 original size:16 final size:18
Alignment explanation
Indices: 48843647--48843684 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
48843637 AAAATTCACG
48843647 AAATTGAAACATTAAAAA
1 AAATTGAAACATTAAAAA
*
48843665 AAATT-AAA-ATTAAAAC
1 AAATTGAAACATTAAAAA
48843681 AAAT
1 AAAT
48843685 CTTCACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 3 0.16
18 5 0.26
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (18 bp):
AAATTGAAACATTAAAAA
Found at i:48843751 original size:23 final size:23
Alignment explanation
Indices: 48843724--48843772 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
48843714 AACTAAACGA
48843724 AATACGGAAACGCAAAATTCAAT
1 AATACGGAAACGCAAAATTCAAT
48843747 AATACGGAAACGCAAAATTCAAT
1 AATACGGAAACGCAAAATTCAAT
48843770 AAT
1 AAT
48843773 GACTAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.18
Consensus pattern (23 bp):
AATACGGAAACGCAAAATTCAAT
Found at i:48847383 original size:14 final size:15
Alignment explanation
Indices: 48847347--48847383 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
48847337 AATGTTTTAC
48847347 TTTTCTGGAAAATGA
1 TTTTCTGGAAAATGA
*
48847362 TTTACTGGAAAAT-A
1 TTTTCTGGAAAATGA
48847376 TTTTCTGG
1 TTTTCTGG
48847384 TGTTTGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (15 bp):
TTTTCTGGAAAATGA
Found at i:48851021 original size:17 final size:17
Alignment explanation
Indices: 48850999--48851036 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
48850989 TAAGGGTGGG
48850999 TTTAGATGGACAGTGCA
1 TTTAGATGGACAGTGCA
* *
48851016 TTTAGATGGATAGTGCG
1 TTTAGATGGACAGTGCA
48851033 TTTA
1 TTTA
48851037 TTTGCGATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (17 bp):
TTTAGATGGACAGTGCA
Found at i:48851244 original size:12 final size:12
Alignment explanation
Indices: 48851227--48851252 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48851217 TTTTATCATA
48851227 AAATGGTTAAGT
1 AAATGGTTAAGT
48851239 AAATGGTTAAGT
1 AAATGGTTAAGT
48851251 AA
1 AA
48851253 TTTCCTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (12 bp):
AAATGGTTAAGT
Found at i:48854397 original size:17 final size:18
Alignment explanation
Indices: 48854375--48854409 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48854365 AACAAATTAT
*
48854375 TAAAAAACT-TATTAAAA
1 TAAAAAAATATATTAAAA
48854392 TAAAAAAATATATTAAAA
1 TAAAAAAATATATTAAAA
48854410 AATCTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAAAATATATTAAAA
Found at i:48864490 original size:47 final size:47
Alignment explanation
Indices: 48864421--48864542 Score: 163
Period size: 47 Copynumber: 2.6 Consensus size: 47
48864411 AGTCCAACTT
* *
48864421 TGGTCTTACACGGAATCACATATCACACCAATATCATATCCCAGATA
1 TGGTCTTACACAGAAGCACATATCACACCAATATCATATCCCAGATA
* * * *
48864468 TGGTCTTACACAGTAGCACATATCACATCGATGTCATATCCCAGATA
1 TGGTCTTACACAGAAGCACATATCACACCAATATCATATCCCAGATA
* *
48864515 TGGTCTTACACGGAAATCACATATCACA
1 TGGTCTTACACAG-AAGCACATATCACA
48864543 TATTGCCATG
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 53 0.82
48 12 0.18
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (47 bp):
TGGTCTTACACAGAAGCACATATCACACCAATATCATATCCCAGATA
Found at i:48866588 original size:24 final size:24
Alignment explanation
Indices: 48866560--48866607 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
48866550 CAAGTATGCC
48866560 TACTTTAAATTTTCCATTCTTCAT
1 TACTTTAAATTTTCCATTCTTCAT
48866584 TACTTTAAATTTTCCATTCTTCAT
1 TACTTTAAATTTTCCATTCTTCAT
48866608 AAGAGACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.00, T:0.54
Consensus pattern (24 bp):
TACTTTAAATTTTCCATTCTTCAT
Found at i:48873201 original size:16 final size:16
Alignment explanation
Indices: 48873180--48873215 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
48873170 CTCATAAAAA
*
48873180 TTAATTTAATTATTTT
1 TTAATTAAATTATTTT
*
48873196 TTAATTAAATTTTTTT
1 TTAATTAAATTATTTT
48873212 TTAA
1 TTAA
48873216 AAATCTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTAATTAAATTATTTT
Found at i:48877574 original size:20 final size:20
Alignment explanation
Indices: 48877536--48877574 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
48877526 TGAACCAAAA
*
48877536 TTTTAATATTTTTTATAATT
1 TTTTAATATTTATTATAATT
48877556 TTTTAATGATTTATT-TAAT
1 TTTTAAT-ATTTATTATAAT
48877575 CAAATCAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTAATATTTATTATAATT
Found at i:48883593 original size:31 final size:31
Alignment explanation
Indices: 48883558--48883616 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
48883548 TAATCCAATA
*
48883558 ACTTAAATAAAAACTTTCGAATAATTTAATG
1 ACTTAAATAAAAACTTTCAAATAATTTAATG
* * *
48883589 ACTTAAATGAGAACTTTTAAATAATTTA
1 ACTTAAATAAAAACTTTCAAATAATTTA
48883617 CTGATCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.37
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAATTTAATG
Found at i:48889331 original size:29 final size:29
Alignment explanation
Indices: 48889264--48889321 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
48889254 AGAATATTGA
*
48889264 AAATTCTTTTATTCTTTCACTAATTTTTG
1 AAATTCTTTTATTCTTTCACTAACTTTTG
48889293 AAATTCTTTTATTCTTTCACTAACTTTTG
1 AAATTCTTTTATTCTTTCACTAACTTTTG
48889322 TCTTTCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.03, T:0.57
Consensus pattern (29 bp):
AAATTCTTTTATTCTTTCACTAACTTTTG
Found at i:48889603 original size:25 final size:25
Alignment explanation
Indices: 48889569--48889630 Score: 124
Period size: 25 Copynumber: 2.5 Consensus size: 25
48889559 CGTTAATTGC
48889569 AAACTTAATTGGGTCCTCCACTTGA
1 AAACTTAATTGGGTCCTCCACTTGA
48889594 AAACTTAATTGGGTCCTCCACTTGA
1 AAACTTAATTGGGTCCTCCACTTGA
48889619 AAACTTAATTGG
1 AAACTTAATTGG
48889631 TTTGACTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (25 bp):
AAACTTAATTGGGTCCTCCACTTGA
Found at i:48895791 original size:24 final size:25
Alignment explanation
Indices: 48895730--48895791 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
48895720 GACACACCAT
48895730 AGCTCGTATGAGCTTACCGATATTC
1 AGCTCGTATGAGCTTACCGATATTC
* * *
48895755 AGCTCGGAGGAGCTTACCG-TTTATC
1 AGCTCGTATGAGCTTACCGATAT-TC
48895780 -GCTCGTATGAGC
1 AGCTCGTATGAGC
48895792 ATACATGTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATATTC
Found at i:48897009 original size:12 final size:12
Alignment explanation
Indices: 48896994--48897024 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48896984 TACACGAGCT
*
48896994 AGGACACGGGTA
1 AGGACACGGGCA
48897006 AGGACACGGGCA
1 AGGACACGGGCA
48897018 AGGACAC
1 AGGACAC
48897025 AGACGTGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.39, T:0.03
Consensus pattern (12 bp):
AGGACACGGGCA
Found at i:48903408 original size:12 final size:12
Alignment explanation
Indices: 48903391--48903419 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
48903381 AAAAAAATTC
48903391 CATTCTTTTTAG
1 CATTCTTTTTAG
48903403 CATTCTTTTTAG
1 CATTCTTTTTAG
48903415 CATTC
1 CATTC
48903420 ATATGAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.21, G:0.07, T:0.55
Consensus pattern (12 bp):
CATTCTTTTTAG
Found at i:48904637 original size:218 final size:219
Alignment explanation
Indices: 48904248--48904685 Score: 869
Period size: 218 Copynumber: 2.0 Consensus size: 219
48904238 AAATTAAATA
48904248 TATATTAAAGAAAAATATTTATATAAGATATTGTGATATAATTTTCATAATATTTTATATATTAT
1 TATATTAAAGAAAAATATTTATATAAGATATTGTGATATAATTTTCATAATATTTTATATATTAT
48904313 TAGTTATATACATGTATAGTAATATAATGAATTATACACAATTATTGATATTATATTATATAATA
66 TAGTTATATACATGTATAGTAATATAATGAATTATACACAATTATTGATATTATATTATATAATA
48904378 CCATTAAATATACTAGGGTAATACCAGGGGCAATAGAGGGCTGGCAAATGCCCCAGTTTCCTAAA
131 CCATTAAATATACTAGGGTAATACCAGGGGCAATAGAGGGCTGGCAAATGCCCCAGTTTCCTAAA
48904443 ATGAGAAATTTAAATTTTAGTCCT
196 ATGAGAAATTTAAATTTTAGTCCT
48904467 TATATTAAAG-AAAATATTTATATAAGATATTGTGATATAATTTTCATAATATTTTATATATTAT
1 TATATTAAAGAAAAATATTTATATAAGATATTGTGATATAATTTTCATAATATTTTATATATTAT
48904531 TAGTTATATACATGTATAGTAATATAATGAATTATACACAATTATTGATATTATATTATATAATA
66 TAGTTATATACATGTATAGTAATATAATGAATTATACACAATTATTGATATTATATTATATAATA
48904596 CCATTAAATATACTAGGGTAATACCAGGGGCAATAGAGGGCTGGCAAATGCCCCAGTTTCCTAAA
131 CCATTAAATATACTAGGGTAATACCAGGGGCAATAGAGGGCTGGCAAATGCCCCAGTTTCCTAAA
48904661 ATGAGAAATTTAAATTTTAGTCCT
196 ATGAGAAATTTAAATTTTAGTCCT
48904685 T
1 T
48904686 TAAAATTTAT
Statistics
Matches: 219, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
218 209 0.95
219 10 0.05
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (219 bp):
TATATTAAAGAAAAATATTTATATAAGATATTGTGATATAATTTTCATAATATTTTATATATTAT
TAGTTATATACATGTATAGTAATATAATGAATTATACACAATTATTGATATTATATTATATAATA
CCATTAAATATACTAGGGTAATACCAGGGGCAATAGAGGGCTGGCAAATGCCCCAGTTTCCTAAA
ATGAGAAATTTAAATTTTAGTCCT
Found at i:48905349 original size:29 final size:30
Alignment explanation
Indices: 48905293--48905349 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
48905283 AAATTGAATC
* *
48905293 AAATCAAAATTTCATGTAAAAAATTACATA
1 AAATCAAAATTTCATGCAAAAAACTACATA
*
48905323 AAATCAAAA-TTCATGCATAAAACTACA
1 AAATCAAAATTTCATGCAAAAAACTACA
48905350 CATCGGACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (30 bp):
AAATCAAAATTTCATGCAAAAAACTACATA
Found at i:48915424 original size:2 final size:2
Alignment explanation
Indices: 48915417--48915446 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
48915407 ACTTTGGTGC
48915417 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48915447 CTTCTTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48919982 original size:6 final size:6
Alignment explanation
Indices: 48919973--48919998 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48919963 CTTAATTCTA
48919973 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
48919999 AAAACCCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:48926040 original size:172 final size:173
Alignment explanation
Indices: 48925744--48926089 Score: 685
Period size: 172 Copynumber: 2.0 Consensus size: 173
48925734 TAACTATTTT
48925744 TTATTTTATAAAATTTAATATAATATAGAAAATAAGTAATATTTTAAAGTAGTTTGAGTTAAAGT
1 TTATTTTATAAAATTTAATATAATATAGAAAATAAGTAATATTTTAAAGTAGTTTGAGTTAAAGT
48925809 TAAATAATTTTTTTAAAAAAATTAAATTAAAATCGAATCGCGGATAACAAAAGATCACCTGTCTC
66 TAAATAATTTTTTTAAAAAAATTAAATTAAAATCGAATCGCGGATAACAAAAGATCACCTGTCTC
48925874 GTTAAATTGCCATCATAATTAGTTGAAGTTTACCACATTAGAA
131 GTTAAATTGCCATCATAATTAGTTGAAGTTTACCACATTAGAA
48925917 TTATTTTAT-AAATTTAATATAATATAGAAAATAAGTAATATTTTAAAGTAGTTTGAGTTAAAGT
1 TTATTTTATAAAATTTAATATAATATAGAAAATAAGTAATATTTTAAAGTAGTTTGAGTTAAAGT
48925981 TAAATAATTTTTTTAAAAAAATTAAATTAAAATCGAATCGCGGATAACAAAAGATCACCTGTCTC
66 TAAATAATTTTTTTAAAAAAATTAAATTAAAATCGAATCGCGGATAACAAAAGATCACCTGTCTC
48926046 GTTAAATTGCCATCATAATTAGTTGAAGTTTACCACATTAGAA
131 GTTAAATTGCCATCATAATTAGTTGAAGTTTACCACATTAGAA
48926089 T
1 T
48926090 AATCATTATA
Statistics
Matches: 173, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
172 164 0.95
173 9 0.05
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.37
Consensus pattern (173 bp):
TTATTTTATAAAATTTAATATAATATAGAAAATAAGTAATATTTTAAAGTAGTTTGAGTTAAAGT
TAAATAATTTTTTTAAAAAAATTAAATTAAAATCGAATCGCGGATAACAAAAGATCACCTGTCTC
GTTAAATTGCCATCATAATTAGTTGAAGTTTACCACATTAGAA
Found at i:48936272 original size:8 final size:8
Alignment explanation
Indices: 48936261--48936295 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
48936251 TAAATGATGA
*
48936261 TATGTATG
1 TATGCATG
48936269 TATGCATG
1 TATGCATG
48936277 TATGCATG
1 TATGCATG
*
48936285 CATGCATG
1 TATGCATG
48936293 TAT
1 TAT
48936296 TCCTTCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (8 bp):
TATGCATG
Found at i:48936279 original size:12 final size:12
Alignment explanation
Indices: 48936262--48936295 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48936252 AAATGATGAT
48936262 ATGTATGTATGC
1 ATGTATGTATGC
*
48936274 ATGTATGCATGC
1 ATGTATGTATGC
*
48936286 ATGCATGTAT
1 ATGTATGTAT
48936296 TCCTTCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (12 bp):
ATGTATGTATGC
Found at i:48940200 original size:13 final size:13
Alignment explanation
Indices: 48940182--48940208 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48940172 GACTTTAGCC
48940182 TACGTGCTTTTCT
1 TACGTGCTTTTCT
48940195 TACGTGCTTTTCT
1 TACGTGCTTTTCT
48940208 T
1 T
48940209 TTTTCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.22, G:0.15, T:0.56
Consensus pattern (13 bp):
TACGTGCTTTTCT
Found at i:48940874 original size:18 final size:19
Alignment explanation
Indices: 48940831--48940880 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
48940821 AACTATATTA
48940831 AAAAATATTTTATTAATTTTT
1 AAAAATA-TTTA-TAATTTTT
*
48940852 -TAAATATTTAT-ATTTTT
1 AAAAATATTTATAATTTTT
48940869 AAAAATATTTAT
1 AAAAATATTTAT
48940881 CAATAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
19 4 0.15
20 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AAAAATATTTATAATTTTT
Found at i:48951516 original size:11 final size:11
Alignment explanation
Indices: 48951500--48951544 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
48951490 AAAAAAATTG
48951500 TTGTTTTCTTA
1 TTGTTTTCTTA
* *
48951511 TTGTTTTATTG
1 TTGTTTTCTTA
48951522 TTGTTTTCTTA
1 TTGTTTTCTTA
* *
48951533 CTGTTTTGTTA
1 TTGTTTTCTTA
48951544 T
1 T
48951545 CATTTCAGTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.09, C:0.07, G:0.13, T:0.71
Consensus pattern (11 bp):
TTGTTTTCTTA
Found at i:48951524 original size:22 final size:22
Alignment explanation
Indices: 48951496--48951539 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
48951486 AAAAAAAAAA
*
48951496 ATTGTTGTTTTCTTATTGTTTT
1 ATTGTTGTTTTCTTACTGTTTT
48951518 ATTGTTGTTTTCTTACTGTTTT
1 ATTGTTGTTTTCTTACTGTTTT
48951540 GTTATCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.07, G:0.14, T:0.70
Consensus pattern (22 bp):
ATTGTTGTTTTCTTACTGTTTT
Found at i:48951766 original size:2 final size:2
Alignment explanation
Indices: 48951759--48951787 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48951749 TTATATTCTA
48951759 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48951788 AATCCTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48959781 original size:3 final size:3
Alignment explanation
Indices: 48959773--48959797 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48959763 GTACCTACTG
48959773 CCA CCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA C
48959798 TGGTTCCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:48962997 original size:27 final size:26
Alignment explanation
Indices: 48962960--48963014 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 26
48962950 AGTTTCATAC
*
48962960 TTTTTTTTCTAAT-GGGTACTTGTAT
1 TTTTTTTTCTAATCGAGTACTTGTAT
*
48962985 TTTTTTTGGTCTAATCTAGTACTTGTAT
1 TTTTTTT--TCTAATCGAGTACTTGTAT
48963013 TT
1 TT
48963015 GACAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
27 6 0.24
28 12 0.48
ACGTcount: A:0.16, C:0.09, G:0.15, T:0.60
Consensus pattern (26 bp):
TTTTTTTTCTAATCGAGTACTTGTAT
Found at i:48964844 original size:2 final size:2
Alignment explanation
Indices: 48964837--48964864 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48964827 ATGTAATTAT
48964837 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48964865 CTGCAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48975852 original size:29 final size:30
Alignment explanation
Indices: 48975794--48975852 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
48975784 CTAGGCTTGC
* *
48975794 ATTTTAAAATAAAATATGGTGAGATTAAAT
1 ATTTTAAAATAAAATATGGAGAGACTAAAT
*
48975824 ATTTTAAAATAAAA-ATGGAGTGACTAAAT
1 ATTTTAAAATAAAATATGGAGAGACTAAAT
48975853 TTTAAATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.51, C:0.02, G:0.14, T:0.34
Consensus pattern (30 bp):
ATTTTAAAATAAAATATGGAGAGACTAAAT
Found at i:48983151 original size:21 final size:21
Alignment explanation
Indices: 48983125--48983169 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
48983115 ATATTTGGTA
48983125 TGTAGGCAATGCTGTTCAATT
1 TGTAGGCAATGCTGTTCAATT
48983146 TGTAGGCAATGCTGTTCAATT
1 TGTAGGCAATGCTGTTCAATT
48983167 TGT
1 TGT
48983170 TGTCAGCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.40
Consensus pattern (21 bp):
TGTAGGCAATGCTGTTCAATT
Found at i:48984343 original size:13 final size:13
Alignment explanation
Indices: 48984325--48984387 Score: 117
Period size: 13 Copynumber: 4.8 Consensus size: 13
48984315 CACTCAAATG
48984325 TCTCAAAAGCACT
1 TCTCAAAAGCACT
48984338 TCTCAAAAGCACT
1 TCTCAAAAGCACT
*
48984351 TCTGAAAAGCACT
1 TCTCAAAAGCACT
48984364 TCTCAAAAGCACT
1 TCTCAAAAGCACT
48984377 TCTCAAAAGCA
1 TCTCAAAAGCA
48984388 ATATGTTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.40, C:0.29, G:0.10, T:0.22
Consensus pattern (13 bp):
TCTCAAAAGCACT
Found at i:48985116 original size:13 final size:14
Alignment explanation
Indices: 48985063--48985116 Score: 51
Period size: 13 Copynumber: 4.0 Consensus size: 14
48985053 ATTTTTTAAT
48985063 TTTTA-ATTATTT-
1 TTTTATATTATTTC
*
48985075 TTTTACATTATTTC
1 TTTTATATTATTTC
* *
48985089 TCTTTATTTTTTTTC
1 T-TTTATATTATTTC
48985104 TTTT-TATTATTTC
1 TTTTATATTATTTC
48985117 CTTATAATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
12 5 0.15
13 14 0.41
14 4 0.12
15 11 0.32
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATATTATTTC
Found at i:48996194 original size:31 final size:29
Alignment explanation
Indices: 48996159--48996220 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
48996149 ATTTGGTATC
*
48996159 TGTACTTTCATAAAATGTTTAATGTGATACA
1 TGTACTTT-A-AAAATGTCTAATGTGATACA
* *
48996190 TGTACTTTAGAAATGTCTAATGTGGTACA
1 TGTACTTTAAAAATGTCTAATGTGATACA
48996219 TG
1 TG
48996221 AACCATCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 19 0.68
30 1 0.04
31 8 0.29
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (29 bp):
TGTACTTTAAAAATGTCTAATGTGATACA
Found at i:48996560 original size:29 final size:30
Alignment explanation
Indices: 48996523--48996588 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
48996513 ACATTTTATG
**
48996523 AAAAATACATGTACCACATTAAATATTT-T
1 AAAAATACAAATACCACATTAAATATTTGT
*
48996552 CAAAATACAAATACCACATTAAATATTTGT
1 AAAAATACAAATACCACATTAAATATTTGT
48996582 AAAAATA
1 AAAAATA
48996589 TAAGTACAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.30
Consensus pattern (30 bp):
AAAAATACAAATACCACATTAAATATTTGT
Found at i:48997418 original size:29 final size:31
Alignment explanation
Indices: 48997358--48997419 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
48997348 ACAATTTAAT
* *
48997358 TTGGTCATTTTGAATTTTTGTATTTTTTGAA
1 TTGGTCATTTTGAATTTCTGTATTTTTCGAA
*
48997389 TTGGTCATTTT-TA-TTCTGTATTTTTCGAA
1 TTGGTCATTTTGAATTTCTGTATTTTTCGAA
48997418 TT
1 TT
48997420 TTAAACTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 16 0.57
30 1 0.04
31 11 0.39
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.61
Consensus pattern (31 bp):
TTGGTCATTTTGAATTTCTGTATTTTTCGAA
Found at i:48997977 original size:14 final size:15
Alignment explanation
Indices: 48997953--48997986 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
48997943 TTAACATTCT
48997953 ATAATTAATTTAATA
1 ATAATTAATTTAATA
*
48997968 TTAATT-ATTTAATA
1 ATAATTAATTTAATA
48997982 ATAAT
1 ATAAT
48997987 ATGAATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATTAATTTAATA
Found at i:48999465 original size:3 final size:3
Alignment explanation
Indices: 48999459--48999497 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
48999449 AACATTAGGG
48999459 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48999498 AGTTCACAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:48999586 original size:23 final size:23
Alignment explanation
Indices: 48999554--48999604 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
48999544 GTTAAAACAT
*
48999554 AAAAATCATGATAA-AAAATGAAA
1 AAAAAACATGA-AACAAAATGAAA
*
48999577 AAAAAACATGAAACAAAATTAAA
1 AAAAAACATGAAACAAAATGAAA
48999600 AAAAA
1 AAAAA
48999605 TAGAGACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.14
Consensus pattern (23 bp):
AAAAAACATGAAACAAAATGAAA
Found at i:49003724 original size:18 final size:18
Alignment explanation
Indices: 49003701--49003748 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
49003691 AAAATATGAG
*
49003701 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
49003719 AAATGATTTTCACATTTC
1 AAATGATGTTCACATTTC
49003737 AAATGATGTTCA
1 AAATGATGTTCA
49003749 AATTGATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:49004309 original size:72 final size:72
Alignment explanation
Indices: 49004192--49004355 Score: 208
Period size: 72 Copynumber: 2.3 Consensus size: 72
49004182 CGAAATATGT
* * * * *
49004192 TTTTATCAATAGTTATTTATGTTTGATTTTTGGTTATTGAATTTATGTTCTACTT-ATTTATGT-
1 TTTTATCAATAGTTGTTTATGTTTGATCTTTAGATAGTGAATTTATGTTCTACTTAATTT-T-TA
*
49004255 GT-AATCTAG
64 CTAAAT-TAG
* *
49004264 TTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATAGTGAATTTATGTTCTACTTAATTTTTACT
1 TTTTATCAATAGTTGTTTATGTTTGATCTTTAGATAGTGAATTTATGTTCTACTTAATTTTTACT
49004329 AAATTAG
66 AAATTAG
49004336 TTTTATCAATAGTTGTTTAT
1 TTTTATCAATAGTTGTTTAT
49004356 ATGTGATTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
71 1 0.01
72 72 0.90
73 7 0.09
ACGTcount: A:0.25, C:0.05, G:0.13, T:0.56
Consensus pattern (72 bp):
TTTTATCAATAGTTGTTTATGTTTGATCTTTAGATAGTGAATTTATGTTCTACTTAATTTTTACT
AAATTAG
Found at i:49005753 original size:3 final size:3
Alignment explanation
Indices: 49005745--49005786 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
49005735 GATGAGAAAG
* *
49005745 TGA TGA TGA TGA TGA TGA TGA CGA CGA TGA T-A GTGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA -TGA TGA TGA
49005787 CGGTGAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 33 0.94
4 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.33, T:0.29
Consensus pattern (3 bp):
TGA
Found at i:49011089 original size:12 final size:12
Alignment explanation
Indices: 49011072--49011101 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
49011062 TATGTGTGTC
49011072 TGTATATATATA
1 TGTATATATATA
49011084 TGTATATATATA
1 TGTATATATATA
49011096 T-TATAT
1 TGTATAT
49011102 GAAGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (12 bp):
TGTATATATATA
Found at i:49015467 original size:14 final size:15
Alignment explanation
Indices: 49015438--49015473 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
49015428 TACTCAAACC
49015438 AAACAAACAAAACAA
1 AAACAAACAAAACAA
*
49015453 AAACAAA-AAACCAA
1 AAACAAACAAAACAA
49015467 AAACAAA
1 AAACAAA
49015474 GTTCAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACAAACAAAACAA
Found at i:49019395 original size:51 final size:51
Alignment explanation
Indices: 49019319--49019500 Score: 319
Period size: 51 Copynumber: 3.6 Consensus size: 51
49019309 CGGATCACAT
*
49019319 TTATCACTTGTCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
49019370 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
49019421 TTATCACTTGTCACCTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
49019472 TTATCACTTGTCACTTGTCACTGATCAGA
1 TTATCACTTGTCACTTGTCACTGATCAGA
49019501 AGTACCCAAA
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 123 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:49030587 original size:75 final size:76
Alignment explanation
Indices: 49030461--49030673 Score: 286
Period size: 75 Copynumber: 2.8 Consensus size: 76
49030451 TAATTCCCCC
*
49030461 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTA-T
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAT-CCACCGTATT
49030525 CTTAAATGTG-A
65 CTTAAATGTGAA
* * ** *
49030536 AAGGGGTTGCTAAGTGCTAATTCCCCGATTCATTGGCAGTTGCTAAATGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGA-TCCACCGTATT
* *
49030601 TTTGAATGTGAA
65 CTTAAATGTGAA
* * *
49030613 AAGAGGTTGCTAAATGCTGATTCCCTGAATCATTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTG-ATCCACCG
49030674 ATAACGGATA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
75 55 0.47
76 10 0.08
77 52 0.44
78 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCACCGTATTC
TTAAATGTGAA
Found at i:49032838 original size:7 final size:7
Alignment explanation
Indices: 49032826--49032860 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
49032816 TTCCATTTTA
49032826 TTTTTCT
1 TTTTTCT
49032833 TTTTTCT
1 TTTTTCT
49032840 TTTTTCT
1 TTTTTCT
*
49032847 TTTGTTGT
1 TTT-TTCT
49032855 TTTTTC
1 TTTTTC
49032861 AGATGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:49036310 original size:21 final size:22
Alignment explanation
Indices: 49036285--49036326 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
49036275 TTAATTTTTT
49036285 AAATATGTA-AATATT-AATATA
1 AAATAT-TATAATATTCAATATA
49036306 AAATATTATAATATTCAATAT
1 AAATATTATAATATTCAATAT
49036327 TATTAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 12 0.63
22 5 0.26
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATTATAATATTCAATATA
Found at i:49039869 original size:13 final size:13
Alignment explanation
Indices: 49039826--49039862 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
49039816 GTGTTGTGAA
*
49039826 AAAGTGCTTTTAC
1 AAAGTGTTTTTAC
49039839 AAAGTGTTTTTAC
1 AAAGTGTTTTTAC
49039852 AAAGTGTTTTT
1 AAAGTGTTTTT
49039863 GAAAAGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (13 bp):
AAAGTGTTTTTAC
Found at i:49045874 original size:3 final size:3
Alignment explanation
Indices: 49045868--49045904 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
49045858 AGATTGGTTC
49045868 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
49045905 TTTTCCATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:49046624 original size:18 final size:19
Alignment explanation
Indices: 49046601--49046639 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49046591 AAACGGATGG
49046601 TTTAATCTATTAT-GAATT
1 TTTAATCTATTATGGAATT
* *
49046619 TTTAATTTTTTATGGAATT
1 TTTAATCTATTATGGAATT
49046638 TT
1 TT
49046640 AATTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTAATCTATTATGGAATT
Found at i:49046638 original size:19 final size:17
Alignment explanation
Indices: 49046610--49046645 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
49046600 GTTTAATCTA
49046610 TTATGAATTTTTAATTTT
1 TTATGAA-TTTTAATTTT
49046628 TTATGGAATTTTAATTTT
1 TTAT-GAATTTTAATTTT
49046646 AATTTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (17 bp):
TTATGAATTTTAATTTT
Found at i:49050637 original size:7 final size:7
Alignment explanation
Indices: 49050619--49050658 Score: 71
Period size: 7 Copynumber: 5.6 Consensus size: 7
49050609 AGCTCTTGCC
49050619 ACCCTAAA
1 ACCCT-AA
49050627 ACCCTAA
1 ACCCTAA
49050634 ACCCTAA
1 ACCCTAA
49050641 ACCCTAA
1 ACCCTAA
49050648 ACCCTAA
1 ACCCTAA
49050655 ACCC
1 ACCC
49050659 GCCGACTCGC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.12
Consensus pattern (7 bp):
ACCCTAA
Found at i:49051636 original size:63 final size:63
Alignment explanation
Indices: 49051569--49051740 Score: 220
Period size: 63 Copynumber: 2.7 Consensus size: 63
49051559 ACACACGTCC
* * * * **
49051569 GTGTCTCTAGCTCATATGTCTCTAATTCCAAAATAGTGAGTTACACGATCTGGACACATGC-T
1 GTGTCTCTAGCTCGTATGCCTCTAATTCTAAAACAGTGAGTTACACGATCTGGACACACACAT
* * * *
49051631 AGTGTCCCTAGCCCGTATGCCTCTAATTCTAAAACAGCGAGTTATACGATCTGGACACACACAT
1 -GTGTCTCTAGCTCGTATGCCTCTAATTCTAAAACAGTGAGTTACACGATCTGGACACACACAT
* *
49051695 GTGTCTCTAGCTTGTGTGCCTCTAATTCTAAAACAGTGAGTTACAC
1 GTGTCTCTAGCTCGTATGCCTCTAATTCTAAAACAGTGAGTTACAC
49051741 AACCTACTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
63 91 0.99
64 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (63 bp):
GTGTCTCTAGCTCGTATGCCTCTAATTCTAAAACAGTGAGTTACACGATCTGGACACACACAT
Found at i:49052356 original size:15 final size:13
Alignment explanation
Indices: 49052313--49052350 Score: 60
Period size: 12 Copynumber: 2.9 Consensus size: 13
49052303 ATGAAGTAAC
49052313 AAAGAAAAGAAGAA
1 AAAG-AAAGAAGAA
49052327 AAAGAAA-AAGAA
1 AAAGAAAGAAGAA
49052339 AAAGAAAGAAGA
1 AAAGAAAGAAGA
49052351 GGAAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.52
13 7 0.30
14 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:49053592 original size:28 final size:28
Alignment explanation
Indices: 49053552--49053609 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
49053542 AGACAAGCAA
49053552 GAATTCTATGAAGACTTTCAATGTGATC
1 GAATTCTATGAAGACTTTCAATGTGATC
49053580 GAATTCTATGAAGACTTTCAATGTGATC
1 GAATTCTATGAAGACTTTCAATGTGATC
49053608 GA
1 GA
49053610 GTTTTCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (28 bp):
GAATTCTATGAAGACTTTCAATGTGATC
Found at i:49056405 original size:31 final size:30
Alignment explanation
Indices: 49056366--49056428 Score: 108
Period size: 31 Copynumber: 2.1 Consensus size: 30
49056356 TTGCATCATC
49056366 AAAATTTTATAATTTTCAAATTCAAAGACA
1 AAAATTTTATAATTTTCAAATTCAAAGACA
*
49056396 AAAACTTTTATAATTTTCAAATTCAAATACA
1 AAAA-TTTTATAATTTTCAAATTCAAAGACA
49056427 AA
1 AA
49056429 TGATCTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAATTTTATAATTTTCAAATTCAAAGACA
Found at i:49060171 original size:124 final size:122
Alignment explanation
Indices: 49059710--49060212 Score: 661
Period size: 122 Copynumber: 4.1 Consensus size: 122
49059700 ACACAAATAC
* * * * ** *
49059710 ATATTTTCAGCTCAGACGAGCAATTGATATATCGAAGATACTTGTGACATAGGTTTAGCCTTAAT
1 ATATTTTCAGCTCGGACGAGCAATTGATATATCAAAGATACTTATGACACAGGTTTAGCCTGGAC
49059775 TGGTAACCTGATGCCAATTTAAAGGTTTAGCTTGGACGGATAACTTGACATGTATAT
66 TGGTAACCTGATGCCAATTTAAAGGTTTAGCTTGGACGGATAACTTGACATGTATAT
* * *
49059832 ATATTTTCAGCTTGGACGAGCAATTGATATATCAAATATACTTATGACACATGTTTAGCCTGGAC
1 ATATTTTCAGCTCGGACGAGCAATTGATATATCAAAGATACTTATGACACAGGTTTAGCCTGGAC
* *
49059897 TGGTAACTTGATGTCAATTTAAAGGTTTAGCTTGGACGGATAACTTGACATGTATAT
66 TGGTAACCTGATGCCAATTTAAAGGTTTAGCTTGGACGGATAACTTGACATGTATAT
* * *
49059954 ATATTTTCAGCTTGGACGAGCAATTGATATATCAAATATACTTATGACACATGTTTAGCCTGGAC
1 ATATTTTCAGCTCGGACGAGCAATTGATATATCAAAGATACTTATGACACAGGTTTAGCCTGGAC
* * **
49060019 TGGTAACTTGATGTCAATTTAAAGGTTTAGCCCGGAC-GAGTAACTTGACATTTGTATAT
66 TGGTAACCTGATGCCAATTTAAAGGTTTAGCTTGGACGGA-TAACTTGACA--TGTATAT
* * * * *
49060078 ATATTTTTAGCTCGGACGAGTAATTGATGTATCGAAGATACTTGTGACACAGGTTTAGCC-GAGA
1 ATATTTTCAGCTCGGACGAGCAATTGATATATCAAAGATACTTATGACACAGGTTTAGCCTG-GA
* * * * * *
49060142 CTGGTAACCTAATGCCAACTTAAATGTTTAGCTTGAAC-GAGTAACCTGACATGTGTAT
65 CTGGTAACCTGATGCCAATTTAAAGGTTTAGCTTGGACGGA-TAACTTGACATGTATAT
*
49060200 ATATATTCAGCTC
1 ATATTTTCAGCTC
49060213 AGATAATTGG
Statistics
Matches: 343, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
121 2 0.01
122 237 0.69
123 1 0.00
124 103 0.30
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (122 bp):
ATATTTTCAGCTCGGACGAGCAATTGATATATCAAAGATACTTATGACACAGGTTTAGCCTGGAC
TGGTAACCTGATGCCAATTTAAAGGTTTAGCTTGGACGGATAACTTGACATGTATAT
Found at i:49070578 original size:19 final size:19
Alignment explanation
Indices: 49070542--49070596 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
49070532 TTGCCCTTCC
49070542 CTTTTATT-TATTTATTTAT
1 CTTTTATTAT-TTTATTTAT
*
49070561 CTTTTATTATTTTGTTTAT
1 CTTTTATTATTTTATTTAT
*
49070580 -TTGTTTTTATTTTATTT
1 CTT-TTATTATTTTATTT
49070597 TATTTTGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 2 0.06
19 28 0.90
20 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (19 bp):
CTTTTATTATTTTATTTAT
Found at i:49070581 original size:27 final size:27
Alignment explanation
Indices: 49070543--49070595 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
49070533 TGCCCTTCCC
*
49070543 TTTTATTTATTTATTTATCTTTTATTA
1 TTTTATTTATTTATTTATATTTTATTA
* * *
49070570 TTTTGTTTATTTGTTTTTATTTTATT
1 TTTTATTTATTTATTTATATTTTATT
49070596 TTATTTTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (27 bp):
TTTTATTTATTTATTTATATTTTATTA
Found at i:49072262 original size:18 final size:20
Alignment explanation
Indices: 49072241--49072283 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
49072231 ATTTTATTTA
49072241 ATTTTATGTT-TTTT-TTCT
1 ATTTTATGTTGTTTTGTTCT
* *
49072259 ATTTTTTGTTGTTTTGTTTT
1 ATTTTATGTTGTTTTGTTCT
49072279 ATTTT
1 ATTTT
49072284 TATTTTCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 4 0.19
20 8 0.38
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.79
Consensus pattern (20 bp):
ATTTTATGTTGTTTTGTTCT
Found at i:49072265 original size:20 final size:20
Alignment explanation
Indices: 49072232--49072284 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
49072222 TTATTTTTAA
* *
49072232 TTTTATTTAATTTTATGTTTTT
1 TTTTATTT--TTTGATGTTTTG
*
49072254 TTTCTATTTTTTGTTGTTTTG
1 TTT-TATTTTTTGATGTTTTG
49072275 TTTTATTTTT
1 TTTTATTTTT
49072285 ATTTTCTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 7 0.26
21 12 0.44
22 3 0.11
23 5 0.19
ACGTcount: A:0.11, C:0.02, G:0.08, T:0.79
Consensus pattern (20 bp):
TTTTATTTTTTGATGTTTTG
Found at i:49077862 original size:31 final size:31
Alignment explanation
Indices: 49077827--49077887 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
49077817 GTTACAAAAT
* *
49077827 AGTTATTGAATTATTC-GAAAATTTTCATTTA
1 AGTTATTGAACTATTCAAAAAATTTT-ATTTA
49077858 AGTTATTGAACTATTCAAAAAATTTTATTT
1 AGTTATTGAACTATTCAAAAAATTTTATTT
49077888 GTCACTGGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.48
Consensus pattern (31 bp):
AGTTATTGAACTATTCAAAAAATTTTATTTA
Found at i:49079682 original size:20 final size:21
Alignment explanation
Indices: 49079654--49079692 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
49079644 ATAAATATTC
49079654 TAAAAATTCTAAAA-AATATA
1 TAAAAATTCTAAAACAATATA
*
49079674 TAAAGATTCTAAAACAATA
1 TAAAAATTCTAAAACAATA
49079693 ATTTTGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAAAATTCTAAAACAATATA
Found at i:49085344 original size:17 final size:16
Alignment explanation
Indices: 49085309--49085351 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
49085299 GAAATCAGAT
*
49085309 TAATTTAAATTCGAAA
1 TAATTTAAATTCAAAA
*
49085325 TAATTTATATTTCAAAA
1 TAATTTA-AATTCAAAA
*
49085342 TAATTCAAAT
1 TAATTTAAAT
49085352 AAATAATTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (16 bp):
TAATTTAAATTCAAAA
Found at i:49088330 original size:12 final size:12
Alignment explanation
Indices: 49088313--49088350 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
49088303 TATAGAAAAT
49088313 ATGATAATAATA
1 ATGATAATAATA
*
49088325 ATGATAGTAAATA
1 ATGATAAT-AATA
49088338 ATG-TAATAATA
1 ATGATAATAATA
49088349 AT
1 AT
49088351 AGTAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 6 0.26
12 10 0.43
13 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (12 bp):
ATGATAATAATA
Found at i:49088336 original size:24 final size:24
Alignment explanation
Indices: 49088304--49088350 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49088294 ATGTATATGT
49088304 ATAGAAAAT-ATGATAATAATAATG
1 ATAGAAAATAATG-TAATAATAATG
*
49088328 ATAGTAAATAATGTAATAATAAT
1 ATAGAAAATAATGTAATAATAAT
49088351 AGTAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (24 bp):
ATAGAAAATAATGTAATAATAATG
Found at i:49089974 original size:44 final size:44
Alignment explanation
Indices: 49089875--49090650 Score: 713
Period size: 44 Copynumber: 17.5 Consensus size: 44
49089865 ACCGATATGG
* * * *
49089875 GAAGACAAGATCTACTATCTTTGATCTACTTCACTACCAATACAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACAT
*
49089920 GAAGATAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * * ***
49089964 GAAGACAAGATATTCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
* * * *
49090009 GAAGACAAGATCTACTATCTTTGATCTACTTCACTACCAATACAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACAT
* * *
49090054 GAAGATAAGATCTGCTATCTTCGATTTACTTCACGACAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * ***
49090098 GAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
* ** * *
49090143 GAAGACAAGATCTGC-ATCTTCGATCCACTTTGCTACCAATATA-
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACAT
* *
49090186 GAAAGACAAGATCTGCTATCTTCGATCTACTTTATGCCAATACAT
1 G-AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * ** *
49090231 GAAGACAATATCTGCTTTCATCGATCTACTT--CGCCACCAGTAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA-CAT
* *
49090274 GGAAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAATACAT
1 -G-AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
49090320 AAAGACAAGATCT-CTTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGC-TATCTTCGATCTACTTCACGCCAATACAT
* * * * *
49090364 GAAGACAAGATCTGCT-TCTTCGATCCACTTCGCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACAT
* *
49090408 GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCTAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * ***
49090452 GAAGACAAGATCTGCTTTCATCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
* * *
49090497 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATATAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* ** * * **
49090541 GAAGATAAGATCCACTTTCTTCGATCTACTT--CGCCACCTGTAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA-ATACAT
*
49090584 GGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 --GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
49090630 GAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTT
49090651 TCAACCTGCC
Statistics
Matches: 596, Mismatches: 113, Indels: 45
0.79 0.15 0.06
Matches are distributed among these distances:
42 10 0.02
43 24 0.04
44 305 0.51
45 242 0.41
46 5 0.01
47 10 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:49089990 original size:89 final size:88
Alignment explanation
Indices: 49089845--49090650 Score: 771
Period size: 89 Copynumber: 9.1 Consensus size: 88
49089835 ATAAGACTTG
* * ** * * *
49089845 TATCTTCGATCTACTTCGCCACCGATATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACT
1 TATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-
* *
49089910 ACCAATACAGGAAGATAAGATCTGC
64 ACCAATACATGAAGACAAGATCTGC
* * * * *
49089935 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATATTCTTTCTTCGATCTACTTCGCCA
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACA
* *** *
49090000 CCAGTATGGGAAGACAAGATCTAC
65 CCAATACATGAAGACAAGATCTGC
* * * *
49090024 TATCTTTGATCTACTTCACTACCAATACAGGAAGATAAGATCTGCTATCTTCGATTTACTTCACG
1 TATCTTCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-
*
49090089 A-CAATACATGAAGACAATATCTGC
64 ACCAATACATGAAGACAAGATCTGC
* * * ** * * **
49090113 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTTGCT
1 TATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-
*
49090177 ACCAATATA-GAAAGACAAGATCTGC
64 ACCAATACATG-AAGACAAGATCTGC
* ** * * * *
49090202 TATCTTCGATCTACTTTATGCCAATACATGAAGACAATATCTGCTTTCATCGATCTACTTCGCCA
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACA
*
49090267 CCAGT--ATGGAAAGACAAGATCTGC
65 CCAATACAT-G-AAGACAAGATCTGC
* ** *
49090291 TATCTTTGATCTACTTCACACCAATACATAAAGACAAGATCT-CTTATCTTCGATCTACTTCACG
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTT-TCTTCGATCTACTTCACA
49090355 CCAATACATGAAGACAAGATCTGC
65 CCAATACATGAAGACAAGATCTGC
* * * * * *
49090379 T-TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACG
1 TATCTTCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACA
*
49090443 CTAATACATGAAGACAAGATCTGC
65 CCAATACATGAAGACAAGATCTGC
* * * * ** * *
49090467 TTTCATCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTCTTCGATCTACTTCACG
1 TATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACA
* * **
49090532 CCAATATATGAAGATAAGATCCAC
65 CCAATACATGAAGACAAGATCTGC
* * ** ** *
49090556 TTTCTTCGATCTACTTCGCCACCTGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACG
1 TATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACA
49090621 CCAATACATGAAGACAAGATCTGC
65 CCAATACATGAAGACAAGATCTGC
*
49090645 TTTCTT
1 TATCTT
49090651 TCAACCTGCC
Statistics
Matches: 599, Mismatches: 100, Indels: 35
0.82 0.14 0.05
Matches are distributed among these distances:
87 15 0.03
88 119 0.20
89 406 0.68
90 59 0.10
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (88 bp):
TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACAC
CAATACATGAAGACAAGATCTGC
Found at i:49090239 original size:133 final size:134
Alignment explanation
Indices: 49089847--49090650 Score: 1019
Period size: 133 Copynumber: 6.0 Consensus size: 134
49089837 AAGACTTGTA
*
49089847 TCTTCGATCTACTTCGCCACC-GATATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACTA
1 TCTTCGATCTACTTCGCCACCAG-TATGGGAAGACAAGATCTACTATCTTCGATCTACTTCACTA
* *
49089911 CCAATACAGGAAGATAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATA
65 CCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
*
49089976 TTCTT
130 TGCTT
*
49089981 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACTAC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCGATCTACTTCACTAC
* * * *
49090046 CAATACAGGAAGATAAGATCTGCTATCTTCGATTTACTTCACGACAATACATGAAGACAATATCT
66 CAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
49090111 GCTT
131 GCTT
* * **
49090115 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTTGCTAC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCGATCTACTTCACTAC
* * * * *
49090179 CAATATAGAAAGACAAGATCTGCTATCTTCGATCTACTTTATGCCAATACATGAAGACAATATCT
66 CAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
49090244 GCTT
131 GCTT
* * * *
49090248 TCATCGATCTACTTCGCCACCAGTATGGAAAGACAAGATCTGCTATCTTTGATCTACTTCAC-AC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCGATCTACTTCACTAC
**
49090312 CAATACATAAAGACAAGATCT-CTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
66 CAATACAGGAAGACAAGATCTGC-TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
49090376 TGC-T
130 TGCTT
* * * * * * *
49090380 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC-GC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCGATCTACTTCACTAC
* * * * * * * ***
49090444 TAATACATGAAGACAAGATCTGCTTTCATCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
66 CAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATC
*
49090509 TGTTT
130 TGCTT
* * * ** * * * * *
49090514 TCTTCGATCTACTTC-ACGCCAATATATGAAGATAAGATCCACTTTCTTCGATCTACTTCGCCAC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCGATCTACTTCACTAC
** ** *
49090578 CTGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 CAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
49090643 GCTT
131 GCTT
49090647 TCTT
1 TCTT
49090651 TCAACCTGCC
Statistics
Matches: 589, Mismatches: 74, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
132 91 0.15
133 265 0.45
134 232 0.39
135 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (134 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCGATCTACTTCACTAC
CAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
GCTT
Found at i:49091938 original size:14 final size:14
Alignment explanation
Indices: 49091910--49091957 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
49091900 AGCCTCTCTA
49091910 TTTT-ACTTTTCCAT
1 TTTTCACTTTT-CAT
*
49091924 TTTTCAGTTTTCA-
1 TTTTCACTTTTCAT
49091937 TTTTCACTTATTCAT
1 TTTTCACTT-TTCAT
49091952 TTTTCA
1 TTTTCA
49091958 TCTCATCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 8 0.28
14 10 0.34
15 11 0.38
ACGTcount: A:0.17, C:0.19, G:0.02, T:0.62
Consensus pattern (14 bp):
TTTTCACTTTTCAT
Found at i:49091957 original size:15 final size:15
Alignment explanation
Indices: 49091921--49091970 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
49091911 TTTACTTTTC
*
49091921 CATTTTTCAGTT-TT
1 CATTTTTCACTTATT
49091935 CA-TTTTCACTTATT
1 CATTTTTCACTTATT
*
49091949 CATTTTTCATCTCA-T
1 CATTTTTCA-CTTATT
49091964 CATTTTT
1 CATTTTT
49091971 TTTACGACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 8 0.26
14 6 0.19
15 14 0.45
16 3 0.10
ACGTcount: A:0.18, C:0.20, G:0.02, T:0.60
Consensus pattern (15 bp):
CATTTTTCACTTATT
Found at i:49094824 original size:19 final size:20
Alignment explanation
Indices: 49094800--49094846 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
49094790 TAGCGGTGTT
* *
49094800 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
49094819 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
49094839 -AATGCAAA
1 TAATGCAAA
49094847 AAGAGACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:49095311 original size:17 final size:17
Alignment explanation
Indices: 49095285--49095320 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49095275 TTCTATGATG
*
49095285 AAATGCCATGCAGTCAA
1 AAATGCCATGCAGCCAA
*
49095302 AAATGTCATGCAGCCAA
1 AAATGCCATGCAGCCAA
49095319 AA
1 AA
49095321 CAAAGCACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (17 bp):
AAATGCCATGCAGCCAA
Found at i:49096933 original size:12 final size:12
Alignment explanation
Indices: 49096916--49096953 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
49096906 TATAGAAAAT
49096916 ATGATAATAATA
1 ATGATAATAATA
*
49096928 ATGATAGTAAATA
1 ATGATAAT-AATA
49096941 ATG-TAATAATA
1 ATGATAATAATA
49096952 AT
1 AT
49096954 AGTAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 6 0.26
12 10 0.43
13 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (12 bp):
ATGATAATAATA
Found at i:49096934 original size:24 final size:24
Alignment explanation
Indices: 49096907--49096953 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49096897 ATGTATATGT
49096907 ATAGAAAAT-ATGATAATAATAATG
1 ATAGAAAATAATG-TAATAATAATG
*
49096931 ATAGTAAATAATGTAATAATAAT
1 ATAGAAAATAATGTAATAATAAT
49096954 AGTAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (24 bp):
ATAGAAAATAATGTAATAATAATG
Found at i:49101136 original size:80 final size:80
Alignment explanation
Indices: 49101003--49101162 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
49100993 TTCATAGTTA
* *
49101003 GTAAGAAGGGGATTGAGGTAGACCCGGACAAAGTGAAAGCAATCCGAGACCTACCTCCTCCACGC
1 GTAAGAAGAGGATTGAGGTAGACCCCGACAAAGTGAAAGCAATCCGAGACCTACCTCCTCCACGC
49101068 ACTCAGAAAGAAGTC
66 ACTCAGAAAGAAGTC
*
49101083 GTAAGAAGAGGATTGAGGTGGACCCCGACAAAGTGAAAGCAATCCGAGACCTACCTCCTCCACGC
1 GTAAGAAGAGGATTGAGGTAGACCCCGACAAAGTGAAAGCAATCCGAGACCTACCTCCTCCACGC
49101148 ACTCAGAAAGAAGTC
66 ACTCAGAAAGAAGTC
49101163 CACAGTTTCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.14
Consensus pattern (80 bp):
GTAAGAAGAGGATTGAGGTAGACCCCGACAAAGTGAAAGCAATCCGAGACCTACCTCCTCCACGC
ACTCAGAAAGAAGTC
Found at i:49104952 original size:44 final size:44
Alignment explanation
Indices: 49104904--49105051 Score: 113
Period size: 44 Copynumber: 3.4 Consensus size: 44
49104894 AAGATAGCAG
*
49104904 ATCTTATCTCTCTAAGCAGTAGAGGAGCAAATCGAAGACGACAA
1 ATCTTATCTCTCTAAGCAGTAGAGGAGCAGATCGAAGACGACAA
* * * * ** * *
49104948 ATCTTATATTTCCAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCCA
1 ATCTTATCTCTCTAAGCAGTAG-AGG-AGCAGATCGAAGACGA-CAA
** * *
49104992 GCCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAA
1 ATCTTATCTCTCTAAGCAGTAGAGGAGCAGATCGAAGACGACAA
* *
49105036 ATCTTATTTTTCTAAG
1 ATCTTATCTCTCTAAG
49105052 ATAGTGGGAA
Statistics
Matches: 73, Mismatches: 25, Indels: 12
0.66 0.23 0.11
Matches are distributed among these distances:
42 3 0.04
43 5 0.07
44 57 0.78
45 5 0.07
46 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCTCTAAGCAGTAGAGGAGCAGATCGAAGACGACAA
Found at i:49105002 original size:132 final size:132
Alignment explanation
Indices: 49104762--49105018 Score: 397
Period size: 132 Copynumber: 1.9 Consensus size: 132
49104752 CAGATCAGTA
* * * *
49104762 AAGATAGCAGATCTTACCTCTCTAAGCAATAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTT
1 AAGATAGCAGATCTTACCTCTCTAAGCAATAGAGGAGCAAATCAAAGACGACAAATCTTATATTT
* * * *
49104827 TCAAGGTAGTGGGAAACAGATTTAAGCCACCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGT
66 CCAAGATAGTGGGAAACAGATTTAAGCCACCCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGT
49104892 TG
131 TG
* * *
49104894 AAGATAGCAGATCTTATCTCTCTAAGCAGTAGAGGAGCAAATCGAAGACGACAAATCTTATATTT
1 AAGATAGCAGATCTTACCTCTCTAAGCAATAGAGGAGCAAATCAAAGACGACAAATCTTATATTT
* *
49104959 CCAAGATAGTGGGAAGCAGATTTAAGCCACCCAGCCTTATCTCCCTAAGCAGTAGTGGAG
66 CCAAGATAGTGGGAAACAGATTTAAGCCACCCAGCCTTATCTCCCTAAGCAGCAGTGGAG
49105019 CAGATCGAAG
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 112 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (132 bp):
AAGATAGCAGATCTTACCTCTCTAAGCAATAGAGGAGCAAATCAAAGACGACAAATCTTATATTT
CCAAGATAGTGGGAAACAGATTTAAGCCACCCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGT
TG
Found at i:49105040 original size:132 final size:132
Alignment explanation
Indices: 49104762--49105051 Score: 366
Period size: 132 Copynumber: 2.2 Consensus size: 132
49104752 CAGATCAGTA
* * * * * * *
49104762 AAGATAGCAGATCTTACCTCTCTAAGCAATAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTT
1 AAGAGAGCAAATCTTATCTCTCTAAGCAATAGAGGAGCAAATCAAAGACGACAAATCTTATATTT
* * * * * *
49104827 TCAAGGTAGTGGGAAACAGATTTAAGCCACCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGT
66 CCAAGATAGTGGGAAACAGATTTAAGCCACCCAGCCTTATCTCCCTAAGCAGCAGTGGAGCAGAT
*
49104892 TG
131 CG
* * * *
49104894 AAGATAGCAGATCTTATCTCTCTAAGCAGTAGAGGAGCAAATCGAAGACGACAAATCTTATATTT
1 AAGAGAGCAAATCTTATCTCTCTAAGCAATAGAGGAGCAAATCAAAGACGACAAATCTTATATTT
* *
49104959 CCAAGATAGTGGGAAGCAGATTTAAGCCACCCAGCCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
66 CCAAGATAGTGGGAAACAGATTTAAGCCACCCAGCCTTATCTCCCTAAGCAGCAGTGGAGCAGAT
49105024 CG
131 CG
* *
49105026 AAGACGA-CAAATCTTATTTTTCTAAG
1 AAGA-GAGCAAATCTTATCTCTCTAAG
49105052 ATAGTGGGAA
Statistics
Matches: 137, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
132 136 0.99
133 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (132 bp):
AAGAGAGCAAATCTTATCTCTCTAAGCAATAGAGGAGCAAATCAAAGACGACAAATCTTATATTT
CCAAGATAGTGGGAAACAGATTTAAGCCACCCAGCCTTATCTCCCTAAGCAGCAGTGGAGCAGAT
CG
Found at i:49105055 original size:88 final size:88
Alignment explanation
Indices: 49104906--49105092 Score: 302
Period size: 88 Copynumber: 2.1 Consensus size: 88
49104896 GATAGCAGAT
*
49104906 CTTATCTCTCTAAGCAGTAGAGGAGCAAATCGAAGACGACAAATCTTATATTTCCAAGATAGTGG
1 CTTATCTCCCTAAGCAGTAGAGGAGCAAATCGAAGACGACAAATCTTATATTTCCAAGATAGTGG
* *
49104971 GAAGCAGATTTAAGCCACCCAGC
66 GAAACAGATTTAAGCCACCAAGC
* * * *
49104994 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATTTTTCTAAGATAGTGG
1 CTTATCTCCCTAAGCAGTAGAGGAGCAAATCGAAGACGACAAATCTTATATTTCCAAGATAGTGG
49105059 GAAACAGATTTAAGCCACCAAGC
66 GAAACAGATTTAAGCCACCAAGC
*
49105082 CTTGTCTCCCT
1 CTTATCTCCCT
49105093 GAACAGCAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (88 bp):
CTTATCTCCCTAAGCAGTAGAGGAGCAAATCGAAGACGACAAATCTTATATTTCCAAGATAGTGG
GAAACAGATTTAAGCCACCAAGC
Found at i:49105067 original size:44 final size:44
Alignment explanation
Indices: 49104929--49105067 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
49104919 GCAGTAGAGG
* *
49104929 AGCAAATCGAAGACGACAAATCTTATATTTCCAAGATAGTGGGA
1 AGCAGATCGAAGACGACAAATCTTATATTTCTAAGATAGTGGGA
** * * ** * **
49104973 AGCAGATTTAAG-CCACCCAGCCTTATCTCCCTAAGCAGTAGT-GG-
1 AGCAGATCGAAGACGA-CAAATCTTATATTTCTAAG-A-TAGTGGGA
*
49105017 AGCAGATCGAAGACGACAAATCTTATTTTTCTAAGATAGTGGGA
1 AGCAGATCGAAGACGACAAATCTTATATTTCTAAGATAGTGGGA
*
49105061 AACAGAT
1 AGCAGAT
49105068 TTAAGCCACC
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
42 4 0.06
43 5 0.07
44 50 0.74
45 5 0.07
46 4 0.06
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (44 bp):
AGCAGATCGAAGACGACAAATCTTATATTTCTAAGATAGTGGGA
Found at i:49106564 original size:20 final size:21
Alignment explanation
Indices: 49106539--49106585 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
49106529 TTATTGTTAC
*
49106539 TTTTATTTTTATAC-TTATTT
1 TTTTATTTTTATACTTTATGT
49106559 TTTTATTTTTATACTTTATGT
1 TTTTATTTTTATACTTTATGT
49106580 TTTTAT
1 TTTTAT
49106586 ATACATGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTATTTTTATACTTTATGT
Found at i:49108957 original size:2 final size:2
Alignment explanation
Indices: 49108950--49108979 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
49108940 TTAGTCATTA
49108950 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49108980 GGTTTACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49110463 original size:31 final size:31
Alignment explanation
Indices: 49110425--49110485 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
49110415 GTATCAAAAC
*
49110425 AAACATTAAAACCAAACTCAAATACCAAATT
1 AAACATTAAAACCAAACACAAATACCAAATT
* *
49110456 AAACATTAAAATCAAACACAAGTACCAAAT
1 AAACATTAAAACCAAACACAAATACCAAAT
49110486 GGTATATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.59, C:0.21, G:0.02, T:0.18
Consensus pattern (31 bp):
AAACATTAAAACCAAACACAAATACCAAATT
Found at i:49112104 original size:19 final size:18
Alignment explanation
Indices: 49112081--49112127 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
49112071 TAAGTTGTAC
49112081 TTTTAATTTTTTATATAA
1 TTTTAATTTTTTATATAA
**
49112099 TATTTAATAATTTATATAA
1 T-TTTAATTTTTTATATAA
49112118 TTTT-ATTTTT
1 TTTTAATTTTT
49112128 CTAATTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 16 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTAATTTTTTATATAA
Found at i:49112140 original size:22 final size:22
Alignment explanation
Indices: 49112106--49112147 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
49112096 TAATATTTAA
49112106 TAATTTATATAATTTTATTTTTC
1 TAATTTATATAATTTT-TTTTTC
*
49112129 TAATTT-TCTAATTTTTTTT
1 TAATTTATATAATTTTTTTT
49112148 GTAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TAATTTATATAATTTTTTTTTC
Found at i:49112776 original size:29 final size:30
Alignment explanation
Indices: 49112715--49112778 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
49112705 AAATATATTT
**
49112715 TTAAGGGCTTAATTGATTGGCAACTTTGGA
1 TTAAGGGCTTAATTGATTGGCAACTTTCAA
*
49112745 TTAAGGG-TTAAATTGATT-GCAATTTTCAA
1 TTAAGGGCTT-AATTGATTGGCAACTTTCAA
49112774 TTAAG
1 TTAAG
49112779 AATTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (30 bp):
TTAAGGGCTTAATTGATTGGCAACTTTCAA
Found at i:49112787 original size:29 final size:30
Alignment explanation
Indices: 49112723--49112787 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
49112713 TTTTAAGGGC
** **
49112723 TTAATTGATTGGCAACTTTGGATTAAGGGT
1 TTAATTGATTGGCAACTTTCAATTAAGAAT
* *
49112753 TAAATTGATT-GCAATTTTCAATTAAGAAT
1 TTAATTGATTGGCAACTTTCAATTAAGAAT
49112782 TTAATT
1 TTAATT
49112788 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (30 bp):
TTAATTGATTGGCAACTTTCAATTAAGAAT
Found at i:49124187 original size:183 final size:183
Alignment explanation
Indices: 49123962--49124313 Score: 492
Period size: 183 Copynumber: 1.9 Consensus size: 183
49123952 GTGGCTTTAA
* * * * *
49123962 TCTACTCCACTGTAACTTCAGGGAGATAAGACTTGCTATGGTAGATTTAATCCGACCTACTGTAA
1 TCTACTCCACTGCAACTTCAGAGAGATAAAACTTGATATGGTAGATTTAATCCGACCTACTGCAA
* * * *
49124027 CCTCAAAGGTA-GATGATTCACCGTTTTAATCCGCTCCACTATAACTTCA-AGGAGATAGGATTA
66 CCTCAAAGGCATG-TGATTCACCGTTTTAATCCGCTCCACTACAAATTCAGA-GAGATAGGATCA
* * * *
49124090 GTAGCTTCAATCTGCTCCGCTTCAATTTCAGGGAGATAAGACTTGCTATATTCAG
129 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCTATATTCAG
* *
49124145 TCTACTCCACTGCAACTTCAGAGCGATAAAACTTGATATGGTAGATTTAATCTGACCTACTGCAA
1 TCTACTCCACTGCAACTTCAGAGAGATAAAACTTGATATGGTAGATTTAATCCGACCTACTGCAA
* * * *
49124210 CCTCAGAGGCATGTGATTCATCGTTTTAATCCGCTCCACTGCAAATTCAGAGAGATAGGATCGGT
66 CCTCAAAGGCATGTGATTCACCGTTTTAATCCGCTCCACTACAAATTCAGAGAGATAGGATCAGT
*
49124275 GGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
131 AGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
49124314 TCTACCATAA
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
183 145 0.99
184 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (183 bp):
TCTACTCCACTGCAACTTCAGAGAGATAAAACTTGATATGGTAGATTTAATCCGACCTACTGCAA
CCTCAAAGGCATGTGATTCACCGTTTTAATCCGCTCCACTACAAATTCAGAGAGATAGGATCAGT
AGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCTATATTCAG
Found at i:49124626 original size:89 final size:88
Alignment explanation
Indices: 49124325--49124629 Score: 269
Period size: 89 Copynumber: 3.4 Consensus size: 88
49124315 CTACCATAAT
* * * * * * * *
49124325 TTGTAGCTTTAATCTGTTCCACTGCAA-TGCCAAGGAAATAAGATTCGCTGTCTTTAGTCTGCTC
1 TTGTATCTTCAATCTGCTCCACTGCAACT-TCAGGGAAATAAGATTCGCTATCTTCAGTTTGCT-
49124389 CACTGCAACTTCAGAGAGATAAGAC
64 CACTGCAACTTCAGAGAGATAAGAC
* * * * * * * * ** *
49124414 TTGTAACTTCAACCTACTCCATTGCAACTTCAAGGAGATAAGGTTTGCTATGATCTG-TT-CT-A
1 TTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTTGCTCA
49124476 CTGCAACTTCAGAGAGATAAGATC
66 CTGCAACTTCAGAGAGATAAGA-C
* * *
49124500 TTTTCTTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTT
1 ---T-TGTAT--CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTT
49124565 TGCTCGACTGCAACTTCATG-GAGATAAGAC
60 TGCTC-ACTGCAACTTCA-GAGAGATAAGAC
*
49124595 TTGTATCTTCAATCTGCCCCACTGCAACTTCAGGG
1 TTGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
49124630 GGGTAAGATT
Statistics
Matches: 169, Mismatches: 34, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
85 23 0.14
86 1 0.01
87 2 0.01
88 1 0.01
89 67 0.40
90 4 0.02
91 4 0.02
92 40 0.24
93 2 0.01
94 2 0.01
95 1 0.01
96 21 0.12
97 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (88 bp):
TTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTTGCTCA
CTGCAACTTCAGAGAGATAAGAC
Found at i:49124637 original size:44 final size:45
Alignment explanation
Indices: 49124362--49124639 Score: 149
Period size: 44 Copynumber: 6.2 Consensus size: 45
49124352 TGCCAAGGAA
* * * * *
49124362 ATAAGATTCGCTGTCTTTAGTCTGCTCCACTGCAACTTCAGAGAG
1 ATAAGATTCGCTATCTTCAATCTGCCCCACTGCAACTTCAGGGAG
* * * * * *
49124407 ATAAGACTT-G-TAACTTCAACCTACTCCATTGCAACTTCAAGGAG
1 ATAAGA-TTCGCTATCTTCAATCTGCCCCACTGCAACTTCAGGGAG
* * * ** * *
49124451 ATAAGGTTTGCTA---T-GATCTGTTCTACTGCAACTTCAGAGAG
1 ATAAGATTCGCTATCTTCAATCTGCCCCACTGCAACTTCAGGGAG
** * ** *
49124492 ATAAGATCTTTTCTTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAA
1 ATAAGA----TTCGCTAT--CTTCAATCTGCCCCACTGCAACTTCAGGGAG
* * * * *
49124543 ATAAGATTCGCTATCTTCAGTTTGCTCGACTGCAACTTCATGGAG
1 ATAAGATTCGCTATCTTCAATCTGCCCCACTGCAACTTCAGGGAG
*
49124588 ATAAGACTT-G-TATCTTCAATCTGCCCCACTGCAACTTCAGGGGG
1 ATAAGA-TTCGCTATCTTCAATCTGCCCCACTGCAACTTCAGGGAG
*
49124632 GTAAGATT
1 ATAAGATT
49124640 AGTGGCTTTA
Statistics
Matches: 177, Mismatches: 42, Indels: 30
0.71 0.17 0.12
Matches are distributed among these distances:
41 24 0.14
42 1 0.01
43 4 0.02
44 64 0.36
45 44 0.25
46 4 0.02
47 6 0.03
50 1 0.01
51 29 0.16
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
ATAAGATTCGCTATCTTCAATCTGCCCCACTGCAACTTCAGGGAG
Found at i:49125617 original size:14 final size:13
Alignment explanation
Indices: 49125570--49125617 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 13
49125560 TGGCCTCTCC
49125570 TTTTTCTTTTTTTCT
1 TTTTTC-TTTTTT-T
49125585 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
49125598 TGTTTTCGTTTCTTTT
1 T-TTTTC-TTT-TTTT
49125614 TTTT
1 TTTT
49125618 AAAATGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.07
14 11 0.37
15 12 0.40
16 5 0.17
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:49138081 original size:21 final size:21
Alignment explanation
Indices: 49138057--49138097 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49138047 TATATATATA
**
49138057 TATAATTTTTTTAATTTTTTT
1 TATAATTTTTGAAATTTTTTT
49138078 TATAATTTTTGAAATTTTTT
1 TATAATTTTTGAAATTTTTT
49138098 AGTTTTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TATAATTTTTGAAATTTTTTT
Found at i:49138594 original size:20 final size:19
Alignment explanation
Indices: 49138554--49138594 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
49138544 TTAATGATAA
* *
49138554 AATATTTAAAGAATAATAT
1 AATATTAAAAGAATAAAAT
49138573 AATATTAAAAGAAATAAAAT
1 AATATTAAAAG-AATAAAAT
49138593 AA
1 AA
49138595 AATAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AATATTAAAAGAATAAAAT
Done.