Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 47 of 322
Found at i:14212793 original size:32 final size:32
Alignment explanation
Indices: 14212756--14212826 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
14212746 TGAATTTCTT
14212756 TCTATTCTT-ATTTACAAAAATTCCTTCTATTC
1 TCTATT-TTCATTTACAAAAATTCCTTCTATTC
* *
14212788 TCTATTTTCATTTGCATAAATTCCTTCTATT-
1 TCTATTTTCATTTACAAAAATTCCTTCTATTC
*
14212819 TCTGTTTT
1 TCTATTTT
14212827 TAGTTTTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 9 0.26
32 26 0.74
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.55
Consensus pattern (32 bp):
TCTATTTTCATTTACAAAAATTCCTTCTATTC
Found at i:14212906 original size:12 final size:12
Alignment explanation
Indices: 14212889--14212913 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14212879 TAGGCAGATC
14212889 ACCTTTAACATA
1 ACCTTTAACATA
14212901 ACCTTTAACATA
1 ACCTTTAACATA
14212913 A
1 A
14212914 TAGACATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ACCTTTAACATA
Found at i:14217714 original size:44 final size:45
Alignment explanation
Indices: 14217609--14217732 Score: 151
Period size: 44 Copynumber: 2.7 Consensus size: 45
14217599 TCTCACAAAA
* * * * *
14217609 ATCAAGGGGAATCTTCAACAACTTGCAAAGTCTACATGACTTCCTCAT
1 ATCAAGGGGAATCTGCAACTACTTGCAGA-T-T-CATAACTTCCTAAT
* *
14217657 ATCAATGGAAATCTGCAACTACTTGCAGATTCA-AACTTCCTAAT
1 ATCAAGGGGAATCTGCAACTACTTGCAGATTCATAACTTCCTAAT
14217701 ATCAAGGGGAATCTGCAACTACTTGCAGATTC
1 ATCAAGGGGAATCTGCAACTACTTGCAGATTC
14217733 TGCACAGCCA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 39 0.58
45 2 0.03
46 1 0.01
47 1 0.01
48 24 0.36
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (45 bp):
ATCAAGGGGAATCTGCAACTACTTGCAGATTCATAACTTCCTAAT
Found at i:14225165 original size:41 final size:41
Alignment explanation
Indices: 14225107--14225188 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
14225097 TAACCTAATT
* *
14225107 GGAAAATAATTCTCTTATTCTAATCAACTACTAAAACATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
*
14225148 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
14225189 AATAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (41 bp):
GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:14230361 original size:2 final size:2
Alignment explanation
Indices: 14230354--14230378 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14230344 ACTATCTTTC
14230354 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14230379 CATACATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14233634 original size:29 final size:30
Alignment explanation
Indices: 14233595--14233663 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
14233585 GCAATAACGT
* **
14233595 AAGTGACTAAAACGTAACAT-TTCAAACAA
1 AAGTAACTAAAACGTAACATAGGCAAACAA
*
14233624 AAGTAACTAAAATGTAACATGAGGCAAACAA
1 AAGTAACTAAAACGTAACAT-AGGCAAACAA
14233655 AAGTAACTA
1 AAGTAACTA
14233664 TTTTGGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.54, C:0.14, G:0.13, T:0.19
Consensus pattern (30 bp):
AAGTAACTAAAACGTAACATAGGCAAACAA
Found at i:14234429 original size:18 final size:19
Alignment explanation
Indices: 14234408--14234443 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14234398 TATAGTTAAA
14234408 AACAAATAAATAA-AAAAT
1 AACAAATAAATAAGAAAAT
*
14234426 AACAATTAAATAAGAAAA
1 AACAAATAAATAAGAAAA
14234444 GAATTGTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.17
Consensus pattern (19 bp):
AACAAATAAATAAGAAAAT
Found at i:14234469 original size:24 final size:23
Alignment explanation
Indices: 14234428--14234477 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
14234418 TAAAAAATAA
* *
14234428 CAATTAAATAAGAAAAGAATTGT
1 CAATTAAAAAAGAAAAGAATTCT
*
14234451 CAATTGAAAAAAGAGAAGAATTCT
1 CAATT-AAAAAAGAAAAGAATTCT
14234475 CAA
1 CAA
14234478 CCCCATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.56, C:0.08, G:0.14, T:0.22
Consensus pattern (23 bp):
CAATTAAAAAAGAAAAGAATTCT
Found at i:14235853 original size:18 final size:18
Alignment explanation
Indices: 14235807--14235854 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
14235797 ATCCCTATCA
*
14235807 TTTGTT-TTTCTTCTTCT
1 TTTGTTCTTTCTTCTTAT
*
14235824 TTCTTTTC-TTCTTCTTAT
1 TT-TGTTCTTTCTTCTTAT
14235842 TTTGTTCTTTCTT
1 TTTGTTCTTTCTT
14235855 ATCTGCTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTGTTCTTTCTTCTTAT
Found at i:14236882 original size:23 final size:24
Alignment explanation
Indices: 14236848--14236896 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
14236838 AATTTGTATC
14236848 TGTATCTATTATGCATC-TGTTTG
1 TGTATCTATTATGCATCATGTTTG
*
14236871 TGTATCTGTTATGCATCGATGTTTG
1 TGTATCTATTATGCATC-ATGTTTG
14236896 T
1 T
14236897 ATTAGTTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.70
25 7 0.30
ACGTcount: A:0.16, C:0.12, G:0.20, T:0.51
Consensus pattern (24 bp):
TGTATCTATTATGCATCATGTTTG
Found at i:14240846 original size:24 final size:24
Alignment explanation
Indices: 14240819--14240865 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
14240809 GTAAGGTGTT
14240819 AGCTTACCCTTTGGTCTTCTATTC
1 AGCTTACCCTTTGGTCTTCTATTC
*
14240843 AGCTTACCTTTTGGTCTTCTATT
1 AGCTTACCCTTTGGTCTTCTATT
14240866 TTAAACCCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.13, C:0.26, G:0.13, T:0.49
Consensus pattern (24 bp):
AGCTTACCCTTTGGTCTTCTATTC
Found at i:14241144 original size:20 final size:20
Alignment explanation
Indices: 14241116--14241162 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
14241106 TCCCTATCCT
* * *
14241116 TTTTTTTCTTTCTTTTCTTC
1 TTTTGTTCTTTATTTTCTGC
14241136 TTTTGTTCTTTATTTTCTGC
1 TTTTGTTCTTTATTTTCTGC
14241156 TTTTGTT
1 TTTTGTT
14241163 TCCATTTCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (20 bp):
TTTTGTTCTTTATTTTCTGC
Found at i:14243749 original size:30 final size:28
Alignment explanation
Indices: 14243710--14243771 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
14243700 ATGGATTTAA
14243710 ATTACTTATTATTTAAGTAAATAAATATTT
1 ATTACTTATTA-TTAAGTAAA-AAATATTT
* * *
14243740 ATTATTTATTATTAATTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAAATATTT
14243768 ATTA
1 ATTA
14243772 ATTAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 11 0.38
29 8 0.28
30 10 0.34
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAAATATTT
Found at i:14243786 original size:21 final size:20
Alignment explanation
Indices: 14243731--14243787 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
14243721 TTTAAGTAAA
*
14243731 TAAATATTTATTATTTATTAT
1 TAAATAATTA-TATTTATTAT
* **
14243752 TAATTAAAAGATATTTATTAAT
1 TAAAT-AATTATATTTATT-AT
14243774 TAAATAATTATATT
1 TAAATAATTATATT
14243788 ATAAGATTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TAAATAATTATATTTATTAT
Found at i:14245966 original size:28 final size:28
Alignment explanation
Indices: 14245921--14246008 Score: 142
Period size: 28 Copynumber: 3.2 Consensus size: 28
14245911 TATTCAGTGA
*
14245921 CAGTA-CAGTGAGGGCCTTAACCCAATT
1 CAGTAGCAGTGTGGGCCTTAACCCAATT
14245948 CAGTAGCAGTGTGGGCCTTAACCCAATT
1 CAGTAGCAGTGTGGGCCTTAACCCAATT
* *
14245976 CAGTAGCAGTGTGGGCCTTAACCCCATA
1 CAGTAGCAGTGTGGGCCTTAACCCAATT
14246004 CAGTA
1 CAGTA
14246009 TCATTTCAGT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 5 0.09
28 52 0.91
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (28 bp):
CAGTAGCAGTGTGGGCCTTAACCCAATT
Found at i:14246362 original size:27 final size:27
Alignment explanation
Indices: 14246332--14246410 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
14246322 TCATCTCCTA
* *
14246332 GGGGTATAAAGATCATTTTACCCTTAG
1 GGGGTATTAAGATAATTTTACCCTTAG
* * *
14246359 GGGGTATTATGGTAATTTTACCCTTTG
1 GGGGTATTAAGATAATTTTACCCTTAG
* **
14246386 AGGGTATTTCGATAATTTTACCCTT
1 GGGGTATTAAGATAATTTTACCCTT
14246411 CGAGTGTATT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGGTATTAAGATAATTTTACCCTTAG
Found at i:14246419 original size:27 final size:27
Alignment explanation
Indices: 14246346--14246430 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
14246336 TATAAAGATC
* * *
14246346 ATTTTACCCTTAGGGGGTATTAT-GGTA
1 ATTTTACCCTTCGAGGGTATT-TCGATA
*
14246373 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
14246400 ATTTTACCCTTCGAGTGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
14246427 ATTT
1 ATTT
14246431 ACTCATAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
26 1 0.02
27 50 0.98
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:14247589 original size:28 final size:28
Alignment explanation
Indices: 14247558--14247622 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
14247548 CAATGATAGT
*
14247558 ACAGTGTGGGCCTTAGCCCGATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
14247586 ACAGTGTGGGTCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
14247614 ACAGTGTGG
1 ACAGTGTGG
14247623 TAATGTAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:14247962 original size:27 final size:26
Alignment explanation
Indices: 14247948--14248100 Score: 144
Period size: 27 Copynumber: 5.8 Consensus size: 26
14247938 TTACCTTATG
**
14247948 GGGGTATTTCGGTCATTTTATACTTT
1 GGGGTATTTCGGTCATTTTACCCTTT
* * *
14247974 GGGGGTATTTCAGTTATTTCACCCTTT
1 -GGGGTATTTCGGTCATTTTACCCTTT
* *
14248001 GGGGTCTTTCGGTTATTTTACCCTTT
1 GGGGTATTTCGGTCATTTTACCCTTT
*
14248027 GGGGTATTTCGATCATTTTACCCTTTT
1 GGGGTATTTCGGTCATTTTACCC-TTT
* * * ** *
14248054 GGGATATTTCAGTTATTTTGTCTTTT
1 GGGGTATTTCGGTCATTTTACCCTTT
*
14248080 GGGGGTATTTTGGTCATTTTA
1 -GGGGTATTTCGGTCATTTTA
14248101 TTGACCCTAC
Statistics
Matches: 101, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
26 46 0.46
27 55 0.54
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.50
Consensus pattern (26 bp):
GGGGTATTTCGGTCATTTTACCCTTT
Found at i:14248015 original size:26 final size:26
Alignment explanation
Indices: 14247948--14248072 Score: 135
Period size: 26 Copynumber: 4.7 Consensus size: 26
14247938 TTACCTTATG
* * **
14247948 GGGGTATTTCGGTCATTTTATACTTT
1 GGGGTATTTCAGTTATTTTACCCTTT
*
14247974 GGGGGTATTTCAGTTATTTCACCCTTT
1 -GGGGTATTTCAGTTATTTTACCCTTT
* *
14248001 GGGGTCTTTCGGTTATTTTACCCTTT
1 GGGGTATTTCAGTTATTTTACCCTTT
*
14248027 GGGGTATTTC-GATCATTTTACCCTTTT
1 GGGGTATTTCAG-TTATTTTACCC-TTT
*
14248054 GGGATATTTCAGTTATTTT
1 GGGGTATTTCAGTTATTTT
14248073 GTCTTTTGGG
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.01
26 42 0.51
27 39 0.47
28 1 0.01
ACGTcount: A:0.14, C:0.15, G:0.22, T:0.49
Consensus pattern (26 bp):
GGGGTATTTCAGTTATTTTACCCTTT
Found at i:14248019 original size:53 final size:53
Alignment explanation
Indices: 14247948--14248098 Score: 155
Period size: 53 Copynumber: 2.8 Consensus size: 53
14247938 TTACCTTATG
* *
14247948 GGGGTATTTCGGTCATTTTATACTTTGGGGGTATTTC-AGTTATTTCACCC-TTT
1 GGGGTATTTCGGTTATTTTAT-CTTTGGGGGTATTTCGA-TCATTTCACCCTTTT
* * *
14248001 GGGGTCTTTCGGTTATTTTACCCTTT-GGGGTATTTCGATCATTTTACCCTTTT
1 GGGGTATTTCGGTTATTTTA-TCTTTGGGGGTATTTCGATCATTTCACCCTTTT
* * * * *
14248054 GGGATATTTCAGTTATTTTGTCTTTTGGGGGTATTTTGGTCATTT
1 GGGGTATTTCGGTTATTTTATC-TTTGGGGGTATTTCGATCATTT
14248099 TATTGACCCT
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
52 20 0.25
53 45 0.56
54 16 0.20
ACGTcount: A:0.13, C:0.14, G:0.23, T:0.50
Consensus pattern (53 bp):
GGGGTATTTCGGTTATTTTATCTTTGGGGGTATTTCGATCATTTCACCCTTTT
Found at i:14254227 original size:12 final size:11
Alignment explanation
Indices: 14254201--14254235 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
14254191 TGCCATAGTA
*
14254201 TTATTAGTTAT
1 TTATTTGTTAT
14254212 TTATTTGTTCAT
1 TTATTTGTT-AT
14254224 TTATTTGTTAT
1 TTATTTGTTAT
14254235 T
1 T
14254236 CACATAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.69
Consensus pattern (11 bp):
TTATTTGTTAT
Found at i:14259129 original size:43 final size:43
Alignment explanation
Indices: 14259046--14259130 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
14259036 TTTTTATCCT
* * **
14259046 AGAAAAAAAATTAAAAAGAGGAGAAGATAACCTTGGGTTGTTG
1 AGAAAAAAAATTAAAAAGAGGAAAAAATAACCTTCAGTTGTTG
*
14259089 AGAAAAAAAATTTAAAAAGAGGAAAAAAT-ATCTTCAGTTGTT
1 AGAAAAAAAA-TTAAAAAGAGGAAAAAATAACCTTCAGTTGTT
14259131 AGATTTACCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 20 0.56
44 16 0.44
ACGTcount: A:0.52, C:0.05, G:0.20, T:0.24
Consensus pattern (43 bp):
AGAAAAAAAATTAAAAAGAGGAAAAAATAACCTTCAGTTGTTG
Found at i:14263187 original size:31 final size:30
Alignment explanation
Indices: 14263152--14263245 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 30
14263142 ATTTCTTATG
** *
14263152 CCAATATCTCGATACTTATATCTTTGATTTT
1 CCAATAT-TCGATACCCATATCTTTGAATTT
*
14263183 CCAATATTTGATACCCATATCTTTGAATTT
1 CCAATATTCGATACCCATATCTTTGAATTT
* * ** * *
14263213 CCATTATTTGATAAACATATATTTGACTTT
1 CCAATATTCGATACCCATATCTTTGAATTT
14263243 CCA
1 CCA
14263246 TAAATACGGA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 47 0.87
31 7 0.13
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (30 bp):
CCAATATTCGATACCCATATCTTTGAATTT
Found at i:14263246 original size:30 final size:30
Alignment explanation
Indices: 14263169--14263246 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
14263159 CTCGATACTT
* * **
14263169 ATATCTTTGATTTTCCAATATTTGATACCC
1 ATATCTTTGAATTTCCATTATTTGATAAAC
14263199 ATATCTTTGAATTTCCATTATTTGATAAAC
1 ATATCTTTGAATTTCCATTATTTGATAAAC
* *
14263229 ATATATTTGACTTTCCAT
1 ATATCTTTGAATTTCCAT
14263247 AAATACGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATCTTTGAATTTCCATTATTTGATAAAC
Found at i:14264768 original size:21 final size:19
Alignment explanation
Indices: 14264744--14264782 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
14264734 TGTACACTTT
14264744 CACTTTCGAATTGCCATTAAA
1 CACTTTCGAA-TGCC-TTAAA
*
14264765 CACTTTTGAATGCCTTAA
1 CACTTTCGAATGCCTTAA
14264783 CTTTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (19 bp):
CACTTTCGAATGCCTTAAA
Found at i:14268888 original size:30 final size:31
Alignment explanation
Indices: 14268854--14268915 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
14268844 TAGGGGTGTA
14268854 GGGTGA-TTTTATTTTGTTTATTTCAAGTCT
1 GGGTGATTTTTATTTTGTTTATTTCAAGTCT
*
14268884 GGGTGATTTTTTTTTTGTTTATTTCAAGTCT
1 GGGTGATTTTTATTTTGTTTATTTCAAGTCT
14268915 G
1 G
14268916 CTGTTAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.15, C:0.06, G:0.21, T:0.58
Consensus pattern (31 bp):
GGGTGATTTTTATTTTGTTTATTTCAAGTCT
Found at i:14272452 original size:21 final size:22
Alignment explanation
Indices: 14272412--14272458 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
14272402 TTTCAATTTG
*
14272412 ATTTCAATTTATTTTATTTT-T
1 ATTTAAATTTATTTTATTTTCT
14272433 ATTTAAATTTATTTCT-TTTTCT
1 ATTTAAATTTATTT-TATTTTCT
14272455 ATTT
1 ATTT
14272459 TCAGGTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTAAATTTATTTTATTTTCT
Found at i:14275821 original size:52 final size:52
Alignment explanation
Indices: 14275756--14275854 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
14275746 GCATTCTCTA
* *
14275756 TTCTGTTTATATGATCATTATCAAAATCTCTGTGATACTCTGATTTGCTTTG
1 TTCTGTTTATATGATCATTACCAAAATCTCTGCGATACTCTGATTTGCTTTG
* * *
14275808 TTCTGGTTT-TATGATCGTTACCAAATTCTCTGCGTTACTCTGATTTG
1 TTCT-GTTTATATGATCATTACCAAAATCTCTGCGATACTCTGATTTG
14275855 TTTATTATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
52 37 0.90
53 4 0.10
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (52 bp):
TTCTGTTTATATGATCATTACCAAAATCTCTGCGATACTCTGATTTGCTTTG
Found at i:14275873 original size:52 final size:52
Alignment explanation
Indices: 14275760--14275875 Score: 135
Period size: 52 Copynumber: 2.2 Consensus size: 52
14275750 TCTCTATTCT
* * * *
14275760 GTTTATATGATCATTATCAAAATCTCTGTGATACTCTGATTTGCTTTGTTCTG
1 GTTT-TATGATCATTACCAAAATCTCTGCGATACTCTGATTTGCTTTATTATG
* * *
14275813 GTTTTATGATCGTTACCAAATTCTCTGCGTTACTCTGATTTG-TTTATTATG
1 GTTTTATGATCATTACCAAAATCTCTGCGATACTCTGATTTGCTTTATTATG
*
14275864 TTTTGTATGATC
1 GTTT-TATGATC
14275876 TCTGTCTGAG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 10 0.19
52 40 0.74
53 4 0.07
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.49
Consensus pattern (52 bp):
GTTTTATGATCATTACCAAAATCTCTGCGATACTCTGATTTGCTTTATTATG
Found at i:14277385 original size:28 final size:28
Alignment explanation
Indices: 14277322--14277475 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
14277312 ATATTGAGTC
*
14277322 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
14277349 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
14277377 TGCACACTTAGTGCTATATAATCATACT
1 CGCACACTTAGTGCTATATAATCAAACT
14277405 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * ** *
14277433 CGTACACTTAGTGCTATACAATTTGAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
14277462 CGCACACTTAGTGC
1 CGCACACTTAGTGC
14277476 CAATCTCATG
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 17 0.15
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:14282435 original size:15 final size:15
Alignment explanation
Indices: 14282415--14282447 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14282405 GATTTCTTGT
14282415 TTTTCATTTATTTAC
1 TTTTCATTTATTTAC
*
14282430 TTTTCATTTATTTCC
1 TTTTCATTTATTTAC
14282445 TTT
1 TTT
14282448 CTTATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCATTTATTTAC
Found at i:14287252 original size:20 final size:20
Alignment explanation
Indices: 14287227--14287270 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
14287217 TAAGAATAAT
14287227 TTTCCTAACATTGATAGACC
1 TTTCCTAACATTGATAGACC
14287247 TTTCCTAACATTGATAGACC
1 TTTCCTAACATTGATAGACC
14287267 TTTC
1 TTTC
14287271 TATCATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (20 bp):
TTTCCTAACATTGATAGACC
Found at i:14291472 original size:22 final size:20
Alignment explanation
Indices: 14291456--14291542 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
14291446 ATTTTAAAAT
*
14291456 CAAGTGAAAATGATTTTAAC
1 CAAGTCAAAATGATTTTAAC
* *
14291476 CAAGTCAAAATGATTTCAAT
1 CAAGTCAAAATGATTTTAAC
* * *
14291496 TAAGTTAAAATCATTTTAA-
1 CAAGTCAAAATGATTTTAAC
*
14291515 CACA-TCAAAATGATTTTCAAA
1 CA-AGTCAAAATGATTTT-AAC
14291536 CAAGTCA
1 CAAGTCA
14291543 GAATTGCTCT
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
19 12 0.23
20 36 0.68
21 5 0.09
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (20 bp):
CAAGTCAAAATGATTTTAAC
Found at i:14298280 original size:20 final size:20
Alignment explanation
Indices: 14298241--14298327 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 20
14298231 TTTTGAAACA
*
14298241 ATTTTAACATCAAGTGAAAATG
1 ATTTTAACA--AAGTCAAAATG
*
14298263 ATTTTAAGAAAGTCAAAATG
1 ATTTTAACAAAGTCAAAATG
* ** * *
14298283 ATTTCAATTAAGTTAAAATC
1 ATTTTAACAAAGTCAAAATG
*
14298303 ATTTTAACACA-TCAAAAATG
1 ATTTTAACAAAGTC-AAAATG
14298323 ATTTT
1 ATTTT
14298328 CAAATAAGTC
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
19 1 0.02
20 42 0.82
22 8 0.16
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (20 bp):
ATTTTAACAAAGTCAAAATG
Found at i:14298301 original size:40 final size:41
Alignment explanation
Indices: 14298252--14298336 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 41
14298242 TTTTAACATC
* * *
14298252 AAGTGAAAATGATTTTAAGAAAGTC-AAAATGA-TTTCAATT
1 AAGTGAAAATCATTTTAACAAA-TCAAAAATGATTTTCAAAT
* *
14298292 AAGTTAAAATCATTTTAACACATCAAAAATGATTTTCAAAT
1 AAGTGAAAATCATTTTAACAAATCAAAAATGATTTTCAAAT
14298333 AAGT
1 AAGT
14298337 CAGAATTGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.05
40 25 0.66
41 11 0.29
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.33
Consensus pattern (41 bp):
AAGTGAAAATCATTTTAACAAATCAAAAATGATTTTCAAAT
Found at i:14303455 original size:28 final size:28
Alignment explanation
Indices: 14303424--14303604 Score: 125
Period size: 28 Copynumber: 6.3 Consensus size: 28
14303414 AAAAGGATGT
14303424 CTTTGTGGCAAATCTCTGAAAGGAAAGC
1 CTTTGTGGCAAATCTCTGAAAGGAAAGC
* *
14303452 CTTTGTGGCAAATATTTGAAAGGAAAGC
1 CTTTGTGGCAAATCTCTGAAAGGAAAGC
* * * *
14303480 CCTTGTGGCGAGT-ACTGAAA-GAAAGGTTGC
1 CTTTGTGGCAAATCTCTGAAAGGAAA----GC
* * *
14303510 CTTTGTGGCAAATATTTGAAAAGAAAGC
1 CTTTGTGGCAAATCTCTGAAAGGAAAGC
* * *** *
14303538 CTTTGTGGCGAGTACTAAAACAAAGG-ATGC
1 CTTTGTGGCAAAT-CT--CTGAAAGGAAAGC
* *
14303568 CTTTGTGGCAAACCTCTAAAAGGAAAGC
1 CTTTGTGGCAAATCTCTGAAAGGAAAGC
14303596 CTTTGTGGC
1 CTTTGTGGC
14303605 GAGTACTGAA
Statistics
Matches: 116, Mismatches: 27, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
26 4 0.03
27 10 0.09
28 61 0.53
29 3 0.03
30 25 0.22
31 9 0.08
32 4 0.03
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (28 bp):
CTTTGTGGCAAATCTCTGAAAGGAAAGC
Found at i:14303651 original size:59 final size:59
Alignment explanation
Indices: 14303450--14303783 Score: 345
Period size: 59 Copynumber: 5.7 Consensus size: 59
14303440 TGAAAGGAAA
* * * *
14303450 GCCTTTGTGGCAAATATTTGAAAGGAAAGCCCTTGTGGCGAGTACTGAAAG-AAAGGTT
1 GCCTTTGTGGCAAATATCTAAAAGGAAAGCCTTTGTGGCGAGTACTGAAAGAAAAGGAT
*
14303508 GCCTTTGTGGCAAATATTTGAAAA-GAAAGCCTTTGTGGCGAGTACT-AAA-ACAAAGGAT
1 GCCTTTGTGGCAAATATCT-AAAAGGAAAGCCTTTGTGGCGAGTACTGAAAGA-AAAGGAT
** *
14303566 GCCTTTGTGGCAAACCTCTAAAAGGAAAGCCTTTGTGGCGAGTACTGAAAGAAAAGGTT
1 GCCTTTGTGGCAAATATCTAAAAGGAAAGCCTTTGTGGCGAGTACTGAAAGAAAAGGAT
* * * ** * * * * *
14303625 GTCTTTGTGGAAAATATCTGAAAGGAAAATCTTTATGGTGAGTACCGAATGAAAATGAT
1 GCCTTTGTGGCAAATATCTAAAAGGAAAGCCTTTGTGGCGAGTACTGAAAGAAAAGGAT
* * * * ** * *
14303684 GTCTTTATGGCAAATCTTTAAAAATAAAGCCTTTGT-GCTGAGTACTGAATGAAAAAGAT
1 GCCTTTGTGGCAAATATCTAAAAGGAAAGCCTTTGTGGC-GAGTACTGAAAGAAAAGGAT
* * *
14303743 GCCTTTGTGGAAAATCTCTAAAAGGAAAGCCTTAGTGGCGA
1 GCCTTTGTGGCAAATATCTAAAAGGAAAGCCTTTGTGGCGA
14303784 CCTCTGTTAA
Statistics
Matches: 228, Mismatches: 40, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
57 7 0.03
58 85 0.37
59 133 0.58
60 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (59 bp):
GCCTTTGTGGCAAATATCTAAAAGGAAAGCCTTTGTGGCGAGTACTGAAAGAAAAGGAT
Found at i:14306848 original size:178 final size:178
Alignment explanation
Indices: 14306549--14306905 Score: 714
Period size: 178 Copynumber: 2.0 Consensus size: 178
14306539 GTTAAGTATA
14306549 TATATATGTTTAGATAAATTGAGGTGCCTATATGTCATATTGGTTGTAAGGATAAATGACCTAAT
1 TATATATGTTTAGATAAATTGAGGTGCCTATATGTCATATTGGTTGTAAGGATAAATGACCTAAT
14306614 GAATTGGTCTTAATATGCATGCTTTGGTATGTTTGAAAGCTTAATTATAAGTGCAAATTTCTTGT
66 GAATTGGTCTTAATATGCATGCTTTGGTATGTTTGAAAGCTTAATTATAAGTGCAAATTTCTTGT
14306679 AGGTGTGAGCTTGAAATGGGTGAAAGGAATGGCTTGAAATTGGCCTAT
131 AGGTGTGAGCTTGAAATGGGTGAAAGGAATGGCTTGAAATTGGCCTAT
14306727 TATATATGTTTAGATAAATTGAGGTGCCTATATGTCATATTGGTTGTAAGGATAAATGACCTAAT
1 TATATATGTTTAGATAAATTGAGGTGCCTATATGTCATATTGGTTGTAAGGATAAATGACCTAAT
14306792 GAATTGGTCTTAATATGCATGCTTTGGTATGTTTGAAAGCTTAATTATAAGTGCAAATTTCTTGT
66 GAATTGGTCTTAATATGCATGCTTTGGTATGTTTGAAAGCTTAATTATAAGTGCAAATTTCTTGT
14306857 AGGTGTGAGCTTGAAATGGGTGAAAGGAATGGCTTGAAATTGGCCTAT
131 AGGTGTGAGCTTGAAATGGGTGAAAGGAATGGCTTGAAATTGGCCTAT
14306905 T
1 T
14306906 TCTGTCAACA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 179 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.37
Consensus pattern (178 bp):
TATATATGTTTAGATAAATTGAGGTGCCTATATGTCATATTGGTTGTAAGGATAAATGACCTAAT
GAATTGGTCTTAATATGCATGCTTTGGTATGTTTGAAAGCTTAATTATAAGTGCAAATTTCTTGT
AGGTGTGAGCTTGAAATGGGTGAAAGGAATGGCTTGAAATTGGCCTAT
Found at i:14315625 original size:18 final size:18
Alignment explanation
Indices: 14315595--14315643 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
14315585 TAAAAAAAAG
*
14315595 TTTTGAAATTGAATAATGA
1 TTTTGAAAATGAATAAT-A
*
14315614 -TTTGTAAATGAATAATA
1 TTTTGAAAATGAATAATA
14315631 TTTTGAAAATGAA
1 TTTTGAAAATGAA
14315644 CGACACGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (18 bp):
TTTTGAAAATGAATAATA
Found at i:14316580 original size:28 final size:29
Alignment explanation
Indices: 14316523--14316589 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
14316513 TGTAATATAT
*
14316523 ATTTAAACCTAAACTCAAGCCCAATACCA
1 ATTTAAACTTAAACTCAAGCCCAATACCA
**
14316552 A-TTAAACTTAAACTCAAGCTTAAGT-CCA
1 ATTTAAACTTAAACTCAAGCCCAA-TACCA
14316580 ATTTAAACTT
1 ATTTAAACTT
14316590 TATTCAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 23 0.70
29 10 0.30
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.28
Consensus pattern (29 bp):
ATTTAAACTTAAACTCAAGCCCAATACCA
Found at i:14318012 original size:21 final size:23
Alignment explanation
Indices: 14317952--14317999 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
14317942 TGATGATCTT
14317952 AAATATCAAAAGTTATGCCACTA
1 AAATATCAAAAGTTATGCCACTA
14317975 AAATATCAAAAGTTATGCCACTA
1 AAATATCAAAAGTTATGCCACTA
14317998 AA
1 AA
14318000 TTGAATAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (23 bp):
AAATATCAAAAGTTATGCCACTA
Found at i:14318654 original size:38 final size:38
Alignment explanation
Indices: 14318586--14318659 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
14318576 ATATTTTATT
* * * * *
14318586 TATATATATTATATAATTTATACTATATAAAGATTAGA
1 TATATATACTATATAATATAAACTAGATAAACATTAGA
14318624 TATATATACTATTATAATATAAACT-GATAAACATTA
1 TATATATACTA-TATAATATAAACTAGATAAACATTA
14318660 TAAATATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 19 0.63
39 11 0.37
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (38 bp):
TATATATACTATATAATATAAACTAGATAAACATTAGA
Found at i:14319282 original size:19 final size:19
Alignment explanation
Indices: 14319250--14319291 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
14319240 GCTATATTTC
*
14319250 AAATGGAATCTAATAGAAA
1 AAATGGAATATAATAGAAA
* *
14319269 AAATGTAATATAATAGATA
1 AAATGGAATATAATAGAAA
14319288 AAAT
1 AAAT
14319292 ATTAATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.26
Consensus pattern (19 bp):
AAATGGAATATAATAGAAA
Found at i:14320278 original size:25 final size:26
Alignment explanation
Indices: 14320250--14320298 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
14320240 TTTTTTAAAA
14320250 AAATTTTAAAATTTTTA-AAATATAT
1 AAATTTTAAAATTTTTATAAATATAT
**
14320275 AAATTTTGGAATTTTTATAAATAT
1 AAATTTTAAAATTTTTATAAATAT
14320299 TTTGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
AAATTTTAAAATTTTTATAAATATAT
Found at i:14320300 original size:20 final size:21
Alignment explanation
Indices: 14320277--14320330 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
14320267 AAATATATAA
14320277 ATTTTGGAATTTTT-ATAAA-T
1 ATTTTGGAATTTTTGA-AAATT
14320297 ATTTT-GAATTTTTGAAAATT
1 ATTTTGGAATTTTTGAAAATT
14320317 ATTTTGGAATTTTT
1 ATTTTGGAATTTTT
14320331 TTTGTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.35
20 12 0.39
21 8 0.26
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (21 bp):
ATTTTGGAATTTTTGAAAATT
Found at i:14320307 original size:19 final size:19
Alignment explanation
Indices: 14320272--14320330 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
14320262 TTTTAAAATA
*
14320272 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
14320290 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
14320309 TGA-AAATTATTTTGGAATTTT
1 T-ATAAA-TATTTT-GAATTTT
14320330 T
1 T
14320331 TTTGTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 7 0.19
19 14 0.39
20 7 0.19
21 8 0.22
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:14324380 original size:29 final size:30
Alignment explanation
Indices: 14324334--14324395 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
14324324 TCATTTTTTT
* *
14324334 AATATTTTTGATAA-TTTTAAATTTTTAAA
1 AATATTTTTGATAATTTTTAAATCTTAAAA
*
14324363 AATATTTTTTA-AATTTTTTAAATCTTAAAA
1 AATATTTTTGATAA-TTTTTAAATCTTAAAA
14324393 AAT
1 AAT
14324396 TAATTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 10 0.36
30 16 0.57
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
AATATTTTTGATAATTTTTAAATCTTAAAA
Found at i:14324667 original size:3 final size:3
Alignment explanation
Indices: 14324659--14324700 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
14324649 TACATGTTAT
14324659 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14324701 CCTCCAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14327554 original size:61 final size:58
Alignment explanation
Indices: 14327486--14327600 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 58
14327476 GTGATTATCC
* *
14327486 TAATATTAAATTTAATTTAATATTTATCTTGTACATAAGTATTCTATTAATTTAATAGATT
1 TAATATTAAATTTAATCTAATATTTATCTTG---ATAAGTATTATATTAATTTAATAGATT
14327547 TAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
14327601 TTAAAGTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
58 22 0.42
61 30 0.58
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (58 bp):
TAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATAGATT
Found at i:14327613 original size:58 final size:58
Alignment explanation
Indices: 14327487--14327621 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 58
14327477 TGATTATCCT
* * *
14327487 AATATTAAATTTAATTTAATATTTATCTTGTACATAAGTATTCTATTAATTTAATAGATTT
1 AATATTAAATTTAATCTAATATTTATCTTG-A-ATAAGTATTATATTAATTTAATA-ATTA
14327548 AATATTAAATTTAATCTAATATTTATCTTG-ATAAGTATTATATTAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATCTTGAATAAGTATTATATTAATTTAATAATTA
*
14327604 AAGTAATTAAGTTTAATC
1 AA-T-ATTAAATTTAATC
14327622 ATAGTTGAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
56 5 0.07
57 1 0.01
58 33 0.49
61 29 0.43
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.49
Consensus pattern (58 bp):
AATATTAAATTTAATCTAATATTTATCTTGAATAAGTATTATATTAATTTAATAATTA
Found at i:14338372 original size:20 final size:20
Alignment explanation
Indices: 14338343--14338380 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14338333 GCTTGCATAG
14338343 AAAAACAAAATAAACAAACC
1 AAAAACAAAATAAACAAACC
* *
14338363 AAAAATAAAATAATCAAA
1 AAAAACAAAATAAACAAA
14338381 ATATAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.13, G:0.00, T:0.11
Consensus pattern (20 bp):
AAAAACAAAATAAACAAACC
Found at i:14338388 original size:16 final size:15
Alignment explanation
Indices: 14338349--14338391 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
14338339 ATAGAAAAAC
*
14338349 AAAATAAACA-AACCA
1 AAAATAAA-ATAATCA
14338364 AAAATAAAATAATCA
1 AAAATAAAATAATCA
14338379 AAATATAAAATAA
1 AAA-ATAAAATAA
14338392 AAAGAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 15 0.60
16 9 0.36
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAATAAAATAATCA
Found at i:14346663 original size:24 final size:24
Alignment explanation
Indices: 14346631--14346768 Score: 145
Period size: 24 Copynumber: 5.8 Consensus size: 24
14346621 TGCAATAGAA
*
14346631 AGTGGCTTGACCACAACGTTATTC
1 AGTGGCTTGACCACAACGATATTC
* *
14346655 AGTGACTTGACCACAAGGATATAT-
1 AGTGGCTTGACCACAACGATAT-TC
* *
14346679 AGTGGCTTGACCACAATGATATAC
1 AGTGGCTTGACCACAACGATATTC
* * *
14346703 AATGGCTTAACCACAACGTTA-TC
1 AGTGGCTTGACCACAACGATATTC
* *
14346726 TAGTGGCTTGACTACAACGATATAC
1 -AGTGGCTTGACCACAACGATATTC
*
14346751 AGTGGCTTGTCCACAACG
1 AGTGGCTTGACCACAACG
14346769 TGGTGTGTTA
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
23 1 0.01
24 89 0.97
25 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (24 bp):
AGTGGCTTGACCACAACGATATTC
Found at i:14346755 original size:72 final size:72
Alignment explanation
Indices: 14346633--14346766 Score: 198
Period size: 72 Copynumber: 1.9 Consensus size: 72
14346623 CAATAGAAAG
* * *
14346633 TGGCTTGACCACAACGTTATTCAGTGACTTGACCACAAGGATATATAGTGGCTTGACCACAATGA
1 TGGCTTAACCACAACGTTATTCAGTGACTTGACCACAACGATATACAGTGGCTTGACCACAATGA
14346698 TATACAA
66 TATACAA
* * *
14346705 TGGCTTAACCACAACGTTA-TCTAGTGGCTTGACTACAACGATATACAGTGGCTTGTCCACAA
1 TGGCTTAACCACAACGTTATTC-AGTGACTTGACCACAACGATATACAGTGGCTTGACCACAA
14346767 CGTGGTGTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 2 0.04
72 53 0.96
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (72 bp):
TGGCTTAACCACAACGTTATTCAGTGACTTGACCACAACGATATACAGTGGCTTGACCACAATGA
TATACAA
Found at i:14346769 original size:48 final size:48
Alignment explanation
Indices: 14346631--14346769 Score: 179
Period size: 48 Copynumber: 2.9 Consensus size: 48
14346621 TGCAATAGAA
* * * * *
14346631 AGTGGCTTGACCACAACGTTATTCAGTGACTTGACCACAAGGATATAT
1 AGTGGCTTGACCACAACGATATACAGTGGCTTGACCACAACGTTATAT
* * * *
14346679 AGTGGCTTGACCACAATGATATACAATGGCTTAACCACAACGTTATCT
1 AGTGGCTTGACCACAACGATATACAGTGGCTTGACCACAACGTTATAT
* *
14346727 AGTGGCTTGACTACAACGATATACAGTGGCTTGTCCACAACGT
1 AGTGGCTTGACCACAACGATATACAGTGGCTTGACCACAACGT
14346770 GGTGTGTTAT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (48 bp):
AGTGGCTTGACCACAACGATATACAGTGGCTTGACCACAACGTTATAT
Found at i:14355124 original size:50 final size:50
Alignment explanation
Indices: 14355009--14355254 Score: 219
Period size: 50 Copynumber: 4.8 Consensus size: 50
14354999 GATAATAACA
* * * ** * *
14355009 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTC-TGTAC--
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* **
14355057 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *** *
14355107 TGCCCATGCCATATCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
14355157 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
14355213 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCT
14355255 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
48 37 0.23
49 2 0.01
50 81 0.50
53 2 0.01
56 40 0.25
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:14357174 original size:50 final size:50
Alignment explanation
Indices: 14357059--14357354 Score: 301
Period size: 50 Copynumber: 5.8 Consensus size: 50
14357049 GATAATAACA
* * ** * *
14357059 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTC-TGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
14357107 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *** *
14357157 TGCCCATGCCATATCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
14357207 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
14357257 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
14357313 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
14357355 TTACCCAAAT
Statistics
Matches: 212, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
48 37 0.17
49 2 0.01
50 131 0.62
53 2 0.01
56 40 0.19
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:14360127 original size:54 final size:54
Alignment explanation
Indices: 14360021--14360144 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 54
14360011 TCGAATTTGG
* * *
14360021 GACACACGGCCGTGTCCTAGGCCGTGTCTCTACTAGTGTAACTCACAAACTTGA
1 GACACACGGCCGTGTCCCAGCCCATGTCTCTACTAGTGTAACTCACAAACTTGA
* * ** *
14360075 GACACACGGTCGTGTCCCAGCCCATGTCTCTACCT-GTGTAACTTACTGACTTGG
1 GACACACGGCCGTGTCCCAGCCCATGTCTCTA-CTAGTGTAACTCACAAACTTGA
* *
14360129 GTCACACAGCCGTGTC
1 GACACACGGCCGTGTC
14360145 GCATGCCGTG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 56 0.97
55 2 0.03
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (54 bp):
GACACACGGCCGTGTCCCAGCCCATGTCTCTACTAGTGTAACTCACAAACTTGA
Found at i:14361150 original size:22 final size:20
Alignment explanation
Indices: 14361100--14361144 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
14361090 TCCATTCTAA
*
14361100 TTCATTTCACATATTACATT
1 TTCATTTCACATATTACAAT
14361120 TTCATTTCACATATATA-AAT
1 TTCATTTCACATAT-TACAAT
14361140 TTCAT
1 TTCAT
14361145 AATTCATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (20 bp):
TTCATTTCACATATTACAAT
Found at i:14362398 original size:18 final size:19
Alignment explanation
Indices: 14362364--14362404 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
14362354 TATTATTTTT
*
14362364 TTATTTTTTATATTATAAA
1 TTATTTATTATATTATAAA
*
14362383 TTATTTATTA-ATTATAAC
1 TTATTTATTATATTATAAA
14362401 TTAT
1 TTAT
14362405 AACATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTATTATATTATAAA
Found at i:14362977 original size:5 final size:5
Alignment explanation
Indices: 14362967--14363019 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
14362957 ACTGTTATGA
14362967 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
14363017 TTT
1 TTT
14363020 GTAACTCGGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:14366552 original size:21 final size:21
Alignment explanation
Indices: 14366528--14366568 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14366518 AAAATCCATT
* *
14366528 TCATCATCTCTTTCTTCTTTA
1 TCATCATCTCCTTCCTCTTTA
*
14366549 TCATCCTCTCCTTCCTCTTT
1 TCATCATCTCCTTCCTCTTT
14366569 GCTTTTACGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.37, G:0.00, T:0.54
Consensus pattern (21 bp):
TCATCATCTCCTTCCTCTTTA
Found at i:14370574 original size:51 final size:52
Alignment explanation
Indices: 14370385--14370581 Score: 188
Period size: 51 Copynumber: 3.9 Consensus size: 52
14370375 GTGAAGTTGC
* * * *
14370385 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CTG--GAATGA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATGAA-AA
* * * * * ***
14370435 TAGGTCGCATGTATAGTACTATGTGCAGGCTACTATGCGTACCGGAT-AGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATGAAAA
* * * *
14370486 TCGATCACGTGTGTAGTATTATGTGCAGGCTACTATGTGTATCAGATGAAAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATGAAAA
* *
14370538 T-GGTCACATGTGTAGTACTATGTCCAGGCTACTATGTGAATCAG
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAG
14370582 GTATCATTTA
Statistics
Matches: 117, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 36 0.31
51 78 0.67
52 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (52 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATGAAAA
Found at i:14373413 original size:37 final size:37
Alignment explanation
Indices: 14373363--14373438 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
14373353 GGCCATATGA
14373363 ATATCATTCAGTTGGCCACTGGCAGGAATTCATCACC
1 ATATCATTCAGTTGGCCACTGGCAGGAATTCATCACC
14373400 ATATCATTCAGTTGGCCACTGGCAGGAATTCATCACC
1 ATATCATTCAGTTGGCCACTGGCAGGAATTCATCACC
14373437 AT
1 AT
14373439 CCTTTCTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (37 bp):
ATATCATTCAGTTGGCCACTGGCAGGAATTCATCACC
Found at i:14383709 original size:10 final size:11
Alignment explanation
Indices: 14383689--14383713 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14383679 AAGGTCATTA
14383689 TTTTTCTTTTT
1 TTTTTCTTTTT
14383700 TTTTTCTTTTT
1 TTTTTCTTTTT
14383711 TTT
1 TTT
14383714 GCAAGGACGA
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:14387116 original size:18 final size:16
Alignment explanation
Indices: 14387095--14387174 Score: 58
Period size: 18 Copynumber: 4.8 Consensus size: 16
14387085 TGTTATAAAA
14387095 ATATATTATATTAATTAT
1 ATAT-TTATATTAATT-T
*
14387113 ATATGTTA-AATAA-TT
1 ATAT-TTATATTAATTT
* *
14387128 ATGTATAT-TTATATTT
1 ATATTTATATTA-ATTT
14387144 ATATTTATATTTATATTT
1 ATATTTATA-TTA-ATTT
14387162 ATATTTATATTAA
1 ATATTTATATTAA
14387175 ATCACTAACT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
14 4 0.08
15 5 0.10
16 10 0.20
17 7 0.14
18 24 0.48
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATATTTATATTAATTT
Found at i:14387142 original size:6 final size:6
Alignment explanation
Indices: 14387131--14387172 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
14387121 AATAATTATG
14387131 TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT
14387173 AAATCACTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:14392364 original size:13 final size:13
Alignment explanation
Indices: 14392346--14392407 Score: 88
Period size: 13 Copynumber: 4.8 Consensus size: 13
14392336 TTCTTCATTA
14392346 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
14392359 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* * *
14392372 CTGTGGAAATGTG
1 CTTTTGAAAAGTG
*
14392385 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
14392398 CTTTTGAAAA
1 CTTTTGAAAA
14392408 ATTTGAGTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:14399268 original size:14 final size:15
Alignment explanation
Indices: 14399231--14399260 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14399221 ACAAAGCGGT
14399231 AAAGCAAAAGAGGCCC
1 AAAGCAAAAGAGG-CC
14399247 AAAGCAAAAGAGGC
1 AAAGCAAAAGAGGC
14399261 AGAGCAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 1 0.07
16 13 0.93
ACGTcount: A:0.53, C:0.20, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAGCAAAAGAGGCC
Found at i:14406655 original size:26 final size:26
Alignment explanation
Indices: 14406607--14406682 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
14406597 ACGGAGTTTG
* * *
14406607 CCACAAAGACATTCCTTTCATATTCCG
1 CCACAAAGGC-TTTCTTTCATATTCCA
*
14406634 CCACAAAGGTTTTCTTTCATATTCCA
1 CCACAAAGGCTTTCTTTCATATTCCA
14406660 CCACAAAGGCTTTCTTTCATATT
1 CCACAAAGGCTTTCTTTCATATT
14406683 ACATCAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 36 0.82
27 8 0.18
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.36
Consensus pattern (26 bp):
CCACAAAGGCTTTCTTTCATATTCCA
Found at i:14406693 original size:26 final size:26
Alignment explanation
Indices: 14406621--14406694 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
14406611 AAAGACATTC
* * * *
14406621 CTTTCATATTCCGCCACAAAGGTTTT
1 CTTTCATATTACACCAAAAAGGCTTT
* *
14406647 CTTTCATATTCCACCACAAAGGCTTT
1 CTTTCATATTACACCAAAAAGGCTTT
*
14406673 CTTTCATATTACATCAAAAAGG
1 CTTTCATATTACACCAAAAAGG
14406695 TTTTTCTTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (26 bp):
CTTTCATATTACACCAAAAAGGCTTT
Found at i:14408453 original size:5 final size:5
Alignment explanation
Indices: 14408439--14408501 Score: 83
Period size: 5 Copynumber: 12.8 Consensus size: 5
14408429 AAAAAAAACA
* * * *
14408439 AAAAC AAAAG AAAAG GAAAG AAAAG GAAAG AAAAG AAAAG AAGAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
14408489 AAAAG AAAA- AAAA
1 AAAAG AAAAG AAAA
14408502 TGAAGATCTA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
4 4 0.08
5 47 0.92
ACGTcount: A:0.78, C:0.02, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:14411121 original size:41 final size:41
Alignment explanation
Indices: 14411076--14411250 Score: 216
Period size: 41 Copynumber: 4.3 Consensus size: 41
14411066 TAGCAGATGT
*
14411076 AGTGCCGGTGAAT-T-AATTCAGACTT-TAAGTCTAGCAGGCTA
1 AGTGCCGGTG-ATCTGAA-TCAG-CTTATAAGCCTAGCAGGCTA
* *
14411117 AGTGCCGGTGATCTGAACCAGGTTATGAA-CCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCAGCTTAT-AAGCCTAGCAGGCTA
* *
14411158 AGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCAGCTTATAAGCCTAGCAGGCTA
*
14411199 CGTGCCGGTGATCTGAATCAGGC-TATAAGCCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCA-GCTTATAAGCCTAGCAGGCTA
14411240 AGTGCCGGTGA
1 AGTGCCGGTGA
14411251 ATATGTTAAA
Statistics
Matches: 120, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
40 6 0.05
41 109 0.91
42 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (41 bp):
AGTGCCGGTGATCTGAATCAGCTTATAAGCCTAGCAGGCTA
Found at i:14412129 original size:59 final size:61
Alignment explanation
Indices: 14412058--14412173 Score: 182
Period size: 62 Copynumber: 1.9 Consensus size: 61
14412048 TCACTTTAAT
* *
14412058 ATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCTG
1 ATTAAAATAATATAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCTG
*
14412117 ATTAAAATAATATAATGTTTATCTACAAGATAAATATTAAATTAAATTTAATATTAA
1 ATTAAAATAATATAATATTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
14412174 GATAATCACT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
59 19 0.37
61 1 0.02
62 31 0.61
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (61 bp):
ATTAAAATAATATAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCTG
Found at i:14421211 original size:73 final size:73
Alignment explanation
Indices: 14421114--14421261 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 73
14421104 GATGCAAAAA
* * *
14421114 AAGACAAGTGAACATGAAATATTCTCTGACGTAAACAGTAAATATTCCCTGCAAGAAAAGACGCA
1 AAGAAAAGTGAACAGGAAAAATTCTCTGACGTAAACAGTAAATATTCCCTGCAAGAAAAGACGCA
14421179 TGAATAGT
66 TGAATAGT
* *
14421187 AAGAAAAGTGAACAGGAAAAATTCTCTGGCGTAAACAGTAAATATTCCCTGCACGAAAAGACGCA
1 AAGAAAAGTGAACAGGAAAAATTCTCTGACGTAAACAGTAAATATTCCCTGCAAGAAAAGACGCA
14421252 TGAATAGT
66 TGAATAGT
14421260 AA
1 AA
14421262 ATATTCTCTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (73 bp):
AAGAAAAGTGAACAGGAAAAATTCTCTGACGTAAACAGTAAATATTCCCTGCAAGAAAAGACGCA
TGAATAGT
Found at i:14428315 original size:25 final size:25
Alignment explanation
Indices: 14428273--14428335 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
14428263 TTGAGTATTT
* *
14428273 TCAGTATAGT-CTATCTATAGTAGTC
1 TCAGTATA-TACTACCTATAGCAGTC
*
14428298 TCAGTATATACTACCTATAGCAGTT
1 TCAGTATATACTACCTATAGCAGTC
*
14428323 TCAGGATATACTA
1 TCAGTATATACTA
14428336 TCAAAAACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTATATACTACCTATAGCAGTC
Found at i:14429675 original size:33 final size:34
Alignment explanation
Indices: 14429621--14429695 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
14429611 CAGTGTGGCC
* *
14429621 CACACAGCCCTAAAATGGCCTTGGCCATGTAGAT
1 CACACAGCACTAAAATGGCCTTAGCCATGTAGAT
* *
14429655 CACACAGCACT-AAATGGCCTTAGCCGTGTGGAT
1 CACACAGCACTAAAATGGCCTTAGCCATGTAGAT
14429688 CACACAGC
1 CACACAGC
14429696 CTGGCCCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 27 0.73
34 10 0.27
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (34 bp):
CACACAGCACTAAAATGGCCTTAGCCATGTAGAT
Found at i:14432874 original size:57 final size:59
Alignment explanation
Indices: 14432773--14432894 Score: 176
Period size: 57 Copynumber: 2.1 Consensus size: 59
14432763 TAAAAAATAG
**
14432773 TGAAAATGGAGAAATGAGAAACATTTGGAAATGATTATGATTTTCTCCAAAATG-AAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATGAAGATGATTTTCTCCAAAATGAAAAA
** * *
14432831 TGAAAATGGAGAAATG-GACTCATTTGGAAATGAAGGTGGTTTTCTCCAAAATGAAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATGAAGATGATTTTCTCCAAAATGAAAAA
14432889 TGAAAA
1 TGAAAA
14432895 AATGAAAATG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 31 0.54
58 26 0.46
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (59 bp):
TGAAAATGGAGAAATGAGAAACATTTGGAAATGAAGATGATTTTCTCCAAAATGAAAAA
Found at i:14435669 original size:42 final size:42
Alignment explanation
Indices: 14435621--14435738 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
14435611 GTCTTTCGAT
14435621 CTTTTGTTCAACTCTTATGAGTTTCTGTTCAGCTCGTACGAG
1 CTTTTGTTCAACTCTTATGAGTTTCTGTTCAGCTCGTACGAG
* * * * *
14435663 CTTTTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTTATGAG
1 CTTTTGTTCAACTCTTATGAGTTTCTGTTCAGCTCGTACGAG
* * * * *
14435705 CTTCTT-TTTAGCTCTCACGAGCTTCTGTTCAGCT
1 CTT-TTGTTCAACTCTTATGAGTTTCTGTTCAGCT
14435739 TTCGGGCTTC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 60 0.97
43 2 0.03
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (42 bp):
CTTTTGTTCAACTCTTATGAGTTTCTGTTCAGCTCGTACGAG
Found at i:14435714 original size:21 final size:21
Alignment explanation
Indices: 14435625--14435738 Score: 102
Period size: 21 Copynumber: 5.4 Consensus size: 21
14435615 TTCGATCTTT
* *
14435625 TGTTCAACTCTTATGAGTTTC
1 TGTTCAGCTCTTATGAGCTTC
* * *
14435646 TGTTCAGCTCGTACGAGCTTT
1 TGTTCAGCTCTTATGAGCTTC
* * * *
14435667 TGTTCAACCCTTATGGGTTTC
1 TGTTCAGCTCTTATGAGCTTC
*
14435688 TGTTTAGCTCTTATGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
* * * *
14435709 TTTTTAGCTCTCACGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
14435730 TGTTCAGCT
1 TGTTCAGCT
14435739 TTCGGGCTTC
Statistics
Matches: 71, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (21 bp):
TGTTCAGCTCTTATGAGCTTC
Found at i:14436701 original size:83 final size:84
Alignment explanation
Indices: 14436540--14436701 Score: 209
Period size: 83 Copynumber: 1.9 Consensus size: 84
14436530 AAAAATTTGC
* * * ** *
14436540 ACAAGTCAGAATACTCAAAATTGTTCACACGGCTTATCACACGGGCGTGTGGTTTGGCCGTGTGT
1 ACAAGTCAGAATACTCAAAATTATTCACACGGCCTAGCACACGGGCGTGTGGCGTGGCCGTGTGA
* * *
14436605 CCCTTGTATCTTATAAATT
66 CCCCTGCACCTTATAAATT
* * *
14436624 ACAAGTTAGAATGCTC-ATATTATTCACACGGCCTAGCACACGGGCGTGTGGCGTGGCCGTGTGA
1 ACAAGTCAGAATACTCAAAATTATTCACACGGCCTAGCACACGGGCGTGTGGCGTGGCCGTGTGA
14436688 CCCCTGCACCTTAT
66 CCCCTGCACCTTAT
14436702 TAAAATAAGT
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
83 52 0.79
84 14 0.21
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (84 bp):
ACAAGTCAGAATACTCAAAATTATTCACACGGCCTAGCACACGGGCGTGTGGCGTGGCCGTGTGA
CCCCTGCACCTTATAAATT
Found at i:14443381 original size:21 final size:21
Alignment explanation
Indices: 14443357--14443441 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
14443347 TCTGCCCAGT
*
14443357 TCTTTTGAGCTTCTGTTCAGC
1 TCTTATGAGCTTCTGTTCAGC
* *
14443378 TCTTACGAGCTTCTGTTCAAC
1 TCTTATGAGCTTCTGTTCAGC
* * * * *
14443399 CCATATGGGTTTCTGTTTAGC
1 TCTTATGAGCTTCTGTTCAGC
* *
14443420 TCTCATGAGCTTCTGTTTAGC
1 TCTTATGAGCTTCTGTTCAGC
14443441 T
1 T
14443442 TTCAGGCTTC
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (21 bp):
TCTTATGAGCTTCTGTTCAGC
Found at i:14443452 original size:19 final size:21
Alignment explanation
Indices: 14443362--14443453 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 21
14443352 CCAGTTCTTT
* *
14443362 TGAGCTTCTGTTCAGCTCTTA
1 TGAGCTTCTGTTTAGCTCTCA
* * * *
14443383 CGAGCTTCTGTTCAACCCAT-A
1 TGAGCTTCTGTTTAGCTC-TCA
* *
14443404 TGGGTTTCTGTTTAGCTCTCA
1 TGAGCTTCTGTTTAGCTCTCA
*
14443425 TGAGCTTCTGTTTAGCTTTCA
1 TGAGCTTCTGTTTAGCTCTCA
14443446 -G-GCTTCTG
1 TGAGCTTCTG
14443454 GAAACGATGT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
19 7 0.12
20 2 0.04
21 47 0.82
22 1 0.02
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (21 bp):
TGAGCTTCTGTTTAGCTCTCA
Found at i:14445572 original size:10 final size:10
Alignment explanation
Indices: 14445549--14445603 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
14445539 ATTTGACAAG
14445549 AAAT-ATTAT
1 AAATAATTAT
*
14445558 CAATAATTAT
1 AAATAATTAT
14445568 AAATAATTAT
1 AAATAATTAT
14445578 AGAA-AATTATT
1 A-AATAATTA-T
*
14445589 AAA-AATTAC
1 AAATAATTAT
14445598 AAATAA
1 AAATAA
14445604 CGAATTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 6 0.15
10 29 0.74
11 4 0.10
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (10 bp):
AAATAATTAT
Found at i:14451479 original size:50 final size:49
Alignment explanation
Indices: 14451421--14451604 Score: 224
Period size: 51 Copynumber: 3.7 Consensus size: 49
14451411 GTCATCCGAA
* *
14451421 ACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAGCTTTCTGGT
1 ACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGCTATC-GGT
* *
14451471 TCACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGTCATCCGGT
1 ACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGCT-AT-CGGT
* * * * *
14451522 ACACATGGTAGCCTACACATAGTACTACACATGTGACCATTATCTATCGAT
1 ACACGTAGTAGCCTACACATAGTACTACACACGTGACCA--AGCTATCGGT
* *
14451573 ACACGTAGTAGCCTGCACTTAGTACTACACAC
1 ACACGTAGTAGCCTACACATAGTACTACACAC
14451605 ATGTTCATAG
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 40 0.35
51 69 0.61
52 3 0.03
53 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
ACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGCTATCGGT
Found at i:14451558 original size:51 final size:51
Alignment explanation
Indices: 14451388--14451604 Score: 222
Period size: 51 Copynumber: 4.3 Consensus size: 51
14451378 TGGTTTGCAT
* * * ** **
14451388 ATAGTACCACCCATGTGACCATTGTCATCCGAAACACGTAGTAGCCTACAC
1 ATAGTACTACACACGTGACCAAGGTCATCCGGTACACGTAGTAGCCTACAC
* * * * *
14451439 ATAGTACTACACACGTGATCAAGCT-TTCTGGTTCACGTAGTAGCCTACAC
1 ATAGTACTACACACGTGACCAAGGTCATCCGGTACACGTAGTAGCCTACAC
* *
14451489 ATAGTACTACACACGTGACCAAGGTCATCCGGTACACATGGTAGCCTACAC
1 ATAGTACTACACACGTGACCAAGGTCATCCGGTACACGTAGTAGCCTACAC
* *** * *
14451540 ATAGTACTACACATGTGACCATTATCTAT-CGATACACGTAGTAGCCTGCAC
1 ATAGTACTACACACGTGACCAAGGTC-ATCCGGTACACGTAGTAGCCTACAC
*
14451591 TTAGTACTACACAC
1 ATAGTACTACACAC
14451605 ATGTTCATAG
Statistics
Matches: 135, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
50 43 0.32
51 90 0.67
52 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
ATAGTACTACACACGTGACCAAGGTCATCCGGTACACGTAGTAGCCTACAC
Found at i:14452583 original size:9 final size:9
Alignment explanation
Indices: 14452553--14452577 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14452543 ATGGACAAAT
14452553 TTTTGGCTA
1 TTTTGGCTA
14452562 TTTTGGCTA
1 TTTTGGCTA
14452571 TTTTGGC
1 TTTTGGC
14452578 CTTTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.24, T:0.56
Consensus pattern (9 bp):
TTTTGGCTA
Found at i:14454013 original size:18 final size:18
Alignment explanation
Indices: 14453990--14454032 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
14453980 TGCTAGGTGA
*
14453990 GTATCCTAGCCCTCATAT
1 GTATCCTAACCCTCATAT
*
14454008 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTCATAT
*
14454026 GTTTCCT
1 GTATCCT
14454033 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (18 bp):
GTATCCTAACCCTCATAT
Found at i:14457665 original size:124 final size:125
Alignment explanation
Indices: 14457503--14457767 Score: 365
Period size: 124 Copynumber: 2.1 Consensus size: 125
14457493 GCCAAGCAAG
* * *
14457503 AACTACTATAGAAAAAGAGCGTCCACGTGCGAGCTTTTTTCAATAATTTTGCTGACAATGCATCC
1 AACTACTGTAGAAAAAGAGCGTCAACGTGCGAGCTTTTTT-AATAATTTAGCTGACAATGCATCC
* * *
14457568 TGTTTGAAGCGTTTTTGACACTATTTTTT-AGAA-CAGTCTTCTCAAAATTA-TTTTTCAGA
65 TGCTTGAAGCATTTTTGACACTATTTTTTCAAAATC-GTCTTCTCAAAATTATTTTTTCAGA
* * * * *
14457627 AACTACTGTAGAAAAAGAGCGTCAATGTGGGAGCTTTTTTAGTACTTTAGCTGACAGTGCATCCT
1 AACTACTGTAGAAAAAGAGCGTCAACGTGCGAGCTTTTTTAATAATTTAGCTGACAATGCATCCT
* *
14457692 GCTTGAAGCATTTTTGTCACTATTTTTTCAAAATCGTCTTCTCAAATTTATTTTTTCAGA
66 GCTTGAAGCATTTTTGACACTATTTTTTCAAAATCGTCTTCTCAAAATTATTTTTTCAGA
*
14457752 AACTACAGTAGAAAAA
1 AACTACTGTAGAAAAA
14457768 AACACAAAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
123 46 0.37
124 53 0.43
125 25 0.20
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAGCGTCAACGTGCGAGCTTTTTTAATAATTTAGCTGACAATGCATCCT
GCTTGAAGCATTTTTGACACTATTTTTTCAAAATCGTCTTCTCAAAATTATTTTTTCAGA
Found at i:14457900 original size:33 final size:33
Alignment explanation
Indices: 14457851--14457959 Score: 150
Period size: 33 Copynumber: 3.3 Consensus size: 33
14457841 CTAAACACAA
14457851 AATT-ATTTT-TTAAAAACCCTAAACCCTAATTT
1 AATTAATTTTCTT-AAAACCCTAAACCCTAATTT
* *
14457883 AGTTAATTTTCTTAAAACACTAAACCCTAATTT
1 AATTAATTTTCTTAAAACCCTAAACCCTAATTT
* *
14457916 AATTAATTTACTTAAAACCCCTAAAACCTAATTT
1 AATTAATTTTCTTAAAA-CCCTAAACCCTAATTT
14457950 AATTAATTTT
1 AATTAATTTT
14457960 TAAAAAAATT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
32 3 0.04
33 39 0.58
34 25 0.37
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.40
Consensus pattern (33 bp):
AATTAATTTTCTTAAAACCCTAAACCCTAATTT
Found at i:14465914 original size:22 final size:20
Alignment explanation
Indices: 14465870--14465922 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
14465860 TTGTTATAAA
14465870 TTATTAAATATTTTAAATATATT
1 TTATT-AAT-TTTTAAATATA-T
*
14465893 TTATTAATTTTATAAATCTAT
1 TTATTAATTTT-TAAATATAT
14465914 TTA-TAATTT
1 TTATTAATTT
14465923 ATTATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.21
21 7 0.25
22 10 0.36
23 5 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATTAATTTTTAAATATAT
Found at i:14465942 original size:10 final size:10
Alignment explanation
Indices: 14465792--14465942 Score: 57
Period size: 10 Copynumber: 15.1 Consensus size: 10
14465782 GGGGTATAAT
*
14465792 TTATAATTTTT
1 TTATAA-TTTA
*
14465803 TTACAATTTA
1 TTATAATTTA
*
14465813 TTAGAATTTA
1 TTATAATTTA
14465823 TTAT-A-TTA
1 TTATAATTTA
*
14465831 TTTATAAGTTTT
1 -TTATAA-TTTA
14465843 TTATGAATTT-
1 TTAT-AATTTA
* * *
14465853 TTATTACTTG
1 TTATAATTTA
*
14465863 TTATAAATTA
1 TTATAATTTA
*
14465873 TTAAATATTTTAA
1 TT--ATAATTT-A
* *
14465886 ATATATTTTA
1 TTATAATTTA
*
14465896 TTA-ATTTTA
1 TTATAATTTA
*
14465905 -TA-AATCTA
1 TTATAATTTA
14465913 TTTATAATTTA
1 -TTATAATTTA
14465924 TTAT-A-TTA
1 TTATAATTTA
14465932 TTATAATTTA
1 TTATAATTTA
14465942 T
1 T
14465943 ATCAATTTTA
Statistics
Matches: 109, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
8 16 0.15
9 16 0.15
10 42 0.39
11 24 0.22
12 9 0.08
13 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (10 bp):
TTATAATTTA
Found at i:14466061 original size:29 final size:28
Alignment explanation
Indices: 14466025--14466079 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
14466015 TAATATGTTT
*
14466025 ATTAATTTTTTATATATTTTTATAATTA
1 ATTAATTTATTATATATTTTTATAATTA
*
14466053 ATTAGATTTATTATATGTTTTTATAAT
1 ATTA-ATTTATTATATATTTTTATAAT
14466080 ATTTATAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (28 bp):
ATTAATTTATTATATATTTTTATAATTA
Found at i:14466085 original size:19 final size:19
Alignment explanation
Indices: 14465960--14466153 Score: 70
Period size: 19 Copynumber: 10.2 Consensus size: 19
14465950 TTAATAGTTT
14465960 TAATATTTAATAA-TTTTTAA
1 TAATATTT-ATAAGTTTTT-A
* *
14465980 GAAT-TTTATAGGTTTTTA
1 TAATATTTATAAGTTTTTA
* *
14465998 TAAAATTT-TAAATATTTTA
1 TAATATTTATAAGT-TTTTA
* *
14466017 -ATATGTTTATTAATTTTTTA
1 TA-ATATTTA-TAAGTTTTTA
* *
14466037 TATATTTTTATAA-TTAATTA
1 TA-ATATTTATAAGTT-TTTA
* * *
14466057 -GATTTATTATATGTTTTTA
1 TAATAT-TTATAAGTTTTTA
*
14466076 TAATATTTATAAGCTTTTA
1 TAATATTTATAAGTTTTTA
*
14466095 TAAGTA-TTATAAGTTTATA
1 TAA-TATTTATAAGTTTTTA
14466114 TTAAT-TTTA-ATA-TTTTTA
1 -TAATATTTATA-AGTTTTTA
*
14466132 -AATATTT-TAAATATTTTA
1 TAATATTTATAAGT-TTTTA
14466150 TAAT
1 TAAT
14466154 TTTTTCCTTA
Statistics
Matches: 133, Mismatches: 21, Indels: 41
0.68 0.11 0.21
Matches are distributed among these distances:
16 4 0.03
17 5 0.04
18 25 0.19
19 63 0.47
20 24 0.18
21 12 0.09
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (19 bp):
TAATATTTATAAGTTTTTA
Found at i:14466157 original size:9 final size:9
Alignment explanation
Indices: 14465800--14466228 Score: 119
Period size: 9 Copynumber: 44.7 Consensus size: 9
14465790 ATTTATAATT
*
14465800 TTTTTACAA
1 TTTTTATAA
*
14465809 TTTATTAGAA
1 TTT-TTATAA
14465819 TTTATTAT-A
1 TTT-TTATAA
14465828 TTATTTATAA
1 TT-TTTATAA
14465838 GTTTTTTATGAA
1 --TTTTTAT-AA
*
14465850 TTTTTATTAC
1 TTTTTA-TAA
*
14465860 TTGTTATAAA
1 TTTTTAT-AA
*
14465870 TTATTA-AA
1 TTTTTATAA
*
14465878 TATTTTAAATA
1 T-TTTTATA-A
14465889 TATTTTATTAA
1 T-TTTTA-TAA
14465900 -TTTTATAAA
1 TTTTTAT-AA
14465909 TCTATTTATAA
1 T-T-TTTATAA
14465920 TTTATTAT-A
1 TTT-TTATAA
*
14465929 TTATTATAA
1 TTTTTATAA
*
14465938 TTTATATCAA
1 TTTTTAT-AA
* *
14465948 TTTTAATAG
1 TTTTTATAA
*
14465957 TTTTAAT-A
1 TTTTTATAA
*
14465965 -TTTAATAA
1 TTTTTATAA
14465973 TTTTTA-AGA
1 TTTTTATA-A
* *
14465982 ATTTTATAGG
1 TTTTTATA-A
14465992 TTTTTATAAA
1 TTTTTAT-AA
*
14466002 ATTTTA-AA
1 TTTTTATAA
14466010 TATTTTA-ATA
1 T-TTTTATA-A
*
14466020 TGTTTATTAA
1 TTTTTA-TAA
14466030 TTTTTTATATA
1 -TTTTTATA-A
14466041 TTTTTATAA
1 TTTTTATAA
* *
14466050 TTAATTA-GA
1 TT-TTTATAA
*
14466059 TTTATTATATG
1 TTT-TTATA-A
14466070 TTTTTATAA
1 TTTTTATAA
*
14466079 TATTTATAA
1 TTTTTATAA
*
14466088 GCTTTTATAA
1 -TTTTTATAA
* *
14466098 GTATTATAA
1 TTTTTATAA
*
14466107 GTTTATATTAA
1 -TTTTTA-TAA
*
14466118 TTTTAAT-A
1 TTTTTATAA
14466126 TTTTTA-AA
1 TTTTTATAA
14466134 TATTTTA-AA
1 T-TTTTATAA
14466143 TATTTTATAA
1 T-TTTTATAA
* *
14466153 TTTTTTCCTTAT
1 -TTTTT--ATAA
14466165 TTTTTATAA
1 TTTTTATAA
* *
14466174 TCTTTAATATT
1 T-TTTTATA-A
*
14466185 TTTTTATGA
1 TTTTTATAA
14466194 TTTTTATAA
1 TTTTTATAA
*
14466203 TTTTTAATGAC
1 TTTTT-AT-AA
*
14466214 TTTTTATGA
1 TTTTTATAA
14466223 TTTTTA
1 TTTTTA
14466229 ATCATTTTAA
Statistics
Matches: 319, Mismatches: 54, Indels: 94
0.68 0.12 0.20
Matches are distributed among these distances:
7 6 0.02
8 20 0.06
9 121 0.38
10 114 0.36
11 46 0.14
12 12 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:14466158 original size:19 final size:19
Alignment explanation
Indices: 14465888--14466207 Score: 68
Period size: 20 Copynumber: 16.8 Consensus size: 19
14465878 TATTTTAAAT
*
14465888 ATATTTTATTAATTTTATAA
1 ATATTTTA-TAATTTTTTAA
* *
14465908 ATCTATTTATAATTTATT--
1 ATAT-TTTATAATTTTTTAA
* *
14465926 ATATTATTATAATTTATATCA
1 ATATT-TTATAATTT-TTTAA
* *
14465947 AT-TTTAAT-A-GTTTT-A
1 ATATTTTATAATTTTTTAA
*
14465962 ATATTTAATAA-TTTTTAA
1 ATATTTTATAATTTTTTAA
*
14465980 GA-ATTTTATAGGTTTTTATAA
1 -ATATTTTATA-ATTTTT-TAA
*
14466001 A-ATTTTA-AATATTTT-A
1 ATATTTTATAATTTTTTAA
*
14466017 ATATGTTTATTAATTTTTTAT
1 ATAT-TTTA-TAATTTTTTAA
** *
14466038 ATATTTTTATAATTAATTAG
1 ATA-TTTTATAATTTTTTAA
14466058 AT-TTATTAT-ATGTTTTTATA
1 ATATT-TTATAAT-TTTTTA-A
*
14466078 ATA-TTTATAAGCTTTTATAA
1 ATATTTTATAA--TTTTTTAA
* * *
14466098 GTA--TTATAAGTTTAT-A
1 ATATTTTATAATTTTTTAA
* *
14466114 TTAATTT-TAATATTTTTAA
1 ATATTTTATAAT-TTTTTAA
*
14466133 ATATTTTA-AATATTTTATA
1 ATATTTTATAATTTTTTA-A
* * *
14466152 ATTTTTTCCTTATTTTTTATA
1 ATATTTT-ATAATTTTTTA-A
* * * *
14466173 ATCTTTAATATTTTTTTATG
1 ATATTTTATAATTTTTTA-A
14466193 AT-TTTTATAATTTTT
1 ATATTTTATAATTTTT
14466208 AATGACTTTT
Statistics
Matches: 224, Mismatches: 43, Indels: 67
0.67 0.13 0.20
Matches are distributed among these distances:
15 3 0.01
16 13 0.06
17 18 0.08
18 44 0.20
19 51 0.23
20 58 0.26
21 35 0.16
22 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (19 bp):
ATATTTTATAATTTTTTAA
Found at i:14466186 original size:29 final size:27
Alignment explanation
Indices: 14466150--14466228 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 27
14466140 AAATATTTTA
14466150 TAATTTTTTCCTTAT-TTTTTATAATCTT
1 TAATTTTTT--TTATATTTTTATAATCTT
*
14466178 TAATATTTTTTTATGATTTTTATAATTTT
1 TAAT-TTTTTTTAT-ATTTTTATAATCTT
**
14466207 TAATGACTTTTTATGATTTTTA
1 TAAT-TTTTTTTAT-ATTTTTA
14466229 ATCATTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
27 4 0.09
28 4 0.09
29 36 0.82
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (27 bp):
TAATTTTTTTTATATTTTTATAATCTT
Found at i:14466217 original size:20 final size:19
Alignment explanation
Indices: 14466184--14466236 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
14466174 TCTTTAATAT
*
14466184 TTTTTTATGATTTTTATAA
1 TTTTTAATGATTTTTATAA
*
14466203 TTTTTAATGACTTTTTATGA
1 TTTTTAATGA-TTTTTATAA
*
14466223 TTTTTAATCATTTT
1 TTTTTAATGATTTT
14466237 AATAGAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTTTAATGATTTTTATAA
Found at i:14466815 original size:24 final size:26
Alignment explanation
Indices: 14466788--14466842 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
14466778 AGATGATTAT
*
14466788 ATATAACATT-TTAATAAATAA-A-AA
1 ATATAAAATTATTAA-AAATAATATAA
14466812 ATATAAAATTATTAAAAATAATATAA
1 ATATAAAATTATTAAAAATAATATAA
14466838 ATATA
1 ATATA
14466843 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 15 0.56
25 5 0.19
26 7 0.26
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
ATATAAAATTATTAAAAATAATATAA
Found at i:14466815 original size:26 final size:27
Alignment explanation
Indices: 14466786--14466843 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
14466776 TAAGATGATT
14466786 ATATATAACATT-TTAATAAATAA-A-AA
1 ATATATAA-ATTATTAA-AAATAATATAA
14466812 ATATA-AAATTATTAAAAATAATATAA
1 ATATATAAATTATTAAAAATAATATAA
14466838 ATATAT
1 ATATAT
14466844 TTTTATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
24 9 0.32
25 7 0.25
26 12 0.43
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
ATATATAAATTATTAAAAATAATATAA
Found at i:14472241 original size:22 final size:20
Alignment explanation
Indices: 14472210--14472259 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
14472200 TTATTTTTCG
* * * *
14472210 ATAAAAATACATAAGATTTT
1 ATAAAAATATACAAAATTGT
*
14472230 ATAAAAATATACACAATTGT
1 ATAAAAATATACAAAATTGT
14472250 ATAAAAATAT
1 ATAAAAATAT
14472260 TTATAAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (20 bp):
ATAAAAATATACAAAATTGT
Found at i:14472855 original size:20 final size:19
Alignment explanation
Indices: 14472830--14472894 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
14472820 TATTCATTTA
14472830 TTTATAATTTTGTATGTATT
1 TTTATAATTTT-TATGTATT
* *
14472850 TTTATAATTTAATATATATT
1 TTTATAATTT-TTATGTATT
* *
14472870 TTTATAAAATCTTATGTATT
1 TTTAT-AATTTTTATGTATT
14472890 TTTAT
1 TTTAT
14472895 TGCAAAATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 34 0.92
21 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTATAATTTTTATGTATT
Found at i:14473619 original size:24 final size:24
Alignment explanation
Indices: 14473572--14473619 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14473562 AAAAATAGAG
* **
14473572 TATTTGAAAATTTGGAAAGGCTAA
1 TATTTGAAAAATTGGAAACCCTAA
*
14473596 TATTTGAAAAATTGTAAACCCTAA
1 TATTTGAAAAATTGGAAACCCTAA
14473620 ACAAACTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (24 bp):
TATTTGAAAAATTGGAAACCCTAA
Found at i:14491289 original size:23 final size:21
Alignment explanation
Indices: 14491263--14491314 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
14491253 AAAACAATGA
*
14491263 AAAATAATA-AAGAAAAAATCATT
1 AAAATAATAGAA-AAAAAA-CA-C
14491286 AAAAT-ATAGAAAAAAAACAC
1 AAAATAATAGAAAAAAAACAC
14491306 AAAATAATA
1 AAAATAATA
14491315 TACATATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 5 0.19
22 9 0.35
23 7 0.27
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAATAATAGAAAAAAAACAC
Found at i:14491371 original size:17 final size:17
Alignment explanation
Indices: 14491351--14491384 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14491341 TTTATTAACC
* *
14491351 TTGAAATTTTTATTTTT
1 TTGAAAATTTGATTTTT
14491368 TTGAAAATTTGATTTTT
1 TTGAAAATTTGATTTTT
14491385 AAATTTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (17 bp):
TTGAAAATTTGATTTTT
Found at i:14492202 original size:19 final size:19
Alignment explanation
Indices: 14492174--14492231 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
14492164 ATCTTCAGGG
*
14492174 ATATGCAATCTTAGATATA
1 ATATACAATCTTAGATATA
* *
14492193 ATATATAATCTTAGATATG
1 ATATACAATCTTAGATATA
*
14492212 ATATGCAATCTTAGAATATA
1 ATATACAATCTTAG-ATATA
14492232 TGATTTTGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 28 0.88
20 4 0.12
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (19 bp):
ATATACAATCTTAGATATA
Found at i:14492833 original size:16 final size:17
Alignment explanation
Indices: 14492814--14492856 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
14492804 TTTTTATGAT
14492814 TTATATATTTAT-TACC
1 TTATATATTTATGTACC
* *
14492830 TTATATATATATGTACG
1 TTATATATTTATGTACC
14492847 TATATATATT
1 T-TATATATT
14492857 ATACTTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 4 0.18
18 7 0.32
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (17 bp):
TTATATATTTATGTACC
Found at i:14492841 original size:48 final size:48
Alignment explanation
Indices: 14492787--14492946 Score: 155
Period size: 48 Copynumber: 3.2 Consensus size: 48
14492777 TTTTTAAGTT
*
14492787 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTATA
** * *
14492835 TATATATGTACGTA-TATATATTAT-ACTTTCTATACATATTT-TATAATTTCTATA
1 TATATATGTAATTATTAT-TTTTATGA--TT-TAT--ATATTTAT-TAA-CT-TATA
* *
14492889 TATATATGTAATCATTATTTTTATGATCTATATATTTATTAACTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTATA
14492937 TATATATGTA
1 TATATATGTA
14492947 CGTATATATA
Statistics
Matches: 89, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
47 4 0.04
48 31 0.35
49 3 0.03
50 12 0.13
51 2 0.02
52 11 0.12
53 2 0.02
54 20 0.22
55 4 0.04
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (48 bp):
TATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTATA
Found at i:14492858 original size:54 final size:53
Alignment explanation
Indices: 14492799--14492960 Score: 165
Period size: 54 Copynumber: 3.1 Consensus size: 53
14492789 TATATGTAAT
*
14492799 TATTATTTTTATGATTTATATATTTATTACCTTATATATATATGTACGTATATA
1 TATTATTTTTATGATATATATATTTATTA-CTTATATATATATGTACGTATATA
* * * * * * *
14492853 TATTATACTTTCT-ATACATAT-TTTA-TAATT-TCTATATATATATGTA-AT-
1 TATTAT-TTTTATGATATATATATTTATTACTTATATATATATGTACGTATATA
* *
14492901 CATTATTTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATATA
1 TATTATTTTTATGATATATATATTTATT-ACTTATATATATATGTACGTATATA
14492955 TATTAT
1 TATTAT
14492961 ACTTTCTATA
Statistics
Matches: 82, Mismatches: 18, Indels: 16
0.71 0.16 0.14
Matches are distributed among these distances:
47 4 0.05
48 11 0.13
49 6 0.07
50 14 0.17
51 5 0.06
52 15 0.18
53 6 0.07
54 17 0.21
55 4 0.05
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (53 bp):
TATTATTTTTATGATATATATATTTATTACTTATATATATATGTACGTATATA
Found at i:14492873 original size:20 final size:20
Alignment explanation
Indices: 14492850--14492895 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
14492840 ATGTACGTAT
*
14492850 ATATATTATACTTTCTATAC
1 ATATATTATAATTTCTATAC
* *
14492870 ATATTTTATAATTTCTATAT
1 ATATATTATAATTTCTATAC
14492890 ATATAT
1 ATATAT
14492896 GTAATCATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATTATAATTTCTATAC
Found at i:14492900 original size:102 final size:102
Alignment explanation
Indices: 14492787--14492997 Score: 386
Period size: 102 Copynumber: 2.1 Consensus size: 102
14492777 TTTTTAAGTT
* * *
14492787 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATATGTACGTATAT
1 TATATATGTAATCATTATTTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
14492852 ATATTATACTTTCTATACATATTTTATAATTTCTATA
66 ATATTATACTTTCTATACATATTTTATAATTTCTATA
14492889 TATATATGTAATCATTATTTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
1 TATATATGTAATCATTATTTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
14492954 ATATTATACTTTCTATACATATTTTATAATTTCTATA
66 ATATTATACTTTCTATACATATTTTATAATTTCTATA
*
14492991 TGTATAT
1 TATATAT
14492998 TTTTCTTTAT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 105 1.00
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (102 bp):
TATATATGTAATCATTATTTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
ATATTATACTTTCTATACATATTTTATAATTTCTATA
Found at i:14492975 original size:20 final size:20
Alignment explanation
Indices: 14492952--14492990 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14492942 ATGTACGTAT
*
14492952 ATATATTATACTTTCTATAC
1 ATATATTATAATTTCTATAC
*
14492972 ATATTTTATAATTTCTATA
1 ATATATTATAATTTCTATA
14492991 TGTATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATTATAATTTCTATAC
Found at i:14492991 original size:48 final size:48
Alignment explanation
Indices: 14492837--14492994 Score: 155
Period size: 48 Copynumber: 3.2 Consensus size: 48
14492827 ACCTTATATA
14492837 TATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
* * *
14492885 TATATATA--TATGTAATCATTAT--TTT-TATGATCTATATATTTATTAACTTATATA
1 TATATGTACGTATAT-AT-ATTATACTTTCTAT-A-C-ATAT-TTTA-TAA--T-T-TC
14492939 TATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
14492987 TATATGTA
1 TATATGTA
14492995 TATTTTTCTT
Statistics
Matches: 88, Mismatches: 6, Indels: 32
0.70 0.05 0.25
Matches are distributed among these distances:
45 3 0.03
46 8 0.09
47 3 0.03
48 25 0.28
49 5 0.06
50 4 0.05
52 4 0.05
53 5 0.06
54 17 0.19
55 3 0.03
56 8 0.09
57 3 0.03
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (48 bp):
TATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
Found at i:14492997 original size:54 final size:54
Alignment explanation
Indices: 14492831--14492997 Score: 199
Period size: 54 Copynumber: 3.2 Consensus size: 54
14492821 TTTATTACCT
14492831 TATATATATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATATATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
* * * *
14492885 TATATATATATGTA-ATCAT-TAT-TTTTA-TGATCTAT--ATA-TTTATTAA-CT-
1 TATATATATATGTACGT-ATATATATTATACT-TTCTATACATATTTTA-TAATTTC
14492933 TATATATATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATATATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
*
14492987 TATATGTATAT
1 TATATATATAT
14492998 TTTTCTTTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
48 16 0.17
49 9 0.10
50 15 0.16
51 2 0.02
52 15 0.16
53 9 0.10
54 26 0.28
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (54 bp):
TATATATATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
Found at i:14493045 original size:102 final size:102
Alignment explanation
Indices: 14492787--14493036 Score: 319
Period size: 102 Copynumber: 2.5 Consensus size: 102
14492777 TTTTTAAGTT
* * * * * **
14492787 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATATGTACGTATAT
1 TATATATGTAATCATTATTCTCATGATCTATATATATATTAAATTATATATATATGTACGTATAT
14492852 ATATTATACTTTCTATACATATTTTATAATTTCTATA
66 ATATTATACTTTCTATACATATTTTATAATTTCTATA
* * * *
14492889 TATATATGTAATCATTATTTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
1 TATATATGTAATCATTATTCTCATGATCTATATATATATTAAATTATATATATATGTACGTATAT
14492954 ATATTATACTTTCTATACATATTTTATAATTTCTATA
66 ATATTATACTTTCTATACATATTTTATAATTTCTATA
* ** * *
14492991 TGTATAT-TTTTCTTTATTCTCATGAATGTAT-TATATA-TAAA-TATAT
1 TATATATGTAATCATTATTCTCATG-ATCTATATATATATTAAATTATAT
14493037 TTTTTATATA
Statistics
Matches: 135, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
99 5 0.04
100 3 0.02
101 17 0.13
102 110 0.81
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.54
Consensus pattern (102 bp):
TATATATGTAATCATTATTCTCATGATCTATATATATATTAAATTATATATATATGTACGTATAT
ATATTATACTTTCTATACATATTTTATAATTTCTATA
Found at i:14494842 original size:24 final size:24
Alignment explanation
Indices: 14494815--14494860 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14494805 AGAACAATCC
*
14494815 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGGAAATGAAGGAGCAGCTT
* *
14494839 CAAAAGTAAATGAATGAGCAGC
1 CAAAAGGAAATGAAGGAGCAGC
14494861 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.26, T:0.13
Consensus pattern (24 bp):
CAAAAGGAAATGAAGGAGCAGCTT
Found at i:14498950 original size:132 final size:132
Alignment explanation
Indices: 14498795--14499957 Score: 1841
Period size: 132 Copynumber: 8.8 Consensus size: 132
14498785 TTGACTGTGA
* * *
14498795 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGG-GATACATTAAAGCCAATAA
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAG-TACATTGAAGCCAGTAA
* *
14498859 TTCTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
65 TTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
14498924 TGG
130 TGG
* * *
14498927 AGCAGATCGAAGATGGCGGATTTTACCGT-TCTGTGGTTATAGTGGAGTACATTGAAGCCAATAA
1 AGCAGATCGAAGATGGCGGATTTTACC-TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
* * * *
14498991 TTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTTATATCTTATCTCCCTAAGCAGTAG
65 TTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
14499056 TGG
130 TGG
* *
14499059 AACAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGTGAAGCCAGTA
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACA-T-TGAAGCCAGTA
* * * *
14499124 ACTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTA
64 ATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
14499189 GTGG
129 GTGG
*
14499193 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGTGAAGCCAGTA
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACA-T-TGAAGCCAGTA
* * * *
14499258 ACTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTA
64 ATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
14499323 GTGG
129 GTGG
*
14499327 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
14499392 TCTACTTCCCTAAACAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCGAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
14499457 GG
131 GG
* * * *
14499459 AGTAGATCGAAGATGGCGGATTTTACCTCCCTATGATTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
14499524 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
14499589 GG
131 GG
14499591 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
14499656 TCTACTTCCCTAAACAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCGAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
14499721 GG
131 GG
* * * *
14499723 AGTAGATCGAAGATGGCGGATTTTACCTCCCTATGATTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
14499788 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
14499853 GG
131 GG
*
14499855 AGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
14499919 TCATA-TCTCCCT-GATCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTAGA-CAACAGTGGAATAGATTGAAGATT
14499958 GTAAGTCCTA
Statistics
Matches: 967, Mismatches: 56, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
131 6 0.01
132 700 0.72
133 4 0.00
134 257 0.27
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:14499427 original size:88 final size:88
Alignment explanation
Indices: 14499335--14499692 Score: 192
Period size: 88 Copynumber: 4.1 Consensus size: 88
14499325 GGAGCAGATC
*
14499335 GAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTC
1 GAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTC
14499400 CCTAAACAACAGTGGAATAAATT
66 CCTAAACAACAGTGGAATAAATT
** * * * * * * * *** ** * *
14499423 GAAGATTTCAGATCTTATCTCCC-GAAG-CAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACC
1 GAAGATGGCAGATTTTACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAG-TAATTCTACT
* ** * * *
14499486 TCCCTATGATTATAGTGGAGTACATT
64 TCCCTA-AACAACAGTGGAATAAATT
*** * * * *** * * *
14499512 GAAGCCAGTA-ATTCTACTTCCCT-AGACAACAGTGGAATAGATTGAAG--ATTTCAGA-TCTTA
1 GAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA-GT-A-ATTC-TA
* ** ** * *
14499572 -TCTCCCTAAGCAGTAGTGGAGCAGATC
62 CT-TCCCTAAACAACAGTGGAATAAATT
* *
14499599 GAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTC
1 GAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTC
14499664 CCTAAACAACAGTGGAATAAATT
66 CCTAAACAACAGTGGAATAAATT
14499687 GAAGAT
1 GAAGAT
14499693 TTCAGATCTT
Statistics
Matches: 181, Mismatches: 73, Indels: 32
0.63 0.26 0.11
Matches are distributed among these distances:
86 1 0.01
87 35 0.19
88 102 0.56
89 41 0.23
90 1 0.01
91 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (88 bp):
GAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTC
CCTAAACAACAGTGGAATAAATT
Found at i:14499823 original size:88 final size:88
Alignment explanation
Indices: 14499454--14499824 Score: 211
Period size: 88 Copynumber: 4.2 Consensus size: 88
14499444 CCGAAGCAGT
*
14499454 AGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTATGATTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGTAGATTGAAGATGGCGGATTTTACCTCCCTATGATTATAGTGGAGTACATTGAAGCCA
14499519 GTAATTCTACTTCCCTAGACAAC
66 GTAATTCTACTTCCCTAGACAAC
* ** * * * * * * * * **
14499542 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA--GTAGTGGAGCAGATCGAAGAT
1 AGTGGAGTAGATTGAAGATGGCGGATTTTACCTCCCTATG-ATTATAGTGGAGTACATTGAAGCC
* ** * * * ***
14499605 GGCGGATTTTACCTCCCTGTGGTTAC
65 AG-TAATTCTACTTCCCT-AGACAAC
* *** ** * * * ** * * *
14499631 AGTGGAGTACATTGAAGCCAG-TAATTCTACTTCCCTA-AACAACAGTGGAATAAATTGAAG--A
1 AGTGGAGTAGATTGAAGATGGCGGATTTTACCTCCCTATGATTATAGTGGAGTACATTGAAGCCA
* * **
14499692 TTTCAGA-TCTTA-TCTCCCGA-AGCAGT
66 -GT-A-ATTC-TACT-TCCCTAGA-CAAC
*
14499718 AGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTATGATTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGTAGATTGAAGATGGCGGATTTTACCTCCCTATGATTATAGTGGAGTACATTGAAGCCA
14499783 GTAATTCTACTTCCCTAGACAAC
66 GTAATTCTACTTCCCTAGACAAC
*
14499806 AGTGGAATAGATTGAAGAT
1 AGTGGAGTAGATTGAAGAT
14499825 TTCAGATCTT
Statistics
Matches: 189, Mismatches: 76, Indels: 36
0.63 0.25 0.12
Matches are distributed among these distances:
86 1 0.01
87 33 0.17
88 112 0.59
89 41 0.22
90 1 0.01
91 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (88 bp):
AGTGGAGTAGATTGAAGATGGCGGATTTTACCTCCCTATGATTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTAGACAAC
Done.