Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 28 of 253
Found at i:7589208 original size:84 final size:87
Alignment explanation
Indices: 7589109--7589359 Score: 276
Period size: 88 Copynumber: 2.9 Consensus size: 87
7589099 GTCAAAAAGC
* * * * ** * *
7589109 CTTTTTGAAGCATTTTGATAGTTCAAGTATCCAACTGAGTG-AAAATGGGAGGGGTTTAATTGC-
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAACTGAGTGCAAAAAGAAAGGGGCTTAATTACT
7589172 TTTTTAAAAAAAG-TTAAGGGT
66 TTTTTAAAAAAAGTTTAAGGGT
* *
7589193 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAGAAATGGGCTTAATTACT
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAACTGAGTGCAAAAAGAAAGGGGCTTAATTAC-
** *
7589258 TTTTTTTGAAAAAGTTTGAGGGT
65 TTTTTTAAAAAAAGTTTAAGGGT
* * * * *
7589281 CTTTTTGATGTATTTTGAAAGTT-AAGTACCCAATTTAATGCAAAAAAAGAAGGGGCTTAATTAC
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAACTGAGTGCAAAAAGA-AAGGGGCTTAATTAC
7589345 TTTTTTTGAAAAAAA
65 -TTTTTT-AAAAAAA
7589360 TTGAGGACTT
Statistics
Matches: 141, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
84 37 0.26
85 16 0.11
87 33 0.23
88 50 0.35
89 5 0.04
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (87 bp):
CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAACTGAGTGCAAAAAGAAAGGGGCTTAATTACT
TTTTTAAAAAAAGTTTAAGGGT
Found at i:7589290 original size:88 final size:86
Alignment explanation
Indices: 7589109--7589357 Score: 297
Period size: 87 Copynumber: 2.9 Consensus size: 86
7589099 GTCAAAAAGC
* * * * * ** * *
7589109 CTTTTTGAAGCATTTTGATAGTTCAAGTATCCAACTGAGTG-AAAATGGGAGGGGTTTAATTGC-
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAGAAAGGGGCTTAATTACT
**
7589172 TTTTTAAAAAAAGTTAAGGGT
66 TTTTTTGAAAAAGTTAAGGGT
*
7589193 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAGAAATGGGCTTAATTACT
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAGAAAGGGGCTTAATTAC-
*
7589258 TTTTTTTGAAAAAGTTTGAGGGT
65 TTTTTTTGAAAAAG-TTAAGGGT
* * * *
7589281 CTTTTTGATGTATTTTGAAAGTT-AAGTACCCAATTTAATGCAAAAAAAGAAGGGGCTTAATTAC
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAGA-AAGGGGCTTAATTAC
7589345 TTTTTTTGAAAAA
65 TTTTTTTGAAAAA
7589358 AATTGAGGAC
Statistics
Matches: 142, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
84 37 0.26
85 16 0.11
87 46 0.32
88 43 0.30
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (86 bp):
CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAGAAAGGGGCTTAATTACT
TTTTTTGAAAAAGTTAAGGGT
Found at i:7589364 original size:87 final size:88
Alignment explanation
Indices: 7589172--7589365 Score: 277
Period size: 88 Copynumber: 2.2 Consensus size: 88
7589162 GTTTAATTGC
* *
7589172 TTTTT-AAAAAAAGTTAAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCA
1 TTTTTGAAAAAAA-TTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAATGCA
* *
7589236 AAAAGAAATGGGCTTAATTACTTT
65 AAAAAAAAGGGGCTTAATTACTTT
** * *
7589260 TTTTTGAAAAAGTTTGAGGGTCTTTTTGATGTATTTTGAAAGTT-AAGTACCCAATTTAATGCAA
1 TTTTTGAAAAAAATTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAATGCAA
7589324 AAAAAGAAGGGGCTTAATTAC-TT
66 AAAAA-AAGGGGCTTAATTACTTT
7589347 TTTTTGAAAAAAATTGAGG
1 TTTTTGAAAAAAATTGAGG
7589366 ACTTTTTACA
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
87 41 0.44
88 48 0.51
89 5 0.05
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (88 bp):
TTTTTGAAAAAAATTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAATGCAA
AAAAAAAGGGGCTTAATTACTTT
Found at i:7592758 original size:11 final size:11
Alignment explanation
Indices: 7592742--7592767 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7592732 ATATGATAAC
7592742 ATGTATGCTTA
1 ATGTATGCTTA
7592753 ATGTATGCTTA
1 ATGTATGCTTA
7592764 ATGT
1 ATGT
7592768 CTTAACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (11 bp):
ATGTATGCTTA
Found at i:7601531 original size:19 final size:18
Alignment explanation
Indices: 7601509--7601548 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
7601499 AGAATAAAAC
7601509 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
7601528 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
7601546 TTA
1 TTA
7601549 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:7605364 original size:43 final size:43
Alignment explanation
Indices: 7605303--7605404 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 43
7605293 TTATTTAAAA
*
7605303 AAACGCCGCTAGAGGTCTTGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTCCCCAC
* *
7605346 AAACGCCGCTAAAGGTCTTTACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTCCCCAC
*
7605389 AAATGCCGCTAAAGGT
1 AAACGCCGCTAAAGGT
7605405 AATGAAATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTCCCCAC
Found at i:7607715 original size:37 final size:37
Alignment explanation
Indices: 7607650--7607795 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
7607640 TACGTATGAT
* *
7607650 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
7607685 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
7607722 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
7607759 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
7607796 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:7607812 original size:46 final size:46
Alignment explanation
Indices: 7607759--7608125 Score: 446
Period size: 46 Copynumber: 7.6 Consensus size: 46
7607749 TAAGTGTAGC
* **
7607759 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
7607805 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
7607851 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
7607903 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
7607955 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
7608001 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
7608047 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
7608099 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
7608126 AGTACTCAAA
Statistics
Matches: 291, Mismatches: 17, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:7607878 original size:52 final size:52
Alignment explanation
Indices: 7607802--7608119 Score: 426
Period size: 52 Copynumber: 6.3 Consensus size: 52
7607792 TAGCTAAAGC
* *
7607802 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
7607855 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
7607907 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
7607959 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
7608005 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
7608051 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
7608103 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
7608120 ATCAGAAGTA
Statistics
Matches: 239, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 84 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:7607881 original size:98 final size:98
Alignment explanation
Indices: 7607759--7608125 Score: 503
Period size: 98 Copynumber: 3.7 Consensus size: 98
7607749 TAAGTGTAGC
* * * * *
7607759 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
7607824 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
7607858 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
7607923 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
60 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
7607962 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
*
7608021 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
7608054 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
7608119 GATCAGA
66 GATCAGA
7608126 AGTACTCAAA
Statistics
Matches: 239, Mismatches: 17, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
92 39 0.16
96 1 0.00
98 150 0.63
99 9 0.04
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:7608000 original size:196 final size:196
Alignment explanation
Indices: 7607759--7608111 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
7607749 TAAGTGTAGC
* * * * *
7607759 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
7607824 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
7607889 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
7607954 T
196 T
*
7607955 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
7608020 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
7608085 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
7608112 ATCACTTGAT
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:7610772 original size:138 final size:138
Alignment explanation
Indices: 7610524--7610792 Score: 459
Period size: 138 Copynumber: 1.9 Consensus size: 138
7610514 TTTTAAAATT
7610524 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* * *
7610589 TTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAAGTACTCCTA-AAAGC
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCC-ACAAAGC
7610653 ATCCAGACG
130 ATCCAGACG
* *
7610662 TTAAATCAAATAAGTTGCATAATAACATCACAAAGAGAAATGTTATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* *
7610727 TTAATGCCAATTTTTAAAGAGATTACATATGATTCTAAAATTCAAAACAGGGACTCCACAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
7610792 T
131 T
7610793 TCATACATTA
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
137 1 0.01
138 122 0.99
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.27
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
TCCAGACG
Found at i:7612454 original size:6 final size:7
Alignment explanation
Indices: 7612436--7612469 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
7612426 AAATTTTTAA
7612436 ATTTTTT
1 ATTTTTT
7612443 ATTTTTT
1 ATTTTTT
7612450 ATTTTTT
1 ATTTTTT
7612457 ATTTTTT
1 ATTTTTT
7612464 AATTTT
1 -ATTTT
7612470 AAAATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.81
8 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
ATTTTTT
Found at i:7612462 original size:14 final size:15
Alignment explanation
Indices: 7612428--7612469 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
7612418 TAAATATTAA
*
7612428 ATTTTTAAATTTTTT
1 ATTTTTTAATTTTTT
7612443 ATTTTTT-ATTTTTT
1 ATTTTTTAATTTTTT
7612457 ATTTTTTAATTTT
1 ATTTTTTAATTTT
7612470 AAAATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTTTAATTTTTT
Found at i:7612512 original size:8 final size:8
Alignment explanation
Indices: 7612424--7612486 Score: 51
Period size: 8 Copynumber: 8.2 Consensus size: 8
7612414 ATATTAAATA
7612424 TTAAATTT
1 TTAAATTT
7612432 TTAAATTT
1 TTAAATTT
*
7612440 TT-TATTT
1 TTAAATTT
*
7612447 TT-TATTT
1 TTAAATTT
*
7612454 TT-TATTT
1 TTAAATTT
*
7612461 TTTAATTT
1 TTAAATTT
*
7612469 TAAAATTT
1 TTAAATTT
*
7612477 TAAAATTT
1 TTAAATTT
7612485 TT
1 TT
7612487 TTGAAGATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
7 20 0.41
8 29 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TTAAATTT
Found at i:7612792 original size:7 final size:7
Alignment explanation
Indices: 7612780--7612812 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
7612770 TCATACACTT
7612780 TAAACCC
1 TAAACCC
7612787 TAAACCC
1 TAAACCC
7612794 TAAACCC
1 TAAACCC
7612801 TAAACCC
1 TAAACCC
7612808 TAAAC
1 TAAAC
7612813 TATAATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:7612981 original size:7 final size:7
Alignment explanation
Indices: 7612970--7613013 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
7612960 CTGAACCATG
7612970 AACCCCT
1 AACCCCT
* *
7612977 CACCCTT
1 AACCCCT
7612984 AACCCCT
1 AACCCCT
*
7612991 AACACCT
1 AACCCCT
7612998 AACCCCT
1 AACCCCT
*
7613005 AACACCT
1 AACCCCT
7613012 AA
1 AA
7613014 ATCTTAAACC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCCT
Found at i:7612989 original size:14 final size:14
Alignment explanation
Indices: 7612970--7613013 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
7612960 CTGAACCATG
*
7612970 AACCCCTCAC-CCTT
1 AACCCCTAACACC-T
7612984 AACCCCTAACACCT
1 AACCCCTAACACCT
7612998 AACCCCTAACACCT
1 AACCCCTAACACCT
7613012 AA
1 AA
7613014 ATCTTAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 26 0.93
15 2 0.07
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (14 bp):
AACCCCTAACACCT
Found at i:7613286 original size:29 final size:28
Alignment explanation
Indices: 7613223--7613296 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
7613213 CAAATACATT
7613223 TAAAACAA-ATATTAAAACAAGAAACAAA
1 TAAAA-AATATATTAAAACAAGAAACAAA
* *
7613251 TAAAAAATGATATTAAAACAATAGACAAA
1 TAAAAAAT-ATATTAAAACAAGAAACAAA
** *
7613280 TTGAAAATATAATAAAA
1 TAAAAAATATATTAAAA
7613297 AGTGATTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 2 0.05
28 13 0.33
29 24 0.62
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (28 bp):
TAAAAAATATATTAAAACAAGAAACAAA
Found at i:7613565 original size:41 final size:41
Alignment explanation
Indices: 7613520--7613608 Score: 124
Period size: 41 Copynumber: 2.2 Consensus size: 41
7613510 ATTATATGAC
* * * *
7613520 TTTTAGCAGCGTTTAATCGAAAGCGCCGCTACTGCTCTGGT
1 TTTTAGCAGCATTTAACCAAAAGCGCCGCTAATGCTCTGGT
* *
7613561 TTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCAGCATTTAACCAAAAGCGCCGCTAATGCTCTGGT
7613602 TTTTAGC
1 TTTTAGC
7613609 GGTGTTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTTAGCAGCATTTAACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:7613686 original size:12 final size:12
Alignment explanation
Indices: 7613671--7613697 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7613661 GTTTTTTGAT
7613671 AAAACGCCGCTA
1 AAAACGCCGCTA
7613683 AAAACGCCGCTA
1 AAAACGCCGCTA
7613695 AAA
1 AAA
7613698 CCTTATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:7621231 original size:46 final size:46
Alignment explanation
Indices: 7621179--7621341 Score: 283
Period size: 46 Copynumber: 3.6 Consensus size: 46
7621169 AGTGTGCTCT
*
7621179 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7621225 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
7621271 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7621317 CTAATATGAAATGTGTAAGA-CATGG
1 CTGATATGAAATGTGTAAGACCATGG
7621342 CAACCTGATA
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
45 5 0.05
46 106 0.95
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:7621352 original size:29 final size:30
Alignment explanation
Indices: 7621306--7621371 Score: 116
Period size: 29 Copynumber: 2.2 Consensus size: 30
7621296 GTTGAAAGAT
7621306 ACCATGGCAACCTAATATGAAATGTGTAAG
1 ACCATGGCAACCTAATATGAAATGTGTAAG
*
7621336 A-CATGGCAACCTGATATGAAATGTGTAAG
1 ACCATGGCAACCTAATATGAAATGTGTAAG
7621365 ACCATGG
1 ACCATGG
7621372 TTGAAAGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (30 bp):
ACCATGGCAACCTAATATGAAATGTGTAAG
Found at i:7621397 original size:46 final size:46
Alignment explanation
Indices: 7621337--7621567 Score: 311
Period size: 46 Copynumber: 5.0 Consensus size: 46
7621327 ATGTGTAAGA
* *
7621337 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
1 CATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATAC
* *
7621383 CATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATAC
1 CATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATAC
* * *
7621429 CATGGCAACCTAACATGAAATGAGTAAGACCATGGTTGAAAGATAC
1 CATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATAC
*** *
7621475 CATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATAC
1 CATGGCAACATGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
* * *
7621522 CATGGCAACATGATA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CATGGCAACATGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
7621568 TATGACATCA
Statistics
Matches: 166, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 125 0.75
47 41 0.25
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
CATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATAC
Found at i:7621411 original size:75 final size:76
Alignment explanation
Indices: 7621260--7621417 Score: 255
Period size: 75 Copynumber: 2.1 Consensus size: 76
7621250 GTTGAAAGAT
* *
7621260 ACCATGGCAACGTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATG
1 ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATG
**
7621325 AAATGTGTAAG
66 AAATGAATAAG
* *
7621336 A-CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATG
1 ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATG
7621400 AAATGAATAAG
66 AAATGAATAAG
7621411 ACCATGG
1 ACCATGG
7621418 TTGAAAGATA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
75 69 0.92
76 6 0.08
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (76 bp):
ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATG
AAATGAATAAG
Found at i:7621430 original size:121 final size:122
Alignment explanation
Indices: 7621214--7621463 Score: 448
Period size: 121 Copynumber: 2.1 Consensus size: 122
7621204 GTTGAAAGAT
7621214 ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATG
1 ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATG
* ** * *
7621279 GAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAG
66 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTAACATGAAATGAGTAAG
7621336 A-CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATG
1 ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATG
7621400 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTAACATGAAATGAGTAAG
66 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTAACATGAAATGAGTAAG
7621457 ACCATGG
1 ACCATGG
7621464 TTGAAAGATA
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
121 116 0.95
122 6 0.05
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (122 bp):
ACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATG
AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTAACATGAAATGAGTAAG
Found at i:7621458 original size:167 final size:167
Alignment explanation
Indices: 7621179--7621483 Score: 529
Period size: 167 Copynumber: 1.8 Consensus size: 167
7621169 AGTGTGCTCT
* **
7621179 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
* * * * *
7621244 ACCATGGTTGAAAGATACCATGGCAACGTGATATGGAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTAACATGAAATGAGTAAGACCATGGTTGAAAGATACC
7621309 ATGGCAACCTAATATGAAATGTGTAAGACATGGCAAC
131 ATGGCAACCTAATATGAAATGTGTAAGACATGGCAAC
*
7621346 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
7621411 ACCATGGTTGAAAGATACCATGGCAACCTAACATGAAATGAGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTAACATGAAATGAGTAAGACCATGGTTGAAAGATACC
7621476 ATGGCAAC
131 ATGGCAAC
7621484 ATGACGGGAA
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
167 129 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (167 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
ACCATGGTTGAAAGATACCATGGCAACCTAACATGAAATGAGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTAATATGAAATGTGTAAGACATGGCAAC
Found at i:7621547 original size:93 final size:92
Alignment explanation
Indices: 7621337--7621567 Score: 338
Period size: 93 Copynumber: 2.5 Consensus size: 92
7621327 ATGTGTAAGA
* * * *
7621337 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAA
1 CATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAA
7621402 ATGAATAAGACCATGGTTGAAAGATAC
66 ATGAATAAGACCATGGTTGAAAGATAC
* * *
7621429 CATGGCAACCTAACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAA
1 CATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-A
7621494 AATGAATAAGACCATGGTTGAAAGATAC
65 AATGAATAAGACCATGGTTGAAAGATAC
* * * *
7621522 CATGGCAACATGATA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CATGGCAACCTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
7621568 TATGACATCA
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
92 57 0.46
93 67 0.54
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (92 bp):
CATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAA
ATGAATAAGACCATGGTTGAAAGATAC
Found at i:7625499 original size:17 final size:17
Alignment explanation
Indices: 7625477--7625512 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7625467 CTTAATATCG
*
7625477 AGCAATGCACAACGCCT
1 AGCAATCCACAACGCCT
*
7625494 AGCAATCCACAATGCCT
1 AGCAATCCACAACGCCT
7625511 AG
1 AG
7625513 ATTTCCTAAG
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:0.36, C:0.33, G:0.17, T:0.14
Consensus pattern (17 bp):
AGCAATCCACAACGCCT
Found at i:7628213 original size:43 final size:44
Alignment explanation
Indices: 7628145--7628249 Score: 101
Period size: 43 Copynumber: 2.4 Consensus size: 44
7628135 TCCTAGGCAA
*
7628145 GGTCTTATACG-AAATCAC-ATAACAATACCGATGTC-CTAGAAAT
1 GGTCTTATATGTAAA-CACAATAACAATACCGATGTCTC-AGAAAT
* * *
7628188 GGTCTTATATGTAAACACAAT-ACAATGCCTATGTCTCAGACAT
1 GGTCTTATATGTAAACACAATAACAATACCGATGTCTCAGAAAT
* * *
7628231 GATCTTACATGTAATCACA
1 GGTCTTATATGTAAACACA
7628250 TCCCGGTAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
43 46 0.88
44 6 0.12
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (44 bp):
GGTCTTATATGTAAACACAATAACAATACCGATGTCTCAGAAAT
Found at i:7629069 original size:29 final size:31
Alignment explanation
Indices: 7629037--7629099 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
7629027 ACTTAACAAG
7629037 CAAATG-ATTCTAAAATAA-AAAA-AAATTAA
1 CAAATGCATT-TAAAATAATAAAATAAATTAA
*
7629066 CAAATGCCTTTAAAATAATAAAATAAATTAA
1 CAAATGCATTTAAAATAATAAAATAAATTAA
7629097 CAA
1 CAA
7629100 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.47
30 6 0.20
31 10 0.33
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (31 bp):
CAAATGCATTTAAAATAATAAAATAAATTAA
Found at i:7629154 original size:11 final size:11
Alignment explanation
Indices: 7629136--7629175 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
7629126 ACAATAACAA
7629136 CAAAATAATAG
1 CAAAATAATAG
*
7629147 CAACATAATAG
1 CAAAATAATAG
* *
7629158 TAAAATAGTAG
1 CAAAATAATAG
7629169 CAAAATA
1 CAAAATA
7629176 TGGAGAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:7632149 original size:26 final size:26
Alignment explanation
Indices: 7632113--7632164 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
7632103 ATTTTCACAC
7632113 CAAATTGTGTTTTCACCATAGCATAA
1 CAAATTGTGTTTTCACCATAGCATAA
7632139 CAAATTGTGTTTTCACCATAGCATAA
1 CAAATTGTGTTTTCACCATAGCATAA
7632165 AAAGGCTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (26 bp):
CAAATTGTGTTTTCACCATAGCATAA
Found at i:7633284 original size:129 final size:129
Alignment explanation
Indices: 7633054--7633311 Score: 489
Period size: 129 Copynumber: 2.0 Consensus size: 129
7633044 AACTTTGGCC
7633054 CTCATAATTTCCATTAGTTGTTTGGAAAGCTCTGCTATCCCCTAATTATGAACCACAACCATTGC
1 CTCATAATTTCCATTAGTTGTTTGGAAAGCTCTGCTATCCCCTAATTATGAACCACAACCATTGC
*
7633119 CACTCTTTTTTCTTCCATTTGTCAGTTTCTTATAGAGCTTTCAACACGTTTCTCGAGTGTGCCA
66 CACTCTTTTTTCTTCCATTTGTCAGTTTCTTATAGAGCTTCCAACACGTTTCTCGAGTGTGCCA
* *
7633183 CTCATAATTTCCATTAGTTGTTTGGAAAGCTCTGCTATCCTCTAATTGTGAACCACAACCATTGC
1 CTCATAATTTCCATTAGTTGTTTGGAAAGCTCTGCTATCCCCTAATTATGAACCACAACCATTGC
7633248 CACTCTTTTTTCTTCCATTTGTCAGTTTCTTATAGAGCTTCCAACACGTTTCTCGAGTGTGCCA
66 CACTCTTTTTTCTTCCATTTGTCAGTTTCTTATAGAGCTTCCAACACGTTTCTCGAGTGTGCCA
7633312 ATATTTTTTG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.39
Consensus pattern (129 bp):
CTCATAATTTCCATTAGTTGTTTGGAAAGCTCTGCTATCCCCTAATTATGAACCACAACCATTGC
CACTCTTTTTTCTTCCATTTGTCAGTTTCTTATAGAGCTTCCAACACGTTTCTCGAGTGTGCCA
Found at i:7634366 original size:19 final size:19
Alignment explanation
Indices: 7634342--7634385 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
7634332 TTAGAATATG
*
7634342 AATAAAACTTATTTATCTA
1 AATAAAACTTATTTACCTA
*
7634361 AATAAAATTTATTTACCTA
1 AATAAAACTTATTTACCTA
7634380 AATAAA
1 AATAAA
7634386 TTTAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAAAACTTATTTACCTA
Found at i:7638097 original size:158 final size:158
Alignment explanation
Indices: 7637809--7638124 Score: 632
Period size: 158 Copynumber: 2.0 Consensus size: 158
7637799 AATGTTAAAA
7637809 TATGAACACATTACAATATATTTTCTATTCTTATCACCCTAGAACAATAATAAAATTTAAAAAAT
1 TATGAACACATTACAATATATTTTCTATTCTTATCACCCTAGAACAATAATAAAATTTAAAAAAT
7637874 ATATAGTACCTGGTCAGAATTAAGACGTATTAGTCCAATATATTTCATGTTAACTGTTAATGTGC
66 ATATAGTACCTGGTCAGAATTAAGACGTATTAGTCCAATATATTTCATGTTAACTGTTAATGTGC
7637939 CCCTGTCAACTTCTAACTCAATATTCAC
131 CCCTGTCAACTTCTAACTCAATATTCAC
7637967 TATGAACACATTACAATATATTTTCTATTCTTATCACCCTAGAACAATAATAAAATTTAAAAAAT
1 TATGAACACATTACAATATATTTTCTATTCTTATCACCCTAGAACAATAATAAAATTTAAAAAAT
7638032 ATATAGTACCTGGTCAGAATTAAGACGTATTAGTCCAATATATTTCATGTTAACTGTTAATGTGC
66 ATATAGTACCTGGTCAGAATTAAGACGTATTAGTCCAATATATTTCATGTTAACTGTTAATGTGC
7638097 CCCTGTCAACTTCTAACTCAATATTCAC
131 CCCTGTCAACTTCTAACTCAATATTCAC
7638125 ACTTTTTTCA
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (158 bp):
TATGAACACATTACAATATATTTTCTATTCTTATCACCCTAGAACAATAATAAAATTTAAAAAAT
ATATAGTACCTGGTCAGAATTAAGACGTATTAGTCCAATATATTTCATGTTAACTGTTAATGTGC
CCCTGTCAACTTCTAACTCAATATTCAC
Found at i:7643460 original size:28 final size:28
Alignment explanation
Indices: 7643420--7643474 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
7643410 CAATACAAAG
7643420 TTAAATTATATTCTTTATTCAGTTAATT
1 TTAAATTATATTCTTTATTCAGTTAATT
7643448 TTAAATTATATTCTTTATTCAGTTAAT
1 TTAAATTATATTCTTTATTCAGTTAAT
7643475 ACTATTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (28 bp):
TTAAATTATATTCTTTATTCAGTTAATT
Found at i:7644293 original size:6 final size:6
Alignment explanation
Indices: 7644282--7644310 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7644272 GTTCTCCCCA
7644282 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
7644311 CCAACATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:7647985 original size:120 final size:120
Alignment explanation
Indices: 7647847--7648139 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 120
7647837 AATTATTTTA
* * * *
7647847 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
7647910 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
7647967 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
7648032 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
7648087 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
7648140 TAAATATGAT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 4 0.02
120 159 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:7648007 original size:15 final size:15
Alignment explanation
Indices: 7647972--7648013 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7647962 TTAAGAATTT
*
7647972 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7647986 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7648000 TATTTAATAATAAT
1 TATTTAATTATAAT
7648014 TATGTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7648122 original size:16 final size:16
Alignment explanation
Indices: 7648101--7648142 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7648091 TTATTAAATT
*
7648101 ATATATTTTAATTATA
1 ATATATTTTAATAATA
7648117 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
7648132 AT-TATGTTTAA
1 ATATAT-TTTAA
7648143 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:7648127 original size:15 final size:15
Alignment explanation
Indices: 7648092--7648133 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7648082 TTAAGAATTT
*
7648092 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7648106 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7648120 TATTTAATAATAAT
1 TATTTAATTATAAT
7648134 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7648283 original size:157 final size:157
Alignment explanation
Indices: 7648076--7648359 Score: 516
Period size: 157 Copynumber: 1.8 Consensus size: 157
7648066 ATAAGAATAT
*
7648076 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
7648141 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
7648206 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTCTGC
7648233 TAATTA-TAAGAATTTTATTAAATTATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
7648297 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAA
7648360 TCATTTACCA
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
156 25 0.20
157 97 0.80
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGC
Found at i:7648503 original size:44 final size:45
Alignment explanation
Indices: 7648438--7648528 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
7648428 ACCTCTATTC
* * *
7648438 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
7648482 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
7648527 CA
1 CA
7648529 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:7648530 original size:16 final size:16
Alignment explanation
Indices: 7648509--7648577 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
7648499 GATTAGCTAT
7648509 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7648525 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
7648542 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7648558 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7648574 TACA
1 TACA
7648578 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7648551 original size:33 final size:32
Alignment explanation
Indices: 7648509--7648577 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
7648499 GATTAGCTAT
7648509 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
7648542 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
7648574 TACA
1 TACA
7648578 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:7649062 original size:92 final size:90
Alignment explanation
Indices: 7648937--7649127 Score: 240
Period size: 92 Copynumber: 2.1 Consensus size: 90
7648927 TTTAAAAAAT
*
7648937 AATTAAGTCCCTCTCCTTTTTTTTGCACTCAATTGAGCAATTGAACTTTCAAAATGCATCAAAAA
1 AATTAAG-CCCTCTCCTTTTTTTTCCACTCAATTGAGCAATTGAACTTTCAAAATGCATCAAAAA
* **
7649002 GGCCCCCAAACTTCTTTAAAAAAAAGA
65 GACCCCCAAAAAT-TTTAAAAAAAAGA
* * * *
7649029 AATTAAGCCCT-TGCCTCTTTTTTTCCACTCAATTGGGTACTTGAGCTTTCAAAATGCATCAAAA
1 AATTAAGCCCTCT-CCT-TTTTTTTCCACTCAATTGAGCAATTGAACTTTCAAAATGCATCAAAA
* * *
7649093 AGACCCTCAAAAATTTTCAAAAAAAGC
64 AGACCCCCAAAAATTTTAAAAAAAAGA
7649120 AATTAAGC
1 AATTAAGC
7649128 TCCTGCTCTT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
90 1 0.01
91 26 0.30
92 59 0.69
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (90 bp):
AATTAAGCCCTCTCCTTTTTTTTCCACTCAATTGAGCAATTGAACTTTCAAAATGCATCAAAAAG
ACCCCCAAAAATTTTAAAAAAAAGA
Found at i:7649454 original size:10 final size:10
Alignment explanation
Indices: 7649441--7649520 Score: 55
Period size: 10 Copynumber: 8.5 Consensus size: 10
7649431 CTTTATAAAA
7649441 TTTTATAATT
1 TTTTATAATT
7649451 TTTT-T-ATAT
1 TTTTATAAT-T
* *
7649460 TTCTAT-ATA
1 TTTTATAATT
7649469 TTTTATAATT
1 TTTTATAATT
*
7649479 TTTTATGA-T
1 TTTTATAATT
7649488 TTTTAT-A-T
1 TTTTATAATT
*
7649496 TTTTCTAATT
1 TTTTATAATT
* *
7649506 TTTAATAAAT
1 TTTTATAATT
7649516 TTTTA
1 TTTTA
7649521 ATATTTTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
8 9 0.16
9 18 0.33
10 28 0.51
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:7649474 original size:17 final size:18
Alignment explanation
Indices: 7649451--7649498 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
7649441 TTTTATAATT
7649451 TTTTTATATTTCTATAT-A
1 TTTTTATATTT-TATATGA
*
7649469 -TTTTATAATTTTTTATGA
1 TTTTTAT-ATTTTATATGA
7649487 TTTTTATATTTT
1 TTTTTATATTTT
7649499 TCTAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.38
18 10 0.38
19 6 0.23
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTATATTTTATATGA
Found at i:7649479 original size:28 final size:28
Alignment explanation
Indices: 7649440--7649534 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
7649430 ACTTTATAAA
*
7649440 ATTTTATAATTTTTTTATATTTCTATAT
1 ATTTTATAATTTTTTTATATTTTTATAT
7649468 ATTTTATAA-TTTTTTATGATTTTTATAT
1 ATTTTATAATTTTTTTAT-ATTTTTATAT
* * *
7649496 -TTTTCTAATTTTTAATAAATTTTTA-AT
1 ATTTTATAATTTTT-TTATATTTTTATAT
7649523 ATTTTA-AATTTT
1 ATTTTATAATTTT
7649535 ATTAAGTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 23 0.40
28 33 0.57
29 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (28 bp):
ATTTTATAATTTTTTTATATTTTTATAT
Found at i:7649481 original size:9 final size:9
Alignment explanation
Indices: 7649441--7649556 Score: 71
Period size: 9 Copynumber: 12.8 Consensus size: 9
7649431 CTTTATAAAA
7649441 TTTTATAAT
1 TTTTATAAT
*
7649450 TTTTTTATAT
1 TTTTATA-AT
*
7649460 TTCTAT-AT
1 TTTTATAAT
7649468 ATTTTATAATT
1 -TTTTATAA-T
*
7649479 TTTTATGAT
1 TTTTATAAT
7649488 TTTTAT-AT
1 TTTTATAAT
*
7649496 TTTTCTAAT
1 TTTTATAAT
*
7649505 TTTTAATAAA
1 TTTT-ATAAT
7649515 TTTT-TAAT
1 TTTTATAAT
7649523 ATTTTA-AA-
1 -TTTTATAAT
*
7649531 TTTTATTAAG
1 TTTTA-TAAT
*
7649541 TTTAATAAT
1 TTTTATAAT
*
7649550 ATTTATA
1 TTTTATA
7649557 GCTTTAATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
7 5 0.06
8 12 0.14
9 40 0.48
10 25 0.30
11 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:7649499 original size:19 final size:18
Alignment explanation
Indices: 7649441--7649509 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
7649431 CTTTATAAAA
* *
7649441 TTTTATAATTTTTTTATAT
1 TTTTAT-ATTTTTATATTT
* *
7649460 TTCTATATATTTTATAATT
1 TTTTATAT-TTTTATATTT
7649479 TTTTATGATTTTTATATTT
1 TTTTAT-ATTTTTATATTT
*
7649498 TTCTA-ATTTTTA
1 TTTTATATTTTTA
7649510 ATAAATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 7 0.17
18 2 0.05
19 30 0.73
20 2 0.05
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (18 bp):
TTTTATATTTTTATATTT
Found at i:7649506 original size:17 final size:18
Alignment explanation
Indices: 7649448--7649509 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
7649438 AAATTTTATA
* *
7649448 ATTTTTTTATATTTCTAT
1 ATTTTTATATTTTTCTAT
7649466 ATATTTTATAATTTTT-TAT
1 AT-TTTTAT-ATTTTTCTAT
7649485 GATTTTTATATTTTTCTA-
1 -ATTTTTATATTTTTCTAT
7649503 ATTTTTA
1 ATTTTTA
7649510 ATAAATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 7 0.18
18 8 0.21
19 16 0.42
20 7 0.18
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTTTTATATTTTTCTAT
Found at i:7649528 original size:36 final size:37
Alignment explanation
Indices: 7649415--7649534 Score: 97
Period size: 38 Copynumber: 3.2 Consensus size: 37
7649405 TTACATTTTG
* *
7649415 TATAGTTTTCT-TATGACTTTATAAAATTTTATAAT-TTT
1 TATATTTTTCTATAT-ATTTTAT-AAATTTT-TAATATTT
* * *
7649453 TTTATATTTCTATATATTTTAT-AATTTTTTATGATTTT
1 TATATTTTTCTATATATTTTATAAATTTTTAAT-A-TTT
7649491 TATATTTTTCTA-AT-TTTTAATAAATTTTTAATATTT
1 TATATTTTTCTATATATTTT-ATAAATTTTTAATATTT
*
7649527 TAAATTTT
1 TATATTTT
7649535 ATTAAGTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
35 3 0.04
36 20 0.30
37 5 0.07
38 36 0.54
39 3 0.04
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (37 bp):
TATATTTTTCTATATATTTTATAAATTTTTAATATTT
Found at i:7651807 original size:39 final size:40
Alignment explanation
Indices: 7651725--7651807 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
7651715 AATTGGTAGG
* * * *
7651725 TTAAAATTATAAATATATAAAAAGTGTTAAGGAGATTTGA
1 TTAAAATTAGAAACATATAAAAAGAGTTAAGGAGATTTAA
*
7651765 TTAAAATTAGATACATATAAAAAGAG-TAAGGAGATTTAA
1 TTAAAATTAGAAACATATAAAAAGAGTTAAGGAGATTTAA
7651804 TTAA
1 TTAA
7651808 CACCCAATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 16 0.42
40 22 0.58
ACGTcount: A:0.52, C:0.01, G:0.14, T:0.33
Consensus pattern (40 bp):
TTAAAATTAGAAACATATAAAAAGAGTTAAGGAGATTTAA
Found at i:7653481 original size:18 final size:18
Alignment explanation
Indices: 7653431--7653505 Score: 78
Period size: 18 Copynumber: 4.0 Consensus size: 18
7653421 TTTCATTTAA
*
7653431 TTTTTTCCATTTAAATTT
1 TTTTTTTCATTTAAATTT
*
7653449 ATTTATTTCTCATTTCAATTT
1 -TTT-TTT-TCATTTAAATTT
* *
7653470 TTTTTTTCATTTCAGTTT
1 TTTTTTTCATTTAAATTT
*
7653488 TTGTTTTCATTTAAATTT
1 TTTTTTTCATTTAAATTT
7653506 ATAATTTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
18 26 0.54
19 6 0.12
20 6 0.12
21 10 0.21
ACGTcount: A:0.20, C:0.11, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTTTCATTTAAATTT
Found at i:7653538 original size:17 final size:18
Alignment explanation
Indices: 7653492--7653557 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 18
7653482 CAGTTTTTGT
*
7653492 TTTCATTTAAATTTATAA
1 TTTCATTTACATTTATAA
*
7653510 TTT-ATTTCCATTTA-AA
1 TTTCATTTACATTTATAA
7653526 CTTTCATTT-CATTTCAT-A
1 -TTTCATTTACATTT-ATAA
7653544 -TTCATTTATCATTT
1 TTTCATTTA-CATTT
7653558 CATTTCATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
16 9 0.22
17 17 0.43
18 14 0.35
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTCATTTACATTTATAA
Found at i:7653555 original size:23 final size:23
Alignment explanation
Indices: 7653527--7653590 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 23
7653517 CCATTTAAAC
7653527 TTTCATTTCATTTCATATTCAT-
1 TTTCATTTCATTTCATATTCATA
7653549 TTATCATTTCATTTCATATTCATA
1 TT-TCATTTCATTTCATATTCATA
7653573 TTTCATTTAACATTTCAT
1 TTTCATTT--CATTTCAT
7653591 TTTATTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.05
23 26 0.68
24 2 0.05
25 8 0.21
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTCATTTCATTTCATATTCATA
Found at i:7653557 original size:18 final size:19
Alignment explanation
Indices: 7653534--7653580 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
7653524 AACTTTCATT
7653534 TCATTTCATATTCAT-TT-A
1 TCATTTCAT-TTCATATTCA
7653552 TCATTTCATTTCATATTCA
1 TCATTTCATTTCATATTCA
7653571 T-ATTTCATTT
1 TCATTTCATTT
7653581 AACATTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.19
18 20 0.74
19 2 0.07
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (19 bp):
TCATTTCATTTCATATTCA
Found at i:7653572 original size:6 final size:5
Alignment explanation
Indices: 7653527--7653592 Score: 60
Period size: 5 Copynumber: 11.6 Consensus size: 5
7653517 CCATTTAAAC
7653527 TTTCA TTTCA TTTCA TATTCA TTTATCA TTTCA TTTCA TATTCATA TTTCA
1 TTTCA TTTCA TTTCA T-TTCA -TT-TCA TTTCA TTTCA T-TTC--A TTTCA
7653578 TTTAACA TTTCA TTT
1 TTT--CA TTTCA TTT
7653593 TATTAATTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
5 29 0.55
6 10 0.19
7 12 0.23
8 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.58
Consensus pattern (5 bp):
TTTCA
Found at i:7653580 original size:30 final size:28
Alignment explanation
Indices: 7653518--7653592 Score: 107
Period size: 30 Copynumber: 2.6 Consensus size: 28
7653508 AATTTATTTC
7653518 CATTTAA-ACTTTCATTTCATTTCATATT
1 CATTTAACA-TTTCATTTCATTTCATATT
*
7653546 CATTTATCATTTCATTTCATATTCATATTT
1 CATTTAACATTTCATTTCAT-TTCATA-TT
7653576 CATTTAACATTTCATTT
1 CATTTAACATTTCATTT
7653593 TATTAATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 17 0.40
29 7 0.17
30 18 0.43
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (28 bp):
CATTTAACATTTCATTTCATTTCATATT
Found at i:7653648 original size:17 final size:17
Alignment explanation
Indices: 7653593--7653652 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
7653583 CATTTCATTT
7653593 TATTAATTTTTTCATTTAA
1 TATTAATTTTTTC--TTAA
*
7653612 -ATTTATTTTTTTCTTAA
1 TA-TTAATTTTTTCTTAA
*
7653629 TATATAATTTTTT-TTCA
1 TAT-TAATTTTTTCTTAA
7653646 TATTAAT
1 TATTAAT
7653653 CACAACTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
16 4 0.11
17 11 0.31
18 10 0.29
19 10 0.29
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTAATTTTTTCTTAA
Found at i:7653961 original size:5 final size:5
Alignment explanation
Indices: 7653951--7654022 Score: 56
Period size: 5 Copynumber: 13.6 Consensus size: 5
7653941 TCTTTCTTTT
* * * *
7653951 TTTCA TTTCA TTTC- TTCCC TTTCA TTTCA TTTGTAA TTCCA TTTCCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA -TT-TCA TTTCA TTT-CA
7653998 TTTCCA TTTCCA TTTCA TTTCA TTT
1 TTT-CA TTT-CA TTTCA TTTCA TTT
7654023 AAATTATTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
4 3 0.05
5 30 0.54
6 21 0.38
7 2 0.04
ACGTcount: A:0.17, C:0.25, G:0.01, T:0.57
Consensus pattern (5 bp):
TTTCA
Found at i:7653998 original size:6 final size:6
Alignment explanation
Indices: 7653987--7654022 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
7653977 TCATTTGTAA
7653987 TTCCAT TTCCAT TTCCAT TTCCAT TT-CAT TT-CAT TT
1 TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TT
7654023 AAATTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (6 bp):
TTCCAT
Found at i:7654040 original size:23 final size:20
Alignment explanation
Indices: 7654010--7654063 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
7654000 TCCATTTCCA
7654010 TTTCATTTCATTTAAATTATTT
1 TTTCATTTCATTT-AATTA-TT
*
7654032 TTTCTATTTAAATTTAATTATT
1 TTTC-ATTT-CATTTAATTATT
7654054 TTTCATTTCA
1 TTTCATTTCA
7654064 AAATTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 1 0.04
21 4 0.14
22 10 0.36
23 9 0.32
24 4 0.14
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCATTTCATTTAATTATT
Found at i:7654181 original size:12 final size:12
Alignment explanation
Indices: 7654164--7654217 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
7654154 TTATTTCATA
7654164 TTCATTTAACAT
1 TTCATTTAACAT
7654176 TTCATTT--CAT
1 TTCATTTAACAT
* **
7654186 TTCATATTCATGT
1 TTCAT-TTAACAT
7654199 TTCATTTAACAT
1 TTCATTTAACAT
7654211 TTCATTT
1 TTCATTT
7654218 CAATAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 8 0.24
11 2 0.06
12 18 0.53
13 6 0.18
ACGTcount: A:0.26, C:0.17, G:0.02, T:0.56
Consensus pattern (12 bp):
TTCATTTAACAT
Found at i:7654204 original size:28 final size:28
Alignment explanation
Indices: 7654149--7654219 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
7654139 TTCATAATCA
*
7654149 TCATTTTATTTCATATTCATTTAACATT
1 TCATTTCATTTCATATTCATTTAACATT
*
7654177 TCATTTCATTTCATATTCATGTT-TCATT
1 TCATTTCATTTCATATTCAT-TTAACATT
7654205 TAACATTTCATTTCA
1 T--CATTTCATTTCA
7654220 ATAATTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 24 0.63
29 2 0.05
30 12 0.32
ACGTcount: A:0.27, C:0.17, G:0.01, T:0.55
Consensus pattern (28 bp):
TCATTTCATTTCATATTCATTTAACATT
Found at i:7654215 original size:47 final size:46
Alignment explanation
Indices: 7654116--7654217 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 46
7654106 TATAATTTAT
*
7654116 TTTCATTTAAACTTTCATTCCATTTCATAATCATCATTTTATTTCA
1 TTTCATTTAAACTTTCATTCCATTTCATAATCATCATTTCATTTCA
* * *
7654162 TATTCATTT-AACATTTCATTTCATTTCATATTCAT-GTTTCATTTAACA
1 T-TTCATTTAAAC-TTTCATTCCATTTCATAATCATCATTTCATTT--CA
7654210 TTTCATTT
1 TTTCATTT
7654218 CAATAATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
46 11 0.23
47 34 0.71
48 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.01, T:0.54
Consensus pattern (46 bp):
TTTCATTTAAACTTTCATTCCATTTCATAATCATCATTTCATTTCA
Found at i:7654233 original size:18 final size:19
Alignment explanation
Indices: 7654210--7654249 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
7654200 TCATTTAACA
7654210 TTTCATTTCAA-TAATTTT
1 TTTCATTTCAATTAATTTT
*
7654228 TTTCATTTCAATTTATTTT
1 TTTCATTTCAATTAATTTT
7654247 TTT
1 TTT
7654250 TCTAATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCATTTCAATTAATTTT
Found at i:7654237 original size:5 final size:5
Alignment explanation
Indices: 7654128--7654219 Score: 62
Period size: 5 Copynumber: 17.0 Consensus size: 5
7654118 TCATTTAAAC
* * *
7654128 TTTCA TTCCA TTTCA TAATCA --TCA TTTTA TTTCA TATTCA TTTAACA
1 TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA T-TTCA TTT--CA
7654175 TTTCA TTTCA TTTCA TATTCA TGTTTCA TTTAACA TTTCA TTTCA
1 TTTCA TTTCA TTTCA T-TTCA --TTTCA TTT--CA TTTCA TTTCA
7654220 ATAATTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 22
0.72 0.05 0.22
Matches are distributed among these distances:
3 3 0.04
5 41 0.58
6 12 0.17
7 14 0.20
8 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.01, T:0.53
Consensus pattern (5 bp):
TTTCA
Found at i:7654237 original size:35 final size:33
Alignment explanation
Indices: 7654136--7654242 Score: 90
Period size: 35 Copynumber: 3.0 Consensus size: 33
7654126 ACTTTCATTC
*
7654136 CATTTCATAATCATCATTTTATTTCATATTCATTTAA
1 CATTTCAT-TTCAT-ATTTT-TTTCAT-TTCATTTAA
* *
7654173 CATTTCATTTCAT-TTCATATTCATGTTTCATTTAA
1 CATTTCATTTCATATT-TTTTTCA--TTTCATTTAA
7654208 CATTTCATTTCAATAATTTTTTTCATTTCAATTTA
1 CATTTCATTTC-AT-ATTTTTTTCATTTC-ATTTA
7654243 TTTTTTTTCT
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
34 6 0.10
35 25 0.43
36 12 0.21
37 13 0.22
38 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.01, T:0.54
Consensus pattern (33 bp):
CATTTCATTTCATATTTTTTTCATTTCATTTAA
Found at i:7654349 original size:11 final size:11
Alignment explanation
Indices: 7654321--7654354 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7654311 CAATTCAATT
7654321 TTTTTTTCA-A
1 TTTTTTTCATA
*
7654331 TTTATTTCATA
1 TTTTTTTCATA
7654342 TTTTTTTCATA
1 TTTTTTTCATA
7654353 TT
1 TT
7654355 AATTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTTTTCATA
Found at i:7654718 original size:22 final size:24
Alignment explanation
Indices: 7654638--7654954 Score: 132
Period size: 26 Copynumber: 13.2 Consensus size: 24
7654628 CATTTCTTCA
* *
7654638 ATTTCATTT-AATT-TGTATTTCC
1 ATTTCATTTAAATTATCTTTTTCC
7654660 ATTTCATTTAAATTATCTTTATTCCC
1 ATTTCATTTAAATTATCTTT-TT-CC
* *
7654686 ATTTTAATTT-AATT-T-TTTTTGTC
1 A-TTTCATTTAAATTATCTTTTT-CC
*
7654709 ATTTCATTTAAATTATTTTTTTCC
1 ATTTCATTTAAATTATCTTTTTCC
* * *
7654733 ATTTAAATCT-AA-T-T-TTGTTCTC
1 ATTT-CATTTAAATTATCTTTTTC-C
*
7654755 AGTTCATTTAAATTATCTTTCTTCCC
1 ATTTCATTTAAATTATCTTT-TT-CC
* * *
7654781 ATCTTAATTTAAATT-T-TTTATCTT
1 AT-TTCATTTAAATTATCTTTTTC-C
* *
7654805 ATTTCATTTAAATTATTTTTTTCA
1 ATTTCATTTAAATTATCTTTTTCC
* * *
7654829 ATTTAAATTT-AATT-T-TTGTCCTC
1 ATTT-CATTTAAATTATCTTTTTC-C
*
7654852 ATTTCATTCAAATTATC--TTT-C
1 ATTTCATTTAAATTATCTTTTTCC
* *
7654873 -TTTCCATTTTAATTTATTTTTTTCTC
1 ATTT-CA-TTTAAATTATCTTTTTC-C
7654899 ATTTCATTTAAATTTAAT-TTTTTCTC
1 ATTTCATTTAAA-TT-ATCTTTTTC-C
*
7654925 TTTTCATTTAAATTATCTTTCTTTCC
1 ATTTCATTTAAATTATC-TT-TTTCC
7654951 ATTT
1 ATTT
7654955 TAATTTACGT
Statistics
Matches: 223, Mismatches: 35, Indels: 70
0.68 0.11 0.21
Matches are distributed among these distances:
20 3 0.01
21 11 0.05
22 38 0.17
23 36 0.16
24 33 0.15
25 32 0.14
26 42 0.19
27 28 0.13
ACGTcount: A:0.25, C:0.14, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTCATTTAAATTATCTTTTTCC
Found at i:7654767 original size:95 final size:96
Alignment explanation
Indices: 7654662--7654922 Score: 375
Period size: 96 Copynumber: 2.7 Consensus size: 96
7654652 GTATTTCCAT
* *
7654662 TTCATTTAAATTATCTTTATTCCCATTTTAATTTAATTTTTTTTGTCATTTCATTTAAATTATTT
1 TTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTTCTCATTTCATTTAAATTATTT
* *
7654727 TTTTCCATTTAAATCTAA-TTTTGTTCTCAG
66 TTTTCAATTTAAATCTAATTTTTGTCCTCAG
* * *
7654757 TTCATTTAAATTATCTTTCTTCCCATCTTAATTTAAATTTTTTATCTTATTTCATTTAAATTATT
1 TTCATTTAAATTATCTTTCTTCCCATTTTAATTT-AATTTTTTTTCTCATTTCATTTAAATTATT
* *
7654822 TTTTTCAATTTAAATTTAATTTTTGTCCTCAT
65 TTTTTCAATTTAAATCTAATTTTTGTCCTCAG
* * *
7654854 TTCATTCAAATTATCTTTCTTTCCATTTTAATTT-A-TTTTTTTCTCATTTCATTTAAATTTAAT
1 TTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTTCTCATTTCATTTAAA-TTATT
7654917 TTTTTC
65 TTTTTC
7654923 TCTTTTCATT
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
94 20 0.14
95 43 0.29
96 44 0.30
97 41 0.28
ACGTcount: A:0.25, C:0.13, G:0.02, T:0.60
Consensus pattern (96 bp):
TTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTTCTCATTTCATTTAAATTATTT
TTTTCAATTTAAATCTAATTTTTGTCCTCAG
Found at i:7654820 original size:19 final size:19
Alignment explanation
Indices: 7654798--7654837 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7654788 TTTAAATTTT
7654798 TTATCTTATTTC-ATTTAAA
1 TTAT-TTATTTCAATTTAAA
*
7654817 TTATTTTTTTCAATTTAAA
1 TTATTTATTTCAATTTAAA
7654836 TT
1 TT
7654838 TAATTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTTATTTCAATTTAAA
Found at i:7654827 original size:96 final size:95
Alignment explanation
Indices: 7654662--7654922 Score: 373
Period size: 95 Copynumber: 2.7 Consensus size: 95
7654652 GTATTTCCAT
* *
7654662 TTCATTTAAATTATCTTTATTCCCATTTTAATTTAATTTTTTTTGTCATTTCATTTAAATTATTT
1 TTCATTTAAATTATCTTTCTTCCCATTTTAATTTAA-TTTTTTTCTCATTTCATTTAAATTATTT
* *
7654727 TTTTCCATTTAAATCTAA-TTTTGTTCTCAG
65 TTTTCAATTTAAATCTAATTTTTGTCCTCAG
* *
7654757 TTCATTTAAATTATCTTTCTTCCCATCTTAATTTAAATTTTTTATCTTATTTCATTTAAATTATT
1 TTCATTTAAATTATCTTTCTTCCCATTTTAATTT-AATTTTTT-TCTCATTTCATTTAAATTATT
* *
7654822 TTTTTCAATTTAAATTTAATTTTTGTCCTCAT
64 TTTTTCAATTTAAATCTAATTTTTGTCCTCAG
* * *
7654854 TTCATTCAAATTATCTTTCTTTCCATTTTAATTT-ATTTTTTTCTCATTTCATTTAAATTTAATT
1 TTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAA-TTATTT
7654918 TTTTC
65 TTTTC
7654923 TCTTTTCATT
Statistics
Matches: 149, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
94 15 0.10
95 55 0.37
96 38 0.26
97 41 0.28
ACGTcount: A:0.25, C:0.13, G:0.02, T:0.60
Consensus pattern (95 bp):
TTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATTTT
TTTCAATTTAAATCTAATTTTTGTCCTCAG
Found at i:7654858 original size:47 final size:48
Alignment explanation
Indices: 7654643--7654912 Score: 311
Period size: 47 Copynumber: 5.6 Consensus size: 48
7654633 CTTCAATTTC
* * *
7654643 ATTTAATTTGTATTTC-CATTTCATTTAAATTATCTTTATTCCCATTTTA
1 ATTTAATTT-T-TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAA
*
7654692 ATTTAATTTTTTTTGTCATTTCATTTAAATTAT-TTT-TTTCCATTTAA
1 ATTTAA-TTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAA
* * * *
7654739 ATCTAATTTTGTTCTCAGTTCATTTAAATTATCTTTCTTCCCATCTT-A
1 ATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCAT-TTAA
* *
7654787 ATTTAAATTTTTTATCTTATTTCATTTAAATTAT-TTT-TTTCAATTTAA
1 ATTT-AATTTTTT-TCTCATTTCATTTAAATTATCTTTCTTTCCATTTAA
* * *
7654835 ATTTAATTTTTGTCCTCATTTCATTCAAATTATCTTTCTTTCCATTTTA
1 ATTTAATTTTT-TTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAA
7654884 ATTT-ATTTTTTTCTCATTTCATTTAAATT
1 ATTTAATTTTTTTCTCATTTCATTTAAATT
7654913 TAATTTTTTC
Statistics
Matches: 189, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
46 23 0.12
47 60 0.32
48 36 0.19
49 49 0.26
50 21 0.11
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.59
Consensus pattern (48 bp):
ATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAA
Found at i:7654947 original size:21 final size:22
Alignment explanation
Indices: 7654853--7654959 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 22
7654843 TTTGTCCTCA
*
7654853 TTTCATTCAAATTA-TCTTTCT
1 TTTCATTTAAATTATTCTTTCT
* * *
7654874 TTCCATTTTAATTTATTTTTTTCT
1 TTTCA-TTTAAATTA-TTCTTTCT
*
7654898 CATTTCATTTAAATTTAATTTTTTCTCT
1 --TTTCATTTAAA-TT-A-TTCTT-TCT
7654926 TTTCATTTAAATTA-TCTTTCT
1 TTTCATTTAAATTATTCTTTCT
* *
7654947 TTCCATTTTAATT
1 TTTCATTTAAATT
7654960 TACGTTTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
21 18 0.26
22 10 0.14
24 7 0.10
25 7 0.10
26 17 0.25
27 7 0.10
28 3 0.04
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTCATTTAAATTATTCTTTCT
Found at i:7654953 original size:73 final size:77
Alignment explanation
Indices: 7654824--7654971 Score: 241
Period size: 73 Copynumber: 2.0 Consensus size: 77
7654814 AAATTATTTT
7654824 TTTCAATTTAAATTTAATTTTTGTCCTCATTTCATTCAAATTATCTTTCTTTCCATTTTAATTTA
1 TTTCAATTTAAATTTAATTTTTGTCCTCATTTCATTCAAATTATCTTTCTTTCCATTTTAATTTA
7654889 -TTTTTTTCTCA
66 CTTTTTTTCTCA
* *
7654900 TTTC-ATTTAAATTTAATTTTT-T-CTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTA
1 TTTCAATTTAAATTTAATTTTTGTCCTCATTTCATTCAAATTATCTTTCTTTCCATTTTAATTTA
7654962 CGTTTTTTTC
66 C-TTTTTTTC
7654972 ATATTAATTT
Statistics
Matches: 68, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
73 38 0.56
74 1 0.01
75 25 0.37
76 4 0.06
ACGTcount: A:0.22, C:0.15, G:0.01, T:0.61
Consensus pattern (77 bp):
TTTCAATTTAAATTTAATTTTTGTCCTCATTTCATTCAAATTATCTTTCTTTCCATTTTAATTTA
CTTTTTTTCTCA
Found at i:7655725 original size:21 final size:21
Alignment explanation
Indices: 7655714--7655755 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7655704 CGTGTGGTCT
7655714 AGGGACACGCCCGTGTGACCC
1 AGGGACACGCCCGTGTGACCC
7655735 AGGGACACGCCCGTGTGACCC
1 AGGGACACGCCCGTGTGACCC
7655756 TTAGACATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.38, G:0.33, T:0.10
Consensus pattern (21 bp):
AGGGACACGCCCGTGTGACCC
Found at i:7658814 original size:25 final size:25
Alignment explanation
Indices: 7658744--7658814 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
7658734 CAGCTCTCTT
* *
7658744 GAGCTTCTCGATATTTGGCTCACAA
1 GAGCTTCCCGATATATGGCTCACAA
** * *
7658769 GAGCTTCCCGATATACAGCTCATAT
1 GAGCTTCCCGATATATGGCTCACAA
7658794 GAGCTTCCC-ATTATATGGCTC
1 GAGCTTCCCGA-TATATGGCTC
7658815 GAAAAAGCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCACAA
Found at i:7660027 original size:3 final size:3
Alignment explanation
Indices: 7660021--7660166 Score: 59
Period size: 3 Copynumber: 47.0 Consensus size: 3
7660011 ATAACATGAC
* * * * *
7660021 AAT AAT AAT AAC AGT AGT AAT AAAT AAAT AAAT AAT GAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT AAT AAT AAT AAT AAT
* * * *
7660069 AAT AGT AAAT AA- AAT AA- AGAT AA- AATT AAT AAT GAT AGT AACG AAT
1 AAT AAT -AAT AAT AAT AAT A-AT AAT AA-T AAT AAT AAT AAT AA-T AAT
* * *
7660115 -AT AAAT AAT AAT AGT AAA AAT AAT AAT AAT GAT AAT ACA- AATT AAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT
7660161 AAT AAT
1 AAT AAT
7660167 GATGATATAA
Statistics
Matches: 108, Mismatches: 22, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
2 8 0.07
3 77 0.71
4 23 0.21
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:7660100 original size:30 final size:28
Alignment explanation
Indices: 7660038--7660101 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
7660028 ATAACAGTAG
*
7660038 TAATAA-ATAAATAAATAATGATAATAA
1 TAATAATATAAATAAATAAAGATAATAA
*
7660065 AAATAATAGTAAATAAAATAAAGATAA-AA
1 TAATAATA-TAAAT-AAATAAAGATAATAA
7660094 TTAATAAT
1 -TAATAAT
7660102 GATAGTAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.17
28 1 0.03
29 7 0.23
30 17 0.57
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (28 bp):
TAATAATATAAATAAATAAAGATAATAA
Found at i:7660167 original size:22 final size:21
Alignment explanation
Indices: 7660038--7660169 Score: 90
Period size: 22 Copynumber: 6.0 Consensus size: 21
7660028 ATAACAGTAG
*
7660038 TAATAAATA-AATAAATAATGA
1 TAATAAAAATAAT-AATAATGA
*
7660059 TAATAAAAATAATAGTAAAT-A
1 TAATAAAAATAATAAT-AATGA
* *
7660080 AAATAAAGATAAAATTAATAATGA
1 TAATAAA-A-ATAA-TAATAATGA
* * *
7660104 TAGTAACGAAT-ATAAATAATAA
1 TAATAA-AAATAAT-AATAATGA
*
7660126 TAGTAAAAATAATAATAATGA
1 TAATAAAAATAATAATAATGA
*
7660147 TAATACAAATTAATAATAATGA
1 TAATA-AAAATAATAATAATGA
7660169 T
1 T
7660170 GATATAAGTA
Statistics
Matches: 87, Mismatches: 14, Indels: 19
0.73 0.12 0.16
Matches are distributed among these distances:
21 32 0.37
22 39 0.45
23 7 0.08
24 9 0.10
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.29
Consensus pattern (21 bp):
TAATAAAAATAATAATAATGA
Found at i:7660305 original size:3 final size:3
Alignment explanation
Indices: 7660297--7660495 Score: 67
Period size: 3 Copynumber: 66.7 Consensus size: 3
7660287 GGTAGAAAAG
* * * *
7660297 ATA ATA ATA ACGTA CTA ATA AGA ATA ATA AT- ATA ATA ATA ATT ATGG
1 ATA ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * *
7660344 A-A ATA ATA ATA ATA AT- ATT TTAA ATA A-G ATA ATA ATA ATA GAT-
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA -ATA
* * * * * * * *
7660387 AGA AT- GTA GTA GTA ATA AT- ATG TTA ATA A-A AGTA AGA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* * *
7660430 ATA ATA AAA ATA AAA ATA ATA GTA A-A TATA ATA A-A TATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA
* *
7660475 AAA GATA ATA ATA AAA ATA AT
1 ATA -ATA ATA ATA ATA ATA AT
7660496 TAATTGGAAA
Statistics
Matches: 144, Mismatches: 33, Indels: 38
0.67 0.15 0.18
Matches are distributed among these distances:
2 14 0.10
3 118 0.82
4 10 0.07
5 2 0.01
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:7660453 original size:27 final size:27
Alignment explanation
Indices: 7660411--7660494 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
7660401 ATAATATGTT
* *
7660411 AATAAAAGTAAGAGTAATAATAATAAA
1 AATAAAAATAAAAGTAATAATAATAAA
*
7660438 AATAAAAATAATAGTAA-ATATAATAAA
1 AATAAAAATAAAAGTAATA-ATAATAAA
* *
7660465 TATAATAATAAAAG--ATAATAATAAA
1 AATAAAAATAAAAGTAATAATAATAAA
7660490 AATAA
1 AATAA
7660495 TTAATTGGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 13 0.27
26 2 0.04
27 34 0.69
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (27 bp):
AATAAAAATAAAAGTAATAATAATAAA
Found at i:7660511 original size:34 final size:32
Alignment explanation
Indices: 7660426--7660495 Score: 90
Period size: 34 Copynumber: 2.2 Consensus size: 32
7660416 AAGTAAGAGT
*
7660426 AATAAT-AATA-AAAATAAAAATAATAGTAAA
1 AATAATAAATATAAAATAAAAATAATAATAAA
*
7660456 TATAATAAATATAATAATAAAAGATAATAATAAA
1 AATAATAAATATAA-AATAAAA-ATAATAATAAA
7660490 AATAAT
1 AATAAT
7660496 TAATTGGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 5 0.15
31 4 0.12
32 2 0.06
33 7 0.21
34 15 0.45
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (32 bp):
AATAATAAATATAAAATAAAAATAATAATAAA
Found at i:7670164 original size:49 final size:49
Alignment explanation
Indices: 7670107--7670205 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
7670097 AATTTAAAGT
* * *
7670107 TAGGAAAATTATCTTTAAAAAGACGAAAATGAGTTCATAAGATATGTAG
1 TAGGAAAATTATCTTTAAAAAGACGAAAAGGAGCTAATAAGATATGTAG
*
7670156 TAGGAAAATTATCTTTAGAAAGACGAAAAGGAGCTAATAAGATATGTAG
1 TAGGAAAATTATCTTTAAAAAGACGAAAAGGAGCTAATAAGATATGTAG
7670205 T
1 T
7670206 TGTTAATAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.27
Consensus pattern (49 bp):
TAGGAAAATTATCTTTAAAAAGACGAAAAGGAGCTAATAAGATATGTAG
Found at i:7672187 original size:19 final size:19
Alignment explanation
Indices: 7672163--7672208 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
7672153 TCCTAGAAAA
7672163 TAAATAAAACTTATCTATC
1 TAAATAAAACTTATCTATC
* *
7672182 TAAATAAGATTTATCTATC
1 TAAATAAAACTTATCTATC
7672201 TAAATAAA
1 TAAATAAA
7672209 TATATAAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAATAAAACTTATCTATC
Found at i:7676804 original size:61 final size:61
Alignment explanation
Indices: 7676696--7676941 Score: 379
Period size: 61 Copynumber: 4.0 Consensus size: 61
7676686 GTGATGTAGT
* *
7676696 AATTTTAAAATTATTTTTTGAAAAA-AATTTGAGGTTACTTACTACTGAAGTGCCTAATTA
1 AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTACTACTGAAGTACCTAATTA
*
7676756 AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTACTACTGAAGTGCCTAATTA
1 AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTACTACTGAAGTACCTAATTA
* **
7676817 AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTAATGTTGAAGTACCTAATTA
1 AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTACTACTGAAGTACCTAATTA
* * * *
7676878 AATTTTAAAATTATATTTTAAAAAAGAAATTGAGGTTACTT-CAGATTGAAGTACCTAATTA
1 AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTAC-TACTGAAGTACCTAATTA
7676939 AAT
1 AAT
7676942 ATTTGTTTTT
Statistics
Matches: 174, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
60 25 0.14
61 149 0.86
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (61 bp):
AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTACTACTGAAGTACCTAATTA
Found at i:7693426 original size:60 final size:61
Alignment explanation
Indices: 7693332--7693460 Score: 224
Period size: 60 Copynumber: 2.1 Consensus size: 61
7693322 GTGATTTAGT
*
7693332 AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTAATCTTGAAGTACCTAATTA
1 AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTAATATTGAAGTACCTAATTA
*
7693393 AATTTTAAAATTATTTTTT-AAAAAGAAATTGAGGTTACTTCATATTGAAGTACCTAATTA
1 AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTAATATTGAAGTACCTAATTA
7693453 AATATTTA
1 AAT-TTTA
7693461 TTTTAATTTA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 42 0.65
61 23 0.35
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (61 bp):
AATTTTAAAATTATTTTTTGAAAAAGAAATTGAGGTTACTTAATATTGAAGTACCTAATTA
Found at i:7693684 original size:4 final size:4
Alignment explanation
Indices: 7693675--7693701 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7693665 AAAACTCTTA
7693675 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
7693702 ACTATACGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:7697888 original size:21 final size:22
Alignment explanation
Indices: 7697859--7697905 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
7697849 CAGAAGGAGT
*
7697859 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
7697881 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
7697902 GAGT
1 GAGT
7697906 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:7701911 original size:93 final size:88
Alignment explanation
Indices: 7701791--7701991 Score: 215
Period size: 88 Copynumber: 2.2 Consensus size: 88
7701781 TTAATGGTGT
* * ** *
7701791 AAAAAGCCCTCAAACTTTTTCAGAAAAAGTAATTAAACCTATCTTCTTCTTTTTTTGCACTCAAT
1 AAAAAGCCCTCAAACTTTTTAAAAAAAAACAATTAAACC-A--TTCTT-TTTTTTT-CACTAAAT
* *
7701856 TGAGTACTTGAACTTTTAAAATGCATAA
61 TGAGTACTTGAACTTTCAAAATACATAA
* * * *
7701884 AAAAAGCCTTCAAA-TTTCTTAAAAAAAAACAATTAATCCATTGTTTTTTTTTCACTAAATTGGG
1 AAAAAGCCCTCAAACTTT-TTAAAAAAAAACAATTAAACCATTCTTTTTTTTTCACTAAATTGAG
7701948 TACTTGAACTTTCAAAATACATAA
65 TACTTGAACTTTCAAAATACATAA
* *
7701972 AAAAATACCCTCAAAATTTT
1 AAAAA-GCCCTCAAACTTTT
7701992 CCAAAAAAGC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
88 37 0.40
89 15 0.16
90 7 0.08
92 4 0.04
93 29 0.32
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (88 bp):
AAAAAGCCCTCAAACTTTTTAAAAAAAAACAATTAAACCATTCTTTTTTTTTCACTAAATTGAGT
ACTTGAACTTTCAAAATACATAA
Found at i:7702064 original size:19 final size:19
Alignment explanation
Indices: 7702040--7702096 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
7702030 TAAAAAATAT
7702040 ATAAAAATATTAAATTTTA
1 ATAAAAATATTAAATTTTA
7702059 GA-AAAAATATTAAATTTTA
1 -ATAAAAATATTAAATTTTA
7702078 ATAAAAA-ATTAAAATTTTA
1 ATAAAAATATT-AAATTTTA
7702097 TTCAAATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.11
19 30 0.86
20 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAAAAATATTAAATTTTA
Found at i:7702149 original size:18 final size:20
Alignment explanation
Indices: 7702107--7702151 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
7702097 TTCAAATTAT
7702107 TTTTATAAAAATTGTGAATAA
1 TTTTAT-AAAATTGTGAATAA
7702128 --TTATAAAATTGT-AA-AA
1 TTTTATAAAATTGTGAATAA
7702144 TTTTATAA
1 TTTTATAA
7702152 TAATCATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.09
17 2 0.09
18 14 0.64
19 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
TTTTATAAAATTGTGAATAA
Found at i:7702168 original size:19 final size:20
Alignment explanation
Indices: 7702146--7702185 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
7702136 TTGTAAAATT
7702146 TTATAATAAT-CA-TAAAAAA
1 TTATAA-AATGCATTAAAAAA
7702165 TTATAAAATGCATTAAAAAA
1 TTATAAAATGCATTAAAAAA
7702185 T
1 T
7702186 CCCTTTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 8 0.42
20 8 0.42
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
TTATAAAATGCATTAAAAAA
Found at i:7702463 original size:17 final size:17
Alignment explanation
Indices: 7702441--7702523 Score: 67
Period size: 19 Copynumber: 4.6 Consensus size: 17
7702431 ATATTTCTAT
7702441 ATATTTAATATTTTTTA
1 ATATTTAATATTTTTTA
* *
7702458 AGATTTTTATATTTTTTCTA
1 ATA-TTTAATA-TTTTT-TA
* *
7702478 TTTTTTAATACATTTTTTA
1 ATATTTAAT--ATTTTTTA
*
7702497 ATATTTAATATTTATTA
1 ATATTTAATATTTTTTA
*
7702514 AAATTTAATA
1 ATATTTAATA
7702524 ATATTTATAG
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
17 18 0.35
18 6 0.12
19 19 0.37
20 7 0.14
21 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (17 bp):
ATATTTAATATTTTTTA
Found at i:7702463 original size:27 final size:27
Alignment explanation
Indices: 7702424--7702485 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
7702414 GAATTGTATA
*
7702424 ATTTTTT-ATATTTCTATATATTTAAT
1 ATTTTTTAAGATTTCTATATATTTAAT
* * **
7702450 ATTTTTTAAGATTTTTATATTTTTTCT
1 ATTTTTTAAGATTTCTATATATTTAAT
7702477 ATTTTTTAA
1 ATTTTTTAA
7702486 TACATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (27 bp):
ATTTTTTAAGATTTCTATATATTTAAT
Found at i:7702473 original size:9 final size:9
Alignment explanation
Indices: 7702424--7702484 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
7702414 GAATTGTATA
7702424 ATTTTTTAT
1 ATTTTTTAT
*
7702433 A-TTTCTAT
1 ATTTTTTAT
* *
7702441 ATATTTAAT
1 ATTTTTTAT
7702450 ATTTTTTA-
1 ATTTTTTAT
*
7702458 AGATTTTTAT
1 A-TTTTTTAT
*
7702468 ATTTTTTCT
1 ATTTTTTAT
7702477 ATTTTTTA
1 ATTTTTTA
7702485 ATACATTTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
8 8 0.21
9 30 0.77
10 1 0.03
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:7702502 original size:10 final size:10
Alignment explanation
Indices: 7702444--7702502 Score: 61
Period size: 9 Copynumber: 6.0 Consensus size: 10
7702434 TTTCTATATA
7702444 TTTAATATTT
1 TTTAATATTT
*
7702454 TTTAAGA-TT
1 TTTAATATTT
7702463 TTT-ATATTT
1 TTTAATATTT
*
7702472 TTT-CTATTT
1 TTTAATATTT
7702481 TTTAATACATTT
1 TTTAAT--ATTT
7702493 TTTAATATTT
1 TTTAATATTT
7702503 AATATTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 2 0.05
9 18 0.44
10 11 0.27
12 10 0.24
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTAATATTT
Found at i:7702742 original size:91 final size:91
Alignment explanation
Indices: 7702560--7702739 Score: 220
Period size: 90 Copynumber: 2.0 Consensus size: 91
7702550 TTTTTAATAA
* ** * *
7702560 AAGTAGGGGCTTAATTGCTTTTTTTTGAAAAAATTTTAAGGTTTTTTTCATTCATTTTGAAAGTT
1 AAGTAGGGGCTTAATTGCTTTTTTTTGAAAAAATTTGAAGGCCTTTTTAATACATTTTGAAAGTT
* * * *
7702625 CAAGTACTCAATTGAGTGCAAAAAAG
66 CAAATACTAAAATGAGTGAAAAAAAG
* * *
7702651 AAGTAGTGGTTTAATTGC-TTTTTTTGAAAAAGTTTG-AGAGCCTTTTTAATACATTTTGAAAGT
1 AAGTAGGGGCTTAATTGCTTTTTTTTGAAAAAATTTGAAG-GCCTTTTTAATACATTTTGAAAGT
*
7702714 TTAAATACTAAAATGAGTGAAAAAAA
65 TCAAATACTAAAATGAGTGAAAAAAA
7702740 AGAGATAGGA
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
89 2 0.03
90 57 0.76
91 16 0.21
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.39
Consensus pattern (91 bp):
AAGTAGGGGCTTAATTGCTTTTTTTTGAAAAAATTTGAAGGCCTTTTTAATACATTTTGAAAGTT
CAAATACTAAAATGAGTGAAAAAAAG
Found at i:7703411 original size:22 final size:22
Alignment explanation
Indices: 7703386--7703428 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7703376 CCCAAATAAG
7703386 ACAACAGCCCCATACCCCCACT
1 ACAACAGCCCCATACCCCCACT
7703408 ACAACAGCCCCATACCCCCAC
1 ACAACAGCCCCATACCCCCAC
7703429 GCGTCTGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.56, G:0.05, T:0.07
Consensus pattern (22 bp):
ACAACAGCCCCATACCCCCACT
Found at i:7703928 original size:85 final size:84
Alignment explanation
Indices: 7703788--7703955 Score: 318
Period size: 85 Copynumber: 2.0 Consensus size: 84
7703778 TAAATTAATA
7703788 TAAACCTAAAATCTATATATTCTAAGACCAAAAATAAATAAAAAATATAGCAAAAAAAAAAGAAA
1 TAAACCTAAAATCTATATATTCTAAGACCAAAAATAAATAAAAAATATAGCAAAAAAAAAAGAAA
7703853 TTTTACCTTTTCCGGCCACT
66 -TTTACCTTTTCCGGCCACT
7703873 TAAACCTAAAATCTATATATTCTAAGACCAAAAATAAATAAAAAATATAGCAAAAAAAAAAGAAA
1 TAAACCTAAAATCTATATATTCTAAGACCAAAAATAAATAAAAAATATAGCAAAAAAAAAAGAAA
*
7703938 TTTACCTTTTTCGGCCAC
66 TTTACCTTTTCCGGCCAC
7703956 CGCGTGCGGT
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 17 0.21
85 65 0.79
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.26
Consensus pattern (84 bp):
TAAACCTAAAATCTATATATTCTAAGACCAAAAATAAATAAAAAATATAGCAAAAAAAAAAGAAA
TTTACCTTTTCCGGCCACT
Found at i:7704552 original size:3 final size:3
Alignment explanation
Indices: 7704534--7704584 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
7704524 TTAAATACTC
* *
7704534 TTA TTA TTT TTA -TA TTA TTAA TT- TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
7704578 TGTA TTA
1 T-TA TTA
7704585 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7704564 original size:15 final size:15
Alignment explanation
Indices: 7704534--7704584 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
7704524 TTAAATACTC
*
7704534 TTATTATTTTTA-TA
1 TTATTAATTTTATTA
7704548 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
7704563 TTATTAATATTATTA
1 TTATTAATTTTATTA
7704578 TGTATTA
1 T-TATTA
7704585 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:7706309 original size:9 final size:10
Alignment explanation
Indices: 7706288--7706321 Score: 54
Period size: 9 Copynumber: 3.6 Consensus size: 10
7706278 GATATATTTT
7706288 TATTTTTATA
1 TATTTTTATA
7706298 TATTTTTA-A
1 TATTTTTATA
7706307 TATTTTTATA
1 TATTTTTATA
7706317 -ATTTT
1 TATTTT
7706322 GAATCAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATTTTTATA
Found at i:7706332 original size:19 final size:19
Alignment explanation
Indices: 7706291--7706332 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7706281 ATATTTTTAT
* *
7706291 TTTTATATATTTTTAATAT
1 TTTTATATATTTTGAATAG
7706310 TTTTATA-ATTTTGAATCAG
1 TTTTATATATTTTGAAT-AG
7706329 TTTT
1 TTTT
7706333 TGACATGGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTATATATTTTGAATAG
Found at i:7709400 original size:39 final size:39
Alignment explanation
Indices: 7709346--7709423 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
7709336 CTAATAGGCA
**
7709346 GGTTAAAATTAGAAACATATAAAAAGTGTAAGGAGATTT
1 GGTTAAAATTAGAAACATATAAAAAGAATAAGGAGATTT
7709385 GGTTAAAATTAGAAACATATAAAAAGAATAAGGAGATTT
1 GGTTAAAATTAGAAACATATAAAAAGAATAAGGAGATTT
7709424 AATTAACACC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.51, C:0.03, G:0.19, T:0.27
Consensus pattern (39 bp):
GGTTAAAATTAGAAACATATAAAAAGAATAAGGAGATTT
Found at i:7710283 original size:347 final size:358
Alignment explanation
Indices: 7709631--7710434 Score: 924
Period size: 347 Copynumber: 2.3 Consensus size: 358
7709621 TGCCACTGTG
** * * * *
7709631 ACCATATTAATCTTTTCACTCCTCAATTACCACAATAAATACAATTATGAGTCAACAACATTACT
1 ACCATATTAAAATTTTCACTTCTCAATTACAACAATAAATACAATTACGAGTAAACAACATTACT
* * * *
7709696 TAAAAATGAACTTTTAGTAGAT-AAAGTCCTTTGGGTCTAAGGGTGAAGAAAAAACATTTTTTAG
66 GAAAAATGAACTATTAGTAGATGAAAGTCCTTTGGGTCCAAGGGTGAAGAAAAAACA-TATTTAG
* * * *
7709760 GGCTAGAATTATAGTTAAACCTTTAATTAATTCATTTTCTTCTCCTATGATATTCTATAATTACA
130 GACAAAAATTATAATTAAACCTTTAATTAATTCA---T-TTCTCCTATGATATTCTATAATTACA
* *
7709825 TTACAATTTACAAAGCTATTTCATAAAAGAAAAAAGAGTAAATTTGTGGTTGAGCTGGAAGATAA
191 TTACAATTTACAAAGCTATTCCATAAAAGAAAAAAGAGTAAATTTATGGTTGAGCTGGAAGATAA
* * * *
7709890 CATAATTAGAAAACTTGTTACTCATGAAGCTAAAACTCTCCTTATGTATAGATAAATAGCTTCGT
256 CATAAATAGAAAACTTGTTACTCATGAAGCTAAAACTCTCCTTATGTATAAATAAACAACTTCGT
* * * * *
7709955 ACATAT-GCTCCTCTA-GTT-ACTA-C-C-A-A-TGCT
321 ACACATCACTCATCTATGTTCACTACCACTACACTACC
* * **
7709985 ACCGTATTAAAATTTTCACTTCTCAATGACAACAATAAAT-GTATTCACGAGTAAACAACATTAC
1 ACCATATTAAAATTTTCACTTCTCAATTACAACAATAAATACAATT-ACGAGTAAACAACATTAC
*
7710049 TGAAAAATGAACTATTAGTAGATGAAA-TCC-TTGGGTCCAGGGGTGAAGAAAAAA-A-ATTTAG
65 TGAAAAATGAACTATTAGTAGATGAAAGTCCTTTGGGTCCAAGGGTGAAGAAAAAACATATTTAG
* * * * *
7710110 GACAAAAATTATAATTATACCTTTACTTTATTCA-TT-TCCT-T-CTATTCTATAGTTACATTAC
130 GACAAAAATTATAATTAAACCTTTAATTAATTCATTTCTCCTATGATATTCTATAATTACATTAC
*
7710171 AATTTACAAAGCTATTCCATCCAAAAGAAAAAAAGAAGGTAAATTTATGGTTTAGCTGGAAGATA
195 AATTTACAAAGCTATTCCAT--AAAAG-AAAAAAG-A-GTAAATTTATGGTTGAGCTGGAAGATA
* * * * *
7710236 GCATAAATAGAAAACTTGTTGCTCGTGAAGCTAAAACTCTTCTTATGTATAAATAAGCAACTTCG
255 ACATAAATAGAAAACTTGTTACTCATGAAGCTAAAACTCTCCTTATGTATAAATAAACAACTTCG
*
7710301 TACACATCACTTATCTAGTTGTTACCACTACCACTACCACTACC
320 TACACATCACTCATCTA--TGTT--CACTACCACTA-CACTACC
* *
7710345 ACCATATTAAAATTTTCACTTATCAATTACAACAATAAATACAATTACGAGTAAACAACATTATT
1 ACCATATTAAAATTTTCACTTCTCAATTACAACAATAAATACAATTACGAGTAAACAACATTACT
* *
7710410 GAAAAGTGAATTATTAGTAGATGAA
66 GAAAAATGAACTATTAGTAGATGAA
7710435 TGCCTAGTTT
Statistics
Matches: 379, Mismatches: 50, Indels: 36
0.82 0.11 0.08
Matches are distributed among these distances:
342 37 0.10
343 1 0.00
344 9 0.02
345 9 0.02
346 1 0.00
347 87 0.23
348 6 0.02
350 32 0.08
351 3 0.01
352 1 0.00
353 25 0.07
354 78 0.21
355 4 0.01
356 1 0.00
357 1 0.00
359 1 0.00
360 80 0.21
361 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (358 bp):
ACCATATTAAAATTTTCACTTCTCAATTACAACAATAAATACAATTACGAGTAAACAACATTACT
GAAAAATGAACTATTAGTAGATGAAAGTCCTTTGGGTCCAAGGGTGAAGAAAAAACATATTTAGG
ACAAAAATTATAATTAAACCTTTAATTAATTCATTTCTCCTATGATATTCTATAATTACATTACA
ATTTACAAAGCTATTCCATAAAAGAAAAAAGAGTAAATTTATGGTTGAGCTGGAAGATAACATAA
ATAGAAAACTTGTTACTCATGAAGCTAAAACTCTCCTTATGTATAAATAAACAACTTCGTACACA
TCACTCATCTATGTTCACTACCACTACACTACC
Found at i:7712042 original size:19 final size:18
Alignment explanation
Indices: 7712020--7712059 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
7712010 GATGAAAATA
7712020 AAAAGAAATAATAAAAAAG
1 AAAAGAAATAA-AAAAAAG
7712039 AAAAGAAATAAAAAAAAG
1 AAAAGAAATAAAAAAAAG
7712057 AAA
1 AAA
7712060 TAAAAAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAAGAAATAAAAAAAAG
Found at i:7712054 original size:12 final size:13
Alignment explanation
Indices: 7712015--7712066 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
7712005 TAAGAGATGA
*
7712015 AAATAAAAAGAAAT
1 AAATAAAAA-AAAG
*
7712029 AATAAAAAAGAAAAG
1 AA-ATAAAA-AAAAG
7712044 AAATAAAAAAAAG
1 AAATAAAAAAAAG
7712057 AAATAAAAAA
1 AAATAAAAAA
7712067 GAGTAGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 15 0.45
14 7 0.21
15 10 0.30
16 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.10
Consensus pattern (13 bp):
AAATAAAAAAAAG
Found at i:7719281 original size:26 final size:26
Alignment explanation
Indices: 7719248--7719297 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
7719238 TATATGAATT
7719248 TAATTAATATAATAATAAATTTAATG
1 TAATTAATATAATAATAAATTTAATG
7719274 TAATTAATATAATAATAAATTTAA
1 TAATTAATATAATAATAAATTTAA
7719298 CTCTTATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
TAATTAATATAATAATAAATTTAATG
Found at i:7722987 original size:25 final size:25
Alignment explanation
Indices: 7722942--7722990 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7722932 GTTTCTGAAT
* *
7722942 TTAAAATTTTTAAGTCTATTTAAAA
1 TTAAAATTTTTAAATCCATTTAAAA
7722967 TTAAAA-TTTTAAATACCATTTAAA
1 TTAAAATTTTTAAAT-CCATTTAAA
7722991 TATTTCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (25 bp):
TTAAAATTTTTAAATCCATTTAAAA
Found at i:7727363 original size:33 final size:35
Alignment explanation
Indices: 7727319--7727404 Score: 104
Period size: 33 Copynumber: 2.5 Consensus size: 35
7727309 ATAACACTAG
7727319 TAAAAAGATAATATATTATATATAAA-ATTACA-GT
1 TAAAAA-ATAATATATTATATATAAATATTACATGT
* * * *
7727353 TAGAAAATAATATATCATATATAAATTTTACATTT
1 TAAAAAATAATATATTATATATAAATATTACATGT
7727388 TAAAAAATAATAATATT
1 TAAAAAATAAT-ATATT
7727405 TTAAAAAGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
33 18 0.42
34 10 0.23
35 11 0.26
36 4 0.09
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (35 bp):
TAAAAAATAATATATTATATATAAATATTACATGT
Found at i:7727739 original size:19 final size:20
Alignment explanation
Indices: 7727714--7727769 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
7727704 GGCAATAAAA
7727714 AATAAAAAATAATAAAATTT
1 AATAAAAAATAATAAAATTT
* *
7727734 -ATAAAAATTATTAAAATTT
1 AATAAAAAATAATAAAATTT
7727753 AATAAAAGAAT-ATAAAA
1 AATAAAA-AATAATAAAA
7727770 AATATTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 17 0.57
20 11 0.37
21 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AATAAAAAATAATAAAATTT
Found at i:7727744 original size:9 final size:9
Alignment explanation
Indices: 7727708--7727832 Score: 62
Period size: 10 Copynumber: 13.7 Consensus size: 9
7727698 ACATATGGCA
*
7727708 ATAAAAAAT
1 ATAAAAATT
*
7727717 A-AAAAATA
1 ATAAAAATT
*
7727725 ATAAAATTT
1 ATAAAAATT
7727734 ATAAAAATT
1 ATAAAAATT
*
7727743 ATTAAAATTT
1 A-TAAAAATT
*
7727753 AATAAAAGAAT
1 -ATAAAA-ATT
7727764 ATAAAAAATAT
1 AT-AAAAAT-T
* **
7727775 TTAAATTTT
1 ATAAAAATT
7727784 ATTAAAAATT
1 A-TAAAAATT
*
7727794 AGAAAAA--
1 ATAAAAATT
*
7727801 AT--AATTT
1 ATAAAAATT
7727808 ATAAAAATT
1 ATAAAAATT
7727817 ATAAAATATT
1 ATAAAA-ATT
7727827 ATAAAA
1 ATAAAA
7727833 TATATAGAAA
Statistics
Matches: 85, Mismatches: 19, Indels: 23
0.67 0.15 0.18
Matches are distributed among these distances:
5 2 0.02
7 3 0.04
8 6 0.07
9 31 0.36
10 35 0.41
11 8 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:7727779 original size:31 final size:30
Alignment explanation
Indices: 7727723--7727808 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
7727713 AAATAAAAAA
** *
7727723 TAATAAAATTTATAAAAATTA-TTAAAATT
1 TAATAAAAAATATAAAAAATATTTAAAATT
*
7727752 TAATAAAAGAATATAAAAAATATTTAAATTT
1 TAATAAAA-AATATAAAAAATATTTAAAATT
* * *
7727783 TATTAAAAATTAGAAAAAATAATTTA
1 TAATAAAAAATATAAAAAAT-ATTTA
7727809 TAAAAATTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 8 0.17
30 20 0.43
31 19 0.40
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (30 bp):
TAATAAAAAATATAAAAAATATTTAAAATT
Found at i:7732065 original size:3 final size:3
Alignment explanation
Indices: 7731934--7732037 Score: 88
Period size: 3 Copynumber: 35.0 Consensus size: 3
7731924 AATAGCCATG
* * *
7731934 ATA ATA ATA ATA GA-A ATA ATA GTA ATA ATA A-A ATA ATA ATG GTA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
7731978 ATA ATA A-A ACGA ATA ATA ATA ATA GTA ATA ATA AGA AGA TTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
7732023 ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA
7732038 TAAATATATA
Statistics
Matches: 81, Mismatches: 15, Indels: 10
0.76 0.14 0.09
Matches are distributed among these distances:
2 5 0.06
3 73 0.90
4 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.09, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:7733008 original size:17 final size:17
Alignment explanation
Indices: 7732986--7733026 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
7732976 TATTTCGAAC
7732986 TAAAAAATGGAAAT-AAA
1 TAAAAAAT-GAAATAAAA
7733003 T-AAAAATGAAATAGAAA
1 TAAAAAATGAAATA-AAA
7733020 TAAAAAA
1 TAAAAAA
7733027 GCACCTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 5 0.24
18 5 0.24
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (17 bp):
TAAAAAATGAAATAAAA
Done.