Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 181 of 352
Found at i:59417941 original size:25 final size:26
Alignment explanation
Indices: 59417880--59417941 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
59417870 TAATTTAAGA
* *
59417880 TAAATAATATTTATGTTTATGATAAC
1 TAAATAATATTTATATTTATAATAAC
59417906 TAAATAATATTTATATTTATAATAAC
1 TAAATAATATTTATATTTATAATAAC
59417932 -AAATAATATT
1 TAAATAATATT
59417942 ATTTATCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 10 0.29
26 24 0.71
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (26 bp):
TAAATAATATTTATATTTATAATAAC
Found at i:59417946 original size:28 final size:28
Alignment explanation
Indices: 59417886--59417952 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 28
59417876 AAGATAAATA
* *
59417886 ATATTTATGTTTATGATAACTAAAT-A-
1 ATATTTATATTTATAATAACTAAATAAT
59417912 ATATTTATATTTATAATAAC-AAATAAT
1 ATATTTATATTTATAATAACTAAATAAT
*
59417939 ATTATTTATCTTTA
1 A-TATTTATATTTA
59417953 AGATAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.11
26 19 0.54
27 1 0.03
28 11 0.31
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (28 bp):
ATATTTATATTTATAATAACTAAATAAT
Found at i:59417964 original size:21 final size:21
Alignment explanation
Indices: 59417934--59417973 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
59417924 ATAATAACAA
*
59417934 ATAATATTATTTATCTTTAAG
1 ATAATATTATATATCTTTAAG
* *
59417955 ATAATTTTATATATTTTTA
1 ATAATATTATATATCTTTA
59417974 TTTTCTTACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
ATAATATTATATATCTTTAAG
Found at i:59418038 original size:20 final size:20
Alignment explanation
Indices: 59417986--59418038 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
59417976 TTCTTACATA
* **
59417986 AAAATTTACGTAAATTTTTC
1 AAAATTTACTTAACCTTTTC
*
59418006 AAAATTTATTTAACCTTTTC
1 AAAATTTACTTAACCTTTTC
59418026 -AAATTTCACTTAA
1 AAAATTT-ACTTAA
59418039 GATTTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (20 bp):
AAAATTTACTTAACCTTTTC
Found at i:59418345 original size:12 final size:12
Alignment explanation
Indices: 59418328--59418361 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
59418318 CGGCCCGCCC
59418328 ATATTAATTTTT
1 ATATTAATTTTT
*
59418340 ATATTATTTTTT
1 ATATTAATTTTT
59418352 ATA-TAATTTT
1 ATATTAATTTT
59418362 AAAATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:59418519 original size:30 final size:29
Alignment explanation
Indices: 59418483--59418541 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
59418473 CAACTTAACA
59418483 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAA-AAAATT
* *
59418513 AGCAAATGTCTTTAAAATAATAAAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAATT
59418542 TAATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (29 bp):
AGCAAATGCCTCTAAAATAATAAAAAATT
Found at i:59418628 original size:19 final size:20
Alignment explanation
Indices: 59418585--59418628 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
59418575 TAATAACAAC
* *
59418585 AAAATAGTAGTACATAATAGT
1 AAAATAGTAG-ACAAAATAGG
59418606 AAAATAGTAG-CAAAATAGG
1 AAAATAGTAGACAAAATAGG
59418625 AAAA
1 AAAA
59418629 AAATAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
21 10 0.48
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.20
Consensus pattern (20 bp):
AAAATAGTAGACAAAATAGG
Found at i:59420784 original size:52 final size:52
Alignment explanation
Indices: 59420727--59420964 Score: 315
Period size: 52 Copynumber: 4.7 Consensus size: 52
59420717 ACCTAAAATA
* * * *
59420727 TTATGAATGCAACAAAACAAACAATTAAGCATAATTAAAAACACCACTTAAT
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTAAT
* *
59420779 TTATGAATGCAACAAAACAATTAATGAAGCATAAATAAAAACACAACTTTAT
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTAAT
* *
59420831 TTATGAATGCAACAAAGCAATCAATGAAACATAAATAAAAACA-AGAC----T
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACA-ACTTAAT
* *
59420879 TTATGAATGCAACAAAACAATCAATGAAGTATAAATAAAAACACAACTTTAT
1 TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTAAT
* * *
59420931 TTATGAATGAAACAAAACAAACAATGAAACATAA
1 TTATGAATGCAACAAAACAATCAATGAAGCATAA
59420965 GTTGGAAACA
Statistics
Matches: 164, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
48 43 0.26
49 1 0.01
51 1 0.01
52 119 0.73
ACGTcount: A:0.55, C:0.14, G:0.08, T:0.22
Consensus pattern (52 bp):
TTATGAATGCAACAAAACAATCAATGAAGCATAAATAAAAACACAACTTAAT
Found at i:59420907 original size:100 final size:102
Alignment explanation
Indices: 59420727--59420964 Score: 354
Period size: 100 Copynumber: 2.3 Consensus size: 102
59420717 ACCTAAAATA
* * * *
59420727 TTATGAATGCAACAAAACAAACAATTAAGCATAATTAAAAACACCACTTAATTTATGAATGCAAC
1 TTATGAATGCAACAAAACAAACAATGAAACATAAATAAAAACA-CAC-GAATTTATGAATGCAAC
*
59420792 AAAACAATTAATGAAGCATAAATAAAAACACAACTTTAT
64 AAAACAATCAATGAAGCATAAATAAAAACACAACTTTAT
* * *
59420831 TTATGAATGCAACAAAGCAATCAATGAAACATAAATAAAAACA-A-GACTTTATGAATGCAACAA
1 TTATGAATGCAACAAAACAAACAATGAAACATAAATAAAAACACACGAATTTATGAATGCAACAA
*
59420894 AACAATCAATGAAGTATAAATAAAAACACAACTTTAT
66 AACAATCAATGAAGCATAAATAAAAACACAACTTTAT
*
59420931 TTATGAATGAAACAAAACAAACAATGAAACATAA
1 TTATGAATGCAACAAAACAAACAATGAAACATAA
59420965 GTTGGAAACA
Statistics
Matches: 122, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
100 83 0.68
102 1 0.01
104 38 0.31
ACGTcount: A:0.55, C:0.14, G:0.08, T:0.22
Consensus pattern (102 bp):
TTATGAATGCAACAAAACAAACAATGAAACATAAATAAAAACACACGAATTTATGAATGCAACAA
AACAATCAATGAAGCATAAATAAAAACACAACTTTAT
Found at i:59426037 original size:21 final size:21
Alignment explanation
Indices: 59426000--59426063 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
59425990 TTATACAATA
*
59426000 TGAAACAAAATTTAGTGTATAC
1 TGAAAC-AAATTAAGTGTATAC
59426022 TGAAACAAATTAAGTGTATAC
1 TGAAACAAATTAAGTGTATAC
*
59426043 TGAAACAAGTTAAGTGT-TAC
1 TGAAACAAATTAAGTGTATAC
59426063 T
1 T
59426064 AATTTTCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.10
21 30 0.75
22 6 0.15
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (21 bp):
TGAAACAAATTAAGTGTATAC
Found at i:59430969 original size:25 final size:23
Alignment explanation
Indices: 59430928--59430989 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
59430918 TAGAAAATAA
59430928 AAAT-AAAAGATTATATATATGTTC
1 AAATAAAAAGATTATATATA--TTC
* *
59430952 AAATAAAAAGGTTGTATATATTC
1 AAATAAAAAGATTATATATATTC
59430975 AAATAAAAAGATTAT
1 AAATAAAAAGATTAT
59430990 GTTAAAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 16 0.48
24 4 0.12
25 13 0.39
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.34
Consensus pattern (23 bp):
AAATAAAAAGATTATATATATTC
Found at i:59438134 original size:6 final size:6
Alignment explanation
Indices: 59438102--59438132 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
59438092 CCCAATTAAG
*
59438102 AATAAA AATAAA AATAAA AATAAA ACTAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
59438133 CTCAAATGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:59439839 original size:7 final size:7
Alignment explanation
Indices: 59439827--59439851 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
59439817 GATGTGAGGG
59439827 AGAAGGA
1 AGAAGGA
59439834 AGAAGGA
1 AGAAGGA
59439841 AGAAGGA
1 AGAAGGA
59439848 AGAA
1 AGAA
59439852 AACGCAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (7 bp):
AGAAGGA
Found at i:59449065 original size:96 final size:99
Alignment explanation
Indices: 59448863--59449086 Score: 250
Period size: 97 Copynumber: 2.3 Consensus size: 99
59448853 AGTAATTAAG
* ** * * * *
59448863 TTCTTATTTTTTTT-CATTTAATTCGATACTTGAACTTTCAAAATGCATCAAAAAGGCTCTCAAG
1 TTCTTTTTTTTTTTGCGCTTAATTCGATACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAG
*
59448927 TTTTTTCAAAAAAAAAAAAATTAAGCCATTGCTTC
66 TCTTTTCAAAAAAAAAAAAA-TAAGCCATTGCTTC
* *
59448962 -TC--TTTTTTTTTGCGCTTAATTTGGTACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAG
1 TTCTTTTTTTTTTTGCGCTTAATTCGATACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAG
59449024 -CTTTTC-AAAAAAAAAAAA-AAGCTC-TTGCTTC
66 TCTTTTCAAAAAAAAAAAAATAAGC-CATTGCTTC
* *
59449055 TTCTTTTTTTTTTGGCGCTCAATT-GAATACTT
1 TTCTTTTTTTTTTTGCGCTTAATTCG-ATACTT
59449087 AAAATGTTAA
Statistics
Matches: 106, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
93 11 0.10
94 3 0.03
95 13 0.12
96 35 0.33
97 42 0.40
98 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (99 bp):
TTCTTTTTTTTTTTGCGCTTAATTCGATACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAG
TCTTTTCAAAAAAAAAAAAATAAGCCATTGCTTC
Found at i:59449067 original size:97 final size:96
Alignment explanation
Indices: 59448880--59449066 Score: 256
Period size: 97 Copynumber: 2.0 Consensus size: 96
59448870 TTTTTTTCAT
* * * * *
59448880 TTAATTCGATACTTGAACTTTCAAAATGCATCAAAAAGGCTCTCAAGTTTTTTCAAAAAAAAAAA
1 TTAATTCGATACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGTCTTTTCAAAAAAAAAAA
59448945 AATTAAGCCATTGCTTCTCTTTTTTTTTGCGC
66 AA-TAAGCCATTGCTTCTCTTTTTTTTTGCGC
* *
59448977 TTAATTTGGTACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAG-CTTTTC-AAAAAAAAAA
1 TTAATTCGATACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGTCTTTTCAAAAAAAAAAA
59449040 AA-AAGCTC-TTGCTTCTTCTTTTTTTTT
66 AATAAGC-CATTGCTTC-TCTTTTTTTTT
59449067 TGGCGCTCAA
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
93 11 0.14
94 12 0.15
95 12 0.15
96 5 0.06
97 41 0.51
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.37
Consensus pattern (96 bp):
TTAATTCGATACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGTCTTTTCAAAAAAAAAAA
AATAAGCCATTGCTTCTCTTTTTTTTTGCGC
Found at i:59449583 original size:11 final size:9
Alignment explanation
Indices: 59449482--59449645 Score: 67
Period size: 10 Copynumber: 18.0 Consensus size: 9
59449472 CTTTGGTACG
59449482 ATAATTTTT
1 ATAATTTTT
*
59449491 ATATTTTTTT
1 ATA-ATTTTT
59449501 ATGAA-TTTT
1 AT-AATTTTT
59449510 AT-ATTTCTT
1 ATAATTT-TT
59449519 -TACATTTGTT
1 ATA-ATTT-TT
59449529 ATAACTTTTT
1 ATAA-TTTTT
* *
59449539 TTACAATTTT
1 ATA-ATTTTT
*
59449549 AT--GTTTT
1 ATAATTTTT
*
59449556 ACAATTTTT
1 ATAATTTTT
59449565 ATAATTTTT
1 ATAATTTTT
*
59449574 AATAAATTTT
1 -ATAATTTTT
59449584 A-AATTTTT
1 ATAATTTTT
* *
59449592 TTTATTTTT
1 ATAATTTTT
* *
59449601 ATTAAAATTTA
1 A-T-AATTTTT
*
59449612 ATAACTTTT
1 ATAATTTTT
59449621 ATTAATTTTT
1 A-TAATTTTT
59449631 AT--TTTTT
1 ATAATTTTT
59449638 AT-ATTTTT
1 ATAATTTTT
59449646 TGCCACTCAC
Statistics
Matches: 117, Mismatches: 21, Indels: 35
0.68 0.12 0.20
Matches are distributed among these distances:
7 13 0.11
8 14 0.12
9 37 0.32
10 41 0.35
11 12 0.10
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (9 bp):
ATAATTTTT
Found at i:59449588 original size:27 final size:29
Alignment explanation
Indices: 59449552--59449631 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 29
59449542 CAATTTTATG
59449552 TTTTACAATTTTTATAATTTTTAAT-AAA
1 TTTTACAATTTTTATAATTTTTAATAAAA
* * *
59449580 TTTTA-AATTTTTTTTATTTTTATTAAAA
1 TTTTACAATTTTTATAATTTTTAATAAAA
* * *
59449608 TTTAATAACTTTTATTAATTTTTA
1 TTTTACAATTTTTA-TAATTTTTA
59449632 TTTTTTATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
27 16 0.38
28 12 0.29
29 6 0.14
30 8 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTACAATTTTTATAATTTTTAATAAAA
Found at i:59449631 original size:30 final size:27
Alignment explanation
Indices: 59449552--59449633 Score: 76
Period size: 30 Copynumber: 2.9 Consensus size: 27
59449542 CAATTTTATG
*
59449552 TTTTACAATTTT-TATAATTTTTAATAAA
1 TTTTA-AATTTTAT-TAATTTTTATTAAA
* *
59449580 TTTTAAATTTTTTTTATTTTTATTAAAA
1 TTTTAAATTTTATTAATTTTTATT-AAA
*
59449608 TTTAATAACTTTTATTAATTTTTATT
1 TTT--TAAATTTTATTAATTTTTATT
59449634 TTTTATATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 15 0.33
28 12 0.27
30 18 0.40
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTAAATTTTATTAATTTTTATTAAA
Found at i:59454270 original size:18 final size:18
Alignment explanation
Indices: 59454247--59454300 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
59454237 CATACAACGT
*
59454247 GATTCATGATTGTCAAGG
1 GATTCATGATCGTCAAGG
59454265 GATTCATGATCGTCAAGG
1 GATTCATGATCGTCAAGG
*
59454283 GATTCATGATCATCAAGG
1 GATTCATGATCGTCAAGG
59454301 ATTTATGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (18 bp):
GATTCATGATCGTCAAGG
Found at i:59454627 original size:16 final size:14
Alignment explanation
Indices: 59454588--59454630 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
59454578 AATATAAGTG
59454588 GAATGGGATATCTC
1 GAATGGGATATCTC
*
59454602 GAATTGGGATATCTTTT
1 GAA-TGGGATATC--TC
59454619 GAATGGGATATC
1 GAATGGGATATC
59454631 CCTTATCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 9 0.36
17 4 0.16
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.35
Consensus pattern (14 bp):
GAATGGGATATCTC
Found at i:59456717 original size:21 final size:21
Alignment explanation
Indices: 59456693--59456734 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59456683 CTAAACCGAA
59456693 CACTAAAACAACC-GAATCGGG
1 CACTAAAA-AACCTGAATCGGG
*
59456714 CACTAAAAATCCTGAATCGGG
1 CACTAAAAAACCTGAATCGGG
59456735 ATGGAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.14
Consensus pattern (21 bp):
CACTAAAAAACCTGAATCGGG
Found at i:59460324 original size:26 final size:26
Alignment explanation
Indices: 59460295--59460378 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
59460285 TGATACAAAT
*
59460295 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59460321 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59460347 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59460373 TGATAA
1 TGATAA
59460379 GAATTTCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:59467060 original size:25 final size:25
Alignment explanation
Indices: 59466982--59467064 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
59466972 CAACTTGCAT
* * *
59466982 GAGCTTACCATTATCCAACTCGGAG
1 GAGCTTACTATTATTCAGCTCGGAG
* * * ** *
59467007 GAGCTTATTAATGTTCAGCTCACAT
1 GAGCTTACTATTATTCAGCTCGGAG
59467032 GAGCTTACTATTATTCAGCTCGGAG
1 GAGCTTACTATTATTCAGCTCGGAG
59467057 GAGCTTAC
1 GAGCTTAC
59467065 CGGTTATCAC
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (25 bp):
GAGCTTACTATTATTCAGCTCGGAG
Found at i:59474206 original size:2 final size:2
Alignment explanation
Indices: 59474201--59474233 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
59474191 AAAAAGATAA
59474201 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
59474234 ATCGAGAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59475597 original size:15 final size:15
Alignment explanation
Indices: 59475579--59475607 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59475569 AGCAAATTAC
59475579 ACATAAATAAATAGA
1 ACATAAATAAATAGA
59475594 ACATAAATAAATAG
1 ACATAAATAAATAG
59475608 TCAAACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (15 bp):
ACATAAATAAATAGA
Found at i:59477961 original size:37 final size:37
Alignment explanation
Indices: 59477896--59478041 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
59477886 TACGTATGAT
* *
59477896 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
59477931 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
59477968 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
**
59478005 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
59478042 TAAAGCTATC
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 89 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:59478056 original size:46 final size:46
Alignment explanation
Indices: 59478005--59478221 Score: 290
Period size: 46 Copynumber: 4.6 Consensus size: 46
59477995 TAAGTGTAGC
* *
59478005 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
*
59478051 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* *
59478097 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* * * *
59478143 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
*
59478195 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
59478222 AGTACTCAAA
Statistics
Matches: 153, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
46 112 0.73
48 1 0.01
50 1 0.01
52 39 0.25
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
Found at i:59478099 original size:39 final size:41
Alignment explanation
Indices: 59477969--59478154 Score: 143
Period size: 46 Copynumber: 4.5 Consensus size: 41
59477959 AAGTGTAGCC
* ** *
59477969 ACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCC----
1 ACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAG
* * **
59478006 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
1 ACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAG
*
59478047 CTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAG
1 -----ACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAG
59478093 CTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAG
1 -----ACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAG
*
59478139 -C-TATTAC-TTATCACTT
1 ACTTATCACTTTATCACTT
59478155 TCCACTTGTC
Statistics
Matches: 132, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
37 34 0.26
38 9 0.07
39 5 0.04
40 1 0.01
46 83 0.63
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (41 bp):
ACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAG
Found at i:59478175 original size:52 final size:52
Alignment explanation
Indices: 59478094--59478207 Score: 149
Period size: 52 Copynumber: 2.2 Consensus size: 52
59478084 TAGCCGAAGC
* **
59478094 TATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* * *
59478147 TATCACTTTCCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
59478199 TATCACTTT
1 TATCACTTT
59478208 ATCACTTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
52 43 0.80
53 11 0.20
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (52 bp):
TATCACTTTCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:59481730 original size:21 final size:21
Alignment explanation
Indices: 59481706--59481745 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
59481696 CAAAACAACG
59481706 TAGTTTT-ACCTTTTAACTTAA
1 TAGTTTTGA-CTTTTAACTTAA
59481727 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
59481746 TAAAAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:59486595 original size:28 final size:28
Alignment explanation
Indices: 59486555--59486616 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
59486545 CTTGCTCGAT
*
59486555 TTTAATTGAAATAGTAAAAAAATAAAAA
1 TTTAATTGAAATAATAAAAAAATAAAAA
** * *
59486583 TTTAATTTTAATAATAAAAATATATAAA
1 TTTAATTGAAATAATAAAAAAATAAAAA
59486611 TATTAA
1 T-TTAA
59486617 ACATAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (28 bp):
TTTAATTGAAATAATAAAAAAATAAAAA
Found at i:59486721 original size:16 final size:16
Alignment explanation
Indices: 59486700--59486735 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
59486690 TTTGGTTCGC
59486700 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
59486716 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
59486732 TGTA
1 TGTA
59486736 ATAGAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:59486745 original size:16 final size:16
Alignment explanation
Indices: 59486710--59486755 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
59486700 TGTATTGGAT
* * *
59486710 TAGAGGTGTATTGGAT
1 TAGAGGTGTAATAGAA
59486726 TAGAGGTGTAATAGAA
1 TAGAGGTGTAATAGAA
*
59486742 TAGATGTGTAATAG
1 TAGAGGTGTAATAG
59486756 CAAATCAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (16 bp):
TAGAGGTGTAATAGAA
Found at i:59486798 original size:45 final size:44
Alignment explanation
Indices: 59486732--59486829 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 44
59486722 GGATTAGAGG
* * *
59486732 TGTAATAGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* * **
59486777 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
59486821 TGTAATAGA
1 TGTAATAGA
59486830 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.33
Consensus pattern (44 bp):
TGTAATAGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:59487009 original size:18 final size:17
Alignment explanation
Indices: 59486988--59487022 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59486978 TTATTATTTA
*
59486988 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
59487006 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
59487023 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:59487016 original size:28 final size:27
Alignment explanation
Indices: 59486946--59487018 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
59486936 TTTATTATCA
*
59486946 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
59486974 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
59487001 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
59487019 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:59487159 original size:147 final size:149
Alignment explanation
Indices: 59486907--59487181 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
59486897 ATTATTATTG
*
59486907 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
59486972 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
59487037 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
59487056 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
59487119 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
59487182 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:59487176 original size:17 final size:18
Alignment explanation
Indices: 59487135--59487169 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
59487125 TTATTATTAA
*
59487135 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
59487153 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
59487170 TTTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:59487215 original size:61 final size:61
Alignment explanation
Indices: 59487150--59487337 Score: 176
Period size: 61 Copynumber: 3.1 Consensus size: 61
59487140 TTTTAATTAA
*
59487150 AATATATAATTTAATAAAATTTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * *
59487211 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT--ATATTA-T--AATT
1 AATATAT-A-A-TTTAATAAAAT-TATTAATAATTAAT-ATTCTTATATGAAT-TTACTCAAATC
*
59487268 AA
60 AT
* *
59487270 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
59487331 AATATAT
1 AATATAT
59487338 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 14 0.15
58 8 0.08
59 14 0.15
61 21 0.22
62 8 0.08
63 15 0.16
64 8 0.08
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:59487258 original size:120 final size:120
Alignment explanation
Indices: 59487113--59487420 Score: 478
Period size: 120 Copynumber: 2.6 Consensus size: 120
59487103 ATTTAATCAT
*
59487113 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATA
1 ATTTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATA
* * *
59487178 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
* *
59487235 A-TTAAAATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATAA
59487299 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * **
59487354 ATTTGAAATAATTAA-TATTAAATATA-TTTAATTAAAATATATGATTTAATAAAATTTAAAATA
1 ATTTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATA
59487417 ATTA
65 ATTA
59487421 TAACTAATAA
Statistics
Matches: 172, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
119 39 0.23
120 124 0.72
121 8 0.05
122 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATAA
TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:59487274 original size:16 final size:16
Alignment explanation
Indices: 59487234--59487279 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
59487224 GTAAAATATA
59487234 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
59487249 TATT-AAATATATTAT
1 AATTAAAATATATAAT
59487264 AATTAAAATATATAAT
1 AATTAAAATATATAAT
59487280 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:59487406 original size:17 final size:17
Alignment explanation
Indices: 59487375--59487408 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
59487365 TTAATATTAA
59487375 ATATATTTAATTAAAAT
1 ATATATTTAATTAAAAT
59487392 ATATGATTTAA-TAAAAT
1 ATAT-ATTTAATTAAAAT
59487409 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATATATTTAATTAAAAT
Found at i:59488148 original size:16 final size:16
Alignment explanation
Indices: 59488127--59488160 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
59488117 TAAGAAATCA
59488127 CAACCATGTACTCCTG
1 CAACCATGTACTCCTG
59488143 CAACCATGTACTCCTG
1 CAACCATGTACTCCTG
59488159 CA
1 CA
59488161 GCTCCTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.38, G:0.12, T:0.24
Consensus pattern (16 bp):
CAACCATGTACTCCTG
Found at i:59496231 original size:53 final size:53
Alignment explanation
Indices: 59496150--59496300 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
59496140 CTTACACGGT
* *
59496150 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
59496205 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
59496258 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
59496301 CGCACTTATC
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:59503737 original size:53 final size:53
Alignment explanation
Indices: 59503656--59503801 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
59503646 CTTACACGGT
* *
59503656 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
59503711 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
59503764 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
59503802 AACTGGCGCA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:59507669 original size:12 final size:12
Alignment explanation
Indices: 59507652--59507676 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59507642 ATGTAAGTGA
59507652 TCTTGATGATTT
1 TCTTGATGATTT
59507664 TCTTGATGATTT
1 TCTTGATGATTT
59507676 T
1 T
59507677 TACATTTTTT
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:59508447 original size:47 final size:45
Alignment explanation
Indices: 59508335--59508462 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 45
59508325 TCACTTGTGT
* **
59508335 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTACG
1 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGACATAAGACG
* *
59508380 GAAGCTAATGTAAGACCATGTTTGGGACATGGCATCGGTAC-TAAGACG
1 G-TGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGG-ACATAAGACG
* *
59508428 AGTGCTAGTGTAAGACATGTCTAGGACATGCATCG
1 -GTGCTAGTGTAAGACATGTTTGGGACATGCATCG
59508463 ACTTCGAGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 17 0.25
47 26 0.38
48 23 0.33
49 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (45 bp):
GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGACATAAGACG
Found at i:59508485 original size:46 final size:48
Alignment explanation
Indices: 59508434--59508603 Score: 192
Period size: 47 Copynumber: 3.6 Consensus size: 48
59508424 GACGAGTGCT
59508434 AGTGTAAGA-CATGTCT-AGGACAT-GCATCGACTTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGA-GACATGGCATCGACTTCGAGATGTAAGCC
* * * * *
59508480 AGTGTAAGA-CATGTCTGGGACAT-ACATCGGCTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGAGACATGGCATCGACTTCGAGATGTA-AGCC
* * * *
59508526 AGTGTAAGACCATGTTTGAGATATGGCATCGACTT-GAGATATGAGCC
1 AGTGTAAGACCATGTCTGAGACATGGCATCGACTTCGAGATGTAAGCC
59508573 AGTGTAAGACCATGTCTGAGACATGGCATCG
1 AGTGTAAGACCATGTCTGAGACATGGCATCG
59508604 GTACCTTACC
Statistics
Matches: 103, Mismatches: 16, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 47 0.46
47 48 0.47
48 7 0.07
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGAGACATGGCATCGACTTCGAGATGTAAGCC
Found at i:59515279 original size:12 final size:12
Alignment explanation
Indices: 59515262--59515286 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59515252 ATGTAAGTGA
59515262 TCTTGATGATTT
1 TCTTGATGATTT
59515274 TCTTGATGATTT
1 TCTTGATGATTT
59515286 T
1 T
59515287 TACATTTTTT
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:59516002 original size:46 final size:44
Alignment explanation
Indices: 59515947--59516118 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 44
59515937 ACTTGTGTGT
59515947 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-CCACA-TATGGAA
* * * * * *
59515993 GATAGTGTAAGACCATGTCTGGGACGTGGCATTGGCAC-TAAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACATATG--GA-A
* * *
59516041 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCAC-ATATGGAA
* *
59516087 GCCAGTGTAAGACATGTCTGGGACATTCATCG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG
59516119 GCTAAGAGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
45 4 0.04
46 44 0.44
47 35 0.35
48 16 0.16
49 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCACATATGGAA
Found at i:59516094 original size:94 final size:94
Alignment explanation
Indices: 59515944--59516217 Score: 303
Period size: 94 Copynumber: 2.9 Consensus size: 94
59515934 GTCACTTGTG
* * **
59515944 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATGGAAGATAGTGTAAGACCA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGA-TATGTAAGCCAGTGTAAGACCA
* *
59516008 TGTCTGGGACGTGGCATTGGCACTAAGACGA
65 TGTCTGGGACATGGCATCGGCACTAAGA-GA
* *
59516039 -GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGA-CAT
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATATGTAAGCCAGTGTAAGACCAT
*
59516102 GTCTGGGACAT-TCATCGG--CTAAGAGA
66 GTCTGGGACATGGCATCGGCACTAAGAGA
* * *
59516128 TGATAGTCT-GTGTAAGACCATGTCTGGGACTTGGCATCGACCT-GATATATGAGCCAGTGTAAG
1 TG-T-G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGATATGTAAGCCAGTGTAAG
* *
59516191 GCCATGTCTGGGATATGGCATCGGCAC
61 ACCATGTCTGGGACATGGCATCGGCAC
59516218 CTTATCTATA
Statistics
Matches: 151, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
89 2 0.01
90 7 0.05
91 1 0.01
92 14 0.09
93 45 0.30
94 74 0.49
95 7 0.05
97 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (94 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATATGTAAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCACTAAGAGA
Found at i:59516119 original size:46 final size:45
Alignment explanation
Indices: 59515950--59516203 Score: 156
Period size: 46 Copynumber: 5.4 Consensus size: 45
59515940 TGTGTGTGCT
* * ** * * **
59515950 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGGAAGAT
1 AGTGTAAGACATGTCTGGGACATTCATCGGCCTGA-GATGTAAGCC
* * * * * * *
59515996 AGTGTAAGACCATGTCTGGGACGTGGCATTGGCACTAAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-TCATCGGC-CTGAGATGTA-AGCC
*
59516044 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATTCATCGGCCT-GAGATGTAAGCC
*
59516090 AGTGTAAGACATGTCTGGGACATTCATCGG-CTAAGAGATG-ATAGTC
1 AGTGTAAGACATGTCTGGGACATTCATCGGCCT--GAGATGTA-AGCC
* * * * *
59516136 TGTGTAAGACCATGTCTGGGAC-TTGGCATCGACCTGATATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATT--CATCGGCCTGAGATGTAAGCC
*
59516183 AGTGTAAGGCCATGTCTGGGA
1 AGTGTAA-GACATGTCTGGGA
59516204 TATGGCATCG
Statistics
Matches: 168, Mismatches: 26, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
45 5 0.03
46 70 0.42
47 64 0.38
48 25 0.15
49 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATTCATCGGCCTGAGATGTAAGCC
Found at i:59517099 original size:42 final size:42
Alignment explanation
Indices: 59517033--59517121 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
59517023 GTGTCTCAAC
*
59517033 TGTGAGAAGGACACGGCTGGCACACGGGCATGT-CGAGGCCG
1 TGTGAGAAGGACACGGCTGGCACACGGGCATGTGCGAAGCCG
* *
59517074 TGTGGGAA-GACACGAGCTAGGCACACGGGCGTGTGCGAAGCCG
1 TGTGAGAAGGACACG-GCT-GGCACACGGGCATGTGCGAAGCCG
59517117 TGTGA
1 TGTGA
59517122 AAACAACTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 6 0.15
41 10 0.24
42 14 0.34
43 11 0.27
ACGTcount: A:0.22, C:0.22, G:0.42, T:0.13
Consensus pattern (42 bp):
TGTGAGAAGGACACGGCTGGCACACGGGCATGTGCGAAGCCG
Found at i:59517592 original size:12 final size:12
Alignment explanation
Indices: 59517575--59517600 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59517565 GAGCCATCAT
59517575 ATGTTAGACCAC
1 ATGTTAGACCAC
59517587 ATGTTAGACCAC
1 ATGTTAGACCAC
59517599 AT
1 AT
59517601 ATGTGTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (12 bp):
ATGTTAGACCAC
Found at i:59534168 original size:19 final size:19
Alignment explanation
Indices: 59534137--59534178 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
59534127 AGCTATCATC
*
59534137 AAAC-TTAAAAATTTAATA
1 AAACTTTAAAAATTAAATA
* *
59534155 CAACTTTAACAATTAAATA
1 AAACTTTAAAAATTAAATA
59534174 AAACT
1 AAACT
59534179 CAAGTTGAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (19 bp):
AAACTTTAAAAATTAAATA
Found at i:59535922 original size:17 final size:17
Alignment explanation
Indices: 59535896--59535928 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59535886 ATTCTTTTCT
59535896 TTCATTCTCA-CCACCG
1 TTCATTCTCATCCACCG
59535912 TTCAGTTCTCATCCACC
1 TTCA-TTCTCATCCACC
59535929 ATCAACCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.18, C:0.42, G:0.06, T:0.33
Consensus pattern (17 bp):
TTCATTCTCATCCACCG
Found at i:59538303 original size:25 final size:25
Alignment explanation
Indices: 59538251--59538340 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
59538241 ACACACCACG
* *
59538251 GCTCTCTTGAGCTTCCCGAT-TAACA
1 GCTCTCATGAGCTTCCCGATAT-ATA
* *
59538276 GCTCTCTTGAGCTTCCCGATATTTA
1 GCTCTCATGAGCTTCCCGATATATA
* * *
59538301 GCTCGCAAGAGCTTCCCAATATATA
1 GCTCTCATGAGCTTCCCGATATATA
* *
59538326 ACTCACATGAGCTTC
1 GCTCTCATGAGCTTC
59538341 TTATTATATG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 53 0.98
26 1 0.02
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATATATA
Found at i:59545387 original size:43 final size:43
Alignment explanation
Indices: 59545302--59545405 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
59545292 CCCAGACAAA
* * * *
59545302 GTCTTACACGAAATCACAATACGATGCCAATGTACTAGACATG
1 GTCTTACACGTAATCACAATACAATGCCAATGTACCAAACATG
* * *
59545345 GTTTTACACGTAATCTCAATACAATGCCAATGTCCCAAACATG
1 GTCTTACACGTAATCACAATACAATGCCAATGTACCAAACATG
*
59545388 GTCTTACATGTAATCACA
1 GTCTTACACGTAATCACA
59545406 TCTCGATAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (43 bp):
GTCTTACACGTAATCACAATACAATGCCAATGTACCAAACATG
Found at i:59568549 original size:15 final size:17
Alignment explanation
Indices: 59568529--59568562 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
59568519 TATATTATTA
59568529 AAAATTG-AAT-AAGTT
1 AAAATTGTAATGAAGTT
59568544 AAAATTGTAATGAAGTT
1 AAAATTGTAATGAAGTT
59568561 AA
1 AA
59568563 CATTTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (17 bp):
AAAATTGTAATGAAGTT
Found at i:59574005 original size:20 final size:21
Alignment explanation
Indices: 59573966--59574007 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
59573956 TTATGCCACA
59573966 TCAGTATTCTTATCTTGAATT
1 TCAGTATTCTTATCTTGAATT
59573987 TCAGTATT-TTAAT-TTGAATT
1 TCAGTATTCTT-ATCTTGAATT
59574007 T
1 T
59574008 GATTTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.55
Consensus pattern (21 bp):
TCAGTATTCTTATCTTGAATT
Found at i:59574641 original size:30 final size:30
Alignment explanation
Indices: 59574591--59574665 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
59574581 GGAGGGGGAA
* *
59574591 TGTTAGGCGGCATCACGGTTGGAAGG-GCAT
1 TGTTAGGCGGCACCAAGGTT-GAAGGAGCAT
* *
59574621 TGTTAGGCAGCACCAAGGTTGAAGGAGCGT
1 TGTTAGGCGGCACCAAGGTTGAAGGAGCAT
*
59574651 TGTCAGGCGGCACCA
1 TGTTAGGCGGCACCA
59574666 GACCCCTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 5 0.13
30 33 0.87
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.20
Consensus pattern (30 bp):
TGTTAGGCGGCACCAAGGTTGAAGGAGCAT
Found at i:59585668 original size:28 final size:28
Alignment explanation
Indices: 59585637--59585702 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
59585627 TTATTTATTG
59585637 TTCTTTCATTTCTTTTTAAATTTTTACT
1 TTCTTTCATTTCTTTTTAAATTTTTACT
59585665 TTCTTTCATTTCTTTTTAAATTTTTACT
1 TTCTTTCATTTCTTTTTAAATTTTTACT
59585693 TTCTTTCATT
1 TTCTTTCATT
59585703 GATTATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (28 bp):
TTCTTTCATTTCTTTTTAAATTTTTACT
Found at i:59585776 original size:14 final size:16
Alignment explanation
Indices: 59585743--59585796 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
59585733 TGTTACCATC
59585743 TTATTATCTATTATTA
1 TTATTATCTATTATTA
* *
59585759 TTATTATTTTATTGTTA
1 TTATTA-TCTATTATTA
59585776 TTTATTCATCTATCTATTA
1 -TTATT-ATCTAT-TATTA
59585795 TT
1 TT
59585797 TACCTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 6 0.20
17 8 0.27
18 11 0.37
19 5 0.17
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTATCTATTATTA
Found at i:59586582 original size:28 final size:28
Alignment explanation
Indices: 59586542--59586596 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
59586532 GCGTTATGAG
*
59586542 GGTGCTAACCCTTCCTCGTACGTAACTA
1 GGTGCTAACCCTTCCTCGTAAGTAACTA
*
59586570 GGTGCTAACCCTTCCTTGTAAGTAACT
1 GGTGCTAACCCTTCCTCGTAAGTAACT
59586597 GACTTCCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (28 bp):
GGTGCTAACCCTTCCTCGTAAGTAACTA
Found at i:59591391 original size:34 final size:34
Alignment explanation
Indices: 59591353--59591420 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
59591343 GTTTCAGAGG
59591353 AAAGACCCGAAAGGATGAGGAACTACTATGAGTT
1 AAAGACCCGAAAGGATGAGGAACTACTATGAGTT
* *
59591387 AAAGACCCGAAAGGATGAGGAACTATTGTGAGTT
1 AAAGACCCGAAAGGATGAGGAACTACTATGAGTT
59591421 CCATGTGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (34 bp):
AAAGACCCGAAAGGATGAGGAACTACTATGAGTT
Found at i:59592722 original size:51 final size:51
Alignment explanation
Indices: 59592650--59592857 Score: 326
Period size: 51 Copynumber: 4.1 Consensus size: 51
59592640 TCACATTTAC
* *
59592650 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGTTACTACTTATCACTTGT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
* *
59592701 CCCTTGTCACTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
* * *
59592752 CACTTGTCACTAATCAGATAAGTGTAGCTGAAGCTGCCACTTATCACTTGT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
* * *
59592803 CACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCGCTTATCACTTGT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
59592854 CACT
1 CACT
59592858 GATCAGAAAT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 144 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (51 bp):
CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
Found at i:59594522 original size:89 final size:89
Alignment explanation
Indices: 59594402--59594580 Score: 340
Period size: 89 Copynumber: 2.0 Consensus size: 89
59594392 GCCCAAATAG
* *
59594402 ACCTTAGGTCTATTTTCCTTTTAAACCCTCTTTCTTTTATTATTTAAGCTATTTAATCATTTCCC
1 ACCTTAGGTCTAGTTTCCTTTTAAACCCTCTTTCTTTTATCATTTAAGCTATTTAATCATTTCCC
59594467 ATAATTTTACATTTGTTACAATTT
66 ATAATTTTACATTTGTTACAATTT
59594491 ACCTTAGGTCTAGTTTCCTTTTAAACCCTCTTTCTTTTATCATTTAAGCTATTTAATCATTTCCC
1 ACCTTAGGTCTAGTTTCCTTTTAAACCCTCTTTCTTTTATCATTTAAGCTATTTAATCATTTCCC
59594556 ATAATTTTACATTTGTTACAATTT
66 ATAATTTTACATTTGTTACAATTT
59594580 A
1 A
59594581 GTCTTTTTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (89 bp):
ACCTTAGGTCTAGTTTCCTTTTAAACCCTCTTTCTTTTATCATTTAAGCTATTTAATCATTTCCC
ATAATTTTACATTTGTTACAATTT
Found at i:59599907 original size:51 final size:51
Alignment explanation
Indices: 59599840--59599945 Score: 158
Period size: 51 Copynumber: 2.1 Consensus size: 51
59599830 TCACATTTAC
*
59599840 CACTTGTCACTGATCAGAGAAGTGTAGCTAAAGCTACCACTTATCACTTGT
1 CACTTGTCACTGATCAGAGAAATGTAGCTAAAGCTACCACTTATCACTTGT
* * * * *
59599891 CACTTGTTACTGATCAGATAAATGTAGCTGAGGCTACCGCTTATCACTTGT
1 CACTTGTCACTGATCAGAGAAATGTAGCTAAAGCTACCACTTATCACTTGT
59599942 CACT
1 CACT
59599946 GATAAGAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (51 bp):
CACTTGTCACTGATCAGAGAAATGTAGCTAAAGCTACCACTTATCACTTGT
Found at i:59610317 original size:24 final size:23
Alignment explanation
Indices: 59610285--59610390 Score: 79
Period size: 24 Copynumber: 4.4 Consensus size: 23
59610275 ACTCATTCGG
*
59610285 ACACATAGTGCCGCATTTCCTCGC
1 ACACATAGTGCCGCATAT-CTCGC
***
59610309 ACACATAGTGCTATATAATCTCGC
1 ACACATAGTGCCGCAT-ATCTCGC
* * *
59610333 ACACATAGTGCCATGTAGT-TTTTGC
1 ACACATAGTGCC--GCA-TATCTCGC
*
59610358 ACACATAGTGCCGCATAACCTCGC
1 ACACATAGTGCCGCAT-ATCTCGC
59610382 ACACATAGT
1 ACACATAGT
59610391 ACTGAAATTT
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
22 1 0.02
23 2 0.03
24 41 0.64
25 17 0.27
26 2 0.03
27 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (23 bp):
ACACATAGTGCCGCATATCTCGC
Found at i:59614671 original size:51 final size:50
Alignment explanation
Indices: 59614592--59614752 Score: 226
Period size: 51 Copynumber: 3.3 Consensus size: 50
59614582 CGGATCACAT
*
59614592 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACT-ATCAGATAAGTGTAGCTGAAGCTACCAC
59614643 TTATCACTTGTCACTTGTCACTAGTCAGATAAGTGTAGCTGAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTA-TCAGATAAGTGTAGCTGAAGCTACCAC
* * *
59614694 TTATCACTTGTCAC-TG-----ATCAGATAATTGTAGCTGAGGCTACCGC
1 TTATCACTTGTCACTTGTCACTATCAGATAAGTGTAGCTGAAGCTACCAC
59614738 TTATCACTTGTCACT
1 TTATCACTTGTCACT
59614753 GATTAGAAGT
Statistics
Matches: 104, Mismatches: 4, Indels: 10
0.88 0.03 0.08
Matches are distributed among these distances:
44 38 0.37
45 1 0.01
50 3 0.03
51 62 0.60
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTTGTCACTATCAGATAAGTGTAGCTGAAGCTACCAC
Found at i:59614753 original size:44 final size:44
Alignment explanation
Indices: 59614647--59614755 Score: 166
Period size: 44 Copynumber: 2.5 Consensus size: 44
59614637 TACCACTTAT
*
59614647 CACTTGTCACTTGTCACT-AGTCAGATAAGTGTAGCTGAAGCTAC
1 CACTTATCACTTGTCACTGA-TCAGATAAGTGTAGCTGAAGCTAC
* *
59614691 CACTTATCACTTGTCACTGATCAGATAATTGTAGCTGAGGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
*
59614735 CGCTTATCACTTGTCACTGAT
1 CACTTATCACTTGTCACTGAT
59614756 TAGAAGTACT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 59 0.98
45 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTAC
Found at i:59623497 original size:46 final size:46
Alignment explanation
Indices: 59623445--59623887 Score: 546
Period size: 46 Copynumber: 9.6 Consensus size: 46
59623435 GCTTTTTGAA
* * *
59623445 ATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
59623491 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
59623537 ATGAAATTTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
59623583 ATGAAATGTGTAAGACCATGGTTGAAAGATAACATGTCAACATGAA
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
59623629 ATGAAATGTGTAAGACCATGGTGGAAAGATACCACGGTAACGTTAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
59623675 ATGAAATGAACAAGACCATGGTTGAAAAATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
59623721 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
59623767 GGGAAATGAATAGGACCATGGTTGAAAGATACTATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
59623813 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGTAACATGA-
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
59623858 TTGGAATTGAGTAAGACCATAGTTGAAAGA
1 AT-GAAATGAGTAAGACCATGGTTGAAAGA
59623888 CACTATGACA
Statistics
Matches: 351, Mismatches: 45, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.00
46 350 1.00
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:59625658 original size:40 final size:40
Alignment explanation
Indices: 59625584--59625794 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
59625574 TCTTTGGGAT
** * *
59625584 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
59625622 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
59625662 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
59625702 TTAGCCCGGATATAG-CAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
59625742 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
59625782 TTAGCCCGGATAT
1 TTAGCCCGGATAT
59625795 CATTCGAATA
Statistics
Matches: 146, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 125 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:59628179 original size:56 final size:56
Alignment explanation
Indices: 59628093--59628212 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
59628083 ACAAGGGATG
*
59628093 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACACGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
59628149 ATGGGCAAAACACGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACACGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
59628205 ATGGGCAA
1 ATGGGCAA
59628213 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACACGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:59629746 original size:47 final size:47
Alignment explanation
Indices: 59629659--59629784 Score: 198
Period size: 47 Copynumber: 2.6 Consensus size: 47
59629649 GTATATTTGA
*
59629659 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTG
59629708 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* * *
59629755 ATGGATGTGGAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
59629785 TCCCGAAGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 58 0.79
49 15 0.21
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:59637644 original size:40 final size:40
Alignment explanation
Indices: 59637590--59637773 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 40
59637580 TTCGCACAAG
* *
59637590 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
59637630 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
59637670 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-AACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * *
59637710 GCCTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAT
59637750 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
59637774 CATTCGAATA
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 4 0.03
40 117 0.93
41 5 0.04
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:59641036 original size:44 final size:44
Alignment explanation
Indices: 59640927--59641318 Score: 318
Period size: 44 Copynumber: 8.8 Consensus size: 44
59640917 ATAATCGTGG
* * * * * *
59640927 CAAATCTTATCTCCTTAAAGTTGCAGTTGAGCAGACTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
59640971 GCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCATATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * **
59641016 TAAACCTTATCTCCCTGAAGTTGTAATGAAGCA-AGTTAAAAATAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCT--A
* * * *
59641062 CAAATCTTCTCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * * *
59641106 TAAACCTAATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
59641150 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
59641194 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
59641238 GCAAATCTTATCTCTCTGAAGTTGTAGTAGAACAGATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
59641283 TAAACCTTATTTCCCTGAAGTTGCAATGGAGTAGAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
59641319 GGAAGTGAAA
Statistics
Matches: 274, Mismatches: 68, Indels: 11
0.78 0.19 0.03
Matches are distributed among these distances:
43 1 0.00
44 169 0.62
45 70 0.26
46 33 0.12
47 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:59641292 original size:89 final size:89
Alignment explanation
Indices: 59640932--59641313 Score: 399
Period size: 89 Copynumber: 4.3 Consensus size: 89
59640922 CGTGGCAAAT
* * * * *
59640932 CTTATCTCCTTAAAGTTGCAGTTGAGCAGACTGAAGATAGCAGATCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
*
59640997 GTAGAGCATATTAAAGCTATAAAC
66 GTAGAGCAGATTAAAGCTATAAAC
* * * * * * * * *
59641021 CTTATCTCCCTGAAGTTGTAATGAAGCA-AGTTAAAAATAAACAAATCTTCTCTCCCTAAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGAT-AGCAAATCTTATCTCCCTGAAGTTG
* * *
59641085 CAGTGGAGCAGATTAAAACCATAAAC
64 CAGTAGAGCAGATTAAAGCTATAAAC
* * ** * *
59641111 CTAATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGTTA-CAAGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
* * * * * **
59641175 GTGGAGTAGATTGAAGTTACAAGT
66 GTAGAGCAGATTAAAGCTATAAAC
* * *
59641199 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
*
59641264 GTAGAACAGATTAAAGCTATAAAC
66 GTAGAGCAGATTAAAGCTATAAAC
* *
59641288 CTTATTTCCCTGAAGTTGCAATGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
59641314 TAGATGGAAG
Statistics
Matches: 231, Mismatches: 58, Indels: 8
0.78 0.20 0.03
Matches are distributed among these distances:
88 72 0.31
89 89 0.39
90 70 0.30
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
GTAGAGCAGATTAAAGCTATAAAC
Found at i:59642824 original size:12 final size:12
Alignment explanation
Indices: 59642807--59642831 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59642797 TTTTATTTTA
59642807 ATTCATTTATTT
1 ATTCATTTATTT
59642819 ATTCATTTATTT
1 ATTCATTTATTT
59642831 A
1 A
59642832 GTTACTTGTT
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:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTCATTTATTT
Found at i:59645947 original size:57 final size:57
Alignment explanation
Indices: 59645886--59646048 Score: 220
Period size: 57 Copynumber: 2.8 Consensus size: 57
59645876 GAATGAAGAG
*
59645886 GAACAAGAAATATTCTCTAGCAAAAACAGTAAACATTCCCTGCAAGAAAAGACAAGT
1 GAACAAGAAATATTCTCTAGCAAAAACAGTAAATATTCCCTGCAAGAAAAGACAAGT
* * *
59645943 GAACAAGAAATATTTTCTAGCATAAACAGTAAATATTCCCTGCAAGAAAAGACGAGT
1 GAACAAGAAATATTCTCTAGCAAAAACAGTAAATATTCCCTGCAAGAAAAGACAAGT
* * * * *
59646000 GAATAGGAAATATTCT-TTGGAGAAAATAGTAAATATTCCCTAGCAAGAA
1 GAACAAGAAATATTCTCTAGCA-AAAACAGTAAATATTCCCT-GCAAGAA
59646049 CAGTAAGATG
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
56 3 0.03
57 83 0.89
58 7 0.08
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.22
Consensus pattern (57 bp):
GAACAAGAAATATTCTCTAGCAAAAACAGTAAATATTCCCTGCAAGAAAAGACAAGT
Found at i:59646152 original size:20 final size:20
Alignment explanation
Indices: 59646127--59646165 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
59646117 TATTCTCTGA
59646127 AAAGTTTCAATTATGTAATC
1 AAAGTTTCAATTATGTAATC
59646147 AAAGTTTCAATTATGTAAT
1 AAAGTTTCAATTATGTAAT
59646166 GATATAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAGTTTCAATTATGTAATC
Found at i:59646309 original size:17 final size:17
Alignment explanation
Indices: 59646287--59646340 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 17
59646277 ATCAAAACTC
59646287 GTTTCTCAAAATTTTAA
1 GTTTCTCAAAATTTTAA
*
59646304 GTTTCTCCAAATTTTTAA
1 GTTTCT-CAAAATTTTAA
59646322 GTTT-TCAAAA-TTTAA
1 GTTTCTCAAAATTTTAA
59646337 GTTT
1 GTTT
59646341 TAAATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 9 0.26
16 4 0.12
17 7 0.21
18 14 0.41
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.50
Consensus pattern (17 bp):
GTTTCTCAAAATTTTAA
Found at i:59646319 original size:18 final size:18
Alignment explanation
Indices: 59646287--59646334 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
59646277 ATCAAAACTC
*
59646287 GTTTCT-CAAAATTTTAA
1 GTTTCTCCAAATTTTTAA
59646304 GTTTCTCCAAATTTTTAA
1 GTTTCTCCAAATTTTTAA
*
59646322 GTTT-TCAAAATTT
1 GTTTCTCCAAATTT
59646335 AAGTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (18 bp):
GTTTCTCCAAATTTTTAA
Found at i:59647038 original size:20 final size:18
Alignment explanation
Indices: 59646991--59647084 Score: 62
Period size: 17 Copynumber: 5.5 Consensus size: 18
59646981 CAAGATAAAG
59646991 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
59647008 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
*
59647028 ATTAAATTAATA--AAAT
1 ATTAAATTAATATTTAAT
* *
59647044 ACT--ATTAAGA--TAAGT
1 ATTAAATTAATATTTAA-T
59647059 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
59647076 ATTAAATTA
1 ATTAAATTA
59647085 TTAAAATAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
14 8 0.13
15 3 0.05
16 6 0.10
17 23 0.37
18 4 0.06
19 3 0.05
20 15 0.24
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:59649790 original size:43 final size:42
Alignment explanation
Indices: 59649724--59649841 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 42
59649714 AGCTCATACA
* * *
59649724 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTAATCAGATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCAAATAT-G
* *** *
59649767 ATGCCACTGTCCCAGACAGGGTCTTACACAAAATTAAATATG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATATG
* * *
59649809 ATGTCAATGTCCCAGATATGGTCTTACATGTAA
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAA
59649842 ATCATAAGTC
Statistics
Matches: 59, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 27 0.46
43 31 0.53
44 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATATG
Found at i:59650748 original size:29 final size:29
Alignment explanation
Indices: 59650706--59650764 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
59650696 TATTTTCGGC
*
59650706 AACCATATATGAAAATGAACGAAAATATG
1 AACCATATATGAAAATGAACAAAAATATG
59650735 AACCATATATGAAAATGAACAAAAATATG
1 AACCATATATGAAAATGAACAAAAATATG
59650764 A
1 A
59650765 CTTTTGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.12, T:0.20
Consensus pattern (29 bp):
AACCATATATGAAAATGAACAAAAATATG
Found at i:59656906 original size:38 final size:38
Alignment explanation
Indices: 59656864--59656936 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
59656854 ATCAAACTAT
59656864 AAGTTCAGCCATAATCTAGCCATATCACATGGCATAAC
1 AAGTTCAGCCATAATCTAGCCATATCACATGGCATAAC
59656902 AAGTTCAGCCATAATCTAGCCATATCACATGGCAT
1 AAGTTCAGCCATAATCTAGCCATATCACATGGCAT
59656937 GACATACACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.25
Consensus pattern (38 bp):
AAGTTCAGCCATAATCTAGCCATATCACATGGCATAAC
Found at i:59660160 original size:126 final size:126
Alignment explanation
Indices: 59659955--59660187 Score: 340
Period size: 126 Copynumber: 1.8 Consensus size: 126
59659945 GAAAAAACTG
* * * * * * *
59659955 ACTCTTATTTAAGCGTTGCCTTAGGCATGGATATCCCAACCTTTATATAAAGAGTTTGCCAAAGC
1 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCACAACCCTAAGACAAAGAGTTGGCCAAAGC
* ** *
59660020 GTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGGCATAGTATTAGATAAAACCA
66 GTATGCCGAAAAGTCTATCCCAACACTTAAGAAAGTGTCGGCATAGTATTAGATAAAACCA
* *
59660081 ACTCTTATTTAAGCGTTGCCTTAGGCATGCCTATCACAACCCTAAGACAAAGAGTTGGCCAAAGT
1 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCACAACCCTAAGACAAAGAGTTGGCCAAAGC
*
59660146 GTTTGCCGAAAAGTCTATCCCAACACTTAAGAAAGTGTCGGC
66 GTATGCCGAAAAGTCTATCCCAACACTTAAGAAAGTGTCGGC
59660188 CCAAAAGTTT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
126 93 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (126 bp):
ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCACAACCCTAAGACAAAGAGTTGGCCAAAGC
GTATGCCGAAAAGTCTATCCCAACACTTAAGAAAGTGTCGGCATAGTATTAGATAAAACCA
Found at i:59662402 original size:85 final size:85
Alignment explanation
Indices: 59662259--59662437 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
59662249 GGCCGGCCAT
59662259 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
59662324 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
59662344 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
59662409 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
59662429 GGGCATGGG
1 GAGCATGGG
59662438 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:59664276 original size:22 final size:22
Alignment explanation
Indices: 59664249--59664370 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
59664239 CATGTGTATG
59664249 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
59664271 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
59664296 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
59664318 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
59664343 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
59664365 TGTGAT
1 TGTGAT
59664371 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:59664385 original size:47 final size:47
Alignment explanation
Indices: 59663640--59664377 Score: 1143
Period size: 47 Copynumber: 15.7 Consensus size: 47
59663630 AGTGTATATA
*
59663640 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
59663687 TGTGATAAGGCCGAATGGCCAA--T-ATG-A--TGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
59663728 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
59663775 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
59663822 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
59663869 TGTGATAAGGTCGAATGGCCAATATGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
59663916 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATG
59663965 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
59664012 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATG
59664061 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
59664108 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
59664155 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTTAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
59664202 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
59664249 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* * *
59664296 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATG
*
59664343 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
59664378 GAAGTGTATA
Statistics
Matches: 638, Mismatches: 38, Indels: 30
0.90 0.05 0.04
Matches are distributed among these distances:
41 36 0.06
43 2 0.00
44 6 0.01
45 2 0.00
46 3 0.00
47 501 0.79
49 86 0.13
50 2 0.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
Found at i:59666431 original size:11 final size:11
Alignment explanation
Indices: 59666415--59666456 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
59666405 ACCAGATTTA
*
59666415 TTTTCTTTATT
1 TTTTCTTTCTT
*
59666426 TTTTCTCTCTT
1 TTTTCTTTCTT
*
59666437 CTTTCTTTCTT
1 TTTTCTTTCTT
59666448 TTTT-TTTCT
1 TTTTCTTTCT
59666457 CTTCATTCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 5 0.19
11 21 0.81
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:59666457 original size:23 final size:22
Alignment explanation
Indices: 59666416--59666466 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
59666406 CCAGATTTAT
59666416 TTTCTTTATTTTTTCTCTCTTC
1 TTTCTTTATTTTTTCTCTCTTC
* *
59666438 TTTCTTTCTTTTTTTTTCTCTTC
1 TTTCTTT-ATTTTTTCTCTCTTC
*
59666461 ATTCTT
1 TTTCTT
59666467 CCATGATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCTTTATTTTTTCTCTCTTC
Found at i:59678824 original size:35 final size:36
Alignment explanation
Indices: 59678762--59678830 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
59678752 TATTTCGTCC
*
59678762 TTTTTAACTTTATAAAAACTTAGTTATTTATTTAATT
1 TTTTTAACTGTATAAAAACTTAGTTATTT-TTTAATT
* *
59678799 TTTTTAACTGT-TAAATATTTA-TTATTTTTTAA
1 TTTTTAACTGTATAAAAACTTAGTTATTTTTTAA
59678831 ATCACTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 5 0.17
35 6 0.21
36 8 0.28
37 10 0.34
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.59
Consensus pattern (36 bp):
TTTTTAACTGTATAAAAACTTAGTTATTTTTTAATT
Found at i:59683115 original size:26 final size:26
Alignment explanation
Indices: 59683028--59683222 Score: 137
Period size: 26 Copynumber: 7.5 Consensus size: 26
59683018 GCACATAGTA
* * *
59683028 CCTGCTAACTAATCACTGGCTCAAAG
1 CCTGCTAAATAAACACTGGCTCAAGG
* * * * * *
59683054 CCTACTAAACAATCACCGGTTCAAAG
1 CCTGCTAAATAAACACTGGCTCAAGG
59683080 -CTGGCTAAATAAACACTGGCTCAAGG
1 CCT-GCTAAATAAACACTGGCTCAAGG
* *
59683106 CCTGCTAAATTAAA-A-TCAGCTCAATG
1 CCTGCTAAA-TAAACACT-GGCTCAAGG
* * *
59683132 CCTGTTAAATAATCA-TCGGCTCAAGA
1 CCTGCTAAATAAACACT-GGCTCAAGG
* *
59683158 CGTGCTAAATAAACACCGGCTCAAGG
1 CCTGCTAAATAAACACTGGCTCAAGG
* * * *
59683184 CCTACTAAATAATCACCGACTCAAGG
1 CCTGCTAAATAAACACTGGCTCAAGG
*
59683210 CATGCTAAATAAA
1 CCTGCTAAATAAA
59683223 GTACATCTTG
Statistics
Matches: 133, Mismatches: 30, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
25 6 0.05
26 121 0.91
27 6 0.05
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (26 bp):
CCTGCTAAATAAACACTGGCTCAAGG
Found at i:59683220 original size:52 final size:51
Alignment explanation
Indices: 59683084--59683222 Score: 152
Period size: 52 Copynumber: 2.7 Consensus size: 51
59683074 TCAAAGCTGG
* * * * * *
59683084 CTAAATAAACACTGGCTCAAGGCCTGCTAAATTAAAATCAGCTCAATGCCTG
1 CTAAATAATCACCGGCTCAAGGCATGCTAAA-TAAAACCAGCTCAAGGCCTA
* * * * *
59683136 TTAAATAATCATCGGCTCAAGACGTGCTAAATAAACACCGGCTCAAGGCCTA
1 CTAAATAATCACCGGCTCAAGGCATGCTAAATAAA-ACCAGCTCAAGGCCTA
*
59683188 CTAAATAATCACCGACTCAAGGCATGCTAAATAAA
1 CTAAATAATCACCGGCTCAAGGCATGCTAAATAAA
59683223 GTACATCTTG
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
51 4 0.06
52 67 0.94
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (51 bp):
CTAAATAATCACCGGCTCAAGGCATGCTAAATAAAACCAGCTCAAGGCCTA
Found at i:59684557 original size:65 final size:64
Alignment explanation
Indices: 59684453--59684582 Score: 197
Period size: 65 Copynumber: 2.0 Consensus size: 64
59684443 CAAAAGGTTT
* *
59684453 ACCTACATCATATCGCGGGGGTATAATACCATTTGAGAGAATTGAGCTAAACACAAGCACTAGAG
1 ACCTACATCATATCGCGGGGGAATAATACCATTTGAGAGAATGGAGCTAAACACAAG-ACTAGAG
* * * *
59684518 ACCTACATCATATTGTGGGGGAATAATATCATTTGAGAGAATGGAGGTAAACACAAGACTAGAG
1 ACCTACATCATATCGCGGGGGAATAATACCATTTGAGAGAATGGAGCTAAACACAAGACTAGAG
59684582 A
1 A
59684583 TGGCCCATGA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
64 8 0.14
65 51 0.86
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (64 bp):
ACCTACATCATATCGCGGGGGAATAATACCATTTGAGAGAATGGAGCTAAACACAAGACTAGAG
Found at i:59688402 original size:5 final size:5
Alignment explanation
Indices: 59688392--59688423 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
59688382 AACATTGTGA
59688392 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
59688424 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:59688417 original size:9 final size:9
Alignment explanation
Indices: 59688393--59688423 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
59688383 ACATTGTGAA
59688393 AAATAAAAT
1 AAATAAAAT
59688402 AAAATAAAAT
1 -AAATAAAAT
59688412 AAATAAAAT
1 AAATAAAAT
59688421 AAA
1 AAA
59688424 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:59695647 original size:16 final size:17
Alignment explanation
Indices: 59695620--59695652 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
59695610 TATTATAATC
59695620 TATAATATAATAATAGT
1 TATAATATAATAATAGT
*
59695637 TATAA-ATAATAGTAGT
1 TATAATATAATAATAGT
59695653 ACATTATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
TATAATATAATAATAGT
Found at i:59699119 original size:12 final size:12
Alignment explanation
Indices: 59699102--59699164 Score: 64
Period size: 12 Copynumber: 5.4 Consensus size: 12
59699092 GATAATTTTA
59699102 TATTAAAATTAT
1 TATTAAAATTAT
59699114 TATT-AAA-TAT
1 TATTAAAATTAT
59699124 TATTAATAATTA-
1 TATTAA-AATTAT
59699136 TATTAATAA-TAT
1 TATTAA-AATTAT
59699148 TATT-AAATTAT
1 TATTAAAATTAT
59699159 ATATTA
1 -TATTA
59699165 TTTTATTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
10 9 0.20
11 10 0.23
12 23 0.52
13 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:59699256 original size:56 final size:57
Alignment explanation
Indices: 59699128--59699258 Score: 158
Period size: 56 Copynumber: 2.3 Consensus size: 57
59699118 AAATATTATT
* * * * *
59699128 AATAATTATATTAATAATATTATTAAATTATATATTATTTTATTAAATTGTAGTTAAT
1 AATAATTATATTAA-AATATGATTAAATTATATATTATATTATTAAAATATAGTTAAC
* * *
59699186 AATAATTATGTTAAAATATGATTAAATTATTTATT-TATTATTAAAATATATTTAAC
1 AATAATTATATTAAAATATGATTAAATTATATATTATATTATTAAAATATAGTTAAC
59699242 AATAATCT-TATTAAAAT
1 AATAAT-TATATTAAAAT
59699259 TTAATAACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
56 30 0.48
57 20 0.32
58 13 0.21
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (57 bp):
AATAATTATATTAAAATATGATTAAATTATATATTATATTATTAAAATATAGTTAAC
Found at i:59699272 original size:25 final size:26
Alignment explanation
Indices: 59699223--59699273 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
59699213 TATTTATTTA
*
59699223 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
59699249 TTATTAAAATTTA-ATAACAATAATC
1 TTATTAAAATATATATAACAATAATC
59699274 ATCTACCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:59699396 original size:44 final size:46
Alignment explanation
Indices: 59699346--59699435 Score: 141
Period size: 44 Copynumber: 2.0 Consensus size: 46
59699336 ATTACAACAT
59699346 CATTCCATTCAACCAAACA-TAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACAGT-AGAATTACTGATTACAGCTCTATTC
*
59699390 CATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACAGTAGAATTACTGATTACAGCTCTATTC
59699436 AATTACAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 24 0.57
45 3 0.07
46 15 0.36
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (46 bp):
CATTCCATTCAACCAAACAGTAGAATTACTGATTACAGCTCTATTC
Found at i:59699442 original size:16 final size:16
Alignment explanation
Indices: 59699421--59699459 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
59699411 TGAATTACTG
*
59699421 ATTACAGCTCTATTCA
1 ATTACAGCCCTATTCA
*
59699437 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
59699453 ATTACAG
1 ATTACAG
59699460 TGAACCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:59705206 original size:17 final size:17
Alignment explanation
Indices: 59705180--59705219 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
59705170 GTGTATACTG
*
59705180 AAACTATAATGAAACTA
1 AAACTGTAATGAAACTA
*
59705197 AAACTGTAATGAAACTG
1 AAACTGTAATGAAACTA
59705214 AAACTG
1 AAACTG
59705220 ATAGAGACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (17 bp):
AAACTGTAATGAAACTA
Found at i:59706636 original size:258 final size:258
Alignment explanation
Indices: 59706173--59706687 Score: 825
Period size: 258 Copynumber: 2.0 Consensus size: 258
59706163 TTTGAGTTCG
* * *
59706173 GTACAGAGGCCTAAGAAAAAGGCAAGGACTGACGGGCCGGTTAGATCTGGGCACCCTGTTGCTCC
1 GTACAGAGGCCTAAGAAAAAGGCAAGGACTGACAGGCCGGTTAGAGCTGGGCACCCTATTGCTCC
* *
59706238 TACTGGATTGCAGCTGTGTGGAGATTATGGTAGACGCCATTAGGGCGAGTGTTGGAGGAGGACTG
66 TACTGGATTGCAACTGTGTGGAGATTATGGTAGAAGCCATTAGGGCGAGTGTTGGAGGAGGACTG
*
59706303 AGGCATATTTGAGGTGTGGGTCTTTAGAGTACCATATTCGAGAGTATCCACTGAGGTTCAATCAG
131 AGGCATATTTGAGGTGTGGGTCTTTAGAGCACCATATTCGAGAGTATCCACTGAGGTTCAATCAG
* ** * *
59706368 GTGTAAGCTCCGGGTTCTAGTACTACATAGCCACAGAGGGTAGTTCAGCAATCATCGAGGGGT
196 GTGCAAGCTCCGAATTCTAGTACTACACAGCCACAAAGGGTAGTTCAGCAATCATCGAGGGGT
* * *
59706431 GTACAGAGGCCTAAGAAAAAGGCAATGACTGATAGGTCGGTTAGAGCTGGGCACCCTATTGCTCC
1 GTACAGAGGCCTAAGAAAAAGGCAAGGACTGACAGGCCGGTTAGAGCTGGGCACCCTATTGCTCC
59706496 TACTGGATTGCAACTGTGTGGAGATTATGGTAGAAGCCATTAGGGCGAGTGTTGGAGGAGGACTG
66 TACTGGATTGCAACTGTGTGGAGATTATGGTAGAAGCCATTAGGGCGAGTGTTGGAGGAGGACTG
* * * *
59706561 AGGCATGTTTGGGGTGTGGGTCTTTAGGGCACCATATTCGAGAGTATCCGCTGAAGG-TCAATCA
131 AGGCATATTTGAGGTGTGGGTCTTTAGAGCACCATATTCGAGAGTATCCACTG-AGGTTCAATCA
* * *
59706625 GGTGCAAGCTCCGAATTCTGGTACTGCACAGCCACAAAGGGTAGTTCAGCAATTATCGAGGGG
195 GGTGCAAGCTCCGAATTCTAGTACTACACAGCCACAAAGGGTAGTTCAGCAATCATCGAGGGG
59706688 CCATGGTCAG
Statistics
Matches: 235, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
258 232 0.99
259 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (258 bp):
GTACAGAGGCCTAAGAAAAAGGCAAGGACTGACAGGCCGGTTAGAGCTGGGCACCCTATTGCTCC
TACTGGATTGCAACTGTGTGGAGATTATGGTAGAAGCCATTAGGGCGAGTGTTGGAGGAGGACTG
AGGCATATTTGAGGTGTGGGTCTTTAGAGCACCATATTCGAGAGTATCCACTGAGGTTCAATCAG
GTGCAAGCTCCGAATTCTAGTACTACACAGCCACAAAGGGTAGTTCAGCAATCATCGAGGGGT
Found at i:59709392 original size:23 final size:23
Alignment explanation
Indices: 59709362--59709408 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
59709352 GGGTTCAAGG
59709362 TTGGACTTTAGTACTGCATTCCA
1 TTGGACTTTAGTACTGCATTCCA
*
59709385 TTGGACTTTAGTACTGCGTTCCA
1 TTGGACTTTAGTACTGCATTCCA
59709408 T
1 T
59709409 CCTCAGACCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (23 bp):
TTGGACTTTAGTACTGCATTCCA
Found at i:59713706 original size:17 final size:20
Alignment explanation
Indices: 59713684--59713723 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
59713674 ATCAACCATG
59713684 CATATT-TAAA-C-TCACAA
1 CATATTATAAATCATCACAA
59713701 CATATTATAAATCATCACAA
1 CATATTATAAATCATCACAA
59713721 CAT
1 CAT
59713724 TCTTGAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 4 0.20
19 1 0.05
20 9 0.45
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (20 bp):
CATATTATAAATCATCACAA
Found at i:59718862 original size:43 final size:42
Alignment explanation
Indices: 59718814--59718905 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
59718804 TCCTAGACGT
* * **
59718814 GGTCTTACATGTAATTCAATATA-GATGCCTCTGTCCCAGACAG
1 GGTCTTACACG-AAATCAA-ATACGATGCCGATGTCCCAGACAG
* *
59718857 GGTCTTACACGAAATCAAATACGATGCGGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAG
59718899 GGTCTTA
1 GGTCTTA
59718906 TACATAAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.07
42 29 0.69
43 10 0.24
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAG
Found at i:59721429 original size:11 final size:10
Alignment explanation
Indices: 59721392--59721433 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 10
59721382 GAATAAAAAT
59721392 ATTAA-ATTA
1 ATTAAGATTA
*
59721401 ATT-AGTTTA
1 ATTAAGATTA
59721410 ATTAAGATTA
1 ATTAAGATTA
59721420 ATTAAAGATTA
1 ATT-AAGATTA
59721431 ATT
1 ATT
59721434 TAAGTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 1 0.04
9 9 0.32
10 8 0.29
11 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (10 bp):
ATTAAGATTA
Found at i:59730769 original size:16 final size:16
Alignment explanation
Indices: 59730744--59730774 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59730734 AGGATTATCA
59730744 AAGGAAAAAGTTCACC
1 AAGGAAAAAGTTCACC
*
59730760 AAGGAGAAAGTTCAC
1 AAGGAAAAAGTTCAC
59730775 AGAGGGCAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (16 bp):
AAGGAAAAAGTTCACC
Found at i:59733764 original size:17 final size:17
Alignment explanation
Indices: 59733734--59733776 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
59733724 GTATTATGTA
59733734 AAAATATTTACAAATAT
1 AAAATATTTACAAATAT
*
59733751 CAAATAATTT-CAAATAT
1 AAAAT-ATTTACAAATAT
59733768 AAAAT-TTTA
1 AAAATATTTA
59733777 ATTAAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATATTTACAAATAT
Found at i:59741639 original size:11 final size:11
Alignment explanation
Indices: 59741570--59741679 Score: 71
Period size: 11 Copynumber: 9.8 Consensus size: 11
59741560 AACTTAAATA
*
59741570 TATTATTTTCT
1 TATTATTTTAT
*
59741581 TGTTATTTT-T
1 TATTATTTTAT
*
59741591 T-TTATTTTAC
1 TATTATTTTAT
* * *
59741601 TATCATTTCAC
1 TATTATTTTAT
** *
59741612 TATTAGATTGT
1 TATTATTTTAT
59741623 TATTATTTTAT
1 TATTATTTTAT
*
59741634 TGTTATTGTATAAT
1 TATTATT-T-T-AT
*
59741648 TCTTATTTTAT
1 TATTATTTTAT
59741659 TATTAATTTTAT
1 TATT-ATTTTAT
59741671 TATTATTTT
1 TATTATTTT
59741680 TAGAGACATT
Statistics
Matches: 77, Mismatches: 16, Indels: 12
0.73 0.15 0.11
Matches are distributed among these distances:
9 7 0.09
10 3 0.04
11 44 0.57
12 13 0.17
13 2 0.03
14 8 0.10
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:59741669 original size:12 final size:12
Alignment explanation
Indices: 59741652--59741681 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59741642 TATAATTCTT
59741652 ATTTTATTATTA
1 ATTTTATTATTA
59741664 ATTTTATTATTA
1 ATTTTATTATTA
*
59741676 TTTTTA
1 ATTTTA
59741682 GAGACATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTATTATTA
Found at i:59742625 original size:48 final size:48
Alignment explanation
Indices: 59742568--59742674 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
59742558 AATTTTAATT
* *
59742568 TTTCAATACTATTCGATATTTT-TTAATTTATGCAAATT-TAAATATAA
1 TTTCAATACTATTCGATATTTTATTAATATATGC-AATTATAAATAAAA
* * *
59742615 TTTGCAATACTATTTGATATTTTATTCATATATGCAATTATAATTAAAA
1 TTT-CAATACTATTCGATATTTTATTAATATATGCAATTATAAATAAAA
59742664 TTTCAATACTA
1 TTTCAATACTA
59742675 CTTGAATTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
47 3 0.06
48 30 0.58
49 19 0.37
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (48 bp):
TTTCAATACTATTCGATATTTTATTAATATATGCAATTATAAATAAAA
Found at i:59742692 original size:49 final size:49
Alignment explanation
Indices: 59742571--59742697 Score: 129
Period size: 49 Copynumber: 2.6 Consensus size: 49
59742561 TTTAATTTTT
* *
59742571 CAATACTA-TTCGATA-TTTTTTAATTTATGCAAATTTAAATATAATTTG
1 CAATACTACTT-GATATTTTTTTCATTTATGCAAATTTAAATAAAATTTG
* * * *
59742619 CAATACTATTTGATATTTTATTCATATATGC-AATTATAATTAAAATTT-
1 CAATACTACTTGATATTTTTTTCATTTATGCAAATT-TAAATAAAATTTG
59742667 CAATACTACTTGA-ATTGTTTTTTCATTTATG
1 CAATACTACTTGATA-T-TTTTTTCATTTATG
59742698 ATGTTTGCAT
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
47 1 0.02
48 29 0.44
49 36 0.55
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.49
Consensus pattern (49 bp):
CAATACTACTTGATATTTTTTTCATTTATGCAAATTTAAATAAAATTTG
Found at i:59743660 original size:9 final size:9
Alignment explanation
Indices: 59743646--59743704 Score: 93
Period size: 9 Copynumber: 6.6 Consensus size: 9
59743636 ATAAGTATAA
59743646 AATTAACCG
1 AATTAACCG
59743655 AATTAACCG
1 AATTAACCG
*
59743664 AATTACCCG
1 AATTAACCG
59743673 AATT-ACCTG
1 AATTAACC-G
59743682 AATTAACCG
1 AATTAACCG
59743691 AATTAACCG
1 AATTAACCG
59743700 AATTA
1 AATTA
59743705 TTTGTATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 2 0.04
9 41 0.89
10 3 0.07
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:59743741 original size:14 final size:14
Alignment explanation
Indices: 59743716--59743768 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
59743706 TTGTATAAAA
59743716 TTATATTTTTTATAT
1 TTATA-TTTTTATAT
59743731 TTATATTTTTAT-T
1 TTATATTTTTATAT
*
59743744 TT-TATTTTTAGAT
1 TTATATTTTTATAT
*
59743757 TTTTATTTTTAT
1 TTATATTTTTAT
59743769 TTATTACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 8 0.24
13 6 0.18
14 15 0.44
15 5 0.15
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (14 bp):
TTATATTTTTATAT
Found at i:59743751 original size:6 final size:6
Alignment explanation
Indices: 59743722--59743770 Score: 62
Period size: 6 Copynumber: 7.5 Consensus size: 6
59743712 AAAATTATAT
59743722 TTTTTA TATTTATA TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA T-TTT-TA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
59743771 ATTACATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 24 0.62
7 6 0.15
8 9 0.23
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Done.