Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 180 of 356
Found at i:58477963 original size:46 final size:45
Alignment explanation
Indices: 58477903--58478213 Score: 317
Period size: 46 Copynumber: 6.8 Consensus size: 45
58477893 TTTTACATGA
* * * * *
58477903 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG-T
*** *
58477949 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATGTTACA-T
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-T-AT-CAGT
** * *
58477995 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCA-GT
* * * *
58478040 TACCATGGTATCTTTCAACCATGGCCTTACACATTTTATATCTTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATC-AGT
*
58478086 TGCCATGGTATCTTTCAACCATGGTCTTACATA-TTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCA-GT
*
58478132 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCTTA-T
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATC--AGT
*
58478178 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
58478214 CAATTCAGAA
Statistics
Matches: 227, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
43 2 0.01
44 1 0.00
45 37 0.16
46 180 0.79
47 4 0.02
48 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGT
Found at i:58478214 original size:92 final size:92
Alignment explanation
Indices: 58477903--58478215 Score: 391
Period size: 92 Copynumber: 3.4 Consensus size: 92
58477893 TTTTACATGA
* * * * *
58477903 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCA-GATTGCCATGGTATCTTTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATG-TTGCCATGGTATCTTTCA
*** * * *
58477966 ACCATGGTCTTGTTCATTTCATGT-TACAT
64 ACCATGGTCTTACACATTTTATATCT-TAT
** ** *
58477995 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCATCATGTTACCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
* *
58478059 CATGGCCTTACACATTTTATATCTTGT
66 CATGGTCTTACACATTTTATATCTTAT
*
58478086 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
58478151 CATGGTCTTACACATTTTATATCTTAT
66 CATGGTCTTACACATTTTATATCTTAT
*
58478178 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
58478216 ATTCAGAAAG
Statistics
Matches: 192, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
90 3 0.02
91 69 0.36
92 120 0.62
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTTATATCTTAT
Found at i:58486129 original size:17 final size:17
Alignment explanation
Indices: 58486107--58486141 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58486097 TCGTTTCTCC
58486107 AACTGTCAGAAAACACG
1 AACTGTCAGAAAACACG
58486124 AACTGTCAGAAAACACG
1 AACTGTCAGAAAACACG
58486141 A
1 A
58486142 CTCCAACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.17, T:0.11
Consensus pattern (17 bp):
AACTGTCAGAAAACACG
Found at i:58491826 original size:13 final size:13
Alignment explanation
Indices: 58491803--58491842 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
58491793 AGGCTAAAGC
58491803 TAAATTAATAAAAA
1 TAAA-TAATAAAAA
*
58491817 TAAATAATAAAAC
1 TAAATAATAAAAA
58491830 TAAATAAATAAAA
1 TAAAT-AATAAAA
58491843 TAATATCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:58506901 original size:21 final size:21
Alignment explanation
Indices: 58506875--58506915 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58506865 ATCTGCTCAA
* *
58506875 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
58506896 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
58506916 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:58513230 original size:4 final size:4
Alignment explanation
Indices: 58513221--58513252 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
58513211 TTTATGTTTT
58513221 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA
1 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA
58513253 AGGTTATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTTA
Found at i:58516096 original size:16 final size:14
Alignment explanation
Indices: 58516077--58516114 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
58516067 TTCATTTCAT
58516077 TTACATTTAGGTTAA
1 TTACATTTA-GTTAA
58516092 CTTACATTTAGTTAA
1 -TTACATTTAGTTAA
58516107 TTA-ATTTA
1 TTACATTTA
58516115 ATTTGACACC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 3 0.14
15 5 0.23
16 9 0.41
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (14 bp):
TTACATTTAGTTAA
Found at i:58518674 original size:4 final size:4
Alignment explanation
Indices: 58518662--58520684 Score: 2484
Period size: 4 Copynumber: 504.8 Consensus size: 4
58518652 ATGTAAATAT
* * * * * *
58518662 TATG TACG TACG TATG TACG TACG TATG TACG TATG TATG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
58518710 TACG TATG TATG TACG TATG TATG TACG TACG TATG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
58518758 TACG TATG TATG TATG TATG TATG TATG TATG TATA TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
58518806 TATG TATG TATG TATG TATG CATG CATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
58518854 TATG TATG TATG TATG TACG TATG TACG TACG TATG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
58518902 TACG TATG TATG TACG TATG TATG TACG TATG TATG -ATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
58518949 -ATG TATG TATG TATA TATT TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
58518996 TACG TATG TATG TACG TATG TATG TATG TATG TATG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
58519044 TACG TATG TATC TATG TACG TATA TATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
58519092 TATG TATG TATG TACG TACG TACG TACG TACG TATACA TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT--G TATG TATG TATG
* * * * * *
58519142 TATG TATG TATG TATG TACG TACG TACG TACG TACG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
** *
58519190 TATG TACA TATG TATG TGTG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
** * * *
58519238 TATG TACA TATG TACG TAGG TATG TATG TATG TATG TATG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
58519286 TATG TATG TATG TATG TACG TATG TACG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
** * * * * *
58519334 TATG TATG TATG TACA TACG TACG TACG TACG TATG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
58519382 TACG TACG TACG TATG TATG TATG TATG TATG TATG TACG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
58519430 TATG TATG TATG TATG TATG TATG TATG TATA TACG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
** * * * * * *
58519478 TATG TAAA TACG TATG TACG TATG TAAG TACG TATA TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* ** * *
58519526 TATG TATG TATG TATG TATG TACG TACA TATG TATG TATG TATA TAGG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
58519574 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* **
58519622 TATG TATG TATG TATG TATG TACG TATG TACA TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
58519670 TACG TATG TACG TATG TATG TATG TACG TATG TACG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
58519718 TATG TATG TATG TATG TAGG TATG TACG TATG TATA TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
58519766 TATG TATG TACG TATG TACG TATG TACG TATG TATG TATA TATG TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
58519814 TATG TATG TATG TACG TATG TACG TATG TACG TATG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
58519862 TACG TATA TATG TATG TATG TATG TATG TATG TATG TATG TATG TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
58519910 TATG TATG TATG TATT TACG TACG TACG TACG TACG TATACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT--G TATG TATG
* * * * *
58519960 TATG TATG TATG TATG TACG TACG TACG TACG TACG TATACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT--G TATG TATG
* * * * *
58520010 TATG TATG TATG TAGG TATG TATG TAGG TATG TATG TACG TACG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
58520058 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
58520106 TATG TATG TATG TATG TATG TATG TATG TATG TATG TTTG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
58520154 TACG TATG TACG TATG TATG TATG TATG TACG TACG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * **
58520202 TATG TATG TATG TATG TATG TACG TATG TACG TATG TATG TATG TACA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * **
58520250 TATG TATG TATG TATG TATG TATA AATG TACG TACG TACG TACA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * *
58520298 TATG TATG TATG TACG TACG TACG TACG TACG TACG TACG TATG TAAG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
58520346 TATG TATG TATG TATG TAGG TATG TACG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
58520394 TATG TATG TACG TATG TACG TATG TACG TATG TACG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
58520442 TATG TATG TATG TACG TACG TACG TACG TAGG TATG TATG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
58520490 TATG TATG TATG TATG TATG TATA TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
58520538 TATG TATG TATA TATG TATG TATG TATG TATG TACG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
58520586 TATG TATG TACG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
58520634 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
58520682 TAT
1 TAT
58520685 ATCACTTCTC
Statistics
Matches: 1784, Mismatches: 227, Indels: 16
0.88 0.11 0.01
Matches are distributed among these distances:
3 6 0.00
4 1767 0.99
6 11 0.01
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.43
Consensus pattern (4 bp):
TATG
Found at i:58526004 original size:18 final size:17
Alignment explanation
Indices: 58525981--58526014 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
58525971 ATCAAAGTTC
58525981 GGAAAAGAAAAAGAAAAA
1 GGAAAAG-AAAAGAAAAA
58525999 GGAAAAGAAAAGAAAA
1 GGAAAAGAAAAGAAAA
58526015 GAAGACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
GGAAAAGAAAAGAAAAA
Found at i:58530441 original size:20 final size:20
Alignment explanation
Indices: 58530404--58530444 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
58530394 CGCAGCAAAT
* * *
58530404 AAACAATCTCGAATAGCATG
1 AAACAATCCCAAACAGCATG
58530424 AAACAATCCCAAACAGCATG
1 AAACAATCCCAAACAGCATG
58530444 A
1 A
58530445 GTAGAAGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.24, G:0.12, T:0.15
Consensus pattern (20 bp):
AAACAATCCCAAACAGCATG
Found at i:58534906 original size:17 final size:16
Alignment explanation
Indices: 58534870--58534905 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
58534860 TAACTTTTGG
58534870 AAAATAAAAATATATA
1 AAAATAAAAATATATA
58534886 AAAATTAAAAATA-ATA
1 AAAA-TAAAAATATATA
58534902 AAAA
1 AAAA
58534906 AATTGTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAATAAAAATATATA
Found at i:58534906 original size:18 final size:17
Alignment explanation
Indices: 58534870--58534909 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
58534860 TAACTTTTGG
*
58534870 AAAA-TAAAAATATATA
1 AAAATTAAAAATATAAA
58534886 AAAATTAAAAATAATAAA
1 AAAATTAAAAAT-ATAAA
58534904 AAAATT
1 AAAATT
58534910 GTTTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATTAAAAATATAAA
Found at i:58536762 original size:13 final size:13
Alignment explanation
Indices: 58536704--58536753 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
58536694 ACTTTTAGAT
58536704 AAAT-AATTAATA
1 AAATCAATTAATA
*
58536716 AAATCAATTAATC
1 AAATCAATTAATA
58536729 AAATCAATTAATA
1 AAATCAATTAATA
*
58536742 AAATAAATTAAT
1 AAATCAATTAAT
58536754 TAAACAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 4 0.12
13 30 0.88
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATCAATTAATA
Found at i:58543519 original size:120 final size:121
Alignment explanation
Indices: 58543381--58543621 Score: 448
Period size: 121 Copynumber: 2.0 Consensus size: 121
58543371 ATTTAACTAA
* *
58543381 ATAAATAAAAATAGAAATTTATTTCATGTTTTATTATCAATTTAAATAATTATTTAAT-ATTTAT
1 ATAAATAAAAATAAAAATTTATTTCATATTTTATTATCAATTTAAATAATTATTTAATAATTTAT
58543445 TATATATACATATATCTCAATTTAATCTCTTTAATTCCTATTTTCAATTTTGACTT
66 TATATATACATATATCTCAATTTAATCTCTTTAATTCCTATTTTCAATTTTGACTT
58543501 ATAAATAAAAATAAAAATTTATTTCATATTTTATTATCAATTTAAATAATTATTTAATAATTTAT
1 ATAAATAAAAATAAAAATTTATTTCATATTTTATTATCAATTTAAATAATTATTTAATAATTTAT
*
58543566 TATATATACATATATCTCAATTTAATCTTTTTAATTCCTATTTTCAATTTTGACTT
66 TATATATACATATATCTCAATTTAATCTCTTTAATTCCTATTTTCAATTTTGACTT
58543622 CACCAGCCCA
Statistics
Matches: 117, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
120 56 0.48
121 61 0.52
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (121 bp):
ATAAATAAAAATAAAAATTTATTTCATATTTTATTATCAATTTAAATAATTATTTAATAATTTAT
TATATATACATATATCTCAATTTAATCTCTTTAATTCCTATTTTCAATTTTGACTT
Found at i:58547025 original size:46 final size:45
Alignment explanation
Indices: 58546973--58547139 Score: 137
Period size: 46 Copynumber: 3.6 Consensus size: 45
58546963 TTTGTGCGCT
* * *
58546973 AGTGTAAGATATGTTTGGGACATGCATCGGCCACATTATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAACA
* *
58547019 AGTGTAAGACCATGTCTGGGACATGGCATTGG--CATTGA-GACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA-GA-A-CA
* *
58547067 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAATAT-A-AGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C--ATTATGAGAACA
*
58547113 AGTGTAAGATATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
58547140 GACTACGAGA
Statistics
Matches: 100, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
45 6 0.06
46 45 0.45
47 27 0.27
48 17 0.17
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAACA
Found at i:58547175 original size:44 final size:44
Alignment explanation
Indices: 58547067--58547185 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 44
58547057 GACGAGAGCT
*
58547067 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAATATAAGCA
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTCGAAATAT-AGCA
* * * *
58547113 AGTGTAAGATATGTCTGGGACATGCAT-GACTACGAGATGT-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACT-CGAAATATAGCA
58547156 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
58547186 AGCACGGATA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 11 0.17
44 16 0.25
45 10 0.16
46 26 0.41
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTCGAAATATAGCA
Found at i:58547288 original size:50 final size:50
Alignment explanation
Indices: 58546970--58547281 Score: 252
Period size: 50 Copynumber: 6.6 Consensus size: 50
58546960 TTATTTGTGC
* * * *
58546970 GCTAGTGTAAGA-TATGTTTGGGACAT-GCATCGGCCAC-ATTATGAG-AA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGAATATGTGAAA
* * * * * *
58547017 -CCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTG-AGA--CGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAATATGTGAAA
* *
58547064 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAA-ATAT--AA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGAATATGTGAAA
* * * *
58547110 GCAAGTGTAAGA-TATGTCTGGGACAT-GCAT-GACTACG-AGATGT----
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAATATGTGAAA
* * *
58547153 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGATATGTGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAAA
* *
58547203 GCTAGTATAAGACCATGTTTGGGACATGGCATCGGCACGAATATGTGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAAA
58547253 GCTAGTGTAAGACCATGTCTGGGACATGG
1 GCTAGTGTAAGACCATGTCTGGGACATGG
58547282 GGTCGGCCTC
Statistics
Matches: 213, Mismatches: 32, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
43 11 0.05
44 15 0.07
45 13 0.06
46 54 0.25
47 31 0.15
48 17 0.08
50 72 0.34
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAAA
Found at i:58549688 original size:20 final size:20
Alignment explanation
Indices: 58549663--58549700 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
58549653 GATATTAAAT
*
58549663 AGATATTTATTATTTAAAAA
1 AGATATTTATTAATTAAAAA
58549683 AGATATTTATTAATTAAA
1 AGATATTTATTAATTAAA
58549701 TAATTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AGATATTTATTAATTAAAAA
Found at i:58550537 original size:31 final size:30
Alignment explanation
Indices: 58550500--58550573 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 30
58550490 TAAATTGAAT
58550500 AGAAATTCAATTATTTGTTATAATGAGTGC
1 AGAAATTCAATTATTTGTTATAATGAGTGC
*
58550530 AGAAAATTCAATTTTTTGTTATAATGAGTGC
1 AG-AAATTCAATTATTTGTTATAATGAGTGC
58550561 AGAAATTCAATTA
1 AGAAATTCAATTA
58550574 AAGTATGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 12 0.29
31 29 0.71
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (30 bp):
AGAAATTCAATTATTTGTTATAATGAGTGC
Found at i:58553072 original size:66 final size:66
Alignment explanation
Indices: 58552947--58553074 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 66
58552937 AAAAAAATTT
* * * * *
58552947 AAAAAATTGTTTGTATTGTATTCTATTGTATTCCATGTCAATAATATATACTTATTTACAATCTA
1 AAAAAATTGTTTATATTGTATTCTACTGTATTCCATGTAAATAATATATACATACTTACAATCTA
58553012 A
66 A
**
58553013 AAAAAATTGTTTATATTGTATTCTACTGTATTTTATGTAAATAATATAT-CAATACTTACAAT
1 AAAAAATTGTTTATATTGTATTCTACTGTATTCCATGTAAATAATATATAC-ATACTTACAAT
58553075 ATACCAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 53 0.98
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.45
Consensus pattern (66 bp):
AAAAAATTGTTTATATTGTATTCTACTGTATTCCATGTAAATAATATATACATACTTACAATCTA
A
Found at i:58556509 original size:21 final size:22
Alignment explanation
Indices: 58556475--58556515 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
58556465 TTCATTTAAG
**
58556475 TTTCATTTGTACATA-ATCATA
1 TTTCATTTCCACATACATCATA
58556496 TTTCATTTCCACATACATCA
1 TTTCATTTCCACATACATCA
58556516 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.22, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTCATTTCCACATACATCATA
Found at i:58560290 original size:16 final size:16
Alignment explanation
Indices: 58560265--58560303 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
58560255 GTCATAATAT
* *
58560265 TATTAATGAATTTTAA
1 TATTATTGAATGTTAA
*
58560281 TATTATTGAATGTTAT
1 TATTATTGAATGTTAA
58560297 TATTATT
1 TATTATT
58560304 TTTGAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
TATTATTGAATGTTAA
Found at i:58561579 original size:26 final size:24
Alignment explanation
Indices: 58561545--58561593 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
58561535 TAAATAAAAA
* *
58561545 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
58561571 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
58561594 TTAAAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:58563466 original size:54 final size:55
Alignment explanation
Indices: 58563383--58563494 Score: 217
Period size: 54 Copynumber: 2.1 Consensus size: 55
58563373 AAAAAAGGGT
58563383 AAAGTTAAAAATTAAAAATGATTAAAAATAAAATAAAATATTTAATGCCTGGGCC
1 AAAGTTAAAAATTAAAAATGATTAAAAATAAAATAAAATATTTAATGCCTGGGCC
58563438 AAAG-TAAAAATTAAAAATGATTAAAAATAAAATAAAATATTTAATGCCTGGGCC
1 AAAGTTAAAAATTAAAAATGATTAAAAATAAAATAAAATATTTAATGCCTGGGCC
58563492 AAA
1 AAA
58563495 AATCTTACTC
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 53 0.93
55 4 0.07
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.26
Consensus pattern (55 bp):
AAAGTTAAAAATTAAAAATGATTAAAAATAAAATAAAATATTTAATGCCTGGGCC
Found at i:58566478 original size:37 final size:37
Alignment explanation
Indices: 58566428--58566502 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
58566418 CCTAAAACAC
58566428 TTAATTTTATGTTCATCTTGTGGCAAACCACCAACTT
1 TTAATTTTATGTTCATCTTGTGGCAAACCACCAACTT
58566465 TTAATTTTATGTTCATCTTGTGGCAAACCACCAACTT
1 TTAATTTTATGTTCATCTTGTGGCAAACCACCAACTT
58566502 T
1 T
58566503 CTCAAAAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (37 bp):
TTAATTTTATGTTCATCTTGTGGCAAACCACCAACTT
Found at i:58567984 original size:281 final size:279
Alignment explanation
Indices: 58567523--58568079 Score: 963
Period size: 281 Copynumber: 2.0 Consensus size: 279
58567513 GCGGACAATT
58567523 TTTTAATTAGACTAAAATGACTTTTTTTTAAAAAAAATTTGAATATTACTATTTATATTTATGGG
1 TTTTAATTAGACTAAAATGACTTTTTTTTAAAAAAAATTTGAATATTACTATTTATATTTATGGG
58567588 TGACAAGTGTAAGAATCAAAATAATTTGACCCACTGGATCAAAGTGAATTTATTTGGACCCCATG
66 TGACAAGTGTAAGAATCAAAATAATTTGACCCACTGGATCAAAGTGAATTTATTTGGACCCCATG
* *
58567653 TGATGGCCTATTGATCAAAAGTGTTCATTTTCCTAAGTGTAGCTTGGATTCGAGTCGCTCTAGTC
131 TGATGGCCTATTGATCAAAAGTGTTCATTGTCCTAAGTGTAGCCTGGATTCGAGTCGCTCTAGTC
* * *
58567718 ACGATTGTTGTTCAGGCTTTGTCTTGTTATTGTAATTCACCAAAAAAA-TGAATTTATTTGAAAA
196 ACGATTGTTGTTCAGGCTTTGCCCTGATATTGTAATTCACCAAAAAAAGTGAATTTATTTGAAAA
58567782 ATATATTATACAAAATGAC
261 ATATATTATACAAAATGAC
* *
58567801 TTTTAATTAGACTAAAATGACTTTTTTTTTTAAAAAAAAATTTGAATGTTATTATTTATATTTAT
1 TTTTAATTAGACTAAAATGAC--TTTTTTTT-AAAAAAAATTTGAATATTACTATTTATATTTAT
*
58567866 GGGTGACAAGTGTAAGAATCAAAATAATTTGACCCATTGGATCAAAGTGAATTTATTTGGACCCC
63 GGGTGACAAGTGTAAGAATCAAAATAATTTGACCCACTGGATCAAAGTGAATTTATTTGGACCCC
* ** *
58567931 ATGTGATGGTCTATTGATCAAGGGTGTTCATTGTCCTAAGTGTAGCCTGGATTCGAGTCGCTTTA
128 ATGTGATGGCCTATTGATCAAAAGTGTTCATTGTCCTAAGTGTAGCCTGGATTCGAGTCGCTCTA
58567996 GTCACGATTGTTGTTCAGGCTTTGCCCTGATATTGTAATTCACCAAAAAAAGTGAATTTATTTGA
193 GTCACGATTGTTGTTCAGGCTTTGCCCTGATATTGTAATTCACCAAAAAAAGTGAATTTATTTGA
*
58568061 ACAATATATTATACAAAAT
258 AAAATATATTATACAAAAT
58568080 AAAAACAATT
Statistics
Matches: 262, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
278 21 0.08
280 8 0.03
281 202 0.77
282 31 0.12
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (279 bp):
TTTTAATTAGACTAAAATGACTTTTTTTTAAAAAAAATTTGAATATTACTATTTATATTTATGGG
TGACAAGTGTAAGAATCAAAATAATTTGACCCACTGGATCAAAGTGAATTTATTTGGACCCCATG
TGATGGCCTATTGATCAAAAGTGTTCATTGTCCTAAGTGTAGCCTGGATTCGAGTCGCTCTAGTC
ACGATTGTTGTTCAGGCTTTGCCCTGATATTGTAATTCACCAAAAAAAGTGAATTTATTTGAAAA
ATATATTATACAAAATGAC
Found at i:58572641 original size:22 final size:22
Alignment explanation
Indices: 58572615--58572702 Score: 113
Period size: 22 Copynumber: 4.0 Consensus size: 22
58572605 ATGATAGTAG
* *
58572615 GATATGTTCTGATATGTTATAT
1 GATATGCTCCGATATGTTATAT
58572637 GATATGCTCCGATATGTTATAT
1 GATATGCTCCGATATGTTATAT
*
58572659 GATATGCTCCAATATGTTATAT
1 GATATGCTCCGATATGTTATAT
* * * *
58572681 AACATTCTCTGATATGTTATAT
1 GATATGCTCCGATATGTTATAT
58572703 AATAAAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (22 bp):
GATATGCTCCGATATGTTATAT
Found at i:58573553 original size:30 final size:30
Alignment explanation
Indices: 58573519--58573599 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
58573509 GAATTGCATT
58573519 AAATCAAAATTATATATATAAATTTACAC-A
1 AAATCAAAATTATATATATAAATTT-CACTA
* * *
58573549 AAATCAAAATT-TAAATACAAAATTTCACTTT
1 AAATCAAAATTATATATA-TAAATTTCAC-TA
58573580 AAATCAAAATTA-ATATATAA
1 AAATCAAAATTATATATATAA
58573600 CTTTGAGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
29 8 0.19
30 19 0.45
31 15 0.36
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTATATATATAAATTTCACTA
Found at i:58575061 original size:39 final size:39
Alignment explanation
Indices: 58574990--58575082 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
58574980 TTAGAGGGAA
* * *
58574990 AGGGACGGTGGGAGAGAGGTAGAGAAGAGGAGTAAGGTG
1 AGGGACGGTGGGAAAGAGGGAGAGAAGAGGAGTAAGGGG
* * *
58575029 AGGGATGGTGGGAAAGAGGGAGAG-AGTCGGAGTAGGGGG
1 AGGGACGGTGGGAAAGAGGGAGAGAAG-AGGAGTAAGGGG
*
58575068 AGGGACTGT-GGAAAG
1 AGGGACGGTGGGAAAG
58575083 GAGAGAATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
38 8 0.18
39 37 0.82
ACGTcount: A:0.31, C:0.03, G:0.55, T:0.11
Consensus pattern (39 bp):
AGGGACGGTGGGAAAGAGGGAGAGAAGAGGAGTAAGGGG
Found at i:58586856 original size:16 final size:16
Alignment explanation
Indices: 58586835--58586865 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
58586825 TTATCTTAAG
58586835 TTTTAAATTATTCAAA
1 TTTTAAATTATTCAAA
58586851 TTTTAAATTATTCAA
1 TTTTAAATTATTCAA
58586866 TACTTGTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAATTATTCAAA
Found at i:58587237 original size:17 final size:19
Alignment explanation
Indices: 58587217--58587256 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
58587207 ATGCAAACAA
58587217 AAGTTTAGT-T-TAAACTT
1 AAGTTTAGTATATAAACTT
58587234 AAG--TAGTATATAAACTT
1 AAGTTTAGTATATAAACTT
58587251 AAGTTT
1 AAGTTT
58587257 TGTCTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
15 4 0.21
16 1 0.05
17 13 0.68
19 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (19 bp):
AAGTTTAGTATATAAACTT
Found at i:58591558 original size:22 final size:22
Alignment explanation
Indices: 58591533--58591578 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
58591523 ATAATGGCAA
58591533 AAGAATTAAGAGTACAAAAGAT
1 AAGAATTAAGAGTACAAAAGAT
58591555 AAGAATTAAGAGTACAAAAGAT
1 AAGAATTAAGAGTACAAAAGAT
58591577 AA
1 AA
58591579 AGATAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.61, C:0.04, G:0.17, T:0.17
Consensus pattern (22 bp):
AAGAATTAAGAGTACAAAAGAT
Found at i:58594141 original size:3 final size:3
Alignment explanation
Indices: 58594135--58594203 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
58594125 ATTATCACTA
* * *
58594135 ATT ATT ATT ATT ATT ATTT ACTT -TT ATT ACT ATT ACT ATC ATT ATT
1 ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
58594181 ATT TTT AGT AGT AGT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
58594204 CACCATTCTT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 2 0.04
3 46 0.87
4 5 0.09
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:58594263 original size:3 final size:3
Alignment explanation
Indices: 58594255--58594434 Score: 131
Period size: 3 Copynumber: 59.7 Consensus size: 3
58594245 ATATTACTAA
*
58594255 TAT TAT TAT TAT TATT TAT TAT TAT TAC TAT TACT T-T TAT TATT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT
* * *
58594302 TAT TAT TGT TAC TAT T-T CTAT TAT TAT T-T T-T CTAT TAC TAT T-T
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * *
58594345 ATAT TAT TGT TGT CAT TAT TCTT TAT T-T TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
58594391 TTT CTAT TAT TGT TAT TAT TAG TA- TAT TAT TAT TAT TCT TAT TA
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
58594435 ATGTATTATC
Statistics
Matches: 142, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
2 11 0.08
3 116 0.82
4 15 0.11
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:58594272 original size:28 final size:28
Alignment explanation
Indices: 58594235--58594306 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
58594225 CCTTACTATG
* *
58594235 TTATTCTTTAATATTACTAATATTA-TT
1 TTATTATTTATTATTACTAATATTACTT
* *
58594262 ATTATTATTTATTATTATTACTATTACTT
1 -TTATTATTTATTATTACTAATATTACTT
58594291 TTATTATTTATTATTA
1 TTATTATTTATTATTA
58594307 TTGTTACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATTATTTATTATTACTAATATTACTT
Found at i:58594450 original size:23 final size:23
Alignment explanation
Indices: 58594406--58594450 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
58594396 ATTATTGTTA
* * *
58594406 TTATTAGTATATTATTATTATTC
1 TTATTAATATATTATCACTATTC
*
58594429 TTATTAATGTATTATCACTATT
1 TTATTAATATATTATCACTATT
58594451 GTCTTCCACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTAATATATTATCACTATTC
Found at i:58594555 original size:3 final size:3
Alignment explanation
Indices: 58594547--58594620 Score: 71
Period size: 3 Copynumber: 24.0 Consensus size: 3
58594537 ACTCACGTCG
* *
58594547 TTA TTA TTA TTA TTA TTA TTA TTT TGTA TT- TGTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA TTA TTA TTA TTA
*
58594593 TT- TTCA TCA TTA TTA TTA TTTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA -TTA TTA TTA
58594621 ATGTTGTTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
2 3 0.05
3 49 0.83
4 7 0.12
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:58594576 original size:25 final size:26
Alignment explanation
Indices: 58594548--58594620 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
58594538 CTCACGTCGT
*
58594548 TATTATTATTATTATTATTATTTT-G
1 TATTATTATTATTATTATTATTTTCA
*
58594573 TATT-TGTATCATTATTATTATTTTCA
1 TATTAT-TATTATTATTATTATTTTCA
58594599 TCATTATTATTATTTATTATTA
1 T-ATTATTATTA-TTATTATTA
58594621 ATGTTGTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.03
25 21 0.52
26 1 0.03
27 7 0.17
28 10 0.25
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (26 bp):
TATTATTATTATTATTATTATTTTCA
Found at i:58594601 original size:18 final size:17
Alignment explanation
Indices: 58594547--58594613 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 17
58594537 ACTCACGTCG
*
58594547 TTATTATTATTATTATTA
1 TTATTATTATT-TTATCA
*
58594565 TTATTTTGTATTTGTATCA
1 TTATTAT-TATTT-TATCA
58594584 TTATTATTATTTTCATCA
1 TTATTATTATTTT-ATCA
58594602 TTATTATTATTT
1 TTATTATTATTT
58594614 ATTATTAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
17 1 0.02
18 28 0.65
19 14 0.33
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (17 bp):
TTATTATTATTTTATCA
Found at i:58602184 original size:6 final size:6
Alignment explanation
Indices: 58602173--58602203 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
58602163 ATTTACCTTA
*
58602173 AAATAT AAATAT AAATAT AAATAT ATATAT A
1 AAATAT AAATAT AAATAT AAATAT AAATAT A
58602204 CCCAATCGAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAATAT
Found at i:58604289 original size:20 final size:18
Alignment explanation
Indices: 58604236--58604290 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
58604226 TTTTTAAAAT
*
58604236 AATATATTTTTATTTATA
1 AATATATTTTTATTTTTA
*
58604254 AA-ATATTTATAATTTTTA
1 AATATATTT-TTATTTTTA
58604272 ATATATATTTTTAGTTTTT
1 A-ATATATTTTTA-TTTTT
58604291 TTATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.20
18 10 0.33
19 3 0.10
20 11 0.37
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AATATATTTTTATTTTTA
Found at i:58608001 original size:18 final size:18
Alignment explanation
Indices: 58607959--58608049 Score: 82
Period size: 17 Copynumber: 5.1 Consensus size: 18
58607949 GAAAAATGAG
58607959 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
58607976 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
58607993 AATTTTTG-AAAC-CTGAA
1 AATTTTTGAAAACAC-GAA
** *
58608010 TTTTTTTTAAAAAACACGAA
1 -AATTTTT-GAAAACACGAA
* *
58608030 AAATTTTGGAAACACGAA
1 AATTTTTGAAAACACGAA
58608048 AA
1 AA
58608050 GATTACAACA
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
16 5 0.08
17 21 0.36
18 21 0.36
19 4 0.07
20 7 0.12
21 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:58609571 original size:30 final size:29
Alignment explanation
Indices: 58609489--58609603 Score: 110
Period size: 29 Copynumber: 3.9 Consensus size: 29
58609479 TGTAATTTTT
* *
58609489 AGAAAATTTAGGGTTAAAAT-ACAATTTAA
1 AGAAAGTTTAGGGTCAAAATGA-AATTTAA
* * *
58609518 TGAAAGTTTAGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGTCAAAATGAAATTTAA
58609547 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTT-AGGGTCAAAATGAAATTTAA
* *
58609576 GGAAAAG-TTAGGGGTCAAAATGTAATTT
1 AG-AAAGTTTA-GGGTCAAAATGAAATTT
58609604 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 1 0.01
29 50 0.69
30 21 0.29
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAGTTTAGGGTCAAAATGAAATTTAA
Found at i:58609603 original size:59 final size:58
Alignment explanation
Indices: 58609476--58609603 Score: 127
Period size: 59 Copynumber: 2.2 Consensus size: 58
58609466 TTCTGGGGCT
** * * *
58609476 AAATGTAATTTTTAGAAAATTTAGGGTTAAAATACAATTTAATGAAAGTTTAGGGTCT
1 AAATGTAATTTAAAGAAAATTTAGGGTCAAAATACAATTTAAGGAAAGTTTAGGGTCA
* * *
58609534 AAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGA-AATTT-AGGAAAAG-TTAGGGGTCA
1 AAATGTAATTTAAAGAAAATTT-AGGGTCAAAAT-ACAATTTAAGG-AAAGTTTA-GGGTCA
58609593 AAATGTAATTT
1 AAATGTAATTT
58609604 TTATTTTTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
58 22 0.39
59 33 0.59
60 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.33
Consensus pattern (58 bp):
AAATGTAATTTAAAGAAAATTTAGGGTCAAAATACAATTTAAGGAAAGTTTAGGGTCA
Found at i:58610001 original size:54 final size:54
Alignment explanation
Indices: 58609873--58610203 Score: 538
Period size: 54 Copynumber: 6.1 Consensus size: 54
58609863 CACGTGAGCC
* * * *
58609873 AAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTG-AAAATAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
58609928 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
58609982 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
58610036 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAACTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAA
58610092 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
58610146 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AA
58610201 AAG
1 AAG
58610204 TAGAAATTGA
Statistics
Matches: 261, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
54 157 0.60
55 43 0.16
56 61 0.23
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:58610111 original size:110 final size:108
Alignment explanation
Indices: 58609873--58610195 Score: 540
Period size: 110 Copynumber: 3.0 Consensus size: 108
58609863 CACGTGAGCC
* * * *
58609873 AAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTG-AAAATAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AAAAGGCTCAA
*
58609937 CTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAA
64 CTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAACTAA
58609982 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
58610047 CACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAACTAA
66 CACCTCTCGCAATATGAGTTGG--TTTTTGAAAAACAGAAACTAA
58610092 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
* *
58610157 CACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAA
66 CACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAA
58610196 TTGAAAAGTA
Statistics
Matches: 204, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
108 52 0.25
109 37 0.18
110 115 0.56
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (108 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAACTAA
Found at i:58610115 original size:164 final size:163
Alignment explanation
Indices: 58609873--58610203 Score: 540
Period size: 164 Copynumber: 2.0 Consensus size: 163
58609863 CACGTGAGCC
* * **
58609873 AAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTGAAAATAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAACT-CAAAAGGCTCAAC
* *
58609938 TCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGC
65 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCAC
58610003 AATATGAGTTGATTTTTGAAAAACAGAAATT-AA
130 AATATGAGTTGATTTTTGAAAAACAGAAATTGAA
* *
58610036 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAACT-AAAAGGCTCA
1 AAGGCTCAACTCACCTCTCACAATATGAGTT-G-ATTTTTG-AAAACAGAAACTCAAAAGGCTCA
58610100 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTC
63 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTC
58610165 ACAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
128 ACAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
58610201 AAG
1 AAG
58610204 TAGAAATTGA
Statistics
Matches: 156, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
163 29 0.19
164 107 0.69
165 11 0.07
166 9 0.06
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (163 bp):
AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAACTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCACA
ATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:58610201 original size:14 final size:14
Alignment explanation
Indices: 58610182--58610216 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
58610172 GAGTTGATTT
58610182 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
58610196 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
58610210 TTGAAAA
1 TTGAAAA
58610217 TACCTCAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:58610299 original size:15 final size:15
Alignment explanation
Indices: 58610279--58610307 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58610269 TTTTTGAAAC
58610279 ACAGAAATTAAAAAA
1 ACAGAAATTAAAAAA
58610294 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
58610308 CAAAATTTGA
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:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
ACAGAAATTAAAAAA
Found at i:58610373 original size:106 final size:105
Alignment explanation
Indices: 58610185--58610374 Score: 242
Period size: 106 Copynumber: 1.8 Consensus size: 105
58610175 TTGATTTTTG
** * * *
58610185 AAAAACAGAAATTGAAAAGTAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTTACCTC
1 AAAAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAACGTGCCCTGAGACTCAACTCACCTC
*
58610250 TTGCAATATGAGCTGATTTTTTTTGAAACACAGAAATTAA
66 TCGCAATATGAGCTGATTTTTTTTGAAACACAGAAATTAA
*
58610290 AAAAACAGAAATT-AAAAACA-AAATTTGAAAAGACCTCAGCGTGTGGCCC-GAGACTCAACTCA
1 AAAAACAGAAATTGAAAAACAGAAA-TTGAAAAGACCTCAAC--GT-GCCCTGAGACTCAACTCA
* *
58610352 TCTCTCGCAATATGAGTTGATTT
62 CCTCTCGCAATATGAGCTGATTT
58610375 GAAAAGCAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
103 3 0.04
104 19 0.26
105 13 0.18
106 33 0.46
107 4 0.06
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (105 bp):
AAAAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAACGTGCCCTGAGACTCAACTCACCTC
TCGCAATATGAGCTGATTTTTTTTGAAACACAGAAATTAA
Found at i:58610414 original size:191 final size:184
Alignment explanation
Indices: 58610149--58610666 Score: 582
Period size: 177 Copynumber: 2.8 Consensus size: 184
58610139 AAATTAAAAG
* *
58610149 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATT-GAAAAGTAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG-AAAACAG-AATTAG-AAAGCAGAAATTG
* * * *
58610213 AAAATACCTCAACGTGCCCTGAGGCTCAACTTACCTCTTGCAATATGAGCTGATTTTTTTTGAAA
62 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAA
* *
58610278 CACAGAAATTAAAAAAACAGAAATTAAAAACA-AAATTTGAAAAGACCTCAGCGTGTG-GCCCG-
125 AACAGAAATT---AAAACAGAAA-TAAAAACATAAA-TTGAAAAGACCTCAGCATGTGAG-CCGA
58610340 A
184 A
*
58610341 GACTCAACTCATCTCTCGCAATATGAGTTGA-TTTGAAAAGCAGAATTAGTAAAGCAGAAATTGA
1 G-CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA-CAGAATTAG-AAAGCAGAAATTGA
*
58610405 AAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAC
63 AAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
* * *
58610469 ATAGATT------G-AA-AAAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAA
128 AGAAATTAAAACAGAAATAAAAACATAAATTGAAAAGACCTCAGCATGTGAGCCGAA
* *
58610518 GCTCAACTCACCT-TCGCAGTATGAGTTGATTTTTGACAAACATAAATTGAGAAA-CAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGA-AAACA-GAATT-AGAAAGCAGAAATTG
* *
58610581 AAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA
62 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA
58610646 CAGAAATTGAAGAACAGAAAT
127 CAGAAATT-AA-AACAGAAAT
58610667 GGAAAACACC
Statistics
Matches: 282, Mismatches: 22, Indels: 48
0.80 0.06 0.14
Matches are distributed among these distances:
175 15 0.05
176 40 0.14
177 72 0.26
178 29 0.10
179 3 0.01
186 1 0.00
187 2 0.01
188 16 0.06
190 8 0.03
191 68 0.24
192 1 0.00
193 27 0.10
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (184 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAATTAGAAAGCAGAAATTGAAAA
TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGA
AATTAAAACAGAAATAAAAACATAAATTGAAAAGACCTCAGCATGTGAGCCGAA
Found at i:58610496 original size:15 final size:16
Alignment explanation
Indices: 58610463--58610496 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
58610453 TTGATTTTTG
*
58610463 AAAAACATAGATTGAA
1 AAAAACATAAATTGAA
58610479 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
58610495 AA
1 AA
58610497 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:58610610 original size:177 final size:174
Alignment explanation
Indices: 58610290--58610722 Score: 512
Period size: 177 Copynumber: 2.5 Consensus size: 174
58610280 CAGAAATTAA
* * *
58610290 AAAAACAGAAATT-AAAAACAAAATTTGAAAAGACCTCAGCGTGTGGCCCGAGACTCAACTCATC
1 AAAAACAGAAATTGAAAAACAAAA-TTGAAAACACCTCAGCATGTGGCCCGAGACTCAACTCACC
*
58610354 TCTCGCAATATGAGTTGATTTGAAAAGCAGAATTAGTAAAGCAGAAATTGAAAATACCTCAGCGT
65 TCTCGCAATATGAGTTGATTTGAAAAGCAAAATTAGTAAAGCAGAAATTGAAAATACCTCAGCGT
**
58610419 GCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
130 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
* * *
58610463 AAAAACATAGATTGAAAAAAACATAAATTGAAAATACCTCAGCATGTGAG-CCGA-AGCTCAACT
1 AAAAACAGAAATTG--AAAAACA-AAATTGAAAACACCTCAGCATGTG-GCCCGAGA-CTCAACT
*
58610526 CACCT-TCGCAGTATGAGTTGATTTTTGACAAA-CATAAATTGAG-AAA-CAGAAATTGAAAATA
61 CACCTCTCGCAATATGAGTTGA--TTTGA-AAAGCA-AAATT-AGTAAAGCAGAAATTGAAAATA
*
58610587 CCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
121 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
* * ** ** *
58610641 AAAAACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGC--GT--CTTGAGGTTCAACTCACT
1 AAAAACAGAAATTGAAAAACA-AAATTGAAAACACCTCAGCATGTGGCCCGAGACTCAACTCACC
58610702 TCTCGCAATATGAGTTGATTT
65 TCTCGCAATATGAGTTGATTT
58610723 TTTTGAAAGA
Statistics
Matches: 223, Mismatches: 22, Indels: 32
0.81 0.08 0.12
Matches are distributed among these distances:
171 3 0.01
172 12 0.05
173 26 0.12
174 2 0.01
175 16 0.07
176 64 0.29
177 70 0.31
178 28 0.13
179 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (174 bp):
AAAAACAGAAATTGAAAAACAAAATTGAAAACACCTCAGCATGTGGCCCGAGACTCAACTCACCT
CTCGCAATATGAGTTGATTTGAAAAGCAAAATTAGTAAAGCAGAAATTGAAAATACCTCAGCGTG
CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
Found at i:58610640 original size:88 final size:87
Alignment explanation
Indices: 58610290--58610745 Score: 487
Period size: 88 Copynumber: 5.2 Consensus size: 87
58610280 CAGAAATTAA
* * * *
58610290 AAAAACAGAAATT-AAAAACA-AAATTTGAAAAGACCTCAGCGTGTGGCCCGAGACTCAACTCAT
1 AAAAACAGAAATTGAAAAACAGAAA-TTGAAAATACCTCA--GTGTGCCCCGAGGCTCAACTCAC
58610353 CTCTCGCAATATGAGTTGA--TTTG
63 CTCTCGCAATATGAGTTGATTTTTG
* * * * **
58610376 AAAAGCAG-AATTAGTAAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCT
1 AAAAACAGAAATT-GAAAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCT
58610440 CTCGCAATATGAGTTGATTTTTG
65 CTCGCAATATGAGTTGATTTTTG
* * * ** *
58610463 AAAAACATAGATTGAAAAAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAAGCTCAACTCA
1 AAAAACAGAAATTG--AAAAACAGAAATTGAAAATACCTCAG--TGTGCCCCGAGGCTCAACTCA
*
58610528 CCT-TCGCAGTATGAGTTGATTTTTG
62 CCTCTCGCAATATGAGTTGATTTTTG
* * *
58610553 ACAAACATAAATTGAGAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTC
1 AAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTC
58610618 TCGCAATATGAGTTGATTTTTTG
66 TCGCAATATGAGTTGA-TTTTTG
* * * * ** * *
58610641 AAAAACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGT--CTTGAGGTTCAACTCACTTC
1 AAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTC
58610704 TCGCAATATGAGTTGATTTTTTTG
66 TCGCAATATGAGTTGA--TTTTTG
* *
58610728 AAAGATAGAAATTGAAAA
1 AAAAACAGAAATTGAAAA
58610746 TACCTCAACG
Statistics
Matches: 312, Mismatches: 45, Indels: 25
0.82 0.12 0.07
Matches are distributed among these distances:
85 40 0.13
86 60 0.19
87 66 0.21
88 72 0.23
89 23 0.07
90 33 0.11
91 18 0.06
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:58610661 original size:14 final size:14
Alignment explanation
Indices: 58610638--58610672 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
58610628 AGTTGATTTT
58610638 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
58610652 TTGAAGAACAGAAA
1 TTGAAAAACAGAAA
*
58610666 TGGAAAA
1 TTGAAAA
58610673 CACCTCAGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.20, T:0.14
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:58610984 original size:73 final size:74
Alignment explanation
Indices: 58610652--58611620 Score: 1128
Period size: 73 Copynumber: 13.1 Consensus size: 74
58610642 AAAACAGAAA
* * * * * *
58610652 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
58610715 GTTGATTTTT
66 GTTGA-TTTT
* *
58610725 TTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-CTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
58610789 GTTGA--TT
66 GTTGATTTT
* * * *
58610796 TTG-AAAA-ATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
58610859 GTTGATTTT
66 GTTGATTTT
* *
58610868 TTGAAAAACAGAAATTGAAAATATCTCAACGTGTCTTGAGGCTCAACTTACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
58610933 GTTGA-TTT
66 GTTGATTTT
* * * * *
58610941 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
58611006 GTTGATTTTT
66 GTTGA-TTTT
* ***
58611016 TTGAAAAACAGAAATTGAAAACACCTCAACGTGTGAAACGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATAT
58611081 GAGTTGATTTT
64 GAGTTGATTTT
** ** * * *
58611092 TT--TTATTATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
58611155 GTTGATTTTT
66 GTTGA-TTTT
* * *
58611165 TTGATTTTTTTGAAAGGCAGAAATTAAAAATAGCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
1 TTGA--------AAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
58611230 GCAATATGAGTTGA-TTT
57 GCAATATGAGTTGATTTT
* * * * *
58611247 TTG-AAAA-ATAAATTGAAAATACCTCAGCTTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
58611310 GTTGATTTTT
66 GTTGA-TTTT
*
58611320 TTGAAAAACAGAAACTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
58611385 GTTG-GTTT
66 GTTGATTTT
* * * ** * * *
58611393 TTGACAAACAAAAATTGAAATTACCTCTGCATGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
58611458 GTTGATTTT
66 GTTGATTTT
* ** *
58611467 TTGAAAAACAGAAATTGAAAACACCTCAACGTGTGAAATGAGGCTCAACTCACATCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATAT
58611532 GAGTTGATTTT
64 GAGTTGATTTT
* ** * * * *
58611543 TT---TATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATCTGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
58611605 GTTGA-TTT
66 GTTGATTTT
58611613 TTGAAAAA
1 TTGAAAAA
58611621 TAAATTAAAA
Statistics
Matches: 761, Mismatches: 102, Indels: 66
0.82 0.11 0.07
Matches are distributed among these distances:
69 37 0.05
70 27 0.04
71 91 0.12
72 38 0.05
73 193 0.25
74 130 0.17
75 104 0.14
76 45 0.06
77 33 0.04
82 6 0.01
83 1 0.00
84 56 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:58611694 original size:85 final size:83
Alignment explanation
Indices: 58611551--58612571 Score: 312
Period size: 76 Copynumber: 13.0 Consensus size: 83
58611541 TTTTTATGAT
* * *** *
58611551 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATCTGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
58611616 AAAA-ATAAATTAAAACACAA
66 AAAACATAAATT--AA-ACAA
* *
58611636 AAATTGACAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
* * *
58611701 AAAAACATAAATTGAACAG
65 GAAAACATAAATTAAACAA
* ***
58611720 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTT
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TT
** *
58611785 G--ATGATAAATTGAA-AA
65 GAAAACATAAATTAAACAA
* ** * ** ** * * * * * * *
58611801 TACCTCAATGTGA-CTTGA-G-G-CTCAA--CTGACCTCTCGCAATAT-G-AGT-TGATTTTTTT
1 AAATTGAAAAT-ACCTCAACGTGCCCCAAGGCTCAACTCAC-C--TCTCGCAATATGA----GTT
*** * ** *
58611857 GATTTTT----TTTTGAA--AGGCAG
58 GATTTTTGAAAACATAAATTAAACAA
* ***
58611877 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
58611942 ---A-A-AAA-T------
66 AAAACATAAATTAAACAA
* **
58611948 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTT
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TT
* *
58612013 -------TGAA--AAACAG
65 GAAAACATAAATTAAACAA
* * *** *
58612023 AAATTGAAAACACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
58612088 ---AC-------AAACAA
66 AAAACATAAATTAAACAA
* * * **
58612096 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
** * * * *
58612160 ----TTTGAA--AGATAG
66 AAAACATAAATTAAACAA
* ***
58612172 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
** * *
58612236 ----TTTGAA--AAACAG
66 AAAACATAAATTAAACAA
* * * ** *
58612248 AAATT-AAAATTACCCCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTT
1 AAATTGAAAA-TACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
58612312 GACAA-ATAAATTGACAAACGA
65 GAAAACATAAATT---AAACAA
* * * *** *
58612333 AAATTGAAAATAGCTCAGCAT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *** *** *
58612396 TAATTTTTTTTTGAAAGACAG
66 AAAACATAAATT--AA-ACAA
* * ***
58612417 AAATTGAAAATAGCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
58612482 ---A-A-AAA-T------
66 AAAACATAAATTAAACAA
* ** *
58612488 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
58612553 ACAAACAGAAATTGAAACA
66 A-AAACATAAATT-AAACA
58612572 TCAAAATACC
Statistics
Matches: 743, Mismatches: 125, Indels: 137
0.74 0.12 0.14
Matches are distributed among these distances:
70 2 0.00
71 119 0.16
72 2 0.00
73 64 0.09
74 2 0.00
75 63 0.08
76 151 0.20
77 20 0.03
78 8 0.01
79 9 0.01
80 15 0.02
81 19 0.03
82 12 0.02
83 42 0.06
84 83 0.11
85 76 0.10
86 49 0.07
87 7 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (83 bp):
AAATTGAAAATACCTCAACGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAACATAAATTAAACAA
Found at i:58611836 original size:71 final size:71
Alignment explanation
Indices: 58611720--58611852 Score: 239
Period size: 71 Copynumber: 1.9 Consensus size: 71
58611710 AATTGAACAG
*
58611720 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTT
58611785 GATGAT
66 GATGAT
* *
58611791 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTGACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
58611853 TTTTGATTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTT
GATGAT
Found at i:58611944 original size:692 final size:677
Alignment explanation
Indices: 58610575--58612551 Score: 2570
Period size: 692 Copynumber: 2.9 Consensus size: 677
58610565 TGAGAAACAG
*
58610575 AAATTGAAAATACCTCAG-TGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 AAATTGAAAATACCTCAGCT-TGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
58610638 TTGAAAAACAGAAATTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCAC
65 TTGAAAAAC----A--G-A-AAC-----T-GAAAACACCTCAACGTGTCTTGAGGCTCAACTCAC
* * * * * *
58610701 TTCTCGCAATATGAGTTGATTTTTTTGA-AAGATAGAAATTGAAAATACCTCAACGTGTCTTGAG
116 CTCTCGCAATATGAGTTGA--TTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAG
* *
58610765 GCTCAACTCACTCTCGCAATATGAGTTGA--TTTTG-AAAAATAAATTGAAAATACCTCAGCGTG
178 GCTCAACTCACTCTCGCAATATGAGTTGATTTTTTGAAAAAAGAAATTGAAAATACCTCAACGTG
* * * **
58610827 -CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATA
243 TGCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT---TATGAGAAATTGAAAATA
* *
58610891 TCTCAACGTGTCTTGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTG----------AC
305 CCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAAATTAC
58610946 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
370 AAACAAAAATTGAAA-TACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* ***
58611011 TTTTT--TTGAAA---AACAGAAATTGAAAACACCTCAACGTGTGAAACGAGGCTCAACTCACCT
433 TTTTTAATT-AAATTGAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCT
* *
58611071 CTCGCAATATGAGTTGATTTTTTTTATTATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAA
495 CTCGCAATATGAGTTGA--TTTTTGATAATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAA
*
58611136 CTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTGAAAGGCAGAAATTAAAAATAGCTC
558 CTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTGAAAGGCAGAAATTAAAAATACCTC
58611201 AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
623 AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
58611256 AAATTGAAAATACCTCAGCTTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCTTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
58611321 TGAAAAACAGAAACTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
66 TGAAAAACAGAAACTGAAAACACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
58611386 TTGGTTTTTGACAAACAAAAATTGAAATTACCTCTGCATGTCCTGAGGCTCAACTCACTTCTCGC
131 TTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC-TCTCGC
* *
58611451 AATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAACGTGTGAAATGAGGCTCAAC
195 AATATGAGTTGATTTTTTGAAAAA-AGAAATTGAAAATACCTCAACGTGTG-CATGAGGCTCAAC
* * * *
58611516 TCACATCTCGCAATATGAGTTGATTTTTTTATGATAAATTGAAAATACCTCAATGTGACTTGAGG
258 TCACCTCTCGCAATATGAGTTGATTTTTTTATGAGAAATTGAAAATACCTCAACGTGTCTTGAGG
* *
58611581 CTCAACTCACCTCTCGCAATCTGAGTTGATTTTTGAAAAATAAATTAAAACACAAAAATTGACAA
323 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATAAATTACAA-ACAAAAATTGA-AA
** *
58611646 TACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACATAA
385 TACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT----AA-TTAA
58611711 ATTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
444 ATTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
58611776 TGATTTGTTGATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTGACCTCTCGCAAT
509 TGATTT-TTGATAATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAAT
*
58611841 ATGAGTTGATTTTTTTGATTTTTTTTTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAG
573 ATGAGTTGATTTTTTTGA--TTTTTTTGAAAGGCAGAAATTAAAAATACCTCAACGTGTCTTGAG
58611906 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
636 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
* *
58611948 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTT
1 AAATTGAAAATACCTCAGCTTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
58612013 TGAAAAACAGAAATTGAAAACACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAG
66 TGAAAAACAGAAACTGAAAACACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
58612078 TTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
131 TTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CTCTCGC
* *
58612143 AATATGAGTTGATTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGT-CTTGAGGCTCAA
195 AATATGAGTTGA--TTTTTTGAAA-AAAGAAATTGAAAATACCTCAACGTGTGCATGAGGCTCAA
* *
58612207 CTCACCTCTCGCAATATGAGTTGATTTTTTT-TGAAAAACAGAAATT-AAAATTACCCCAGCGTG
257 CTCACCTCTCGCAATATGAGTTGATTTTTTTATG------AGAAATTGAAAA-TACCTCAACGTG
* * *
58612270 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTGACAAATAAATTGACAAACGAAA
315 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAATAAATT-ACAAACAAAA
* * *
58612335 ATTGAAAATAGCTCAGCAT-CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAA
378 ATTG-AAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTAA
*** *
58612399 TTTTTTTTTGAAAGACAGAAATTGAAAATAGCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
440 --TTAAATTG--A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
* ** * *
58612464 AATATGAGTTGATTTTTGAAAAATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACC
500 AATATGAGTTGATTTTTG-ATAATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACC
*
58612529 TCTTGCAATATGAGTTGATTTTT
564 TCTCGCAATATGAGTTGATTTTT
58612552 GACAAACAGA
Statistics
Matches: 1152, Mismatches: 85, Indels: 102
0.86 0.06 0.08
Matches are distributed among these distances:
668 54 0.05
669 22 0.02
670 36 0.03
671 5 0.00
672 66 0.06
673 21 0.02
674 3 0.00
675 40 0.03
676 1 0.00
678 1 0.00
681 56 0.05
682 14 0.01
683 3 0.00
684 62 0.05
685 2 0.00
689 3 0.00
690 76 0.07
691 36 0.03
692 322 0.28
693 30 0.03
694 38 0.03
695 34 0.03
696 9 0.01
697 214 0.19
698 4 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (677 bp):
AAATTGAAAATACCTCAGCTTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAAACAGAAACTGAAAACACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTCTCGCA
ATATGAGTTGATTTTTTGAAAAAAGAAATTGAAAATACCTCAACGTGTGCATGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTTTTTATGAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAAATTACAAACAAAAATTGAAATACCTC
AGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAATTAAATTGAACAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATA
ATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGATTTTTTTGAAAGGCAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGAAAAAT
Found at i:58611981 original size:157 final size:155
Alignment explanation
Indices: 58611636--58612569 Score: 893
Period size: 157 Copynumber: 6.1 Consensus size: 155
58611626 TAAAACACAA
* **
58611636 AAATTGACAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
** * *
58611701 AAAAACATAAATTG--AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
65 --TGATATAATTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
**
58611764 CGCAATATGAGTTGATTTGTTG--ATGAT
128 CGCAATATGAGTTGATTT-TTGAAAACAT
** * * *
58611791 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTGACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* ** *
58611856 TGATTTTTTTTTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
65 TGA-TATAATTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
58611921 CGCAATATGAGTTGATTTTTGAAAA-AT
128 CGCAATATGAGTTGATTTTTGAAAACAT
58611948 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
58612010 G------TTTGAAAAACAGAAATTGAAAACACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCA
66 GATATAATTTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
*
58612069 CAATATGAGTTGATTTTTGACAAACAA
130 CAATATGAGTTGATTTTTGA-AAACAT
* *
58612096 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
58612158 --T-T--TTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
66 GATATAATTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
*
58612218 CAATATGAGTTGATTTTTTTTGAAAAACAG
130 CAATATGAGTTGA---TTTTTG-AAAACAT
* * *
58612248 AAATT-AAAATTACCCCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTA-TTTT
1 AAATTGAAAA-TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * **
58612311 TGACAAATAAATTGACAAAC-GAAAATTGAAAATAGCTC-A-GCATCTTGAGGCTCAACTCACCT
65 TG--ATATAATTTGA-AAACAG-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
*
58612373 CTCGCAATATGAGTTGATTTTTTTAATTTTTTTTTGAAAGACAG
126 CTCGCAATATGAGTTG---------A----TTTTTGAAA-ACAT
* * * *
58612417 AAATTGAAAATAGCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA---G-----TT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * * * *
58612474 GAT-T--TTTGAAAA-ATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGC
66 GATATAATTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
*
58612535 AATATGAGTTGATTTTTGACAAACAG
131 AATATGAGTTGATTTTTGA-AAACAT
58612561 AAATTGAAA
1 AAATTGAAA
58612570 CATCAAAATA
Statistics
Matches: 678, Mismatches: 56, Indels: 101
0.81 0.07 0.12
Matches are distributed among these distances:
144 20 0.03
145 2 0.00
146 71 0.10
147 6 0.01
148 65 0.10
149 64 0.09
151 3 0.00
152 63 0.09
153 6 0.01
154 7 0.01
155 66 0.10
156 12 0.02
157 159 0.23
158 1 0.00
159 39 0.06
160 3 0.00
161 20 0.03
162 5 0.01
168 4 0.01
169 58 0.09
170 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (155 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GATATAATTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTGAAAACAT
Found at i:58612205 original size:76 final size:75
Alignment explanation
Indices: 58611855--58612311 Score: 635
Period size: 76 Copynumber: 6.1 Consensus size: 75
58611845 GTTGATTTTT
* *
58611855 TTGATTTTTTTTTGAAAGGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGA-TTTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTC
58611920 TCGCAATATGAG
64 TCGCAATATGAG
* * *
58611932 TTGA---TTTTTGAAAA-ATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTC
1 TTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTC
58611993 GCAATATGAG
66 GCAATATGAG
* * *
58612003 TTGA-TTTGTTTGAAAAACAGAAATTGAAAACACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TTGATTTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCT
*
58612067 CACAATATGAG
65 CGCAATATGAG
* * *
58612078 TTGA---TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
1 TTGATTTTTTTTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCT
58612140 CGCAATATGAG
65 CGCAATATGAG
* *
58612151 TTGATTTTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TTGATTTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCT
58612216 CGCAATATGAG
65 CGCAATATGAG
* *
58612227 TTGATTTTTTTTGAAAAACAGAAATT-AAAATTACCCCAGCGTGTCCTGAGGCTCAACTCACCTC
1 TTGATTTTTTTTG-AAAACAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTC
58612291 TCGCAATATGAG
64 TCGCAATATGAG
*
58612303 TTTATTTTT
1 TTGATTTTT
58612312 GACAAATAAA
Statistics
Matches: 340, Mismatches: 29, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
71 57 0.17
72 1 0.00
73 78 0.23
74 4 0.01
75 61 0.18
76 132 0.39
77 7 0.02
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (75 bp):
TTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTC
GCAATATGAG
Found at i:58612496 original size:71 final size:72
Alignment explanation
Indices: 58612403--58612569 Score: 255
Period size: 71 Copynumber: 2.3 Consensus size: 72
58612393 TTTTAATTTT
* * *
58612403 TTTTTGAAAGACAGAAATTGAAAATAGCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
1 TTTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
58612468 TGAGTTGA
65 TGAGTTGA
* * *
58612476 TTTTTGAAAA-ATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATAT
1 TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
58612540 GAGTTGA
66 GAGTTGA
58612547 TTTTTGACAAACAGAAATTGAAA
1 TTTTTGA-AAACAGAAATTGAAA
58612570 CATCAAAATA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 62 0.73
72 4 0.05
73 19 0.22
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (72 bp):
TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGA
Found at i:58614168 original size:14 final size:14
Alignment explanation
Indices: 58614145--58614182 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
58614135 GACCTCTCCA
58614145 TTTTCTTTTCTTTCT
1 TTTTC-TTTCTTTCT
58614160 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
58614174 TTTTGCTTT
1 TTTT-CTTT
58614183 TGAATGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:58619964 original size:29 final size:29
Alignment explanation
Indices: 58619931--58620047 Score: 119
Period size: 30 Copynumber: 4.0 Consensus size: 29
58619921 TGTAATTTTT
* *
58619931 AGAAAATTT-AGGGTTAAAATGCAATTTA
1 AGAAAATTTAAGGGTCAAAATGAAATTTA
* * *
58619959 ATGAAAGTTTAAGGGTCTAAGTGAAATTTAA
1 A-GAAAATTTAAGGGTCAAAATGAAATTT-A
* *
58619990 AGAAAGTTTAAGGGTCAAAATAAAATTTA
1 AGAAAATTTAAGGGTCAAAATGAAATTTA
* *
58620019 AGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTAAGGGTCAAAATGAAATTT
58620048 TTATTTTTTA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 1 0.01
29 13 0.18
30 57 0.78
31 2 0.03
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAAGGGTCAAAATGAAATTTA
Found at i:58620047 original size:60 final size:59
Alignment explanation
Indices: 58619931--58620047 Score: 137
Period size: 60 Copynumber: 2.0 Consensus size: 59
58619921 TGTAATTTTT
* ** * *
58619931 AGAAAATTTAGGGTTAAAATGCAATTTAATGAAAGTTTAAGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATAAAATTTAATGAAAGTTTAAGGGTCAAAATGAAATTTAA
* * *
58619990 AGAAAGTTTAAGGGTCAAAATAAAATTTAA-GAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATAAAATTTAATG-AAAGTTTAAGGGTCAAAATGAAATTT
58620048 TTATTTTTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 9 0.19
60 39 0.81
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.30
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATAAAATTTAATGAAAGTTTAAGGGTCAAAATGAAATTTAA
Found at i:58620267 original size:52 final size:52
Alignment explanation
Indices: 58620157--58620303 Score: 206
Period size: 52 Copynumber: 2.8 Consensus size: 52
58620147 ATACCGATAT
* *
58620157 CATATCCCAGATATGGTCTTATAC-AGAATCACATTATCACATCACACCGATGC
1 CATAGCCCAGATATGGTCTTATACGGGAA-CACA-TATCACATCACACCGATGC
* **
58620210 CATAGCCCAGTTATGGTCTTATACGGGAACACATATCACATTGCACCGATGC
1 CATAGCCCAGATATGGTCTTATACGGGAACACATATCACATCACACCGATGC
* *
58620262 CATAGCCCAGCTATGGTCTTATACGGGCACACATATCACATC
1 CATAGCCCAGATATGGTCTTATACGGGAACACATATCACATC
58620304 TTTTCCGTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
52 56 0.66
53 26 0.31
54 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (52 bp):
CATAGCCCAGATATGGTCTTATACGGGAACACATATCACATCACACCGATGC
Found at i:58620957 original size:22 final size:23
Alignment explanation
Indices: 58620914--58620957 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
58620904 AAATCATCAT
* *
58620914 AAACTTTCAGCACTTATTCATGG
1 AAACTTTCAGCAATTATCCATGG
58620937 AAACTTTCAG-AATTATCCATG
1 AAACTTTCAGCAATTATCCATG
58620958 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (23 bp):
AAACTTTCAGCAATTATCCATGG
Found at i:58622978 original size:21 final size:21
Alignment explanation
Indices: 58622954--58623004 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
58622944 CCTATAGCAT
**
58622954 GGGCGTGTCCTAGGGTCACAC
1 GGGCGTGTCCTAGGACCACAC
* *
58622975 GGGCGTGCCCCTTGGACCACAC
1 GGGCGTG-TCCTAGGACCACAC
58622997 GGGCGTGT
1 GGGCGTGT
58623005 GAGCCCTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.12, C:0.31, G:0.39, T:0.18
Consensus pattern (21 bp):
GGGCGTGTCCTAGGACCACAC
Found at i:58623606 original size:30 final size:30
Alignment explanation
Indices: 58623570--58623628 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
58623560 TGCAGATAAG
58623570 GATTTGGATAATGAGAAGGGTAAGGAAAAA
1 GATTTGGATAATGAGAAGGGTAAGGAAAAA
58623600 GATTTGGATAATGAGAAGGGTAAGGAAAA
1 GATTTGGATAATGAGAAGGGTAAGGAAAA
58623629 TGAATATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (30 bp):
GATTTGGATAATGAGAAGGGTAAGGAAAAA
Found at i:58624510 original size:23 final size:22
Alignment explanation
Indices: 58624464--58624512 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
58624454 TGTAATTTTT
*
58624464 TAAAATATTATATTTTTATTTA
1 TAAAATATTATATTTTTATATA
58624486 TAAAATATTTATAATTTTTAATATA
1 TAAAATA-TTAT-ATTTTT-ATATA
58624511 TA
1 TA
58624513 TTTTTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 4 0.17
24 6 0.26
25 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAAATATTATATTTTTATATA
Found at i:58625545 original size:10 final size:11
Alignment explanation
Indices: 58625514--58625546 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
58625504 CGGCCCGCCC
58625514 ATATTAATTTT
1 ATATTAATTTT
*
58625525 ATATTATTTTT
1 ATATTAATTTT
58625536 ATA-TAATTTT
1 ATATTAATTTT
58625546 A
1 A
58625547 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:58625713 original size:30 final size:30
Alignment explanation
Indices: 58625670--58625731 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
58625660 CTTAACAAGA
* *
58625670 AAATGTCTCTAAAATAATAATAAAATTAAC
1 AAATGTATCTAAAATAATAAAAAAATTAAC
*
58625700 AAATGTATTTAAAATAATAAAAAAATTAAC
1 AAATGTATCTAAAATAATAAAAAAATTAAC
58625730 AA
1 AA
58625732 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGTATCTAAAATAATAAAAAAATTAAC
Found at i:58627340 original size:15 final size:15
Alignment explanation
Indices: 58627320--58627349 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58627310 CATTTTATTT
*
58627320 ATATTAGGATAATTA
1 ATATTAAGATAATTA
58627335 ATATTAAGATAATTA
1 ATATTAAGATAATTA
58627350 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:58627377 original size:27 final size:26
Alignment explanation
Indices: 58627316--58627378 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
58627306 ACTCCATTTT
58627316 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
58627343 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
58627371 ATTTTATT
1 ATTTTATT
58627379 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:58627393 original size:10 final size:10
Alignment explanation
Indices: 58627374--58627405 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
58627364 TTTTAGGATT
58627374 TTAT-TTTAA
1 TTATCTTTAA
58627383 TTATCTTTAA
1 TTATCTTTAA
58627393 TTATCTTTAA
1 TTATCTTTAA
58627403 TTA
1 TTA
58627406 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:58632902 original size:38 final size:38
Alignment explanation
Indices: 58632859--58632931 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
58632849 ACACGTCCGC
* * * *
58632859 GTCAATGTTCTGTGTCCTTCACACGGCCACGACACCGT
1 GTCAATGTCCCGTGTCCCTCACACGACCACGACACCGT
58632897 GTCAATGTCCCGTGTCCCTCACACGACCACGACAC
1 GTCAATGTCCCGTGTCCCTCACACGACCACGACAC
58632932 GCTCGTGTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.22
Consensus pattern (38 bp):
GTCAATGTCCCGTGTCCCTCACACGACCACGACACCGT
Found at i:58634130 original size:46 final size:45
Alignment explanation
Indices: 58634036--58634206 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 45
58634026 TCTCGTAGTC
* * * * * **
58634036 GATGCATGTCCCAGACATGTCTTATACTGGCTTACGTCCCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCT-CGTCTCAATACT
*
58634082 GATTCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATACT
1 GATGCATGTCCCAGACATGTCTTACACTAGC-CTCGTCTCAATACT
* * * *
58634128 GATGGCATGTGCTAGACATGGTCTTACACT-GGCTC-TCAT-AATGTGACC
1 GAT-GCATGTCCCAGACAT-GTCTTACACTAGCCTCGTC-TCAA--T-ACT
58634176 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
58634207 TCACACAAAT
Statistics
Matches: 101, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
45 4 0.04
46 53 0.52
47 29 0.29
48 15 0.15
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCTCGTCTCAATACT
Found at i:58636640 original size:63 final size:64
Alignment explanation
Indices: 58636570--58636689 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 64
58636560 TTGTGAAACT
* * * *
58636570 AAAATTTATGAATCAATTCAGCATAATTAACTTAAAA-A-ATCAAATGCAATATATTTGGAAAGA
1 AAAATTTATAAATAAATGCAACATAATTAA-TTAAAATATATCAAATGCAATATATTTGGAAAGA
* *
58636633 AAAATTTATAAATAAATGCAACATAATTGATTAAAATATATTAAATGCAATATATTT
1 AAAATTTATAAATAAATGCAACATAATTAATTAAAATATATCAAATGCAATATATTT
58636690 TAATAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
62 6 0.12
63 26 0.53
64 17 0.35
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (64 bp):
AAAATTTATAAATAAATGCAACATAATTAATTAAAATATATCAAATGCAATATATTTGGAAAGA
Found at i:58639404 original size:18 final size:18
Alignment explanation
Indices: 58639381--58639416 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58639371 ACTCATATTC
58639381 TTCCATAAAATTTCAGAA
1 TTCCATAAAATTTCAGAA
58639399 TTCCATAAAATTTCAGAA
1 TTCCATAAAATTTCAGAA
58639417 ATCAACATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
TTCCATAAAATTTCAGAA
Found at i:58655399 original size:21 final size:21
Alignment explanation
Indices: 58655375--58655417 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
58655365 TTCAAATAGG
*
58655375 TACCTGTACCACTCAAAACAT
1 TACCTGTACCACACAAAACAT
*
58655396 TACCTGTACTACACAAAACAT
1 TACCTGTACCACACAAAACAT
58655417 T
1 T
58655418 GTTATACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.30, G:0.05, T:0.26
Consensus pattern (21 bp):
TACCTGTACCACACAAAACAT
Found at i:58655633 original size:50 final size:47
Alignment explanation
Indices: 58655570--58655784 Score: 257
Period size: 46 Copynumber: 4.6 Consensus size: 47
58655560 TGAGGTCGAC
*
58655570 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCT-CGTGCCGAT
58655620 GCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCGT-GCCGAT
* *
58655666 G-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCG-TGCCGAT
*
58655712 G-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CATCTCAATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCT-TACATCTC-GTGCCGAT
*
58655758 GCCATGTCCCAGACGTGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
58655785 GACTCTTATA
Statistics
Matches: 149, Mismatches: 6, Indels: 22
0.84 0.03 0.12
Matches are distributed among these distances:
44 11 0.07
45 18 0.12
46 67 0.45
47 14 0.09
48 10 0.07
49 1 0.01
50 28 0.19
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTGCCGAT
Found at i:58655808 original size:94 final size:96
Alignment explanation
Indices: 58655570--58655837 Score: 308
Period size: 93 Copynumber: 2.9 Consensus size: 96
58655560 TGAGGTCGAC
*
58655570 GCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCCGT-GCCGATGCCATGTCCCAGA
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTCTTACATAT-CGTGGCCGATG-CATGTCCCAGA
*
58655633 CATGGTCTTACACT-G-ACACATCTCGTAGCCGAT
63 CAT-GTCTTACACTAGCACACATCTCATAGCCGAT
* * *
58655666 G-CATGTCCCAGACAT-GTCTTACACTG--GCTTACATCTCGAGGCCGATGCATGTCCCAGACAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTTACATATCGTGGCCGATGCATGTCCCAGACAT
* *
58655727 GTCTTACACTAGCTCTCATCTCA-ATGCCGAT
66 GTCTTACACTAGCACACATCTCATA-GCCGAT
* * **
58655758 GCCATGTCCCAGACGTGGTCTTACACTGACTCTTATA-AT-GTGGCTAATGCATGT-CCAGACAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTTACATATCGTGGCCGATGCATGTCCCAGACAT
58655820 GTCTTACACTAGCACACA
66 GTCTTACACTAGCACACA
58655838 AATAACCCGA
Statistics
Matches: 147, Mismatches: 16, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
90 10 0.07
91 18 0.12
92 28 0.19
93 37 0.25
94 33 0.22
95 15 0.10
96 6 0.04
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCTTACATATCGTGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCACACATCTCATAGCCGAT
Found at i:58660079 original size:14 final size:14
Alignment explanation
Indices: 58660053--58660082 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
58660043 GTATTCGACC
58660053 AAGGAAAGAAAAAT
1 AAGGAAAGAAAAAT
58660067 AAGGAGAAGAAAAAT
1 AAGGA-AAGAAAAAT
58660082 A
1 A
58660083 TTTCTTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (14 bp):
AAGGAAAGAAAAAT
Found at i:58662742 original size:28 final size:26
Alignment explanation
Indices: 58662707--58662764 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 26
58662697 TATTCTGAGA
58662707 TTTCTTTTATT-ACTTTGGATTTGGAAT
1 TTTCTTTT-TTGACTTTGGA-TTGGAAT
*
58662734 TTTCTTTTTTTGGACTTTGGATTGGTAT
1 TTTC-TTTTTT-GACTTTGGATTGGAAT
58662762 TTT
1 TTT
58662765 TCTACATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 6 0.22
28 13 0.48
29 8 0.30
ACGTcount: A:0.14, C:0.07, G:0.17, T:0.62
Consensus pattern (26 bp):
TTTCTTTTTTGACTTTGGATTGGAAT
Found at i:58665679 original size:42 final size:42
Alignment explanation
Indices: 58665613--58665694 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
58665603 GTTGGTGCCA
* * *
58665613 ATGCCATGTCCCAGACGTGATCTTACACGAGACCTCATATTG
1 ATGCCATGTCCCAAACATGATCTTACACGAAACCTCATATTG
* *
58665655 ATGCCATGTCCCAAACATGTTCTTACACGAAATCTCATAT
1 ATGCCATGTCCCAAACATGATCTTACACGAAACCTCATAT
58665695 CAACGTCATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCCAAACATGATCTTACACGAAACCTCATATTG
Found at i:58667096 original size:13 final size:13
Alignment explanation
Indices: 58667080--58667112 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
58667070 TTTAATTAAA
*
58667080 TTAGTTAATTAGT
1 TTAGATAATTAGT
58667093 TTAGATAATTAGT
1 TTAGATAATTAGT
58667106 TTA-ATAA
1 TTAGATAA
58667113 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:58670317 original size:19 final size:21
Alignment explanation
Indices: 58670293--58670332 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58670283 TCAGGTTGTA
58670293 TAAAT-ATTTA-AAACTCTTT
1 TAAATAATTTAGAAACTCTTT
*
58670312 TAAATAATTTAGAATCTCTTT
1 TAAATAATTTAGAAACTCTTT
58670333 CCTTTTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 5 0.28
21 8 0.44
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (21 bp):
TAAATAATTTAGAAACTCTTT
Found at i:58670425 original size:49 final size:47
Alignment explanation
Indices: 58670374--58670502 Score: 170
Period size: 49 Copynumber: 2.7 Consensus size: 47
58670364 TTGAATTTTA
* *
58670374 AAAAGTCTTTTATATAATAATTTAAATTCTATTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAA-TTAAATTCTATTAATTAT-TATTTATTT
* * *
58670422 AAAACTCTTTTAAATAATAATTAAATTATGTTTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAATTAAA-T-TCTATTAATTATTATTTATTT
58670471 AAAACTCTTTTAAATAATAATTAAATTCTATT
1 AAAACTCTTTTAAATAATAATTAAATTCTATT
58670503 TCCTTATCTG
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
47 9 0.13
48 21 0.30
49 41 0.58
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (47 bp):
AAAACTCTTTTAAATAATAATTAAATTCTATTAATTATTATTTATTT
Found at i:58672776 original size:46 final size:46
Alignment explanation
Indices: 58672726--58672895 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
58672716 AGCATCCGAG
58672726 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-TCAGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GCTCAGAA
* * * * * *
58672772 CTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAAGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAAGC-TCAGAA
* * * *
58672819 CTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCA-AG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GCTCAGAA
58672865 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58672896 GCGGGTTACA
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 60 0.61
47 35 0.35
48 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCTCAGAA
Found at i:58672875 original size:93 final size:93
Alignment explanation
Indices: 58672716--58672887 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
58672706 AGGATGGTTG
* * * *
58672716 AGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCAGAACTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCAGAACTCGTTGAG
58672781 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
58672809 AGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCA-AGCTCGTTGA
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG-CCAGAACTCGTTGA
58672873 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
58672888 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCAGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:58677496 original size:13 final size:13
Alignment explanation
Indices: 58677475--58677536 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
58677465 TTTAAACCAA
*
58677475 ACTTCTCAAAAAC
1 ACTTTTCAAAAAC
*
58677488 ACTTTTCAAAAGC
1 ACTTTTCAAAAAC
* * *
58677501 ACTTTTCCAGATC
1 ACTTTTCAAAAAC
*
58677514 ATTTTTC-AAAAC
1 ACTTTTCAAAAAC
58677526 ACTTTTCAAAA
1 ACTTTTCAAAA
58677537 GCAATACTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 9 0.23
13 30 0.77
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:58677531 original size:12 final size:12
Alignment explanation
Indices: 58677483--58677536 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
58677473 AAACTTCTCA
58677483 AAAACACTTTTC
1 AAAACACTTTTC
58677495 AAAAGCACTTTTCC
1 AAAA-CACTTTT-C
* * *
58677509 AGATCATTTTTC
1 AAAACACTTTTC
58677521 AAAACACTTTTC
1 AAAACACTTTTC
58677533 AAAA
1 AAAA
58677537 GCAATACTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 18 0.53
13 13 0.38
14 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (12 bp):
AAAACACTTTTC
Found at i:58680206 original size:21 final size:21
Alignment explanation
Indices: 58680148--58680208 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
58680138 CACTTAAAAC
* *
58680148 AGGGC-ACATGCCCGTATGGA
1 AGGGCAACATGCCAGTGTGGA
58680168 AGGGCAACATGCCAGTGTGGA
1 AGGGCAACATGCCAGTGTGGA
*
58680189 AGGGCAACATGCCTGTGTGG
1 AGGGCAACATGCCAGTGTGG
58680209 CCCCATTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.25, C:0.21, G:0.38, T:0.16
Consensus pattern (21 bp):
AGGGCAACATGCCAGTGTGGA
Found at i:58681528 original size:49 final size:49
Alignment explanation
Indices: 58681475--58681732 Score: 173
Period size: 49 Copynumber: 5.4 Consensus size: 49
58681465 TTCGATGTCG
* *
58681475 TGTCCCAAACAGGTCTTACACTAACTTTCATATATCGAG-GCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTAACTCTCATATATC-AGTGCCGATGCCA
** * *
58681524 TGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTAACTCTCATATATCAGTGCCGATGCCA
* * * * * *
58681573 TGTCCCAGACAGGTCTTACACTGACACACA-AGA--A--GCTGACGCCA
1 TGTCCCAGACAGGTCTTACACTAACTCTCATATATCAGTGCCGATGCCA
** * *
58681617 TGTCTTAGACAGGTCTTACACTAACT-T-GTATATCCTGAG-GCTGATG-CA
1 TGTCCCAGACAGGTCTTACACTAACTCTCATATAT-C--AGTGCCGATGCCA
* * * * * * *
58681665 TGTCCCAGACATGTCTTACACTAGCTCTC--GTCTCAATGTCGACG-CA
1 TGTCCCAGACAGGTCTTACACTAACTCTCATATATCAGTGCCGATGCCA
*
58681711 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACAGGTCTTACACT
58681733 GGCTCACATA
Statistics
Matches: 166, Mismatches: 32, Indels: 25
0.74 0.14 0.11
Matches are distributed among these distances:
43 2 0.01
44 29 0.17
45 1 0.01
46 29 0.17
47 1 0.01
48 30 0.18
49 74 0.45
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTAACTCTCATATATCAGTGCCGATGCCA
Found at i:58683115 original size:21 final size:21
Alignment explanation
Indices: 58683089--58683144 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
58683079 GTATTTTATT
58683089 TTCTATTAAGCTTTTATGAGC
1 TTCTATTAAGCTTTTATGAGC
* *
58683110 TTCTATTCAA-CTCTTATGAGT
1 TTCTATT-AAGCTTTTATGAGC
* *
58683131 TTTTGTTAAGCTTT
1 TTCTATTAAGCTTT
58683145 GGAGCTTCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.52
Consensus pattern (21 bp):
TTCTATTAAGCTTTTATGAGC
Found at i:58683169 original size:19 final size:21
Alignment explanation
Indices: 58683147--58683196 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
58683137 TAAGCTTTGG
58683147 AGCTTCTGTTCAAC-CTT-CA
1 AGCTTCTGTTCAACTCTTACA
* *
58683166 AGCTTCTGTTCAGCTCTTACG
1 AGCTTCTGTTCAACTCTTACA
58683187 AGCTTCTGTT
1 AGCTTCTGTT
58683197 GGTGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 13 0.48
20 3 0.11
21 11 0.41
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.40
Consensus pattern (21 bp):
AGCTTCTGTTCAACTCTTACA
Found at i:58685368 original size:37 final size:37
Alignment explanation
Indices: 58685327--58685417 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
58685317 ACATGAATTT
58685327 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
58685364 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
*
58685401 ATCGTGTCTTACCCGGA
1 ATCGGGTCTTACCCGGA
58685418 ATATATTTCC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (37 bp):
ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
Found at i:58685653 original size:47 final size:47
Alignment explanation
Indices: 58685577--58686015 Score: 590
Period size: 47 Copynumber: 9.1 Consensus size: 47
58685567 CGTACATATC
* * * * * **
58685577 TCACATTAGCCATTTGGCTTTACCACATATATTCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
* * *
58685624 TCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
58685671 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
58685718 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
* ** *
58685765 TCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCA
*
58685818 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
*
58685865 TCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
* ***
58685912 CCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCA
* *
58685963 TCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATCCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
58686010 TCACAT
1 TCACAT
58686016 AAAATCCTAA
Statistics
Matches: 353, Mismatches: 29, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
47 265 0.75
49 1 0.00
51 45 0.13
53 42 0.12
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
Found at i:58685851 original size:147 final size:145
Alignment explanation
Indices: 58685577--58686015 Score: 688
Period size: 147 Copynumber: 3.0 Consensus size: 145
58685567 CGTACATATC
* * * * * **
58685577 TCACATTAGCCATTTGGCTTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGC
* * *
58685642 CTTAT--C-T-CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
66 CTTATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
*
58685703 GCATGTTCACATTCA
131 GCATGTTCACATCCA
58685718 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGC
58685783 CTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
66 CTTATCA--CATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
58685848 ACGCATGTTCACATCCA
129 ACGCATGTTCACATCCA
* *
58685865 TCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCACCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGC
* *
58685930 CTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
66 CTTATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
*
58685995 ACATGTTCACATCCA
131 GCATGTTCACATCCA
58686010 TCACAT
1 TCACAT
58686016 AAAATCCTAA
Statistics
Matches: 275, Mismatches: 17, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
141 63 0.23
145 76 0.28
146 1 0.00
147 135 0.49
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (145 bp):
TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
GCATGTTCACATCCA
Found at i:58685942 original size:194 final size:195
Alignment explanation
Indices: 58685603--58685993 Score: 640
Period size: 194 Copynumber: 2.0 Consensus size: 195
58685593 GCTTTACCAC
* * * * *
58685603 ATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
* * *
58685668 TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
66 CCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCACCACATTGGCCATTC
* *
58685733 GGCCTTATCACACATACGCAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATAT
131 GGCCTTATCACACATACACATGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
58685797 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
58685862 CCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCACCACATTGGCCATTC
66 CCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCACCACATTGGCCATTC
* *
58685927 GGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
131 GGCCTTATCACACATACACAT---GGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
58685992 TA
193 TA
58685994 CACATGTTCA
Statistics
Matches: 181, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
194 140 0.77
198 41 0.23
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (195 bp):
ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
CCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCACCACATTGGCCATTC
GGCCTTATCACACATACACATGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
Found at i:58690861 original size:36 final size:36
Alignment explanation
Indices: 58690809--58690881 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
58690799 TACAGACAAT
*
58690809 TGAATAGAGTTACAATTAAAAATAAATACCCTATGC
1 TGAACAGAGTTACAATTAAAAATAAATACCCTATGC
58690845 TGAACAGAGTTACAATTAAAAATAAATACCCTATGC
1 TGAACAGAGTTACAATTAAAAATAAATACCCTATGC
58690881 T
1 T
58690882 ATGTATTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (36 bp):
TGAACAGAGTTACAATTAAAAATAAATACCCTATGC
Found at i:58694709 original size:17 final size:17
Alignment explanation
Indices: 58694687--58694725 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
58694677 TTATTTATTC
58694687 TATTGTTGGAATT-TAA
1 TATTGTTGGAATTATAA
58694703 GTATTGTTGGAATTATAA
1 -TATTGTTGGAATTATAA
58694721 TATTG
1 TATTG
58694726 AATTGGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (17 bp):
TATTGTTGGAATTATAA
Found at i:58700657 original size:40 final size:40
Alignment explanation
Indices: 58700592--58700669 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 40
58700582 ATTCAGATTG
*
58700592 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
58700631 ATATCCGGGCTAAGTCTCGAAGGC-ATTGTGC-AGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
58700669 A
1 A
58700670 AGCAACCGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 8 0.23
39 19 0.54
40 8 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:58700858 original size:40 final size:40
Alignment explanation
Indices: 58700678--58700867 Score: 280
Period size: 40 Copynumber: 4.8 Consensus size: 40
58700668 TAAGCAACCG
*
58700678 AGGC-ATTGTGCGAGTTACTATAACC-GGCCAAGTCCCGA
1 AGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGA
*
58700716 AGGCAATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGA
1 AGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGA
*
58700756 AGGCAATTGTGTGAGTTACTATAACCGGGCTAAGTCCCGA
1 AGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGA
*
58700796 AGGCAATTGTGTGAGTTACTATAACCGGGCTAAGTCCCGA
1 AGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGA
* * *
58700836 AGGCATTTGAGCGAG-TAGCTATATCC-GGCTAA
1 AGGCAATTGTGCGAGTTA-CTATAACCGGGCTAA
58700868 ACCCCGACGG
Statistics
Matches: 143, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
38 4 0.03
39 29 0.20
40 110 0.77
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
AGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGA
Found at i:58703132 original size:22 final size:23
Alignment explanation
Indices: 58703107--58703149 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
58703097 AAAGCCGAGG
58703107 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
58703129 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
58703150 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:58708794 original size:40 final size:40
Alignment explanation
Indices: 58708729--58709002 Score: 365
Period size: 40 Copynumber: 6.9 Consensus size: 40
58708719 ATTCGGATTA
58708729 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
58708768 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
58708808 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
58708848 ATAACCTGACCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
58708888 ATAACCGGGCCAAGTCCCGAAGGCAATTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58708928 ATAACCGGGCTAAGTCCCGAAGGAATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* ** *
58708968 ATATCC-GGCTAAACCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
58709003 AGCTATATCC
Statistics
Matches: 210, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 40 0.19
40 170 0.81
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:58708989 original size:39 final size:39
Alignment explanation
Indices: 58708943--58709028 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
58708933 CGGGCTAAGT
*
58708943 CCCGAAGGAATTTGAGCGAGTAGCTATATCCGGCTAAAC
1 CCCGAAGGAATTTGAGCGAGTAGCTATATCCGACTAAAC
*
58708982 CCCGAAGGCATTTGAGCGAGTAGCTATATCCGACTAAAC
1 CCCGAAGGAATTTGAGCGAGTAGCTATATCCGACTAAAC
*
58709021 CCTGAAGG
1 CCCGAAGG
58709029 TACTTGGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (39 bp):
CCCGAAGGAATTTGAGCGAGTAGCTATATCCGACTAAAC
Found at i:58712465 original size:7 final size:7
Alignment explanation
Indices: 58712455--58712482 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
58712445 CGTTTTGAAG
58712455 TAGGGTT
1 TAGGGTT
58712462 TAGGGTT
1 TAGGGTT
58712469 TAGGGTT
1 TAGGGTT
58712476 TAGGGTT
1 TAGGGTT
58712483 CATGTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
TAGGGTT
Found at i:58713362 original size:20 final size:20
Alignment explanation
Indices: 58713317--58713362 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
58713307 GACAATGTTC
*
58713317 AAGTTGTGAAAGACTATTGT
1 AAGTTGTGAAAGACTATGGT
* *
58713337 ATGTTGTGAAAGATTATGGT
1 AAGTTGTGAAAGACTATGGT
58713357 AAGTTG
1 AAGTTG
58713363 CAAGTTGGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.37
Consensus pattern (20 bp):
AAGTTGTGAAAGACTATGGT
Found at i:58719297 original size:46 final size:46
Alignment explanation
Indices: 58719208--58719327 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
58719198 TATGTGTGCT
*
58719208 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATCACGAGAGCC
* * * *
58719254 AGTGTAAGACATGTCTGGGACATGTATCGG-CA-TTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAT--CACGAGAGCC
* * *
58719300 ACTGTAATACATGTCTGGGACATACATC
1 AGTGTAAGACATGTCTGGGACATGCATC
58719328 AGCCTCGAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.02
45 2 0.03
46 60 0.95
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATCACGAGAGCC
Found at i:58719405 original size:44 final size:47
Alignment explanation
Indices: 58719350--58719565 Score: 217
Period size: 49 Copynumber: 4.6 Consensus size: 47
58719340 TACAAGCTAG
* * *
58719350 TGTAAGACCTGTCTGGGACATGGCATCAACTTG-T-TATG-TGTCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACTCGATATATGAAGTCAA
* *
58719394 TGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-TCGATATATGA-AGTCAA
* *
58719443 TGTAAGACCTGTCTGGGACATGGCATCGGCCTCGTTATATGAAAGTCAA
1 TGTAAGACCTGTCTGGGACATGGCATC-GACTCGATATATG-AAGTCAA
* * * * * * *
58719492 TGTAAGACCTATCTGGGACAT-GCATCGACTTGATGTGT-TAGGCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACTCGATATATGAAGTCAA
*
58719537 TGTAAGACCATGTCTGGGATATGGCATCG
1 TGTAAGACC-TGTCTGGGACATGGCATCG
58719566 GCGTCTTATC
Statistics
Matches: 143, Mismatches: 20, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
44 29 0.20
45 15 0.10
46 11 0.08
47 16 0.11
48 5 0.03
49 64 0.45
50 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACTCGATATATGAAGTCAA
Found at i:58719459 original size:93 final size:93
Alignment explanation
Indices: 58719350--58719565 Score: 251
Period size: 93 Copynumber: 2.3 Consensus size: 93
58719340 TACAAGCTAG
* * *
58719350 TGTAAGACCTGTCTGGGACATGGCATC-AACTTG-T-TATG-TGTCAATGTAAGACCTGTCTGGG
1 TGTAAGACCTGTCTGGGACATGGCATCGAACTCGTTATATGAAGTCAATGTAAGACCTATCTGGG
58719411 ACATGGCATCGACATCGATAGATGAGAGCCAA
66 ACAT-GCATCGAC-TCGAT-G-TGAGAGCCAA
**
58719443 TGTAAGACCTGTCTGGGACATGGCATCGGCCTCGTTATATGAAAGTCAATGTAAGACCTATCTGG
1 TGTAAGACCTGTCTGGGACATGGCATCGAACTCGTTATATG-AAGTCAATGTAAGACCTATCTGG
* ** * *
58719508 GACATGCATCGACTTGATGTGTTAGGCAG
65 GACATGCATCGACTCGATGTGAGAGCCAA
*
58719537 TGTAAGACCATGTCTGGGATATGGCATCG
1 TGTAAGACC-TGTCTGGGACATGGCATCG
58719566 GCGTCTTATC
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
93 27 0.25
94 18 0.17
95 20 0.19
96 8 0.08
97 8 0.08
98 25 0.24
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (93 bp):
TGTAAGACCTGTCTGGGACATGGCATCGAACTCGTTATATGAAGTCAATGTAAGACCTATCTGGG
ACATGCATCGACTCGATGTGAGAGCCAA
Found at i:58719463 original size:49 final size:48
Alignment explanation
Indices: 58719210--58719520 Score: 196
Period size: 49 Copynumber: 6.6 Consensus size: 48
58719200 TGTGTGCTAG
* * * *
58719210 TGTAAGACATGTCTGGGACATGCATCGGCCA-C-AT-CATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGCATC-GACATCGATAGATGAGAGCCAA
* * * * * * *
58719256 TGTAAGACATGTCTGGGACATGTATCGGCATTG--AGACGAGAGCTAC
1 TGTAAGACCTGTCTGGGACATGCATCGACATCGATAGATGAGAGCCAA
* * * * * * * * *
58719302 TGTAATACATGTCTGGGACATACATC-AGCCTCGAAATAT-ACAAGCTAG
1 TGTAAGACCTGTCTGGGACATGCATCGA-CATCGATAGATGA-GAGCCAA
* * * * *
58719350 TGTAAGACCTGTCTGGGACATGGCATCAAC-TTG-T-TAT--GTGTCAA
1 TGTAAGACCTGTCTGGGACAT-GCATCGACATCGATAGATGAGAGCCAA
58719394 TGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAA
1 TGTAAGACCTGTCTGGGACAT-GCATCGACATCGATAGATGAGAGCCAA
* * * * * *
58719443 TGTAAGACCTGTCTGGGACATGGCATCGGCCTCGTTATATGAAAGTCAA
1 TGTAAGACCTGTCTGGGACAT-GCATCGACATCGATAGATGAGAGCCAA
*
58719492 TGTAAGACCTATCTGGGACATGCATCGAC
1 TGTAAGACCTGTCTGGGACATGCATCGAC
58719521 TTGATGTGTT
Statistics
Matches: 211, Mismatches: 40, Indels: 26
0.76 0.14 0.09
Matches are distributed among these distances:
44 31 0.15
45 5 0.02
46 63 0.30
47 3 0.01
48 35 0.17
49 73 0.35
50 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (48 bp):
TGTAAGACCTGTCTGGGACATGCATCGACATCGATAGATGAGAGCCAA
Found at i:58727042 original size:49 final size:49
Alignment explanation
Indices: 58726985--58727209 Score: 274
Period size: 49 Copynumber: 4.6 Consensus size: 49
58726975 ATACGCATAA
*
58726985 TAGCCTGCACTTAGTACTACACATGTGACCAACAATCCAGTACACCTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACCTAG
*
58727034 TAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACCTAG
* * * * *
58727083 TAGCCTGCACTTAGTACTACGCACGTGACCTCACCAT-CTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACC-AACAATCCAG-TACACCTAG
* * * * ***
58727133 TAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACGC-AG
1 TAGCCTGCACTTAGTACTACACACGTGAC-CAACAATCCAGTACAC-CTAG
58727183 TAGCCTGCACTTAGTACTACACACGTG
1 TAGCCTGCACTTAGTACTACACACGTG
58727210 TATTCACAAT
Statistics
Matches: 152, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 78 0.51
50 73 0.48
51 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACCTAG
Found at i:58727075 original size:26 final size:25
Alignment explanation
Indices: 58726997--58727076 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 25
58726987 GCCTGCACTT
58726997 AGTACTACACATGTGACCAACAATCC
1 AGTACTACACA-GTGACCAACAATCC
** * *
58727023 AGTAC-AC-CTAGT-AGCCTGCACT-T
1 AGTACTACAC-AGTGA-CCAACAATCC
58727046 AGTACTACACACGTGACCAACAATCC
1 AGTACTACACA-GTGACCAACAATCC
58727072 AGTAC
1 AGTAC
58727077 ACATAGTAGC
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
23 6 0.15
24 11 0.28
25 11 0.28
26 11 0.28
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.20
Consensus pattern (25 bp):
AGTACTACACAGTGACCAACAATCC
Found at i:58727098 original size:23 final size:23
Alignment explanation
Indices: 58727023--58727099 Score: 57
Period size: 25 Copynumber: 3.2 Consensus size: 23
58727013 CCAACAATCC
*
58727023 AGTACACCTAGTAGCCTGCACTT
1 AGTACACATAGTAGCCTGCACTT
* ** * *
58727046 AGTACTACACACGT-GACCAACAATCC
1 AGTAC-ACATA-GTAG-CCTGCACT-T
58727072 AGTACACATAGTAGCCTGCACTT
1 AGTACACATAGTAGCCTGCACTT
58727095 AGTAC
1 AGTAC
58727100 TACGCACGTG
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
23 10 0.26
24 11 0.29
25 12 0.32
26 5 0.13
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (23 bp):
AGTACACATAGTAGCCTGCACTT
Found at i:58728506 original size:43 final size:43
Alignment explanation
Indices: 58728445--58728570 Score: 191
Period size: 44 Copynumber: 2.9 Consensus size: 43
58728435 CTCGTACAAC
* * *
58728445 GCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCGAT
1 GCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCGAT
* *
58728488 GCCAACATCTCAGACGTGGTCTTACACGTAAATCACAAATCGAT
1 GCCAACATCCCAGACGTGGTCTTACACGT-AATCACATATCGAT
58728532 GCCAACATCCCAGACGTGGTCTTACACG-AATCACATATC
1 GCCAACATCCCAGACGTGGTCTTACACGTAATCACATATC
58728571 AGAATCCTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
42 10 0.13
43 25 0.33
44 40 0.53
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCGAT
Found at i:58732345 original size:89 final size:87
Alignment explanation
Indices: 58732212--58732384 Score: 283
Period size: 89 Copynumber: 2.0 Consensus size: 87
58732202 CGAATTCATC
** *
58732212 CACCGGCATTTCGCCTGCTAGGCTCAAAGCCCGTTATCATTTCACCGGCATTATAGCCTGCTAGG
1 CACCGGCATTTAACCTGCTAGGCTCAAAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGG
58732277 CTCAAAGGCCCGAATAGTATCT
66 CTCAAAGGCCCGAATAGTATCT
*
58732299 CACCGGCATTATAACCTGCTAGGCTCAAAGGCCCGATATCATTTCACTGGCATTATAGCCTGCTA
1 CACCGGCATT-TAACCTGCTAGGCTCAAA-GCCCGATATCATTTCACCGGCATTATAGCCTGCTA
*
58732364 GGCTCAAAGGCCCGATTAGTA
64 GGCTCAAAGGCCCGAATAGTA
58732385 CCGTACGATA
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 10 0.13
88 16 0.20
89 53 0.67
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (87 bp):
CACCGGCATTTAACCTGCTAGGCTCAAAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGG
CTCAAAGGCCCGAATAGTATCT
Found at i:58732366 original size:44 final size:44
Alignment explanation
Indices: 58732212--58732379 Score: 252
Period size: 44 Copynumber: 3.8 Consensus size: 44
58732202 CGAATTCATC
* *
58732212 CACCGGCATT-TCGCCTGCTAGGCTCAAA-GCCCGTTATCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATCATTT
*
58732254 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCG-ATA-TCATTT
*
58732299 CACCGGCATTATAACCTGCTAGGCTCAAAGGCCCGATATCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATCATTT
*
58732343 CACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAT
58732380 TAGTACCGTA
Statistics
Matches: 114, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
42 10 0.09
43 18 0.16
44 46 0.40
45 39 0.34
46 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (44 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATCATTT
Found at i:58737602 original size:46 final size:46
Alignment explanation
Indices: 58737544--58737677 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 46
58737534 GGGATATTTG
*
58737544 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGA
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-ACGA
* * *** * *
58737591 -GCGTCCAAACTCGTAGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGAACGA
* *
58737637 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58737678 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
46 36 0.52
47 33 0.48
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (46 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAACGA
Done.