Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 137 of 204
Found at i:41858400 original size:21 final size:21
Alignment explanation
Indices: 41858358--41858400 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
41858348 CAAAAACAAA
**
41858358 ACATTAAAACATACATTTCAT
1 ACATTAAAACATACATAACAT
* *
41858379 ACATTAATATATACATAACAT
1 ACATTAAAACATACATAACAT
41858400 A
1 A
41858401 AACCATTCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (21 bp):
ACATTAAAACATACATAACAT
Found at i:41867880 original size:34 final size:33
Alignment explanation
Indices: 41867841--41867924 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 33
41867831 ATTATGATTA
* * *
41867841 TGAAAATATAACATTTGGATGTGTTATATGGTTC
1 TGAAAATATGACATTT-GATCTGGTATATGGTTC
* *
41867875 TGAAAAGATGACATTCTGATCTGGTATATGTTTC
1 TGAAAATATGACATT-TGATCTGGTATATGGTTC
*
41867909 TGGAAATATGACATTT
1 TGAAAATATGACATTT
41867925 TGATATGATA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 1 0.02
34 40 0.95
35 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (33 bp):
TGAAAATATGACATTTGATCTGGTATATGGTTC
Found at i:41876915 original size:76 final size:76
Alignment explanation
Indices: 41876759--41877101 Score: 294
Period size: 76 Copynumber: 4.5 Consensus size: 76
41876749 TAGCGCTGGT
* * * **
41876759 GCAACTCATTGTTGGTACATCGAACTAGTACTAGGCACACA-TTGATATCGTCGGTTTACTTGAC
1 GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTACTAAAC
**
41876823 TAGCTTTGGGC
66 TAGCACTGGGC
* * * * ***
41876834 ACAACTTATTGTTGGTACATCCAGCTAGTGCTGGGTACACATTTGATATCGTCGGTTTACCCCAC
1 GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTACTAAAC
41876899 TAGCACTGGGC
66 TAGCACTGGGC
* * * *
41876910 GCAACTCATTGTTTGTATATCCAACTAGTGTTGGACACACATTTGATATCGTCGGTTTACTAAAC
1 GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTACTAAAC
**
41876975 TAGCACTTTGC
66 TAGCACTGGGC
* * * ** *** * ** * **
41876986 TCAACTTATTATCAGTTTTTCCAACTAGTGCTGGGCATACATTTGATATCGTCAATTTATTCGAC
1 GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTACTAAAC
*
41877051 TTA-CACCGGGC
66 -TAGCACTGGGC
* ** * * *
41877062 ACAAAACATTGTTGGTGCATCCGACTAGTGCAGGGCACAC
1 GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACAC
41877102 CTATCATCGG
Statistics
Matches: 210, Mismatches: 56, Indels: 3
0.78 0.21 0.01
Matches are distributed among these distances:
75 34 0.16
76 174 0.83
77 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (76 bp):
GCAACTCATTGTTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGTTTACTAAAC
TAGCACTGGGC
Found at i:41877034 original size:152 final size:150
Alignment explanation
Indices: 41876759--41877038 Score: 348
Period size: 152 Copynumber: 1.8 Consensus size: 150
41876749 TAGCGCTGGT
* **
41876759 GCAACTCATTGTTGGTACATCGAACTAGTACTAGGCACACATTGATATCGTCGGTTTACTTGACT
1 GCAACTCATTGTTGGTACATCCAACTAGTACTAGGCACACATTGATATCGTCGGTTTACTAAACT
* ** * *
41876824 AGCTTTGGGCACAACTTATTGTTGGTACATCCAGCTAGTGCTGGGTACACATTTGATATCGTCGG
66 AGCTTT-GGCACAACTTATTATCAGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGG
41876889 TTTACCCCACTAGCACTGGGC
130 TTTACCCCACTAGCACTGGGC
* * * *
41876910 GCAACTCATTGTTTGTATATCCAACTAGT-GTTGGACACACATTTGATATCGTCGGTTTACTAAA
1 GCAACTCATTGTTGGTACATCCAACTAGTACTAGG-CACACA-TTGATATCGTCGGTTTACTAAA
* *** *
41876974 CTAGCACTTT-GCTCAACTTATTATCAGTTTTTCCAACTAGTGCTGGGCATACATTTGATATCGT
64 CTAG--CTTTGGCACAACTTATTATCAGTACATCCAACTAGTGCTGGGCACACATTTGATATCGT
41877038 C
127 C
41877039 AATTTATTCG
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
150 3 0.03
151 32 0.30
152 69 0.64
154 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (150 bp):
GCAACTCATTGTTGGTACATCCAACTAGTACTAGGCACACATTGATATCGTCGGTTTACTAAACT
AGCTTTGGCACAACTTATTATCAGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCGGT
TTACCCCACTAGCACTGGGC
Found at i:41877975 original size:24 final size:23
Alignment explanation
Indices: 41877932--41877979 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
41877922 TAATAGAAAG
*
41877932 AACAAAAAAAAATAGCAGCAAAT
1 AACAAAAAAAAATAGAAGCAAAT
41877955 AACAAAAAAAAA-AGAAAAGCAAAT
1 AACAAAAAAAAATAG--AAGCAAAT
41877979 A
1 A
41877980 GCGAAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 2 0.09
23 12 0.55
24 8 0.36
ACGTcount: A:0.75, C:0.10, G:0.08, T:0.06
Consensus pattern (23 bp):
AACAAAAAAAAATAGAAGCAAAT
Found at i:41882660 original size:13 final size:13
Alignment explanation
Indices: 41882644--41882685 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
41882634 AATAAATATA
41882644 TATTTTTTATTTT
1 TATTTTTTATTTT
41882657 TATTTTTTAATTTT
1 TATTTTTT-ATTTT
* *
41882671 TAATTTTTAATTT
1 TATTTTTTATTTT
41882684 TA
1 TA
41882686 AAATAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:41882686 original size:6 final size:7
Alignment explanation
Indices: 41882645--41882684 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
41882635 ATAAATATAT
*
41882645 ATTTTTT
1 ATTTTTA
41882652 ATTTTTA
1 ATTTTTA
*
41882659 TTTTTTA
1 ATTTTTA
41882666 ATTTTTA
1 ATTTTTA
41882673 ATTTTTA
1 ATTTTTA
41882680 ATTTT
1 ATTTT
41882685 AAAATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
ATTTTTA
Found at i:41882694 original size:11 final size:11
Alignment explanation
Indices: 41882678--41882706 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
41882668 TTTTAATTTT
41882678 TAATTTTAAAA
1 TAATTTTAAAA
41882689 TAATTTTAAAA
1 TAATTTTAAAA
41882700 TAATTTT
1 TAATTTT
41882707 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:41882735 original size:27 final size:28
Alignment explanation
Indices: 41882692--41882747 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
41882682 TTTAAAATAA
* * *
41882692 TTTTAAAATAATTTTTTTTATTTTTTAT
1 TTTTAAAATAATATTTTTTAATGTTTAT
41882720 TTTTAAAATAA-ATTTTTTAATGTTTAT
1 TTTTAAAATAATATTTTTTAATGTTTAT
41882747 T
1 T
41882748 AAAAAATGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTTAAAATAATATTTTTTAATGTTTAT
Found at i:41884566 original size:10 final size:9
Alignment explanation
Indices: 41884542--41884598 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 9
41884532 AGATCCAATC
41884542 CAAAAAAATA
1 CAAAAAAA-A
*
41884552 AAAAACAAAA
1 CAAAA-AAAA
41884562 CAAAACAAAAA
1 C-AAA-AAAAA
41884573 CAAAAAAAA
1 CAAAAAAAA
41884582 TCAAAAAAAGA
1 -CAAAAAAA-A
41884593 CAAAAA
1 CAAAAA
41884599 GAAGAAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 5 0.12
10 22 0.55
11 12 0.30
12 1 0.03
ACGTcount: A:0.82, C:0.12, G:0.02, T:0.04
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:41884573 original size:16 final size:17
Alignment explanation
Indices: 41884546--41884597 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
41884536 CCAATCCAAA
*
41884546 AAAATAAAAAACAAAAC
1 AAAATCAAAAACAAAAC
41884563 AAAA-CAAAAACAAAA-
1 AAAATCAAAAACAAAAC
*
41884578 AAAATCAAAAA-AAGAC
1 AAAATCAAAAACAAAAC
41884594 AAAA
1 AAAA
41884598 AGAAGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 7 0.23
16 20 0.65
17 4 0.13
ACGTcount: A:0.83, C:0.12, G:0.02, T:0.04
Consensus pattern (17 bp):
AAAATCAAAAACAAAAC
Found at i:41884580 original size:26 final size:25
Alignment explanation
Indices: 41884542--41884613 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
41884532 AGATCCAATC
*
41884542 CAAAAAAATAAAAAACAAAACAAA-A
1 CAAAAAAAAAAAAAACAAAA-AAAGA
*
41884567 CAAAAACAAAAAAAATCAAAAAAAGA
1 CAAAAA-AAAAAAAAACAAAAAAAGA
* * *
41884593 CAAAAAGAAGAAAAAGAAAAA
1 CAAAAAAAAAAAAAACAAAAA
41884614 TCAAAATCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 20 0.51
26 19 0.49
ACGTcount: A:0.82, C:0.10, G:0.06, T:0.03
Consensus pattern (25 bp):
CAAAAAAAAAAAAAACAAAAAAAGA
Found at i:41885590 original size:13 final size:13
Alignment explanation
Indices: 41885572--41885598 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41885562 AATAAAAGGG
41885572 ATGAAAAATGAAA
1 ATGAAAAATGAAA
41885585 ATGAAAAATGAAA
1 ATGAAAAATGAAA
41885598 A
1 A
41885599 GTAATGACGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:41887011 original size:44 final size:44
Alignment explanation
Indices: 41886945--41887202 Score: 184
Period size: 44 Copynumber: 5.6 Consensus size: 44
41886935 GGAAATGGTG
*
41886945 AATCTTATCTCCTTGATG-TTACAGTGGAGCAGATTGAAGCTAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCTAGA
* * *
41886989 AATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAG-TCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AGA
* * * * **
41887033 AATCCTATTTCCCTAAGATTACAGTGGAGCGGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* *
41887075 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCTAGA
* * *
41887131 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * *
41887175 AATCCTATTTCCCTGAGATTACGGTGGA
1 AATCTTATCTCCCTGAGATTACAGTGGA
41887203 ATAGACTGAA
Statistics
Matches: 168, Mismatches: 27, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 123 0.73
47 2 0.01
49 4 0.02
51 2 0.01
54 25 0.15
55 4 0.02
56 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
Found at i:41887213 original size:44 final size:44
Alignment explanation
Indices: 41887116--41887213 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
41887106 TAGATCGCAT
* * *
41887116 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGACTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAA
* * * * *
41887160 CAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACGGTGGAA
1 CAGACTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAA
*
41887204 TAGACTGAAG
1 CAGACTGAAG
41887214 AATTACAGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (44 bp):
CAGACTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAA
Found at i:41887310 original size:50 final size:50
Alignment explanation
Indices: 41887243--41887814 Score: 391
Period size: 50 Copynumber: 11.4 Consensus size: 50
41887233 CAAGCGGTGT
* * *
41887243 AGTTGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACATTGC
1 AGTTAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGC
* * * * * * ** *
41887293 AGTTAAAAAGATTAAAGCTACAACAGCAAATCCTACTTCTC-AAGCGGTAC
1 AGTTAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGA-CATTGC
* * * * * * * ** *
41887343 AGTGT-AACAGATTAAAGCTACAGCAGTGAATCTTACCTCTCAGGCGGTGT
1 AGT-TAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGC
* * * * * * *
41887393 AGTGAAACAGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTAC
1 AGTTAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGC
* * * * * * **
41887443 AGTTAAA-AAAGTTAAAGCTACAGCAGCGAATCTTACCTCCCAGGCGGTGC
1 AGTTAAACAGA-TTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGC
** * * * *
41887493 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGC
1 AGTTAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGC
* * * *
41887543 AGTTAAAAAGATTAAAGCTACAACAGCGCATCTTACTTCCCTGGCGA-TG-
1 AGTTAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGAC-ATTGC
** * * * * *
41887592 ACGTGGAACAGATTAAAGCCACAGCGGCGAACCTTGCTTCCCTGACATTAC
1 A-GTTAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGC
* * * *
41887643 AGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAGTGC
1 AGTTAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGC
** * * * * *
41887693 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGT
1 AGTTAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGC
* * * * * * *
41887743 AGTTAAAAAGATTAAAACTACAATAGCGAATCTTACTCCCCAGGCGA-TGC
1 AGTTAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGAC-ATTGC
*
41887793 AGTTGAACAGATTAAAGCCACA
1 AGTTAAACAGATTAAAGCCACA
41887815 TTGGTGAATC
Statistics
Matches: 395, Mismatches: 116, Indels: 22
0.74 0.22 0.04
Matches are distributed among these distances:
49 5 0.01
50 384 0.97
51 6 0.02
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
AGTTAAACAGATTAAAGCCACAACAGCGAATCTTACTTCCCTGACATTGC
Found at i:41887606 original size:200 final size:198
Alignment explanation
Indices: 41887351--41888031 Score: 742
Period size: 200 Copynumber: 3.5 Consensus size: 198
41887341 ACAGTGTAAC
* * * * * * *
41887351 AGATTAAAGCTACAGCAGTGAATCTTACCTCTCAGGCGGTGTAGTGAAACAGATTAAAGCCACAG
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAG
*
41887416 CGGTGAATCTTGCCTCCCTGACATTACAGTTAAAAAAGTTAAAGCTACAGCAGCGAATCTTACCT
66 CGGCGAATCTTGCCTCCCTGACATTACAGTT-AAAAAGTTAAAGCTACA-CAGCGAATCTTACCT
* *
41887481 CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGT
129 CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGT
41887546 TAAAA
194 TAAAA
* *
41887551 AGATTAAAGCTACAACAGCGCATCTTACTTCCCTGGCGATG-ACGTGGAACAGATTAAAGCCACA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCA-GTGGAACAGATTAAAGCCACA
* * *
41887615 GCGGCGAACCTTGCTTCCCTGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACT
65 GCGGCGAATCTTGCCTCCCTGACATTACAGTTAAAAAG-TTAAAGCTAC-ACAGCGAATCTTACC
* * *
41887680 TCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGTAG
128 TCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAG
41887745 TTAAAA
193 TTAAAA
* * * * *
41887751 AGATTAAAACTACAATAGCGAATCTTACTCCCCAGGCGATGCAGTTGAACAGATTAAAGCCACAT
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAG
* * * * * *
41887816 TGGTGAATCCTG-CTTCCT--CGA-T--A--T------TT--A--TA-ACGGCGAATCTGA-CTC
66 CGGCGAATCTTGCCTCCCTGAC-ATTACAGTTAAAAAGTTAAAGCTACACAGCGAATCTTACCT-
* * * *
41887861 CCCAGGCGGTGCAATGGAATAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGT
129 CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGT
41887926 TAAAA
194 TAAAA
* * * * *
41887931 AGATTAAAGCTATAACGGCGTATCTTATTTCCTTAGAG-G-TGCAGTGGAACAGATTAAAGCCAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCC-CAG-GCGATGCAGTGGAACAGATTAAAGCCAC
** * *
41887994 AATGGCGAATCTTGCTTCCCCGACATTACAGTTAAAAA
64 AGCGGCGAATCTTGCCTCCCTGACATTACAGTTAAAAA
41888032 AACTGAAGTT
Statistics
Matches: 405, Mismatches: 55, Indels: 50
0.79 0.11 0.10
Matches are distributed among these distances:
179 1 0.00
180 133 0.33
181 6 0.01
182 4 0.01
183 2 0.00
184 1 0.00
185 1 0.00
186 2 0.00
187 1 0.00
193 1 0.00
195 1 0.00
197 2 0.00
198 1 0.00
199 11 0.03
200 236 0.58
201 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (198 bp):
AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAG
CGGCGAATCTTGCCTCCCTGACATTACAGTTAAAAAGTTAAAGCTACACAGCGAATCTTACCTCC
CAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTA
AAA
Found at i:41887815 original size:100 final size:100
Alignment explanation
Indices: 41887351--41887832 Score: 632
Period size: 100 Copynumber: 4.8 Consensus size: 100
41887341 ACAGTGTAAC
* * * * * *
41887351 AGATTAAAGCTACAGCAGTGAATCTTAC-CTCTCAGGCGGTGTAGTGAAACAGATTAAAGCCACA
1 AGATTAAAGCTACAACAGCGAATCTTACTC-CCCAGGCGATGCAGTGGAACAGATTAAAGCCACA
*
41887415 GCGGTGAATCTTGCCTCCCTGACATTACAGTTAAAA
65 GCGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
* *
41887451 A-AGTTAAAGCTACAGCAGCGAATCTTAC-CTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCAC
1 AGA-TTAAAGCTACAACAGCGAATCTTACTC-CCCAGGCGATGCAGTGGAACAGATTAAAGCCAC
* * *
41887514 AACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
64 AGCGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
* * *
41887551 AGATTAAAGCTACAACAGCGCATCTTACTTCCCTGGCGATG-ACGTGGAACAGATTAAAGCCACA
1 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCA-GTGGAACAGATTAAAGCCACA
* *
41887615 GCGGCGAACCTTGCTTCCCTGACATTACAGTTAAAA
65 GCGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
* *
41887651 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGC-AGTGCAGTGGAACAGATTAAAGCCACA
1 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA-TGCAGTGGAACAGATTAAAGCCACA
* **
41887715 TCGGTGAATCTTGCTTCCCTGACATTGTAGTTAAAA
65 GCGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
* * * *
41887751 AGATTAAAACTACAATAGCGAATCTTACTCCCCAGGCGATGCAGTTGAACAGATTAAAGCCACAT
1 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAG
* *
41887816 TGGTGAATCCTGCTTCC
66 CGGTGAATCTTGCTTCC
41887833 TCGATATTTA
Statistics
Matches: 346, Mismatches: 29, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
99 3 0.01
100 340 0.98
101 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (100 bp):
AGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAG
CGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
Found at i:41887956 original size:50 final size:50
Alignment explanation
Indices: 41887881--41888031 Score: 133
Period size: 50 Copynumber: 3.0 Consensus size: 50
41887871 GCAATGGAAT
* * *
41887881 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * ** ** ** ** *
41887931 AGATTAAAGCTATAACGGCGTATCTTATTTCCTTAGA-GGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCC-CCGACATTGCAGTTAAAA
* *
41887981 AGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
41888031 A
1 A
41888032 AACTGAAGTT
Statistics
Matches: 70, Mismatches: 29, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
49 2 0.03
50 66 0.94
51 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:41887983 original size:180 final size:180
Alignment explanation
Indices: 41887668--41888012 Score: 469
Period size: 180 Copynumber: 1.9 Consensus size: 180
41887658 AGCTACAACA
* * * * *
41887668 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCC
1 GCGAATCTGACTCCCCAGGCAGTGCAATGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCC
* * * *
41887733 CTGACATTGTAGTTAAAAAGATTAAAACTACAATAGCGAATCTTACTCCCCAGGCGATGCAGTTG
66 CCGACATTGCAGTTAAAAAGATTAAAACTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGG
* *
41887798 AACAGATTAAAGCCACATTGGTGAATCCTGCTTCCTCGATATTTATAACG
131 AACAGATTAAAGCCACAATGGCGAATCCTGCTTCCTCGATATTTATAACG
* *
41887848 GCGAATCTGACTCCCCAGGCGGTGCAATGGAATAGATTAAAGCCACATCAGTGAATCTTGCTTCC
1 GCGAATCTGACTCCCCAGGCAGTGCAATGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCC
* * * * * **
41887913 CCGACATTGCAGTTAAAAAGATTAAAGCTATAACGGCGTATCTTATTTCCTTAGAG-G-TGCAGT
66 CCGACATTGCAGTTAAAAAGATTAAAACTACAACAGCGAATCTTA-CTCCCCAG-GCGATGCAGT
*
41887976 GGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCC
129 GGAACAGATTAAAGCCACAATGGCGAATCCTGCTTCC
41888013 CCGACATTAC
Statistics
Matches: 142, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
180 135 0.95
181 6 0.04
182 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (180 bp):
GCGAATCTGACTCCCCAGGCAGTGCAATGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCC
CCGACATTGCAGTTAAAAAGATTAAAACTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGG
AACAGATTAAAGCCACAATGGCGAATCCTGCTTCCTCGATATTTATAACG
Found at i:41888601 original size:24 final size:24
Alignment explanation
Indices: 41888549--41888602 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
41888539 CCAGCTAATA
* *
41888549 AAAAGAACAAAAAAAAAACAACAG
1 AAAATAACAAAAAAAAAACAAAAG
* * *
41888573 CAAATAACAAAAAAAGAAGAAAAG
1 AAAATAACAAAAAAAAAACAAAAG
41888597 AAAATA
1 AAAATA
41888603 GCGAAAATGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.78, C:0.09, G:0.09, T:0.04
Consensus pattern (24 bp):
AAAATAACAAAAAAAAAACAAAAG
Found at i:41890086 original size:15 final size:16
Alignment explanation
Indices: 41890066--41890095 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41890056 ATGTTTCAAC
41890066 TTAAT-AATGTTGTTA
1 TTAATAAATGTTGTTA
41890081 TTAATAAATGTTGTT
1 TTAATAAATGTTGTT
41890096 GTATTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (16 bp):
TTAATAAATGTTGTTA
Found at i:41893622 original size:3 final size:3
Alignment explanation
Indices: 41893614--41893673 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
41893604 AAACATTGAC
* * * *
41893614 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ACA ACA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
41893662 ACA ACA ATA ATA
1 ATA ATA ATA ATA
41893674 TACTTTTTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (3 bp):
ATA
Found at i:41893894 original size:26 final size:24
Alignment explanation
Indices: 41893839--41893895 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
41893829 AATATGAAAG
* *
41893839 ATTAAAATAAAGTGTATAATTGAC
1 ATTAAAATAAAGTGTATAAATGAA
41893863 ATTAAATATATAAG-GTATAAATGCAA
1 ATTAAA-ATA-AAGTGTATAAATG-AA
41893889 ATTAAAA
1 ATTAAAA
41893896 GGAAGATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 6 0.21
25 12 0.43
26 10 0.36
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (24 bp):
ATTAAAATAAAGTGTATAAATGAA
Found at i:41894727 original size:156 final size:155
Alignment explanation
Indices: 41894362--41894815 Score: 578
Period size: 154 Copynumber: 3.0 Consensus size: 155
41894352 AAATCAAAGC
* * *
41894362 TTTCTTTTAAAAAATT-ACTACTTTTCTTAAAGAT-AAAAGCTTTTATTCTGAAATAATTTTAAA
1 TTTCTTTT-AAAAATTCACTACTTTTCTTAAAGATCAAAA-CTTTTATTTTGAAAT-AGTTGAAA
*
41894425 AAAATCAAAAATTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAAACAAA-AGGTTTTT
63 AAAATCAAAAATTTG-TTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAA-AAATAGGTTTTT
*
41894489 CTTTTTTAAAAAATCTAAAC--T-T-TCTTTT
126 -ATTTTT-AAAAATCTAAACTTTCTCTCTTTT
* * * **
41894517 TTTCTTTTAAAAAATCACTAATTTTCTTAAAGATCAAAGCTTTTATTTCAAAATAGTTGAAAAAA
1 TTTCTTTTAAAAATTCACTACTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAAAA
* * *
41894582 ATCAAAACTTTATTGTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAAATAGATTTTTATTT
66 ATCAAAAATTTGTT-TAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAAATAGGTTTTTATTT
*
41894647 TTAAACATCTAAACTTTCTCTCTTTT
130 TTAAAAATCTAAACTTTCTCTCTTTT
*
41894673 TTTCTTTTAAAAATTCACTACTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTAGAAAAAA
1 TTTCTTTTAAAAATTCACTACTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTG-AAAAA
*
41894738 AATCAAAAATTTGTTTTAAAA--T----TTTCCTTTAAAATGACT--AAAAATAGGTTTTTATTT
65 AATCAAAAATTTGTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAAATAGGTTTTTATTT
41894795 TTAAAAATCTAAACTTTCTCT
130 TTAAAAATCTAAACTTTCTCT
41894816 TTTAAAAAAA
Statistics
Matches: 265, Mismatches: 25, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
148 37 0.14
150 17 0.06
152 11 0.04
153 10 0.04
154 67 0.25
155 38 0.14
156 67 0.25
157 18 0.07
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (155 bp):
TTTCTTTTAAAAATTCACTACTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAAAA
ATCAAAAATTTGTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAAATAGGTTTTTATTTT
TAAAAATCTAAACTTTCTCTCTTTT
Found at i:41895912 original size:13 final size:13
Alignment explanation
Indices: 41895896--41895933 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
41895886 TCAGATACAA
41895896 ATAACAGAATCAG
1 ATAACAGAATCAG
41895909 ATAAGCAGAA-CAG
1 ATAA-CAGAATCAG
41895922 ATATACAGAATC
1 ATA-ACAGAATC
41895934 CTACCCCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (13 bp):
ATAACAGAATCAG
Found at i:41910004 original size:45 final size:44
Alignment explanation
Indices: 41909955--41910127 Score: 190
Period size: 45 Copynumber: 3.9 Consensus size: 44
41909945 GTGCCGATTT
* * *
41909955 TCATGCCATATAAATA-AAGCAGATACTATGTACCGGTATTGGCTA
1 TCATGCCATATAAATACAA-TAG-TACTATATACCGGTGTTGGCTA
* * * * *
41910000 TCATGCTATATACATACAATATGTACTATTTATCGGTGTTGGCTT
1 TCATGCCATATAAATACAATA-GTACTATATACCGGTGTTGGCTA
41910045 TCATGCCATATAAATACAATAGGTACTATATACCGGTGTTGGCTA
1 TCATGCCATATAAATACAATA-GTACTATATACCGGTGTTGGCTA
* * *
41910090 TCATGCCATATACATAC-AT-GTACTATGTACTGGTGTTG
1 TCATGCCATATAAATACAATAGTACTATATACCGGTGTTG
41910128 ATTTTCTTAC
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
42 17 0.15
44 2 0.02
45 88 0.80
46 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (44 bp):
TCATGCCATATAAATACAATAGTACTATATACCGGTGTTGGCTA
Found at i:41910072 original size:90 final size:90
Alignment explanation
Indices: 41909919--41910118 Score: 255
Period size: 90 Copynumber: 2.3 Consensus size: 90
41909909 CAATTAGAAA
*
41909919 ATACATACAATAAGTACTATGTATAGGTGCCGATTTTCATGCCATATAAATAAAGCAGATACTAT
1 ATACATACAATAAGTACTATGTATAGGTGCCGACTTTCATGCCATATAAATAAAGCAGATACTAT
* *
41909984 GTACCGGTATTGGCTATCATGCTAT
66 ATACCGGTATTGGCTATCATGCCAT
* * * ** * * *
41910009 ATACATACAATATGTACTATTTATCGGTGTTGGCTTTCATGCCATATAAATACAA-TAGGTACTA
1 ATACATACAATAAGTACTATGTATAGGTGCCGACTTTCATGCCATATAAATA-AAGCAGATACTA
*
41910073 TATACCGGTGTTGGCTATCATGCCAT
65 TATACCGGTATTGGCTATCATGCCAT
41910099 ATACATAC-AT--GTACTATGTA
1 ATACATACAATAAGTACTATGTA
41910119 CTGGTGTTGA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
87 9 0.09
89 2 0.02
90 83 0.86
91 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (90 bp):
ATACATACAATAAGTACTATGTATAGGTGCCGACTTTCATGCCATATAAATAAAGCAGATACTAT
ATACCGGTATTGGCTATCATGCCAT
Found at i:41911824 original size:41 final size:41
Alignment explanation
Indices: 41911756--41911956 Score: 305
Period size: 41 Copynumber: 4.9 Consensus size: 41
41911746 TGACTTTTCG
* *
41911756 TGGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTC
1 TGGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTC
*
41911797 TGGGATTTAGCGACGTTTTGT-TTTAAGCGCCGCTAATGTTC
1 TGGGATTTAGCGGCGTTTT-TATTTAAGCGCCGCTAATGTTC
41911838 TGGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTC
1 TGGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTC
* * *
41911879 TGGGATTTAGTGGCGTTTTTAATTAAGCGCCGCTTATGTTC
1 TGGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTC
* * *
41911920 TGGGCTTTAGCGGCGTTTTTATTGATGCGCCGCTAAT
1 TGGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAAT
41911957 TCGCAGGCCT
Statistics
Matches: 145, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 143 0.99
42 1 0.01
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.39
Consensus pattern (41 bp):
TGGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTC
Found at i:41912010 original size:123 final size:123
Alignment explanation
Indices: 41911761--41912021 Score: 289
Period size: 123 Copynumber: 2.1 Consensus size: 123
41911751 TTTCGTGGGC
* *
41911761 TTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGACGTTTTGTTTTAAGCG
1 TTTAGTGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGACGTTTTGTTTGAAGCG
* * * ** * * *
41911826 CCGCTAATGTTCTGGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
66 CCGCTAATGTGCAGGCATTTAGCGGCGTTTTTATAAAAACGCCGCTAATGCTCTGGCA
* * * *
41911884 TTTAGTGGCGTTTTTAAT-TAAGCGCCGCTTATGTTCTGGGCTTTAGCGGCGTTTT-TATTGATG
1 TTTAGTGGCGTTTTT-ATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGACGTTTTGT-TTGAAG
* *
41911947 CGCCGCTAAT-TCGCAGGCCTTTAGCGGCGCTTTTT-TAAAAAACGCCGCTAATGCTCT-TCA
64 CGCCGCTAATGT-GCAGGCATTTAGCGGCG-TTTTTAT-AAAAACGCCGCTAATGCTCTGGCA
*
41912007 TTTAGTGGCATTTTT
1 TTTAGTGGCGTTTTT
41912022 GGAAAGAGCC
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
122 2 0.02
123 91 0.78
124 23 0.20
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (123 bp):
TTTAGTGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGACGTTTTGTTTGAAGCG
CCGCTAATGTGCAGGCATTTAGCGGCGTTTTTATAAAAACGCCGCTAATGCTCTGGCA
Found at i:41912390 original size:16 final size:16
Alignment explanation
Indices: 41912369--41912438 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
41912359 CTATGGTATG
41912369 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
*
41912385 TAGTTTAA-GGTTTAA
1 TAGTTTAAGGGTTTTA
** * *
41912400 T-GTTTACTATAG-TATG
1 TAGTTTA--AGGGTTTTA
41912416 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
41912432 TAGTTTA
1 TAGTTTA
41912439 TGGTTTAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
14 5 0.12
15 9 0.22
16 20 0.50
17 6 0.15
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.50
Consensus pattern (16 bp):
TAGTTTAAGGGTTTTA
Found at i:41912444 original size:23 final size:23
Alignment explanation
Indices: 41912371--41912451 Score: 85
Period size: 23 Copynumber: 3.5 Consensus size: 23
41912361 ATGGTATGTA
*
41912371 GTTTAAGGGTTTTATAGTTTAAG
1 GTTTAAGGGTTTTATAGTTTATG
* * * *
41912394 GTTTAA-TGTTTACTATAGTATGTA
1 GTTTAAGGGTTT--TATAGTTTATG
41912418 GTTTAAGGGTTTTATAGTTTATG
1 GTTTAAGGGTTTTATAGTTTATG
41912441 GTTT-AGGGTTT
1 GTTTAAGGGTTT
41912452 GTTATATTGG
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
22 11 0.24
23 18 0.39
24 13 0.28
25 4 0.09
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (23 bp):
GTTTAAGGGTTTTATAGTTTATG
Found at i:41912487 original size:22 final size:21
Alignment explanation
Indices: 41912462--41912502 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
41912452 GTTATATTGG
41912462 GTTTGTGA-TTTAGTGTTTTAAA
1 GTTTG-GAGTTTAGT-TTTTAAA
41912484 GTTTGGAGTTTAGTTTTTA
1 GTTTGGAGTTTAGTTTTTA
41912503 TAGTCAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (21 bp):
GTTTGGAGTTTAGTTTTTAAA
Found at i:41916654 original size:29 final size:29
Alignment explanation
Indices: 41916612--41916669 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
41916602 TAAATCTTCT
41916612 TCCATTTGTCAACTATTTCATTTCCAAAA
1 TCCATTTGTCAACTATTTCATTTCCAAAA
41916641 TCCATTTGTCAACTATTTCATTTCCAAAA
1 TCCATTTGTCAACTATTTCATTTCCAAAA
41916670 ATATATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TCCATTTGTCAACTATTTCATTTCCAAAA
Found at i:41916830 original size:9 final size:9
Alignment explanation
Indices: 41916799--41916855 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
41916789 TTAAAGTTCA
41916799 AATTT-CAT
1 AATTTACAT
* *
41916807 AACTTACGT
1 AATTTACAT
*
41916816 ATTTTACAT
1 AATTTACAT
41916825 AATTTACAT
1 AATTTACAT
41916834 AA-TT-CAT
1 AATTTACAT
*
41916841 AATTTACAA
1 AATTTACAT
41916850 AATTTA
1 AATTTA
41916856 AATATATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
7 5 0.13
8 8 0.21
9 26 0.67
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (9 bp):
AATTTACAT
Found at i:41916843 original size:16 final size:16
Alignment explanation
Indices: 41916822--41916853 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41916812 ACGTATTTTA
*
41916822 CATAATTTACATAATT
1 CATAATTTACAAAATT
41916838 CATAATTTACAAAATT
1 CATAATTTACAAAATT
41916854 TAAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
CATAATTTACAAAATT
Found at i:41916980 original size:12 final size:12
Alignment explanation
Indices: 41916948--41917017 Score: 81
Period size: 12 Copynumber: 6.0 Consensus size: 12
41916938 CATAATATCC
*
41916948 TAACTTACATAG
1 TAACTTACATAA
* *
41916960 TATCGTACATAA
1 TAACTTACATAA
41916972 TAACTTACA-AA
1 TAACTTACATAA
41916983 -AACTTACATAA
1 TAACTTACATAA
*
41916994 TAACCTACATAA
1 TAACTTACATAA
*
41917006 TAACTTATATAA
1 TAACTTACATAA
41917018 CAATACATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.17
11 4 0.08
12 36 0.75
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:41916993 original size:22 final size:24
Alignment explanation
Indices: 41916965--41917017 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
41916955 CATAGTATCG
*
41916965 TACATAATAACTTACA-AA-AACT
1 TACATAATAACCTACATAATAACT
41916987 TACATAATAACCTACATAATAACT
1 TACATAATAACCTACATAATAACT
*
41917011 TATATAA
1 TACATAA
41917018 CAATACATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 15 0.56
23 2 0.07
24 10 0.37
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (24 bp):
TACATAATAACCTACATAATAACT
Found at i:41917085 original size:9 final size:9
Alignment explanation
Indices: 41917071--41917427 Score: 337
Period size: 9 Copynumber: 39.2 Consensus size: 9
41917061 CACAAAAACA
41917071 ATAACTTAC
1 ATAACTTAC
41917080 ATAACTTAC
1 ATAACTTAC
* *
41917089 ATAAATTAA
1 ATAACTTAC
41917098 ATAACTTAC
1 ATAACTTAC
41917107 ATAACTTAC
1 ATAACTTAC
*
41917116 ATAAACTTGC
1 AT-AACTTAC
* *
41917126 ATAAATTAA
1 ATAACTTAC
*
41917135 ATAACTTGC
1 ATAACTTAC
* *
41917144 ATAAATTAA
1 ATAACTTAC
41917153 ATAACTTAC
1 ATAACTTAC
41917162 ATAACTTAC
1 ATAACTTAC
*
41917171 ATAACCTAC
1 ATAACTTAC
41917180 ATAACTTAC
1 ATAACTTAC
*
41917189 ATAAATTA-
1 ATAACTTAC
41917197 AGTAACTTTAC
1 A-TAAC-TTAC
**
41917208 GGAACTTAC
1 ATAACTTAC
41917217 ATAACTTAC
1 ATAACTTAC
*
41917226 ATAACCTAC
1 ATAACTTAC
*
41917235 ATAACTTAT
1 ATAACTTAC
* *
41917244 GTAAATTA-
1 ATAACTTAC
41917252 AGTAACTTAC
1 A-TAACTTAC
41917262 ATAACTTAC
1 ATAACTTAC
*
41917271 ATAAACTTGC
1 AT-AACTTAC
* *
41917281 ATAAATTAA
1 ATAACTTAC
*
41917290 ATAACTTGC
1 ATAACTTAC
* *
41917299 ATAAATTAA
1 ATAACTTAC
41917308 ATAACTTAC
1 ATAACTTAC
*
41917317 ATAACCTAC
1 ATAACTTAC
41917326 ATAACTTAC
1 ATAACTTAC
*
41917335 ATAAATTA-
1 ATAACTTAC
*
41917343 AGTAACTT-T
1 A-TAACTTAC
41917352 ATGGAACTTAC
1 AT--AACTTAC
41917363 ATAACTTAC
1 ATAACTTAC
*
41917372 ATAACCTAC
1 ATAACTTAC
41917381 ATAACTTAC
1 ATAACTTAC
* *
41917390 GTAAATTA-
1 ATAACTTAC
41917398 AGTAACTTAC
1 A-TAACTTAC
41917408 ATAACTTAC
1 ATAACTTAC
*
41917417 ATAACCTAC
1 ATAACTTAC
41917426 AT
1 AT
41917428 TAGAGGTGCT
Statistics
Matches: 279, Mismatches: 55, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
8 3 0.01
9 245 0.88
10 29 0.10
11 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:41917148 original size:55 final size:54
Alignment explanation
Indices: 41917080--41917427 Score: 315
Period size: 55 Copynumber: 6.5 Consensus size: 54
41917070 AATAACTTAC
* * *
41917080 ATAACTTACATAAATTAAATAACTTACATAACTTACATAAACTTGCATAAATTAA
1 ATAACTTACATAAATTAAATAACTTACATAACTTACAT-AACTTACATAACTTAC
*
41917135 ATAACTTGCATAAATTAAATAACTTACATAACTTACAT-A---AC----C-TAC
1 ATAACTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAACTTAC
* ** *
41917180 ATAACTTACATAAATTAAGTAACTTTACGGAACTTACATAACTTACATAACCTAC
1 ATAACTTACATAAATTAAATAAC-TTACATAACTTACATAACTTACATAACTTAC
** * * * *
41917235 ATAACTTATGTAAATTAAGTAACTTACATAACTTACATAAACTTGCATAAATTAA
1 ATAACTTACATAAATTAAATAACTTACATAACTTACAT-AACTTACATAACTTAC
* * *
41917290 ATAACTTGCATAAATTAAATAACTTACATAACCTACATAACTTACATAAATTA-
1 ATAACTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAACTTAC
* * * * * *
41917343 AGTAACTT-TATGGAACTTACATAACTTACATAACCTACATAACTTACGTAAATTA-
1 A-TAACTTACAT--AAATTAAATAACTTACATAACTTACATAACTTACATAACTTAC
* * *
41917398 AGTAACTTACATAACTTACATAACCTACAT
1 A-TAACTTACATAAATTAAATAACTTACAT
41917428 TAGAGGTGCT
Statistics
Matches: 250, Mismatches: 28, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
45 23 0.09
46 13 0.05
47 1 0.00
50 3 0.01
53 4 0.02
54 51 0.20
55 153 0.61
56 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (54 bp):
ATAACTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAACTTAC
Found at i:41917672 original size:26 final size:26
Alignment explanation
Indices: 41917635--41917705 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
41917625 TTTTAAAATA
*
41917635 TTTTTT-ACATACTTTTTTAATTTTT
1 TTTTTTAAAATACTTTTTTAATTTTT
41917660 TTTTTTAAAATACTTTTTTAATTTTT
1 TTTTTTAAAATACTTTTTTAATTTTT
41917686 TTAAATTTTAAAATACTTTT
1 TT---TTTTAAAATACTTTT
41917706 AAAATACTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
25 6 0.15
26 20 0.49
29 15 0.37
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTTTAAAATACTTTTTTAATTTTT
Found at i:41917676 original size:11 final size:11
Alignment explanation
Indices: 41917662--41917781 Score: 57
Period size: 11 Copynumber: 11.9 Consensus size: 11
41917652 TAATTTTTTT
41917662 TTTTAAAATAC
1 TTTTAAAATAC
** *
41917673 TTTTTTAAT-T
1 TTTTAAAATAC
*
41917683 TTTTTAAAT--
1 TTTTAAAATAC
41917692 TTT-AAAATAC
1 TTTTAAAATAC
41917702 TTTTAAAATAC
1 TTTTAAAATAC
**
41917713 TTTTTTAAT--
1 TTTTAAAATAC
* *
41917722 TTTT---TTAA
1 TTTTAAAATAC
*
41917730 TTTTAAAATAT
1 TTTTAAAATAC
41917741 TTTTAAAATAC
1 TTTTAAAATAC
41917752 TTTTTAAAAT--
1 -TTTTAAAATAC
*
41917762 TTTTAAAA-AT
1 TTTTAAAATAC
41917772 TTTTAAAATA
1 TTTTAAAATA
41917782 AAAATGGGCC
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
6 1 0.01
8 8 0.09
9 15 0.17
10 19 0.22
11 34 0.40
12 9 0.10
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:41917712 original size:40 final size:40
Alignment explanation
Indices: 41917662--41917781 Score: 179
Period size: 40 Copynumber: 3.0 Consensus size: 40
41917652 TAATTTTTTT
41917662 TTTTAAAATACTTTTTTAATTTTTTTAAATTTTAAAATAC
1 TTTTAAAATACTTTTTTAATTTTTTTAAATTTTAAAATAC
*
41917702 TTTTAAAATACTTTTTTAATTTTTTT-AATTTTAAAATAT
1 TTTTAAAATACTTTTTTAATTTTTTTAAATTTTAAAATAC
* **
41917741 TTTTAAAATACTTTTTAAAATTTTTAAAAATTTTTAAAATA
1 TTTTAAAATACTTTTT-TAATTTTTTTAAA-TTTTAAAATA
41917782 AAAATGGGCC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
39 28 0.38
40 33 0.45
41 2 0.03
42 10 0.14
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAATTTTTTTAAATTTTAAAATAC
Found at i:41917732 original size:39 final size:40
Alignment explanation
Indices: 41917692--41917781 Score: 119
Period size: 39 Copynumber: 2.2 Consensus size: 40
41917682 TTTTTTAAAT
41917692 TTTAAAATACTTTTAAAATACTTTTTTAATTTTTTT-AAT
1 TTTAAAATACTTTTAAAATACTTTTTTAATTTTTTTAAAT
* * **
41917731 TTTAAAATATTTTTAAAATACTTTTTAAAATTTTTAAAAATT
1 TTTAAAATACTTTTAAAATACTTTTT-TAATTTTTTTAAA-T
41917773 TTTAAAATA
1 TTTAAAATA
41917782 AAAATGGGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 25 0.57
40 7 0.16
41 2 0.05
42 10 0.23
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (40 bp):
TTTAAAATACTTTTAAAATACTTTTTTAATTTTTTTAAAT
Found at i:41917742 original size:10 final size:11
Alignment explanation
Indices: 41917730--41917781 Score: 74
Period size: 10 Copynumber: 4.9 Consensus size: 11
41917720 ATTTTTTTAA
41917730 TTTTAAAATAT
1 TTTTAAAATAT
41917741 TTTTAAAATACT
1 TTTTAAAATA-T
41917753 TTTT-AAA-AT
1 TTTTAAAATAT
41917762 TTTTAAAA-AT
1 TTTTAAAATAT
41917772 TTTTAAAATA
1 TTTTAAAATA
41917782 AAAATGGGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.13
10 14 0.37
11 14 0.37
12 5 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:41917821 original size:6 final size:5
Alignment explanation
Indices: 41917787--41917821 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
41917777 AAATAAAAAT
*
41917787 GGGCC GGGCC AGGCC GGGCC GGGCC GGGCCC GGGC
1 GGGCC GGGCC GGGCC GGGCC GGGCC GGG-CC GGGC
41917822 TTATGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.03, C:0.40, G:0.57, T:0.00
Consensus pattern (5 bp):
GGGCC
Found at i:41917980 original size:9 final size:9
Alignment explanation
Indices: 41917968--41918268 Score: 300
Period size: 9 Copynumber: 33.0 Consensus size: 9
41917958 CATAAATAAA
41917968 ATAACTTAC
1 ATAACTTAC
41917977 ATAACTTAC
1 ATAACTTAC
*
41917986 ATAACCTAC
1 ATAACTTAC
41917995 ATAACTTAC
1 ATAACTTAC
41918004 ATAACTTAC
1 ATAACTTAC
*
41918013 ATAAACTTGC
1 AT-AACTTAC
* *
41918023 ATAAATTAA
1 ATAACTTAC
41918032 ATAACTTAC
1 ATAACTTAC
41918041 ATAACTTAC
1 ATAACTTAC
*
41918050 ATAAACTTGC
1 AT-AACTTAC
* *
41918060 ATAAATTAA
1 ATAACTTAC
41918069 ATAACTTAC
1 ATAACTTAC
*
41918078 ATAACGTAC
1 ATAACTTAC
*
41918087 ATAACGTAC
1 ATAACTTAC
* *
41918096 ATAAATTAA
1 ATAACTTAC
41918105 ATAACTTAC
1 ATAACTTAC
41918114 ATAACTTAC
1 ATAACTTAC
*
41918123 ATAAATTA-
1 ATAACTTAC
41918131 AGTAACTTAC
1 A-TAACTTAC
41918141 ATAACTTAC
1 ATAACTTAC
*
41918150 ATAAACTTGC
1 AT-AACTTAC
* *
41918160 ATAAATTAA
1 ATAACTTAC
41918169 ATAACTTAC
1 ATAACTTAC
*
41918178 ATAACCTAC
1 ATAACTTAC
* *
41918187 ATAAATTTC
1 ATAACTTAC
***
41918196 AATGGGTTAC
1 -ATAACTTAC
41918206 ATAACTTAC
1 ATAACTTAC
* *
41918215 ATAACCTAT
1 ATAACTTAC
* *
41918224 ATAAATTAA
1 ATAACTTAC
41918233 ATAACTTAC
1 ATAACTTAC
41918242 ATAACTTAC
1 ATAACTTAC
*
41918251 ATAAATTA-
1 ATAACTTAC
41918259 AGTAACTTAC
1 A-TAACTTAC
41918269 CCGTGCAAAT
Statistics
Matches: 236, Mismatches: 48, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
8 2 0.01
9 204 0.86
10 30 0.13
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:41918036 original size:37 final size:37
Alignment explanation
Indices: 41917968--41918254 Score: 287
Period size: 37 Copynumber: 8.1 Consensus size: 37
41917958 CATAAATAAA
** *
41917968 ATAACTTACAT-AACTTACATAACCTACATAACTTAC
1 ATAACTTACATAAACTTACATAAATTAAATAACTTAC
*
41918004 ATAACTTACATAAACTTGCATAAATTAAATAACTTAC
1 ATAACTTACATAAACTTACATAAATTAAATAACTTAC
*
41918041 ATAACTTACATAAACTTGCATAAATTAAATAACTTAC
1 ATAACTTACATAAACTTACATAAATTAAATAACTTAC
* *
41918078 ATAACGTACAT-AACGTACATAAA-T---T-A---A-
1 ATAACTTACATAAACTTACATAAATTAAATAACTTAC
*
41918105 ATAACTTACAT-AACTTACATAAATTAAGTAACTTAC
1 ATAACTTACATAAACTTACATAAATTAAATAACTTAC
*
41918141 ATAACTTACATAAACTTGCATAAATTAAATAACTTAC
1 ATAACTTACATAAACTTACATAAATTAAATAACTTAC
* * *** *
41918178 ATAACCTACATAAA-TTTCAATGGGTTACATAACTTAC
1 ATAACTTACATAAACTTAC-ATAAATTAAATAACTTAC
* * * * *
41918215 ATAACCTATATAAA-TTAAATAACTTACATAACTTAC
1 ATAACTTACATAAACTTACATAAATTAAATAACTTAC
41918251 ATAA
1 ATAA
41918255 ATTAAGTAAC
Statistics
Matches: 216, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
27 21 0.10
28 2 0.01
31 2 0.01
32 2 0.01
35 2 0.01
36 54 0.25
37 133 0.62
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (37 bp):
ATAACTTACATAAACTTACATAAATTAAATAACTTAC
Found at i:41918210 original size:137 final size:130
Alignment explanation
Indices: 41917969--41918268 Score: 419
Period size: 137 Copynumber: 2.3 Consensus size: 130
41917959 ATAAATAAAA
**
41917969 TAACTTACATAACTTACATAACCTACA-TAACTTACATAACTTACATAAACTTGCATAAATTAAA
1 TAACTTACATAACTTACATAAATTA-AGTAACTTACATAACTTACATAAACTTGCATAAATTAAA
*
41918033 TAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACGTACATAACGTACAT
65 TAACTTACATAACCTACATAAACTTGCATAAATTAAATAACTTACATAAC---C-T-A--TACAT
41918098 AAATTAAA
123 AAATTAAA
41918106 TAACTTACATAACTTACATAAATTAAGTAACTTACATAACTTACATAAACTTGCATAAATTAAAT
1 TAACTTACATAACTTACATAAATTAAGTAACTTACATAACTTACATAAACTTGCATAAATTAAAT
* *** *
41918171 AACTTACATAACCTACATAAA-TTTCAATGGGTTACATAACTTACATAACCTAT--ATAAATTAA
66 AACTTACATAACCTACATAAACTTGC-ATAAATTAAATAACTTACATAACCTATACATAAATTAA
41918233 A
130 A
41918234 TAACTTACATAACTTACATAAATTAAGTAACTTAC
1 TAACTTACATAACTTACATAAATTAAGTAACTTAC
41918269 CCGTGCAAAT
Statistics
Matches: 153, Mismatches: 8, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
128 45 0.29
130 1 0.01
132 1 0.01
133 1 0.01
134 1 0.01
136 4 0.03
137 100 0.65
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.32
Consensus pattern (130 bp):
TAACTTACATAACTTACATAAATTAAGTAACTTACATAACTTACATAAACTTGCATAAATTAAAT
AACTTACATAACCTACATAAACTTGCATAAATTAAATAACTTACATAACCTATACATAAATTAAA
Found at i:41923705 original size:66 final size:66
Alignment explanation
Indices: 41923635--41923770 Score: 200
Period size: 66 Copynumber: 2.1 Consensus size: 66
41923625 GACCACAGTT
* * * * *
41923635 GAGGTTCAAAAGAAACATGAAGAACTCCAGCTACAACTTAGAGCAGATGCGGCAGCGAGAGAAGT
1 GAGGTTCAAAAGAAACATGAAGAACTCCAACGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
41923700 A
66 A
* * *
41923701 GAGGTTCAAAAGAAATATGAAGAACTCCAACGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAACATGAAGAACTCCAACGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
41923766 A
66 A
41923767 GAGG
1 GAGG
41923771 CTGCAGCGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.14
Consensus pattern (66 bp):
GAGGTTCAAAAGAAACATGAAGAACTCCAACGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
A
Found at i:41924211 original size:41 final size:42
Alignment explanation
Indices: 41924119--41924291 Score: 217
Period size: 43 Copynumber: 4.1 Consensus size: 42
41924109 AACAAAAAGT
41924119 GGCGTTTGTG-AAAAAGCGCCGCTAAAGAACA-TTAGCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACAGTT--CTTTAGC
* * * *
41924161 GGTGTTTGTGTTAGAAGCGCCGCTAAAGAACA-TTCTTTAAC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACAGTTCTTTAGC
*
41924202 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGT
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACA-GTTCTTTAGC
* * *
41924245 GGCGTTTGTATAAAATGCGCCGCTAAAGAGCATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACA-GTTCTTTAGC
41924288 GGCG
1 GGCG
41924292 CTTTTAAAAA
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
41 35 0.30
42 9 0.08
43 71 0.62
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (42 bp):
GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACAGTTCTTTAGC
Found at i:41924225 original size:84 final size:84
Alignment explanation
Indices: 41924119--41924291 Score: 226
Period size: 84 Copynumber: 2.0 Consensus size: 84
41924109 AACAAAAAGT
* * *
41924119 GGCGTTTGTGAAAAAGCGCCGCTAAAGAACAT-TAGCTTTAGCGGTGTTTGTGTTAGAA-GCGCC
1 GGCGTTTGTGAAAAAGCGCCGCTAAAGAACATGT-GCTTTAGCGGCGTTTGT-ATAAAATGCGCC
41924182 GCTAAAGAACA-TTCTTTAAC
64 GCTAAAGAACAGTTCTTTAAC
* *
41924202 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTGTATAAAATGCGCCG
1 GGCGTTTGTG-AAAAAGCGCCGCTAAAGAACATGTGCTTTAGCGGCGTTTGTATAAAATGCGCCG
* *
41924267 CTAAAGAGCATGTTCTTTAGC
65 CTAAAGAACA-GTTCTTTAAC
41924288 GGCG
1 GGCG
41924292 CTTTTAAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
83 14 0.18
84 51 0.65
85 1 0.01
86 12 0.15
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (84 bp):
GGCGTTTGTGAAAAAGCGCCGCTAAAGAACATGTGCTTTAGCGGCGTTTGTATAAAATGCGCCGC
TAAAGAACAGTTCTTTAAC
Found at i:41924610 original size:28 final size:28
Alignment explanation
Indices: 41924543--41924610 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
41924533 ATACAAAAGT
*
41924543 GCACTGAGGTGCATTCACATAGCAGTGA
1 GCACTGTGGTGCATTCACATAGCAGTGA
* * ** * *
41924571 GCACCGTAGTGCATTTGCGTAGTAGTGA
1 GCACTGTGGTGCATTCACATAGCAGTGA
41924599 GCACTGTGGTGC
1 GCACTGTGGTGC
41924611 TTAACAGAAC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (28 bp):
GCACTGTGGTGCATTCACATAGCAGTGA
Found at i:41926415 original size:19 final size:20
Alignment explanation
Indices: 41926380--41926420 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
41926370 TTAATCTAAT
*
41926380 TAAAATAGTTAAAATATACA
1 TAAAATACTTAAAATATACA
41926400 TAAAATACTT-AAATATACA
1 TAAAATACTTAAAATATACA
41926419 TA
1 TA
41926421 TTAAACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAAATACTTAAAATATACA
Found at i:41930839 original size:14 final size:14
Alignment explanation
Indices: 41930820--41930847 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41930810 ATATAAATAT
41930820 ATTTTAAAGGAATC
1 ATTTTAAAGGAATC
41930834 ATTTTAAAGGAATC
1 ATTTTAAAGGAATC
41930848 TGTCAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
ATTTTAAAGGAATC
Found at i:41936303 original size:28 final size:28
Alignment explanation
Indices: 41936266--41936322 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
41936256 AATTATTTAG
41936266 TTAGTTATAATTTTAATTCAACATACTT
1 TTAGTTATAATTTTAATTCAACATACTT
41936294 TTAGTTATAATTTTAATTCAACATACTT
1 TTAGTTATAATTTTAATTCAACATACTT
41936322 T
1 T
41936323 GTATAAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.51
Consensus pattern (28 bp):
TTAGTTATAATTTTAATTCAACATACTT
Found at i:41954375 original size:17 final size:17
Alignment explanation
Indices: 41954350--41954392 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
41954340 TAAGCGGAAT
41954350 AAAAATAAATAAATAAC
1 AAAAATAAATAAATAAC
* *
41954367 AAAAGTAAATAAATAAAG
1 AAAAATAAATAAAT-AAC
41954385 AAAAATAA
1 AAAAATAA
41954393 GCAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAAATAAATAAATAAC
Found at i:41961084 original size:44 final size:45
Alignment explanation
Indices: 41961002--41961093 Score: 141
Period size: 44 Copynumber: 2.0 Consensus size: 45
41960992 AAACGTTTGA
*
41961002 CAAATACTGAATCACAAAAAAAAAAAGGTGCCAAATTAGGAAAAAGAG
1 CAAATACTGAATCAC---AAAAAAAAGGTACCAAATTAGGAAAAAGAG
41961050 CAAATACTGAATCAC-AAAAAAAGGTACCAAATTAGGAAAAAGAG
1 CAAATACTGAATCACAAAAAAAAGGTACCAAATTAGGAAAAAGAG
41961094 TCAAGTTCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 28 0.65
48 15 0.35
ACGTcount: A:0.58, C:0.13, G:0.16, T:0.13
Consensus pattern (45 bp):
CAAATACTGAATCACAAAAAAAAGGTACCAAATTAGGAAAAAGAG
Found at i:41963526 original size:29 final size:29
Alignment explanation
Indices: 41963482--41963555 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
41963472 CATGCCGTGT
* *
41963482 CCGTGTGGTAGGCCATATGAGTCACATGG
1 CCGTGTGTTAGACCATATGAGTCACATGG
*
41963511 TCGTGTGTTAGACCATATGAGTCACATGG
1 CCGTGTGTTAGACCATATGAGTCACATGG
*
41963540 CCGTGTGTCAGACCAT
1 CCGTGTGTTAGACCAT
41963556 GTGGTAGGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (29 bp):
CCGTGTGTTAGACCATATGAGTCACATGG
Found at i:41968535 original size:5 final size:5
Alignment explanation
Indices: 41968525--41968567 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
41968515 ATAATACTAT
41968525 ATACC ATACC ATACC ATACC ATACC ATACC ATACC ATACC ATA
1 ATACC ATACC ATACC ATACC ATACC ATACC ATACC ATACC ATA
41968568 TACCATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (5 bp):
ATACC
Found at i:41968582 original size:12 final size:13
Alignment explanation
Indices: 41968525--41968584 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 13
41968515 ATAATACTAT
41968525 ATACCATACCATACC
1 ATACCATACCAT--C
41968540 ATACCATACCATACC
1 ATACCATACCAT--C
41968555 ATACCATACCAT-
1 ATACCATACCATC
*
41968567 ATACCATA-TATC
1 ATACCATACCATC
41968579 ATACCA
1 ATACCA
41968585 ACAAACAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
11 2 0.05
12 14 0.33
15 27 0.63
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (13 bp):
ATACCATACCATC
Found at i:41969078 original size:25 final size:26
Alignment explanation
Indices: 41969030--41969078 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
41969020 CCAACCATGT
**
41969030 TTAATAGTACATACATGAGTCATTAA
1 TTAATAGTACATACATGACCCATTAA
*
41969056 TTAA-AGTCCATACATGACCCATT
1 TTAATAGTACATACATGACCCATT
41969079 TTGTTGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
TTAATAGTACATACATGACCCATTAA
Found at i:41977003 original size:19 final size:19
Alignment explanation
Indices: 41976981--41977018 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
41976971 ACGATAAATA
41976981 AAATAAAT-AAAACTATATG
1 AAATAAATGAAAA-TATATG
*
41977000 AAATATATGAAAATATATG
1 AAATAAATGAAAATATATG
41977019 TATGTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (19 bp):
AAATAAATGAAAATATATG
Found at i:41977134 original size:20 final size:20
Alignment explanation
Indices: 41977095--41977149 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
41977085 TTTTATAAAA
* * *
41977095 TAAAAAATATGTATATATAT
1 TAAAAAATATATGTACATAT
* *
41977115 TATAGAATATATGTACATAT
1 TAAAAAATATATGTACATAT
41977135 TAAAAAATATATGTA
1 TAAAAAATATATGTA
41977150 TGCGTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (20 bp):
TAAAAAATATATGTACATAT
Found at i:41977805 original size:14 final size:15
Alignment explanation
Indices: 41977781--41977809 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41977771 TCCCCTAAAA
41977781 AAAACAAAACCTCTC
1 AAAACAAAACCTCTC
41977796 AAAA-AAAACCTCTC
1 AAAACAAAACCTCTC
41977810 CCTTCAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAACAAAACCTCTC
Found at i:41979891 original size:30 final size:30
Alignment explanation
Indices: 41979855--41979912 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41979845 TCATTTTTAA
* * *
41979855 TAGAGAATAGCCACAAAGGCTTCTACATAT
1 TAGAGAACAGCCACAAAAGCTTCCACATAT
*
41979885 TAGAGAACGGCCACAAAAGCTTCCACAT
1 TAGAGAACAGCCACAAAAGCTTCCACAT
41979913 TAGGTAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (30 bp):
TAGAGAACAGCCACAAAAGCTTCCACATAT
Found at i:41985382 original size:27 final size:27
Alignment explanation
Indices: 41985325--41985388 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
41985315 GGATTGCCAT
* * ** *
41985325 AGGCGGCACCAATGGTGCCAGTGGTAG
1 AGGCGGCACCAAAGGTGCCACTGCAAC
41985352 AGGCGGCACCAAAGGTGCCACTGCAAC
1 AGGCGGCACCAAAGGTGCCACTGCAAC
41985379 AGGCGGCACC
1 AGGCGGCACC
41985389 CCCCATTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.30, G:0.36, T:0.09
Consensus pattern (27 bp):
AGGCGGCACCAAAGGTGCCACTGCAAC
Found at i:41985761 original size:152 final size:150
Alignment explanation
Indices: 41985497--41985826 Score: 486
Period size: 152 Copynumber: 2.2 Consensus size: 150
41985487 GAAAAGAAAT
* * ** *
41985497 AAAAA-AAACAAAAATAGTATATTTACTGAAAGTAATAAAATTCGAAAAAAAAATACGAACAAAG
1 AAAAATAAATAAAAATAGTATATTTACTGAAAATAATAAAATTAAAAAAAAAAATACAAACAAAG
* *
41985561 GGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAAATC
66 GGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAAATA
41985626 TTATGTACTAAAATAATA-A
131 TTATGTACTAAAATAATATA
* *
41985645 AAAAATAAATAAAAATAGTATATTTACTGAAAATAATAAAATCTAAAAAAAAGAAAAATATAAAT
1 AAAAATAAATAAAAATAGTATATTTACTGAAAATAATAAAAT-T--AAAAAA-AAAAATACAAAC
41985710 AAAGGGCCAAAAT-AGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACATTTCA
62 AAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACATTTCA
41985774 AATATTATGTACTAAAATAATATA
127 AATATTATGTACTAAAATAATATA
41985798 AAATAATAAAATACGAAAATAGTATATTT
1 AAA-AAT-AAATA--AAAATAGTATATTT
41985827 TTTGACGGTA
Statistics
Matches: 163, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
148 5 0.03
149 34 0.21
150 1 0.01
152 75 0.46
153 26 0.16
154 3 0.02
155 5 0.03
157 14 0.09
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (150 bp):
AAAAATAAATAAAAATAGTATATTTACTGAAAATAATAAAATTAAAAAAAAAAATACAAACAAAG
GGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAAATA
TTATGTACTAAAATAATATA
Found at i:41985895 original size:10 final size:10
Alignment explanation
Indices: 41985880--41985907 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
41985870 GTGTATTAAT
41985880 TTTTATATTA
1 TTTTATATTA
41985890 TTTTATATTA
1 TTTTATATTA
41985900 TTTTATAT
1 TTTTATAT
41985908 AGGCGGCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATATTA
Found at i:41986326 original size:158 final size:160
Alignment explanation
Indices: 41985920--41986469 Score: 819
Period size: 161 Copynumber: 3.4 Consensus size: 160
41985910 GCGGCACCCT
41985920 CTTTGTTCGTA--TTTTTCTTATTTTT-GGATTTTATTACTTTCAAAAAATATACTATTTTCGTA
1 CTTTGTTCGTATTTTTTTCTT-TTTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTA
*
41985982 TTTTATTATTTTATATTATTTTATTACATAAAT-TTTGAAATGTATTATTTTAGTGTGTTTTTTA
65 TTTTATTATTTTATATTATTTTAGTACAT-AATGTTTGAAATGTATTATTTTAGTGTGTTTTTT-
* *
41986046 AATATAAATTTAGTAAAAAAACCCTCATTTTGGCC
128 -ATATAAATTTAGT-GAAAAACCCTTATTTTGGCC
* *
41986081 CTTTGTTCGTA--TTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATGCTATTTTCGTAT
1 CTTTGTTCGTATTTTTTTCTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
41986144 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTG-TTTTTATA
66 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATA
*
41986208 TAAATTTAGTGAAAAACCCTTATTTTAGCC
131 TAAATTTAGTGAAAAACCCTTATTTTGGCC
* ** * *
41986238 CTTTGTTCATATTTTTTTCTTTTTTTCGGATTTTATTACTTTCAGTAAATATACAATTTTTGT-T
1 CTTTGTTCGTATTTTTTTCTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
41986302 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTGTTTTTTA
66 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTA--GTGTGTTTTTTA
41986367 TATAAATTTAGTGAAAAACCCTTATTTTGGCC
129 TATAAATTTAGTGAAAAACCCTTATTTTGGCC
* * * ** * *
41986399 ATTTGTTCGTATTTTTTTATTTTTTTCAGATTTTATTACTTTCAGTAAATATACTATTTTCATTT
1 CTTTGTTCGTATTTTTTTCTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
41986464 TTTATT
66 TTTATT
41986470 TCTTTTCGTA
Statistics
Matches: 360, Mismatches: 21, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
157 27 0.08
158 65 0.18
159 44 0.12
160 17 0.05
161 200 0.56
162 7 0.02
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (160 bp):
CTTTGTTCGTATTTTTTTCTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATA
TAAATTTAGTGAAAAACCCTTATTTTGGCC
Found at i:41986580 original size:27 final size:27
Alignment explanation
Indices: 41986542--41986611 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
41986532 ATAAATAAGG
* * *
41986542 GGTGCCACCTGTGGCAGTGGCACCTTT
1 GGTGCCGCCTGTGGCACTGGCACCATT
* *
41986569 GGTGCCGCCTGTGCCACTTGCACCATT
1 GGTGCCGCCTGTGGCACTGGCACCATT
41986596 GGTGCCGCCTGTGGCA
1 GGTGCCGCCTGTGGCA
41986612 ATCCCTCCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.10, C:0.33, G:0.33, T:0.24
Consensus pattern (27 bp):
GGTGCCGCCTGTGGCACTGGCACCATT
Found at i:41990592 original size:29 final size:28
Alignment explanation
Indices: 41990547--41990601 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
41990537 AATTTAATTT
*
41990547 TTTTTCTTTTATGTTCTTTTAACTTTAC
1 TTTTTCTTTTATGTTCTATTAACTTTAC
* *
41990575 TTTTTCTCTTTATTTTCTATTATCTTT
1 TTTTTCT-TTTATGTTCTATTAACTTT
41990602 TGCTTCTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.13, C:0.15, G:0.02, T:0.71
Consensus pattern (28 bp):
TTTTTCTTTTATGTTCTATTAACTTTAC
Found at i:41994606 original size:117 final size:115
Alignment explanation
Indices: 41994485--41994729 Score: 267
Period size: 115 Copynumber: 2.1 Consensus size: 115
41994475 CAAATTTCAT
* * * *
41994485 TTTTTTTACTTA-GAAATACACATATTTTTGCAATTTCATTCATCATAAAATTCATTACAATAGT
1 TTTTTTTACTTATG-AATACAC--ATTTATGAAATTTCACTCATCACAAAATTCATTACAATAGT
** * *
41994549 AATAAAATAAAAATTATTACACCAAATTAAGAGACTTCATTGTCAGATTCTAA
63 AATAAAATAAAAATTATTACACCAAACCAAGAGACTTCATTGTCAAAATCTAA
** * * * ** *
41994602 TTTTTACATTTATGAATACGCATTTATGAAATTTCACTCATTACAAAATTCATTGTAATATTAAT
1 TTTTTTTACTTATGAATACACATTTATGAAATTTCACTCATCACAAAATTCATTACAATAGTAAT
* * * *
41994667 AGAATAAAAATTATTAGACCAAGCCAAGAGACTTCATTGTGAAAATCTAA
66 AAAATAAAAATTATTACACCAAACCAAGAGACTTCATTGTCAAAATCTAA
*
41994717 TATTTTTACTTAT
1 TTTTTTTACTTAT
41994730 CAACTCAATT
Statistics
Matches: 103, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
115 87 0.84
117 15 0.15
118 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (115 bp):
TTTTTTTACTTATGAATACACATTTATGAAATTTCACTCATCACAAAATTCATTACAATAGTAAT
AAAATAAAAATTATTACACCAAACCAAGAGACTTCATTGTCAAAATCTAA
Found at i:42005166 original size:18 final size:18
Alignment explanation
Indices: 42005139--42005189 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
42005129 TTGTAATGTA
* *
42005139 ATATAATATATATTTTTT
1 ATATAATATATAATTTAT
*
42005157 ATATAGTATATAATTTAT
1 ATATAATATATAATTTAT
42005175 ATATAATACTATAAT
1 ATATAATA-TATAAT
42005190 GTAACCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 22 0.79
19 6 0.21
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATAATATATAATTTAT
Found at i:42020573 original size:13 final size:13
Alignment explanation
Indices: 42020555--42020586 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
42020545 AAATGCCTCT
*
42020555 TTAATATTTTTCA
1 TTAATATTTGTCA
42020568 TTAATATTTGTCA
1 TTAATATTTGTCA
42020581 TTAATA
1 TTAATA
42020587 CATTCATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (13 bp):
TTAATATTTGTCA
Found at i:42025744 original size:104 final size:103
Alignment explanation
Indices: 42025600--42025980 Score: 435
Period size: 104 Copynumber: 3.7 Consensus size: 103
42025590 GGTTTGCAGA
** *
42025600 CTGTTAGAAGTTGCGATCTTAAATCAATGAACTCAAATAATTAGAGGTTGCGATCTTAAATAAGC
1 CTGTTAGAAGTTGCGATCTTAAATCAACAAACTCAAATAATTAGAGGCTGCGATCTTAAATAAGC
* *
42025665 TAGCCTTAATAACATCATATGTAAATTTAGGTCAGTGAG
66 TAGCCTTAATAACATAATATGT-AATGTAGGTCAGTGAG
* * * * * *
42025704 CTGTTAGGAGTTGCGATCTTAAATTAGCAAACTTAAATAATTGGAGGCTGCGATCTTAAATCAGC
1 CTGTTAGAAGTTGCGATCTTAAATCAACAAACTCAAATAATTAGAGGCTGCGATCTTAAATAAGC
* * *
42025769 TAGCCTTAATAACATTAACTATG-AATGGAGGTTAGCGAG
66 TAGCCTTAATAACA-TAA-TATGTAATGTAGGTCAGTGAG
* * * * *
42025808 CTGTTAGAAGTTGCAATCTTAAATCAGCAAACTCAAATAATTAGAAGCTGGGATCTTAAATCAGC
1 CTGTTAGAAGTTGCGATCTTAAATCAACAAACTCAAATAATTAGAGGCTGCGATCTTAAATAAGC
* ** *
42025873 TAGCCTTAATAACATTAGCTGTGAACGTAGGTCA-TCGAG
66 TAGCCTTAATAACATAATATGT-AATGTAGGTCAGT-GAG
* * * * *
42025912 CTGTTAGGAGTTGCGATCTGAAATCAACGAACTCAAATAATTAGAGGTTGCAATCTTAAATCAA-
1 CTGTTAGAAGTTGCGATCTTAAATCAACAAACTCAAATAATTAGAGGCTGCGATCTTAAAT-AAG
42025976 CTAGC
65 CTAGC
42025981 ATGTAGGTCA
Statistics
Matches: 233, Mismatches: 38, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
102 2 0.01
103 2 0.01
104 222 0.95
105 3 0.01
106 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (103 bp):
CTGTTAGAAGTTGCGATCTTAAATCAACAAACTCAAATAATTAGAGGCTGCGATCTTAAATAAGC
TAGCCTTAATAACATAATATGTAATGTAGGTCAGTGAG
Found at i:42025922 original size:208 final size:208
Alignment explanation
Indices: 42025564--42025980 Score: 541
Period size: 208 Copynumber: 2.0 Consensus size: 208
42025554 AAATTGCAAA
* * * * * * **
42025564 CCTTAATAATATCAGCTGTGAATGTAGGTTTGCAGACTGTTAGAAGTTGCGATCTTAAATCAATG
1 CCTTAATAACATCAACTATGAATGGAGGTTAGCAGACTGTTAGAAGTTGCAATCTTAAATCAACA
* * * **
42025629 AACTCAAATAATTAGAGGTTGCGATCTTAAATAAGCTAGCCTTAATAACATCATATGTAAATTTA
66 AACTCAAATAATTAGAAGCTGCGATCTTAAATAAGCTAGCCTTAATAACATCAGATGTAAACGTA
* * * * * *
42025694 GGTCAGTGAGCTGTTAGGAGTTGCGATCTTAAATTAGCAAACTTAAATAATTGGAGGCTGCGATC
131 GGTCAGTGAGCTGTTAGGAGTTGCGATCTGAAATCAACAAACTCAAATAATTAGAGGCTGCAATC
*
42025759 TTAAATCAGCTAG
196 TTAAATCAACTAG
* *
42025772 CCTTAATAACATTAACTATGAATGGAGGTTAGC-GAGCTGTTAGAAGTTGCAATCTTAAATCAGC
1 CCTTAATAACATCAACTATGAATGGAGGTTAGCAGA-CTGTTAGAAGTTGCAATCTTAAATCAAC
* * * * *
42025836 AAACTCAAATAATTAGAAGCTGGGATCTTAAATCAGCTAGCCTTAATAACATTAGCTGTGAACGT
65 AAACTCAAATAATTAGAAGCTGCGATCTTAAATAAGCTAGCCTTAATAACATCAGATGTAAACGT
* *
42025901 AGGTCA-TCGAGCTGTTAGGAGTTGCGATCTGAAATCAACGAACTCAAATAATTAGAGGTTGCAA
130 AGGTCAGT-GAGCTGTTAGGAGTTGCGATCTGAAATCAACAAACTCAAATAATTAGAGGCTGCAA
42025965 TCTTAAATCAACTAG
194 TCTTAAATCAACTAG
42025980 C
1 C
42025981 ATGTAGGTCA
Statistics
Matches: 178, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
207 3 0.02
208 175 0.98
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (208 bp):
CCTTAATAACATCAACTATGAATGGAGGTTAGCAGACTGTTAGAAGTTGCAATCTTAAATCAACA
AACTCAAATAATTAGAAGCTGCGATCTTAAATAAGCTAGCCTTAATAACATCAGATGTAAACGTA
GGTCAGTGAGCTGTTAGGAGTTGCGATCTGAAATCAACAAACTCAAATAATTAGAGGCTGCAATC
TTAAATCAACTAG
Found at i:42026052 original size:84 final size:84
Alignment explanation
Indices: 42025899--42026062 Score: 240
Period size: 84 Copynumber: 2.0 Consensus size: 84
42025889 AGCTGTGAAC
* *
42025899 GTAGGTCATCGAGCTGTTAGGAGTTGCGATCTGAAATCAACGAACTCAAATAATTAGAGGTTGCA
1 GTAGGTCATCGAGCTGTTAGGAGTTGCGATCTGAAATCAACGAACTAAAATAATTAGAGGCTGCA
42025964 ATCTTAAATCAACTAGCAT
66 ATCTTAAATCAACTAGCAT
* * * *
42025983 GTAGGTCATCGAGCTGTTAGGAGTTGTGATCTTAAATCAACGAATTAAAATAATT-GAAGGCTGT
1 GTAGGTCATCGAGCTGTTAGGAGTTGCGATCTGAAATCAACGAACTAAAATAATTAG-AGGCTGC
* *
42026047 GATCTTAGATCAACTA
65 AATCTTAAATCAACTA
42026063 ACCTTAATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
83 1 0.01
84 70 0.99
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (84 bp):
GTAGGTCATCGAGCTGTTAGGAGTTGCGATCTGAAATCAACGAACTAAAATAATTAGAGGCTGCA
ATCTTAAATCAACTAGCAT
Found at i:42044754 original size:53 final size:53
Alignment explanation
Indices: 42044689--42044879 Score: 269
Period size: 54 Copynumber: 3.5 Consensus size: 53
42044679 AAAATTAGTA
42044689 CTGGCCTGTCAAT-GCCACCACCAAGTACAAAAATAAATCAAAATTTTTTTGTG
1 CTGGCCTGTCAATGGCCACCACCAAGTACAAAAA-AAATCAAAATTTTTTTGTG
*
42044742 CTGGCCTATCAATGGCCACCACCAAGTACCAAAAAATAATC-AAATTTTTTTGTTG
1 CTGGCCTGTCAATGGCCACCACCAAGTA-CAAAAAA-AATCAAAATTTTTTTG-TG
* *
42044797 TTGGCCTGTTAATGGCCACCACCAAGTACAAAAAAAATCAAAATTTTTTTGTG
1 CTGGCCTGTCAATGGCCACCACCAAGTACAAAAAAAATCAAAATTTTTTTGTG
* * *
42044850 CTAGCTTGTCAATGGCCAGCACCAAAGTAC
1 CTGGCCTGTCAATGGCCACCACC-AAGTAC
42044880 GAGTTTTAGA
Statistics
Matches: 123, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
53 36 0.29
54 50 0.41
55 37 0.30
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (53 bp):
CTGGCCTGTCAATGGCCACCACCAAGTACAAAAAAAATCAAAATTTTTTTGTG
Found at i:42044905 original size:54 final size:52
Alignment explanation
Indices: 42044844--42045030 Score: 175
Period size: 52 Copynumber: 3.6 Consensus size: 52
42044834 TCAAAATTTT
* *
42044844 TTTGTGCTAGCTTGTCAATGGCCAGCACCAAAGTACGAGTTTTAGAAAAAAAAA
1 TTTGTGCTGGCCTGTCAATGGCCAGCACCAAAGTACGAGTTTT--AAAAAAAAA
* * * *
42044898 TTTGTGCTGGCCTGTCAATGGCTAGCACCAGAGTATGTGTTTTAAAAAAAAA
1 TTTGTGCTGGCCTGTCAATGGCCAGCACCAAAGTACGAGTTTTAAAAAAAAA
* * * * * *
42044950 TTGGTACTGGCCTGTCAATGGCCGGCACCAGACT-C-AGTATT-AAAAAAAA
1 TTTGTGCTGGCCTGTCAATGGCCAGCACCAAAGTACGAGTTTTAAAAAAAAA
** * *
42044999 TTTGTTTTAGCCTTGT-AATGGCCGGCACCAAA
1 TTTGTGCTGGCC-TGTCAATGGCCAGCACCAAA
42045031 CCTTATATAT
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
49 31 0.27
50 7 0.06
52 38 0.34
54 37 0.33
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (52 bp):
TTTGTGCTGGCCTGTCAATGGCCAGCACCAAAGTACGAGTTTTAAAAAAAAA
Found at i:42047974 original size:54 final size:54
Alignment explanation
Indices: 42047916--42048052 Score: 184
Period size: 55 Copynumber: 2.5 Consensus size: 54
42047906 AGCTAGTCCC
* * * *
42047916 AAAAAAATTTAATTTTTTTTTGTACTTGGTGGTGGTCATTGATAAGCCAACATA
1 AAAAAAATTTGATTTTTTTTTGTACTTGGTGGTGGCCATTGACAAGCCAACACA
* * * *
42047970 AAAAAATTTTGATTTTTTTTTGGTACTTAGTGGTGGCCATTGACAGGCCAGCACA
1 AAAAAAATTTGATTTTTTTTT-GTACTTGGTGGTGGCCATTGACAAGCCAACACA
*
42048025 AAAAAAATTTGATTTATTTTTGTACTTG
1 AAAAAAATTTGATTTTTTTTTGTACTTG
42048053 TATAATGGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 25 0.35
55 46 0.65
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (54 bp):
AAAAAAATTTGATTTTTTTTTGTACTTGGTGGTGGCCATTGACAAGCCAACACA
Found at i:42048003 original size:55 final size:53
Alignment explanation
Indices: 42047895--42048051 Score: 179
Period size: 55 Copynumber: 2.9 Consensus size: 53
42047885 GTCTGGCACC
* * * * *
42047895 GGCCATTGACAAGCTAGTCCCAAAAAAATTTAATTTTTTTTTGTACTTGGTGGT
1 GGCCATTGACAAGCCA-ACACAAAAAAATTTGATTTTTTTTTGTACTTAGTGGT
* * *
42047949 GGTCATTGATAAGCCAACATAAAAAAATTTTGATTTTTTTTTGGTACTTAGTGGT
1 GGCCATTGACAAGCCAACACAAAAAAA-TTTGATTTTTTTTT-GTACTTAGTGGT
* * *
42048004 GGCCATTGACAGGCCAGCACAAAAAAAATTTGATTTATTTTTGTACTT
1 GGCCATTGACAAGCCAACAC-AAAAAAATTTGATTTTTTTTTGTACTT
42048052 GTATAATGGA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
53 8 0.09
54 32 0.37
55 39 0.45
56 7 0.08
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (53 bp):
GGCCATTGACAAGCCAACACAAAAAAATTTGATTTTTTTTTGTACTTAGTGGT
Found at i:42049888 original size:23 final size:22
Alignment explanation
Indices: 42049848--42049925 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 22
42049838 ATCCTAATTC
42049848 TAAAAAATAT-ATAA-ATATTT
1 TAAAAAATATAATAATATATTT
42049868 TCAAAAAATATAATAATATATTT
1 T-AAAAAATATAATAATATATTT
*
42049891 TAAAAATATATAAAAATGA-ATGTT
1 TAAAAA-ATATAATAAT-ATAT-TT
42049915 TAAAAAATATA
1 TAAAAAATATA
42049926 TAACAAATTA
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
20 1 0.02
21 9 0.18
22 9 0.18
23 23 0.45
24 9 0.18
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (22 bp):
TAAAAAATATAATAATATATTT
Found at i:42049974 original size:25 final size:24
Alignment explanation
Indices: 42049941--42049989 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
42049931 AATTAAAATT
*
42049941 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATGAAATAAA-ATAA
42049966 TTATATTAATATGAAATAAAATAA
1 TTATATTAATATGAAATAAAATAA
42049990 AATCTGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
TTATATTAATATGAAATAAAATAA
Found at i:42050927 original size:86 final size:85
Alignment explanation
Indices: 42050695--42050954 Score: 367
Period size: 86 Copynumber: 3.0 Consensus size: 85
42050685 CATCATCTCC
42050695 AATAAAATTTCAAATTAATAGTTTTATTCGAAAAGTTATTTTTTCTCATAGAAAGTTTGCTAATA
1 AATAAAATTTCAAATTAATAGTTTTATTC-AAAAGTTA-TTTTTCTCATAGAAAGTTTGCTAATA
*
42050760 AGTTAAAACAGTAAGGTAAAAAA
64 AGTTAAAACAATAAGGT-AAAAA
* * * * *
42050783 AATAAATTTTCAAATTAATAGTTTTAGTTAAAAAGTTGTTTTTCTCATAGAAAATTTGCCAATAA
1 AATAAAATTTCAAATTAATAGTTTTA-TTCAAAAGTTATTTTTCTCATAGAAAGTTTGCTAATAA
42050848 GTTAAAACAATAAGGTAAAAA
65 GTTAAAACAATAAGGTAAAAA
* * **
42050869 TATAAAATTTCAAATTAATAGTTTTATTTCAAAAGTTATTTTTCTTATAGAAAGTTTGCTAAGGA
1 AATAAAATTTCAAATTAATAGTTTTA-TTCAAAAGTTATTTTTCTCATAGAAAGTTTGCTAATAA
* *
42050934 GCTAAAACAATAAGCTAAAAA
65 GTTAAAACAATAAGGTAAAAA
42050955 GAACGTTAAT
Statistics
Matches: 153, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
86 79 0.52
87 40 0.26
88 32 0.21
89 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (85 bp):
AATAAAATTTCAAATTAATAGTTTTATTCAAAAGTTATTTTTCTCATAGAAAGTTTGCTAATAAG
TTAAAACAATAAGGTAAAAA
Found at i:42055569 original size:25 final size:25
Alignment explanation
Indices: 42055535--42055583 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
42055525 CAACATGCTA
*
42055535 GTTTACTTGGCGATTATCTTTGATT
1 GTTTACTTGGCGATTATCCTTGATT
*
42055560 GTTTACTTGGTGATTATCCTTGAT
1 GTTTACTTGGCGATTATCCTTGAT
42055584 CCACAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.16, C:0.12, G:0.20, T:0.51
Consensus pattern (25 bp):
GTTTACTTGGCGATTATCCTTGATT
Found at i:42058537 original size:26 final size:26
Alignment explanation
Indices: 42058501--42058563 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
42058491 ATAATATTAT
* *
42058501 AAAAATAAAAATATAAA-ATTATGATA
1 AAAAATTAAAATATAAAGATTA-AATA
42058527 AAAAATTAAAATATAAAGATTAAATA
1 AAAAATTAAAATATAAAGATTAAATA
42058553 AAAAATTAAAA
1 AAAAATTAAAA
42058564 AAATGACCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (26 bp):
AAAAATTAAAATATAAAGATTAAATA
Found at i:42058551 original size:13 final size:12
Alignment explanation
Indices: 42058509--42058566 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 12
42058499 ATAAAAATAA
*
42058509 AAATATAAAATT
1 AAATAAAAAATT
*
42058521 ATGATAAAAAATT
1 A-AATAAAAAATT
*
42058534 AAAATATAAAGATT
1 -AAATA-AAAAATT
42058548 AAATAAAAAATT
1 AAATAAAAAATT
42058560 AAA-AAAA
1 AAATAAAA
42058567 TGACCAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 4 0.11
12 10 0.26
13 17 0.45
14 7 0.18
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
AAATAAAAAATT
Found at i:42060196 original size:20 final size:21
Alignment explanation
Indices: 42060136--42060205 Score: 88
Period size: 22 Copynumber: 3.3 Consensus size: 21
42060126 TAGGTTATAC
*
42060136 GGGCGTATGCCTCATTCCACAC
1 GGGCGTATGCCTC-TTCCACAT
* *
42060158 GAGCGTGTGCCTTCTTCCACAT
1 GGGCGTATGCC-TCTTCCACAT
42060180 GGGCGTATGCC-CTTCCACAT
1 GGGCGTATGCCTCTTCCACAT
42060200 GGGCGT
1 GGGCGT
42060206 GTTGACCCCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 15 0.36
22 25 0.60
23 2 0.05
ACGTcount: A:0.14, C:0.33, G:0.27, T:0.26
Consensus pattern (21 bp):
GGGCGTATGCCTCTTCCACAT
Found at i:42064624 original size:24 final size:24
Alignment explanation
Indices: 42064583--42064639 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
42064573 GAGAAAGAGT
* * *
42064583 TGGTGGTTTCATCTACAACTTACA
1 TGGTGGCTTCATCAACAACCTACA
* *
42064607 TGGTGGCTTCGTCAACAACCTATA
1 TGGTGGCTTCATCAACAACCTACA
42064631 TGGTGGCTT
1 TGGTGGCTT
42064640 GTTTGCAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (24 bp):
TGGTGGCTTCATCAACAACCTACA
Found at i:42070394 original size:42 final size:43
Alignment explanation
Indices: 42070284--42070441 Score: 140
Period size: 42 Copynumber: 3.7 Consensus size: 43
42070274 AGCTCGTACA
* * * * *
42070284 ATGCCAACGTCTCGGACGTGGTCTTACATGTAATTACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATTACATATCG
* * *
42070327 ACGCCATTGTCCCAGACA-GGATCTTACACGTAATTATATA-CG
1 ATGCCAATGTCCCAGACATGG-TCTTACACGTAATTACATATCG
* * *
42070369 ATGCCAATGTCCCAGACATGGTCTTATACGTAAATATCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATTA-CATATCG
* ** **
42070413 AGGCCAACATCCCAGATGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
42070442 AATGTCACAT
Statistics
Matches: 91, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 33 0.36
43 33 0.36
44 25 0.27
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATTACATATCG
Found at i:42070428 original size:44 final size:42
Alignment explanation
Indices: 42070336--42070441 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 42
42070326 GACGCCATTG
* * * **
42070336 TCCCAGACA-GGATCTTACACGTAATTATATACGATGCCAATG
1 TCCCAGACATGG-TCTTACACGTAAATATAAACGAGGCCAACA
*
42070378 TCCCAGACATGGTCTTATACGTAAATATCAAATCGAGGCCAACA
1 TCCCAGACATGGTCTTACACGTAAATAT-AAA-CGAGGCCAACA
**
42070422 TCCCAGATGTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
42070442 AATGTCACAT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 23 0.44
43 4 0.08
44 25 0.48
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAAATATAAACGAGGCCAACA
Found at i:42077205 original size:22 final size:22
Alignment explanation
Indices: 42077155--42077212 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
42077145 CTTGGCCGTC
42077155 GTACCAATACAAGT-CCCTTAG
1 GTACCAATACAAGTCCCCTTAG
* * *
42077176 G-A-TAATACAATTCCCCTTGG
1 GTACCAATACAAGTCCCCTTAG
42077196 GTACCAATACAAGTCCC
1 GTACCAATACAAGTCCC
42077213 AAACTTGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 8 0.28
20 8 0.28
21 2 0.07
22 11 0.38
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (22 bp):
GTACCAATACAAGTCCCCTTAG
Found at i:42078908 original size:22 final size:22
Alignment explanation
Indices: 42078865--42078910 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
42078855 GTTTTTTTTT
* *
42078865 ATTTTTTTAAATTCGACCTTTA
1 ATTTTTTTAAATTCCACATTTA
42078887 ATTTATTTTAAATTCCA-ATTTA
1 ATTT-TTTTAAATTCCACATTTA
42078909 AT
1 AT
42078911 CCTTTTGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTTTTTTAAATTCCACATTTA
Found at i:42091441 original size:45 final size:44
Alignment explanation
Indices: 42091199--42091597 Score: 171
Period size: 44 Copynumber: 8.8 Consensus size: 44
42091189 TTGATGATGT
* * * *
42091199 CAAATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATTAAAGT-CG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAG
* * *
42091243 -ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AAC
1 CA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
* * * * * * *
42091285 CTTAGATCTTATCTCTCTGAAGTTGCAG-AGAACAGA-T-CG-CAT
1 C--AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
* * * *
42091327 CTAGTCTTATTTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
* *
42091371 CAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGG
1 CAAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AG
* * *
42091416 CAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAGAGTAGATCG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGC-------AGACTA-AGTA-A--G
** * * *
42091471 CATCTAGTCTTATCTCCCTAAAGCTGCAGTGGAGCAGACTAATTAAG
1 CA-AA--TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
* *
42091518 CAAGTCTTATC-CTCCTGAAGTTGCAG-CGATGCAGACTGAA--AATGG
1 CAAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTAA--G
*
42091563 CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
42091598 TTAAAACCAA
Statistics
Matches: 268, Mismatches: 50, Indels: 73
0.69 0.13 0.19
Matches are distributed among these distances:
40 20 0.07
41 5 0.02
42 4 0.01
43 18 0.07
44 109 0.41
45 60 0.22
46 6 0.02
47 3 0.01
49 1 0.00
50 3 0.01
51 5 0.02
52 5 0.02
53 1 0.00
55 3 0.01
58 25 0.09
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG
Found at i:42091543 original size:44 final size:44
Alignment explanation
Indices: 42091476--42091597 Score: 126
Period size: 45 Copynumber: 2.8 Consensus size: 44
42091466 GATCGCATCT
* *
42091476 AGTCTTATCTCCCTAAAGCTGCAGTGGAGCAGACT-AATTAA-GCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA--AAGGCA
*
42091520 AGTCTTATC-CTCCTGAAGTTGCAG-CGATGCAGACTGAAAATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAAA-GGCA
* *
42091565 AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
42091598 TTAAAACCAA
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
43 5 0.08
44 27 0.42
45 30 0.46
46 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAGGCA
Found at i:42091585 original size:147 final size:147
Alignment explanation
Indices: 42091318--42091607 Score: 472
Period size: 147 Copynumber: 2.0 Consensus size: 147
42091308 TGCAGAGAAC
* * * *
42091318 AGATCGCATCTAGTCTTATTTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATCC
1 AGATCGCATCTAGTCTTATCTCCCTAAAGCTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC
* * *
42091383 TCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATTTTATCTCCCTGAAGTTGCAGTGGAGC
66 TCCTGAAGTTGCAGCGAGGCAGACTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
*
42091448 AAATTAAAGCCAAGAGT
131 AAATTAAAACCAAGAGT
*
42091465 AGATCGCATCTAGTCTTATCTCCCTAAAGCTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCC
1 AGATCGCATCTAGTCTTATCTCCCTAAAGCTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC
* *
42091530 TCCTGAAGTTGCAGCGATGCAGACTGAAAATGGCAAATCTTATTTCCCTGAAGTTGCAGTGGAGC
66 TCCTGAAGTTGCAGCGAGGCAGACTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
*
42091595 AGATTAAAACCAA
131 AAATTAAAACCAA
42091608 CAATTCTATC
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
147 131 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (147 bp):
AGATCGCATCTAGTCTTATCTCCCTAAAGCTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC
TCCTGAAGTTGCAGCGAGGCAGACTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
AAATTAAAACCAAGAGT
Found at i:42093810 original size:24 final size:23
Alignment explanation
Indices: 42093752--42093810 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 23
42093742 TAGCAATAAC
*
42093752 TAGCAACAAAAATATCAACAAAG
1 TAGCAACAAAAATATCAACAAAA
* *
42093775 TAGTAAAAAAAACTATCAACCAAAA
1 TAGCAACAAAAA-TATCAA-CAAAA
42093800 TAGCAACAAAA
1 TAGCAACAAAA
42093811 TATGACCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 10 0.34
24 6 0.21
25 13 0.45
ACGTcount: A:0.63, C:0.17, G:0.07, T:0.14
Consensus pattern (23 bp):
TAGCAACAAAAATATCAACAAAA
Found at i:42096846 original size:27 final size:27
Alignment explanation
Indices: 42096816--42096890 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
42096806 TGCCGAAATC
*
42096816 TGAAAGGAT-AGCTTTTATGGCGAACCT
1 TGAAAGAATAAGC-TTTATGGCGAACCT
*
42096843 TGAAAGAATAAGCTTTATGGTGAA-CT
1 TGAAAGAATAAGCTTTATGGCGAACCT
* * *
42096869 CTAAAAGAATAACCTTTGTGGC
1 -TGAAAGAATAAGCTTTATGGC
42096891 AAACTCTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 35 0.88
28 3 0.08
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (27 bp):
TGAAAGAATAAGCTTTATGGCGAACCT
Found at i:42096895 original size:27 final size:27
Alignment explanation
Indices: 42096845--42096900 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
42096835 GCGAACCTTG
* **
42096845 AAAGAATAAGCTTTATGGTGAACTCTA
1 AAAGAATAACCTTTATGGCAAACTCTA
*
42096872 AAAGAATAACCTTTGTGGCAAACTCTA
1 AAAGAATAACCTTTATGGCAAACTCTA
42096899 AA
1 AA
42096901 TGGACTGTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAGAATAACCTTTATGGCAAACTCTA
Found at i:42101797 original size:43 final size:42
Alignment explanation
Indices: 42101709--42101802 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 42
42101699 CAACCCATGT
* * *
42101709 TTATCTTCTCCTCTTTTTAAATTCTTTTTCAATAACTCAATA
1 TTATCTTTTCCTCTTTTTAAATTCTTTTTCAAAAACTCAAGA
* * *
42101751 TTATCTTTTCCTTTTTTTAAATTATTTTTTCAAAAACAT-GAGA
1 TTATCTTTTCCTCTTTTTAAATT-CTTTTTCAAAAAC-TCAAGA
42101794 TTATCTTTT
1 TTATCTTTT
42101803 TTTTTAATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 21 0.48
43 22 0.50
44 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.02, T:0.55
Consensus pattern (42 bp):
TTATCTTTTCCTCTTTTTAAATTCTTTTTCAAAAACTCAAGA
Found at i:42103986 original size:9 final size:9
Alignment explanation
Indices: 42103969--42104005 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
42103959 TGAGTTTTCA
42103969 AATTCGAAT
1 AATTCGAAT
*
42103978 AACTCGAAT
1 AATTCGAAT
42103987 AATTCGAAT
1 AATTCGAAT
42103996 AATTCGAAT
1 AATTCGAAT
42104005 A
1 A
42104006 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:42104230 original size:20 final size:20
Alignment explanation
Indices: 42104205--42104259 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 20
42104195 CCCAAAAACC
42104205 CTCAAAACCTTTTATTTTCT
1 CTCAAAACCTTTTATTTTCT
42104225 CTCAAAACTACCTTTTATTTTCT
1 CTC-AAA--ACCTTTTATTTTCT
* *
42104248 CCCAAAATCTTT
1 CTCAAAACCTTT
42104260 ACTCCTTCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 8 0.27
21 3 0.10
22 3 0.10
23 16 0.53
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (20 bp):
CTCAAAACCTTTTATTTTCT
Found at i:42104241 original size:23 final size:23
Alignment explanation
Indices: 42104211--42104254 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
42104201 AACCCTCAAA
*
42104211 ACCTTTTATTTTCTCTCAAAACT
1 ACCTTTTATTTTCTCCCAAAACT
42104234 ACCTTTTATTTTCTCCCAAAA
1 ACCTTTTATTTTCTCCCAAAA
42104255 TCTTTACTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (23 bp):
ACCTTTTATTTTCTCCCAAAACT
Found at i:42104570 original size:9 final size:9
Alignment explanation
Indices: 42104556--42104584 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
42104546 AATTTCACAT
42104556 TTTATATTA
1 TTTATATTA
42104565 TTTATATTA
1 TTTATATTA
42104574 TTTATATTA
1 TTTATATTA
42104583 TT
1 TT
42104585 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:42108914 original size:22 final size:23
Alignment explanation
Indices: 42108872--42108914 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
42108862 AGGGATAACT
42108872 TGTAATCTTAGAAGATATGATAA
1 TGTAATCTTAGAAGATATGATAA
*
42108895 TGTAATCTTAG-AGATTTGAT
1 TGTAATCTTAGAAGATATGAT
42108915 TTGTAGATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATGATAA
Found at i:42114136 original size:14 final size:15
Alignment explanation
Indices: 42114117--42114145 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42114107 AATGTTTCAT
42114117 TTTATTATT-TATTA
1 TTTATTATTGTATTA
42114131 TTTATTATTGTATTA
1 TTTATTATTGTATTA
42114146 ATACTATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTATTATTGTATTA
Found at i:42114928 original size:49 final size:49
Alignment explanation
Indices: 42114874--42115080 Score: 242
Period size: 49 Copynumber: 4.2 Consensus size: 49
42114864 GTGGAAGCAG
* *
42114874 TGGCAGTATATCTCTAAATCAGAT-ATGGCTTGTCTA-AACAATTTATCAG
1 TGGCAGTATATCTCTAAATCAG-TGGTGGCTTGTCTACAA-AATTTATCAA
*
42114923 TGGCAGTATATCTGTAAATCAGTGGTGGCTTGTCTACAAAATTTATCAA
1 TGGCAGTATATCTCTAAATCAGTGGTGGCTTGTCTACAAAATTTATCAA
* * * *
42114972 TTGTAATATATCTGC-AAATCAGTGGTGGCTTGTCCACAAAATTTATCAA
1 TGGCAGTATATCT-CTAAATCAGTGGTGGCTTGTCTACAAAATTTATCAA
* * *
42115021 TGGCAGTATATCTGC-ATATCAGTGGTGTCTTGTCCACAAAAGTGTTATCAA
1 TGGCAGTATATCT-CTAAATCAGTGGTGGCTTGTCTACAAAA-T-TTATCAA
42115072 TGGCAGTAT
1 TGGCAGTAT
42115081 CAATGTTATA
Statistics
Matches: 140, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
48 1 0.01
49 120 0.86
50 3 0.02
51 16 0.11
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (49 bp):
TGGCAGTATATCTCTAAATCAGTGGTGGCTTGTCTACAAAATTTATCAA
Found at i:42117096 original size:22 final size:23
Alignment explanation
Indices: 42117054--42117096 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
42117044 AGAGATAACT
42117054 TGTAATCTTAGAAGATATGATAA
1 TGTAATCTTAGAAGATATGATAA
*
42117077 TGTAATCTTAG-AGATTTGAT
1 TGTAATCTTAGAAGATATGAT
42117097 TTGTAGATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATGATAA
Found at i:42128139 original size:23 final size:23
Alignment explanation
Indices: 42128108--42128158 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
42128098 ACCTACTTTC
* * *
42128108 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
42128131 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
42128154 TTACA
1 TTACA
42128159 CTTAGAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:42129160 original size:18 final size:17
Alignment explanation
Indices: 42129137--42129170 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
42129127 CAAGAACAGT
42129137 AAGCATCAAAATAGTTTC
1 AAGCAT-AAAATAGTTTC
*
42129155 AAGCATGAAATAGTTT
1 AAGCATAAAATAGTTT
42129171 AGCCCATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (17 bp):
AAGCATAAAATAGTTTC
Found at i:42131253 original size:8 final size:8
Alignment explanation
Indices: 42131240--42131269 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
42131230 ATCGGCAGTA
42131240 AAAAAAAG
1 AAAAAAAG
42131248 AAAAAAAG
1 AAAAAAAG
42131256 AAAAAGAAG
1 AAAAA-AAG
42131265 AAAAA
1 AAAAA
42131270 GAAAATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:42131261 original size:14 final size:15
Alignment explanation
Indices: 42131242--42131274 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
42131232 CGGCAGTAAA
42131242 AAAAAGAA-AAAAAG
1 AAAAAGAAGAAAAAG
42131256 AAAAAGAAGAAAAAG
1 AAAAAGAAGAAAAAG
42131271 AAAA
1 AAAA
42131275 TTACATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAGAAGAAAAAG
Found at i:42131270 original size:9 final size:9
Alignment explanation
Indices: 42131239--42131272 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
42131229 AATCGGCAGT
*
42131239 AAAAAAAAG
1 AAAAAGAAG
42131248 AAAAA-AAG
1 AAAAAGAAG
42131256 AAAAAGAAG
1 AAAAAGAAG
42131265 AAAAAGAA
1 AAAAAGAA
42131273 AATTACATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:42133969 original size:23 final size:22
Alignment explanation
Indices: 42133939--42134022 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
42133929 AAACCACACC
*
42133939 AGTAGGCACCGAAGTGCTTTAA-T
1 AGTAGGCACCGAAGTGC--GAATT
*
42133962 AGTAGGCACAGAAGTGCGAATT
1 AGTAGGCACCGAAGTGCGAATT
* * **
42133984 AGTAGGTACCGAAGTGCAAAGC
1 AGTAGGCACCGAAGTGCGAATT
*
42134006 AATAGGCACCGAAGTGC
1 AGTAGGCACCGAAGTGC
42134023 AGAGCAGTAG
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 2 0.04
22 33 0.65
23 16 0.31
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (22 bp):
AGTAGGCACCGAAGTGCGAATT
Found at i:42133989 original size:22 final size:22
Alignment explanation
Indices: 42133939--42134036 Score: 74
Period size: 22 Copynumber: 4.4 Consensus size: 22
42133929 AAACCACACC
*
42133939 AGTAGGCACCGAAGTGCTTTAAT
1 AGTAGGCACCGAAGTGC-TGAAT
*
42133962 AGTAGGCACAGAAGTGC-GAATT
1 AGTAGGCACCGAAGTGCTGAA-T
* * *
42133984 AGTAGGTACCGAAGTGC-AAAGC
1 AGTAGGCACCGAAGTGCTGAA-T
* * **
42134006 AATAGGCACCGAAGTGCAGAGC
1 AGTAGGCACCGAAGTGCTGAAT
42134028 AGTAGGCAC
1 AGTAGGCAC
42134037 TGTAGTGCAA
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
21 2 0.03
22 42 0.69
23 17 0.28
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (22 bp):
AGTAGGCACCGAAGTGCTGAAT
Found at i:42134043 original size:22 final size:22
Alignment explanation
Indices: 42133986--42134047 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
42133976 TGCGAATTAG
*
42133986 TAGGTACCGAAGTGCAAAGCAA
1 TAGGCACCGAAGTGCAAAGCAA
* *
42134008 TAGGCACCGAAGTGCAGAGCAG
1 TAGGCACCGAAGTGCAAAGCAA
* *
42134030 TAGGCACTGTAGTGCAAA
1 TAGGCACCGAAGTGCAAA
42134048 TTATGTACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (22 bp):
TAGGCACCGAAGTGCAAAGCAA
Found at i:42134470 original size:28 final size:25
Alignment explanation
Indices: 42134427--42134477 Score: 66
Period size: 28 Copynumber: 1.9 Consensus size: 25
42134417 TATATGAAAA
42134427 CTAAATTTTAATTTATACAATTTCC
1 CTAAATTTTAATTTATACAATTTCC
*
42134452 CTAAAGTTTTACATTTTATTCAATTT
1 CTAAA-TTTTA-A-TTTATACAATTT
42134478 AGTCCTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 5 0.23
27 1 0.05
28 11 0.50
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (25 bp):
CTAAATTTTAATTTATACAATTTCC
Found at i:42137133 original size:24 final size:23
Alignment explanation
Indices: 42137106--42137164 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 23
42137096 TATAGATATA
42137106 TATTTTTAATATTGTAAAATTACT
1 TATTTTTAATATT-TAAAATTACT
* *
42137130 TA--TTTATTATTTAAAATTATT
1 TATTTTTAATATTTAAAATTACT
*
42137151 TTTTTATTAATATT
1 TATTT-TTAATATT
42137165 ATATAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 10 0.36
22 8 0.29
23 1 0.04
24 9 0.32
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTTTAATATTTAAAATTACT
Found at i:42137146 original size:21 final size:22
Alignment explanation
Indices: 42137110--42137159 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
42137100 GATATATATT
*
42137110 TTTAATATTGTAAAATTACTTA
1 TTTATTATTGTAAAATTACTTA
* *
42137132 TTTATTATT-TAAAATTATTTT
1 TTTATTATTGTAAAATTACTTA
42137153 TTTATTA
1 TTTATTA
42137160 ATATTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTATTATTGTAAAATTACTTA
Done.