Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 45 of 173
Found at i:12298937 original size:26 final size:27
Alignment explanation
Indices: 12298871--12298939 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
12298861 CTTAAACAAA
*
12298871 ACTTTTTAAAAGTA-TTTCTTAAAAAC
1 ACTTTTTAAAAGTACTTTCTGAAAAAC
** **
12298897 ACTTTTCCACGGTACTTT-TGAAAAAC
1 ACTTTTTAAAAGTACTTTCTGAAAAAC
12298923 ACTTTTTAAAAGTACTT
1 ACTTTTTAAAAGTACTT
12298940 CTAAACTAGC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 30 0.91
27 3 0.09
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (27 bp):
ACTTTTTAAAAGTACTTTCTGAAAAAC
Found at i:12314421 original size:6 final size:6
Alignment explanation
Indices: 12314410--12314444 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
12314400 ATTTTTAATT
12314410 AATATA AATATA AATATA AATATA AATATA AATAT
1 AATATA AATATA AATATA AATATA AATATA AATAT
12314445 TAGATTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:12317779 original size:27 final size:26
Alignment explanation
Indices: 12317739--12317814 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
12317729 CATGCGGCCT
* * *
12317739 ATTTCTATTTAAACTTCTTGGCTGCCC
1 ATTTCCATTAAAACTT-GTGGCTGCCC
12317766 ATTTCCATTAAAACATTGTGGCTGCCC
1 ATTTCCATTAAAAC-TTGTGGCTGCCC
* *
12317793 ATATCCATTAACACTTTGTGGC
1 ATTTCCATTAAAAC-TTGTGGC
12317815 CCAATTGCCG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 40 0.95
28 2 0.05
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (26 bp):
ATTTCCATTAAAACTTGTGGCTGCCC
Found at i:12320198 original size:28 final size:28
Alignment explanation
Indices: 12320145--12320201 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
12320135 TTTCAACATC
*
12320145 TTCTCTTTTGTCTTCTCTGCAATCTCTT
1 TTCTCTTTTGTCTTCTCTACAATCTCTT
* **
12320173 TTCTCTTTTGTTTTCTCTACCTTCTCTT
1 TTCTCTTTTGTCTTCTCTACAATCTCTT
12320201 T
1 T
12320202 CATTTTCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.05, C:0.28, G:0.05, T:0.61
Consensus pattern (28 bp):
TTCTCTTTTGTCTTCTCTACAATCTCTT
Found at i:12320271 original size:16 final size:16
Alignment explanation
Indices: 12320250--12320280 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12320240 TTCACTTCTT
*
12320250 CATTTTCTATCTCCTA
1 CATTTTCCATCTCCTA
12320266 CATTTTCCATCTCCT
1 CATTTTCCATCTCCT
12320281 TCACATCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.48
Consensus pattern (16 bp):
CATTTTCCATCTCCTA
Found at i:12321094 original size:45 final size:45
Alignment explanation
Indices: 12321045--12321130 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
12321035 TAAATTGTCC
*
12321045 ATCAAAATACAACCAT-TAGAATGATTCAACAAAATAAAACCGTCT
1 ATCAAAATACAACCATCTA-AATGATCCAACAAAATAAAACCGTCT
*
12321090 ATCAAAATACATCCATCTAAATGATCCAACAAAATAAAACC
1 ATCAAAATACAACCATCTAAATGATCCAACAAAATAAAACC
12321131 ATCCATCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.52, C:0.22, G:0.05, T:0.21
Consensus pattern (45 bp):
ATCAAAATACAACCATCTAAATGATCCAACAAAATAAAACCGTCT
Found at i:12321137 original size:31 final size:28
Alignment explanation
Indices: 12321099--12321157 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
12321089 TATCAAAATA
12321099 CATCCATCTAAATGATCCAACAAAATAAAAC
1 CATCCATC-AAATG-T-CAACAAAATAAAAC
* *
12321130 CATCCATCATATGTTAACAAAATAAAAC
1 CATCCATCAAATGTCAACAAAATAAAAC
12321158 TATCAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 1 0.04
30 4 0.15
31 8 0.31
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (28 bp):
CATCCATCAAATGTCAACAAAATAAAAC
Found at i:12321638 original size:15 final size:15
Alignment explanation
Indices: 12321620--12321650 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12321610 GAGTAGGATC
12321620 AAAAGGAGCTGGTGG
1 AAAAGGAGCTGGTGG
*
12321635 AAAAGGAGTTGGTGG
1 AAAAGGAGCTGGTGG
12321650 A
1 A
12321651 GCTACTCCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.45, T:0.16
Consensus pattern (15 bp):
AAAAGGAGCTGGTGG
Found at i:12323815 original size:19 final size:21
Alignment explanation
Indices: 12323785--12323833 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
12323775 CAAGGAGTAA
12323785 TTTGGAACAAAAC-AAAAAAT
1 TTTGGAACAAAACTAAAAAAT
*
12323805 TTTGGAA-AAAACTTAAAAAT
1 TTTGGAACAAAACTAAAAAAT
*
12323825 TTTGAAACA
1 TTTGGAACA
12323834 GGGGTCACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.20
20 19 0.76
21 1 0.04
ACGTcount: A:0.55, C:0.08, G:0.10, T:0.27
Consensus pattern (21 bp):
TTTGGAACAAAACTAAAAAAT
Found at i:12326089 original size:21 final size:21
Alignment explanation
Indices: 12326049--12326089 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12326039 TATTTAAACA
* *
12326049 TTAATATTTCTCAACCAAATT
1 TTAATATTACTCAAACAAATT
*
12326070 TTAATATTACTCAAATAAAT
1 TTAATATTACTCAAACAAAT
12326090 AATAAAATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAATATTACTCAAACAAATT
Found at i:12326196 original size:30 final size:30
Alignment explanation
Indices: 12326160--12326220 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
12326150 TGAAAACAAG
12326160 CTGTTACACTTACAGTTAACCTTATTTGCT
1 CTGTTACACTTACAGTTAACCTTATTTGCT
*
12326190 CTGTTACAGTTACAGTTAACCTTATTTGCT
1 CTGTTACACTTACAGTTAACCTTATTTGCT
12326220 C
1 C
12326221 ATTCTCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (30 bp):
CTGTTACACTTACAGTTAACCTTATTTGCT
Found at i:12326991 original size:25 final size:28
Alignment explanation
Indices: 12326956--12327007 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
12326946 ACATACATAC
12326956 ATAAACAGTAATA-AACA-ATAATATAT
1 ATAAACAGTAATATAACACATAATATAT
*
12326982 ATAAA-AGTAATATACCACATAATATA
1 ATAAACAGTAATATAACACATAATATA
12327008 CATACATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 8 0.35
27 8 0.35
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.27
Consensus pattern (28 bp):
ATAAACAGTAATATAACACATAATATAT
Found at i:12327014 original size:4 final size:4
Alignment explanation
Indices: 12327005--12327204 Score: 109
Period size: 4 Copynumber: 49.8 Consensus size: 4
12326995 ACCACATAAT
*
12327005 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAAC AATAAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC -AT-AC ATAC
* * * * *
12327056 A-AC ATAAC ATAC ATAAT ATAC ATAC ATTA- A-AC ATGAT AGAA ATTC
1 ATAC AT-AC ATAC AT-AC ATAC ATAC A-TAC ATAC AT-AC ATAC ATAC
*
12327101 AT-C A-AC AGTA- ATA- A-AC ATA- ATGTAC ATAAT ATAC ATAC ATA-
1 ATAC ATAC A-TAC ATAC ATAC ATAC A--TAC AT-AC ATAC ATAC ATAC
* * *
12327142 AGA- ATA- ATAT ACCAC ATAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC A-TAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12327190 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
12327205 ACAATAATAT
Statistics
Matches: 158, Mismatches: 17, Indels: 42
0.73 0.08 0.19
Matches are distributed among these distances:
2 2 0.01
3 20 0.13
4 104 0.66
5 27 0.17
6 5 0.03
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:12327251 original size:13 final size:13
Alignment explanation
Indices: 12327235--12327353 Score: 80
Period size: 12 Copynumber: 9.5 Consensus size: 13
12327225 CATAATGTTT
12327235 ATACATAACAGAC
1 ATACATAACAGAC
*
12327248 ATACATAACAGTGAT
1 ATACATAACA--GAC
*
12327263 ATAC-T-ACATAAC
1 ATACATAACA-GAC
12327275 ATAC-TAACAGAC
1 ATACATAACAGAC
12327287 ATATTCATAAC--AC
1 ATA--CATAACAGAC
12327300 --ACATAACAGAC
1 ATACATAACAGAC
12327311 ATAC-TAACA-AGC
1 ATACATAACAGA-C
*
12327323 ATACATAACAAAC
1 ATACATAACAGAC
12327336 ATA-ATAACA-AC
1 ATACATAACAGAC
12327347 ATACATA
1 ATACATA
12327354 GCAGTAGTAT
Statistics
Matches: 88, Mismatches: 4, Indels: 29
0.73 0.03 0.24
Matches are distributed among these distances:
9 6 0.07
11 9 0.10
12 31 0.35
13 29 0.33
14 3 0.03
15 10 0.11
ACGTcount: A:0.53, C:0.22, G:0.05, T:0.20
Consensus pattern (13 bp):
ATACATAACAGAC
Found at i:12327319 original size:36 final size:34
Alignment explanation
Indices: 12327273--12327339 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 34
12327263 ATACTACATA
*
12327273 ACATACTAAC-AGACATATTCATAACACACATAACAG
1 ACATACTAACAAG-CATA--CATAACAAACATAACAG
12327309 ACATACTAACAAGCATACATAACAAACATAA
1 ACATACTAACAAGCATACATAACAAACATAA
12327340 TAACAACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 13 0.45
36 14 0.48
37 2 0.07
ACGTcount: A:0.54, C:0.24, G:0.04, T:0.18
Consensus pattern (34 bp):
ACATACTAACAAGCATACATAACAAACATAACAG
Found at i:12327476 original size:20 final size:18
Alignment explanation
Indices: 12327451--12327496 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
12327441 CCCAATTTCC
12327451 AAAATAATTAAACAGTCCAA
1 AAAATAATTAAA-AG-CCAA
*
12327471 AAAATAAATTACAAGCCAA
1 AAAAT-AATTAAAAGCCAA
12327490 AAAATAA
1 AAAATAA
12327497 AAAAACCTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
20 7 0.29
21 6 0.25
ACGTcount: A:0.65, C:0.13, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAATAATTAAAAGCCAA
Found at i:12329048 original size:35 final size:35
Alignment explanation
Indices: 12328973--12329048 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 35
12328963 ATGTGTTTTT
* * *
12328973 ATTTATAATTTATATACACATACATCGTGTATATA
1 ATTTACAATTTATATACACATACATCATATATATA
* * *
12329008 TTTTACAATTTATATACATATATA-CATATATATA
1 ATTTACAATTTATATACACATACATCATATATATA
12329042 CATTTAC
1 -ATTTAC
12329049 GTATATCTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
34 8 0.24
35 25 0.76
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.45
Consensus pattern (35 bp):
ATTTACAATTTATATACACATACATCATATATATA
Found at i:12329605 original size:71 final size:70
Alignment explanation
Indices: 12329489--12329693 Score: 329
Period size: 70 Copynumber: 2.9 Consensus size: 70
12329479 TCCTTTCAAA
** ** *
12329489 CTCAAGTTTTAAATGATCTCGGGAATTAAGAGGAGATTGTGTCCTAACTTACTGGGCATGATCAT
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATC-C
12329554 TTTTTT
65 TTTTTT
*
12329560 CTCAAGCTTTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
12329625 TTTTT
66 TTTTT
* *
12329630 CTAAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
12329694 CCCTTTTTTA
Statistics
Matches: 125, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
70 67 0.54
71 58 0.46
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (70 bp):
CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
TTTTT
Found at i:12340941 original size:129 final size:129
Alignment explanation
Indices: 12340761--12341299 Score: 622
Period size: 129 Copynumber: 4.2 Consensus size: 129
12340751 CACAGATCTC
* * * * * *
12340761 ATCTCTCTAAAGTTGCTGTGGGGTAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGG
* *
12340826 AGCGGATTAAAAACACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATTCAGTCTT
66 AGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTT
*
12340890 ACCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGG
* * *
12340955 AGCGGATTAAAAACACAGATCTCATCTCTCTGAAGTTGGAGTAGAGCAGATCACATCCAGTCTT
66 AGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTT
* ** * *
12341019 ATCTCCCTGAAGTTGTAGTACAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGG
* * * * *
12341084 AGCAGATTAAAAACACTGATCTTATCTCTCTGAAGTTGCAGTAGAGCTGATCGCATCCAATCCT
66 AGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTT
* ** * * * *
12341148 ATCTCCTTGAAGTTGCAGTGGAGCAGA-TTAA-AAACACAGATCTTATCTCTCTAAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC-CA-ATCCTATCTCCCTGAAGTTGTAGT
* * ** * * * * *
12341211 AGAGCAGATT-GCATC-CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGA-AGAAACCA
64 GGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGT--AG-AG-CAGATCGCATCCA
* *
12341272 ATCAT
125 GTCTT
12341277 ATCTCCCTGAAGTTGCAGTGGAG
1 ATCTCCCTGAAGTTGCAGTGGAG
12341300 TGGATTAAAA
Statistics
Matches: 356, Mismatches: 48, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
126 22 0.06
127 6 0.02
128 8 0.02
129 317 0.89
130 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (129 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGG
AGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTT
Found at i:12341161 original size:214 final size:213
Alignment explanation
Indices: 12340711--12341394 Score: 788
Period size: 214 Copynumber: 3.2 Consensus size: 213
12340701 TGAAACTACA
* ** *
12340711 AATCTTATCTCCCTGAAGTTTTAGTGAAGCGGATTAAAAACACAGATCTCATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTAAA---G
* ** * * * * *
12340776 CTGTGGGGTAGA-CAGAAGA-AACCAATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTA-AA-
63 -T-TGGAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-CAGAAG
* * * * *** ** * *
12340837 AACACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATTCA-G-TCTTACCTCCCTGA
125 AA-ACCAATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACGATCTTATCTCTCTGA
* *
12340900 AGTTGCAGTGGAGCAGACAGA-AGAAACC
189 AGTTGCAGT--AG-AG-CAGATCGCAACC
* *
12340928 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTAAAGTTG
* *
12340993 GAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGTAGTACAACAGACAGAAGAAACCA
66 GAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACAGAAGAAACCA
*
12341058 ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACTGATCTTATCTCTCTGAAGTTGC
131 ATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACAC-GATCTTATCTCTCTGAAGTTGC
* *
12341123 AGTAGAGCTGATCGCATCC
195 AGTAGAGCAGATCGCAACC
* * *
12341142 AATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTAAAGTTG
* ** * * *
12341207 CAGTAGAGCAGATTGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCA
66 GAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACAGAAGAAACCA
**
12341272 ATCATATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGC
131 ATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACAC-GATCTTATCTCTCTGAAGTTGC
12341337 AGTAGAGCAGATCGCAACC
195 AGTAGAGCAGATCGCAACC
* * *
12341356 AATCTTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
12341395 TGATGAATAC
Statistics
Matches: 408, Mismatches: 51, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
212 8 0.02
213 10 0.02
214 307 0.75
215 4 0.01
216 1 0.00
217 78 0.19
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (213 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTCATCTCTCTAAAGTTG
GAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACAGAAGAAACCA
ATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACGATCTTATCTCTCTGAAGTTGCA
GTAGAGCAGATCGCAACC
Found at i:12341306 original size:129 final size:129
Alignment explanation
Indices: 12341140--12341385 Score: 411
Period size: 129 Copynumber: 1.9 Consensus size: 129
12341130 CTGATCGCAT
* *
12341140 CCAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGT
1 CCAATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGT
* * *
12341205 TGCAGTAGAGCAGATTGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAA
66 TGCAGTAGAGCAGATCGCAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAA
** *
12341269 CCAATCATATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAACACAGATCTTATCTCTCTGAAGT
1 CCAATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGT
*
12341334 TGCAGTAGAGCAGATCGCAACCAATCTTATCTCCTTGAAGTTGCAGTGGAGT
66 TGCAGTAGAGCAGATCGCAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGT
12341386 GGATTAAAAT
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 108 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (129 bp):
CCAATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGT
TGCAGTAGAGCAGATCGCAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAA
Found at i:12341381 original size:85 final size:84
Alignment explanation
Indices: 12340794--12341394 Score: 437
Period size: 85 Copynumber: 7.0 Consensus size: 84
12340784 TAGACAGAAG
* * * *
12340794 AAACCA-ATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAAACACAAATCTTATCTCTCTG
1 AAACCAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TAAAAAC-C-AATCTTATCTCCCTG
* **
12340858 AAGTTGCAGTAGAGCAGA-TCG
63 AAGTTGCAGTAGAGCGGATTAA
* ** * * * *
12340879 CATTCAG-TCTTACCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTG
1 AAACCAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAG--ATAA-AAACCAATCTTATCTCCCTG
* *
12340943 AAGTTGTAGTGGAGCGGATTAA
63 AAGTTGCAGTAGAGCGGATTAA
* * * * * * *
12340965 AAACACAGATCTCATCTCTCTGAAGTTGGAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAA
1 AAAC-CAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAAACCAATCTTATCTCCCTGAA
* * * * **
12341030 GTTGTAGTACAACAGACAGAA
65 GTTGCAGTAGAGCGGA-TTAA
* * * *
12341051 GAAACCA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACTGATCTTATCTCTCT
1 -AAACCAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TAAAAAC-C-AATCTTATCTCCCT
* **
12341115 GAAGTTGCAGTAGAGCTGA-TCG
62 GAAGTTGCAGTAGAGCGGATTAA
* * * * * * *
12341137 CATCCA-ATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTA
1 AAACCAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TAAAAAC-CA-ATCTTATCTCCCTG
* *
12341201 AAGTTGCAGTAGAGCAGATT-G
63 AAGTTGCAGTAGAGCGGATTAA
* * * *
12341222 CATCCAG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGA-AGAAACCAATCATATCTCCCT
1 AAACCAGATCTTATCTCCCTGAAGTTGCAGT--AG-AG-CAGATAAAAACCAATCTTATCTCCCT
* *
12341285 GAAGTTGCAGTGGAGTGGATTAA
62 GAAGTTGCAGTAGAGCGGATTAA
* *** *
12341308 AAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAACCAATCTTATCTCCTTGAA
1 AAAC-CAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAAACCAATCTTATCTCCCTGAA
* *
12341373 GTTGCAGTGGAGTGGATTAA
65 GTTGCAGTAGAGCGGATTAA
12341393 AA
1 AA
12341395 TGATGAATAC
Statistics
Matches: 415, Mismatches: 78, Indels: 46
0.77 0.14 0.09
Matches are distributed among these distances:
84 4 0.01
85 288 0.69
86 22 0.05
87 22 0.05
88 75 0.18
89 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (84 bp):
AAACCAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAAACCAATCTTATCTCCCTGAAG
TTGCAGTAGAGCGGATTAA
Found at i:12343963 original size:22 final size:23
Alignment explanation
Indices: 12343938--12343985 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
12343928 CATCAATCTC
*
12343938 TCTTATTTCCTTTTTTTCTTT-T
1 TCTTATTTCCTTTCTTTCTTTCT
* *
12343960 TCTTTTTTTCTTTCTTTCTTTCT
1 TCTTATTTCCTTTCTTTCTTTCT
12343983 TCT
1 TCT
12343986 AGAATAGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (23 bp):
TCTTATTTCCTTTCTTTCTTTCT
Found at i:12353722 original size:35 final size:35
Alignment explanation
Indices: 12353655--12353722 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
12353645 TTATTTATAA
* *
12353655 TTTATATACACATACATCGTTTATATATTTTACAG
1 TTTATATACACATACATCGTATATATAATTTACAG
* *
12353690 TTTATATACATATATA-CGTATATATACATTTAC
1 TTTATATACACATACATCGTATATATA-ATTTAC
12353723 GTATATCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 9 0.32
35 19 0.68
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (35 bp):
TTTATATACACATACATCGTATATATAATTTACAG
Found at i:12353786 original size:8 final size:8
Alignment explanation
Indices: 12353775--12353809 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
12353765 CATATATATA
*
12353775 TTTATACT
1 TTTATAAT
*
12353783 TTTATATT
1 TTTATAAT
12353791 TTTATAAT
1 TTTATAAT
12353799 TTTATAAT
1 TTTATAAT
12353807 TTT
1 TTT
12353810 GCTCATGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTATAAT
Found at i:12353794 original size:16 final size:16
Alignment explanation
Indices: 12353769--12353809 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
12353759 CACGTACATA
* *
12353769 TATATATTTATACTTT
1 TATATTTTTATAATTT
12353785 TATATTTTTATAATTT
1 TATATTTTTATAATTT
12353801 TATAATTTT
1 TAT-ATTTT
12353810 GCTCATGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTTTTATAATTT
Found at i:12354363 original size:70 final size:71
Alignment explanation
Indices: 12354169--12354374 Score: 324
Period size: 71 Copynumber: 2.9 Consensus size: 71
12354159 TCCTTTCAAA
* * ** * * *
12354169 CTCAAGTTTTAAATGATCTCGCGAATTAAGAGGATATCGTGTCCTAACTTACTGTGCATGATCCT
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
12354234 TTTTTT
66 TTTTTT
*
12354240 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAAGATTGTGTCCTAATTTACTGGGCATGATCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAG-AAAAGATTGTGTCCTAACTTACTGGGCATGATCC
12354305 -TTTTTT
65 TTTTTTT
12354311 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
12354375 CCTCTTTTAA
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
70 33 0.26
71 64 0.51
72 28 0.22
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
TTTTTT
Found at i:12354964 original size:29 final size:28
Alignment explanation
Indices: 12354925--12354988 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 28
12354915 GAATGCCAAC
12354925 AAAAAAATTAGAAGTCAGATATAATACA
1 AAAAAAATTAGAAGTCAGATATAATACA
* *
12354953 AATAAAAATTAGAAGTTAGATATAATATA
1 AA-AAAAATTAGAAGTCAGATATAATACA
12354982 AAAAAAA
1 AAAAAAA
12354989 CAAAAATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 7 0.21
29 26 0.79
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.23
Consensus pattern (28 bp):
AAAAAAATTAGAAGTCAGATATAATACA
Found at i:12355087 original size:55 final size:56
Alignment explanation
Indices: 12355004--12355117 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 56
12354994 ATTTGTCAAT
** **
12355004 AAAATAAGAAAAATTTGTTTCCCCAAACCCTATGCCAA-AAAACCGAATGTTCTAAA
1 AAAATAAGAAAAAAATGTTTCCCCAAACCCTAAACCAAGAAAA-CGAATGTTCTAAA
* *
12355060 AAAAT-AGAAAAAAATGTTTCCCTAAACCCTAAACCAAGAAAACGAATGTTCTTAA
1 AAAATAAGAAAAAAATGTTTCCCCAAACCCTAAACCAAGAAAACGAATGTTCTAAA
12355115 AAA
1 AAA
12355118 CATTATCAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
55 42 0.82
56 9 0.18
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.22
Consensus pattern (56 bp):
AAAATAAGAAAAAAATGTTTCCCCAAACCCTAAACCAAGAAAACGAATGTTCTAAA
Found at i:12356274 original size:13 final size:13
Alignment explanation
Indices: 12356256--12356281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12356246 TGTTGACTAA
12356256 AAATATATTTGCT
1 AAATATATTTGCT
12356269 AAATATATTTGCT
1 AAATATATTTGCT
12356282 TACTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
AAATATATTTGCT
Found at i:12358904 original size:25 final size:25
Alignment explanation
Indices: 12358870--12358923 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
12358860 TATGTTGCAA
12358870 ATTTAAACTAGCACTAAATACTACC
1 ATTTAAACTAGCACTAAATACTACC
*
12358895 ATTTAAACTAGCACTAAATACTGCC
1 ATTTAAACTAGCACTAAATACTACC
12358920 ATTT
1 ATTT
12358924 TCCACTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (25 bp):
ATTTAAACTAGCACTAAATACTACC
Found at i:12363516 original size:199 final size:199
Alignment explanation
Indices: 12363161--12363522 Score: 483
Period size: 199 Copynumber: 1.8 Consensus size: 199
12363151 ACGAATCTAG
* * * * **
12363161 ACTCCTAGCTGACATTCTAAGAGCTCACAGAGTTAAGATCGTAGCTCCAACACAGCTAGTAGACC
1 ACTCCCAGCTGACATTATAAAAGCTCAAAGAGTTAAGATCACAGCTCCAACACAGCTAGTAGACC
* * * * * * *
12363226 TACGCTCTCAGCTGATGTCATAAAGGTTTTCTGGTTTAAGATCGTAATCTCTAAAGCAGCTAGCA
66 TACGCTCCCAGCTGATGGCATAAAGGTTTACCGATTTAAGATCGTAACCTCCAAAGCAGCTAGCA
* **
12363291 GACCTACACTCCCAGCTGGCATTATAAGAGCTCGTAGACTTACAGCTCCACCACAACTAGTAGAC
131 CACCTACACTCCCAGCTAACATTATAAGAGCTCGTAGACTTACAGCTCCACCACAACTAGTAGAC
12363356 CTAC
196 CTAC
* * * *
12363360 ACTCCCAGCTGACATTATAAAAGCTCAAAGAGTTAAGCTCACGGTTCCAACATAGCTAGT-GTAC
1 ACTCCCAGCTGACATTATAAAAGCTCAAAGAGTTAAGATCACAGCTCCAACACAGCTAGTAG-AC
* *
12363424 CTATGCTCCCAGCTGATGGCATAAAGGTTTACCGATTTAAGATTGTAACCTCCAAAGCAGCTAGC
65 CTACGCTCCCAGCTGATGGCATAAAGGTTTACCGATTTAAGATCGTAACCTCCAAAGCAGCTAGC
** *
12363489 ACACCTACACTCTTAGCTAATATTATAAGAGCTC
130 ACACCTACACTCCCAGCTAACATTATAAGAGCTC
12363523 ACAGAGTTAA
Statistics
Matches: 137, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
198 1 0.01
199 136 0.99
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (199 bp):
ACTCCCAGCTGACATTATAAAAGCTCAAAGAGTTAAGATCACAGCTCCAACACAGCTAGTAGACC
TACGCTCCCAGCTGATGGCATAAAGGTTTACCGATTTAAGATCGTAACCTCCAAAGCAGCTAGCA
CACCTACACTCCCAGCTAACATTATAAGAGCTCGTAGACTTACAGCTCCACCACAACTAGTAGAC
CTAC
Found at i:12366976 original size:28 final size:29
Alignment explanation
Indices: 12366925--12367003 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 29
12366915 CCCTTATAAT
* * *
12366925 TTAA-ATTGATTTTGATTATTAAAAATATT
1 TTAATATTAATTTTAATTA-TAAAAATATA
*
12366954 TTTAT-TTAATTTTAATTAT-AAAATATA
1 TTAATATTAATTTTAATTATAAAAATATA
*
12366981 TTAATATTAATATTAA-TATAAAA
1 TTAATATTAATTTTAATTATAAAA
12367004 TTGATAGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
27 14 0.34
28 13 0.32
29 14 0.34
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TTAATATTAATTTTAATTATAAAAATATA
Found at i:12366988 original size:29 final size:28
Alignment explanation
Indices: 12366942--12367004 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
12366932 GATTTTGATT
* *
12366942 ATTA-AAAATATTTTTAT-TTAATTTTA
1 ATTATAAAATATATTAATATTAATTTTA
*
12366968 ATTATAAAATATATTAATATTAATATTA
1 ATTATAAAATATATTAATATTAATTTTA
12366996 A-TATAAAAT
1 ATTATAAAAT
12367005 TGATAGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 19 0.59
28 9 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTATAAAATATATTAATATTAATTTTA
Found at i:12370215 original size:12 final size:12
Alignment explanation
Indices: 12370198--12370227 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
12370188 ACCTAGAGGA
12370198 GATGAAACTTAT
1 GATGAAACTTAT
12370210 GATGAAACTTAT
1 GATGAAACTTAT
12370222 GATGAA
1 GATGAA
12370228 TCCTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (12 bp):
GATGAAACTTAT
Found at i:12372644 original size:42 final size:43
Alignment explanation
Indices: 12372585--12372686 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 43
12372575 TGAGATTTAT
* * *
12372585 GTGTAAGACCATGTCTGGGACATTTGAGTCG-TATATGATTAC
1 GTGTAAGACCATGTCTGGAACAGTGGAGTCGTTATATGATTAC
* ** *
12372627 GTGTAAGACCCTGTCTGGAACAGTGGCTTCGTTATCTGATTAC
1 GTGTAAGACCATGTCTGGAACAGTGGAGTCGTTATATGATTAC
*
12372670 ATGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTG
12372687 AGATGTTGGC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGAACAGTGGAGTCGTTATATGATTAC
Found at i:12374921 original size:22 final size:20
Alignment explanation
Indices: 12374882--12374934 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
12374872 ATCTATCTTG
*
12374882 AAAAG-AAAAAAACCAAACGA
1 AAAAGAAAAAAAAACAAAC-A
* *
12374902 AATTAGAAAAAAAAAGAAACA
1 AA-AAGAAAAAAAAACAAACA
12374923 AAAAGAAAAAAA
1 AAAAGAAAAAAA
12374935 CTAAAATAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 11 0.41
21 5 0.19
22 11 0.41
ACGTcount: A:0.79, C:0.08, G:0.09, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAAAAAACAAACA
Found at i:12379091 original size:17 final size:17
Alignment explanation
Indices: 12379065--12379101 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
12379055 TCATTTAATT
*
12379065 AATTAGATTAATTTCTC
1 AATTAAATTAATTTCTC
*
12379082 AATTAAATTATTTTCTC
1 AATTAAATTAATTTCTC
12379099 AAT
1 AAT
12379102 CCAATTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.49
Consensus pattern (17 bp):
AATTAAATTAATTTCTC
Found at i:12381401 original size:23 final size:22
Alignment explanation
Indices: 12381361--12381403 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
12381351 AAATTATAAA
*
12381361 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
12381383 ATATAAGAAAAATATATATGT
1 ATATAA-AAAAATATATATGT
12381404 GTGTGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:12381484 original size:26 final size:24
Alignment explanation
Indices: 12381438--12381486 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12381428 AAATAAATAT
*
12381438 AAATATACATATTTTAATATGTAA
1 AAATATACATATTATAATATGTAA
*
12381462 AAATATATATATATATAAGTATGTA
1 AAATATACATAT-TATAA-TATGTA
12381487 TATAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (24 bp):
AAATATACATATTATAATATGTAA
Found at i:12381560 original size:32 final size:35
Alignment explanation
Indices: 12381504--12381567 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 35
12381494 TTATGAAACA
*
12381504 TATAAAATATATAAAAGTATGTGTACATATATATT
1 TATAAAATATATAAAAGAATGTGTACATATATATT
*
12381539 TATAAAA-AT-TAAAA-AATGTGTACGTATAT
1 TATAAAATATATAAAAGAATGTGTACATATAT
12381568 GTATATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 13 0.48
33 5 0.19
34 2 0.07
35 7 0.26
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (35 bp):
TATAAAATATATAAAAGAATGTGTACATATATATT
Found at i:12382135 original size:22 final size:22
Alignment explanation
Indices: 12382110--12382198 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
12382100 TACAAATTAA
* *
12382110 ATCTT-TAAGATTACAAAATCAT
1 ATCTTCTAAGATTGC-ATATCAT
* *
12382132 ATCTTCTAATATTGCATATGAT
1 ATCTTCTAAGATTGCATATCAT
12382154 ATCTTCTAAGATTGCATATCAT
1 ATCTTCTAAGATTGCATATCAT
12382176 A---TCTAAGATTGCATATCAT
1 ATCTTCTAAGATTGCATATCAT
12382195 ATCT
1 ATCT
12382199 AAGGTTGCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
19 19 0.33
22 31 0.54
23 7 0.12
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (22 bp):
ATCTTCTAAGATTGCATATCAT
Found at i:12382182 original size:19 final size:19
Alignment explanation
Indices: 12382158--12382211 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
12382148 TATGATATCT
12382158 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
12382177 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
12382196 TCTAAGGTTGCATATC
1 TCTAAGATTGCATATC
12382212 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12382828 original size:44 final size:45
Alignment explanation
Indices: 12382720--12382835 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 45
12382710 CTAATACGAT
* * *
12382720 CTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATC
1 CTACTCTACTGCAACTTCAGGGAGATAAAATCTATAATTTTAATC
*
12382765 C-GCTCTACTGCAACTTCAGGGAGATAAAATCTATAATTTTCAA-C
1 CTACTCTACTGCAACTTCAGGGAGATAAAATCTATAATTTT-AATC
* *
12382809 CTACTCCACTGCTAC-TCAGGGAGATAA
1 CTACTCTACTGCAACTTCAGGGAGATAA
12382836 GGCTAGTGGC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 49 0.79
45 13 0.21
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (45 bp):
CTACTCTACTGCAACTTCAGGGAGATAAAATCTATAATTTTAATC
Found at i:12382979 original size:132 final size:132
Alignment explanation
Indices: 12382777--12383098 Score: 545
Period size: 132 Copynumber: 2.4 Consensus size: 132
12382767 CTCTACTGCA
* *
12382777 ACTTCAGGGAGATAAAATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTAG
1 ACTT-AGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAG
12382842 TGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
65 TGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
12382907 ACT
130 ACT
* * *
12382910 ACTTAGGGAGATAAAATCTGTAATTTTCAACCTACTTCACTGTTGCTCAAGGAGATAAGGCTAGT
1 ACTTAGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGT
* *
12382975 GGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTTTGATCTGCTCCACTA
66 GGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTA
12383040 CT
131 CT
* * *
12383042 GCTTAGGGAGATAAGATATGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATA
1 ACTTAGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATA
12383099 TGATTCACAA
Statistics
Matches: 176, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
132 172 0.98
133 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
ACTTAGGGAGATAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGT
GGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTA
CT
Found at i:12383115 original size:44 final size:44
Alignment explanation
Indices: 12383067--12383321 Score: 331
Period size: 44 Copynumber: 5.8 Consensus size: 44
12383057 ATATGTAATT
* *
12383067 TTCAACCTACTCCACTGCTGCTCAGGGAGATATGATTCACAATC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
12383111 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGATTCACAATC
12383155 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCA-ATATC
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGATTCACA-ATC
** *
12383199 TTCAACCTATTCCACTGCTGAACAGGGAGATAGGATTCATAATC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
* * * *
12383243 TTCAATCTATTCCACTGTTGATCAGGGAGATAGAACTT-ACAATC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGA-TTCACAATC
* *
12383287 TTCAACCTATGCCACTGCT-TTCCAGGGAGATAGGA
1 TTCAACCTATTCCACTGCTGCT-CAGGGAGATAGGA
12383322 CTACTATCTT
Statistics
Matches: 192, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
43 2 0.01
44 186 0.97
45 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
Found at i:12383142 original size:132 final size:131
Alignment explanation
Indices: 12382782--12383274 Score: 356
Period size: 132 Copynumber: 3.7 Consensus size: 131
12382772 CTGCAACTTC
* * * ** ****
12382782 AGGGAGATAAAATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCT-AGTGGC
1 AGGGAGATAAGAT-TGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATTCACAATC
* * * * *
12382846 TTAAATCTGCTTCC-CTACT-ACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTAC
65 TTCAATCT-ATTCCACTGCTGACC-AGGG-AGATAAGATTCGACGTCTTCGATCTGCTCCACTAC
*
12382909 TACTT
127 TGCTT
* * * * ** ****
12382914 AGGGAGATAAAATCTGTAATTTTCAACCTACTTCACTGTTGCTCAAGGAGATAAGGCT-AGTGGC
1 AGGGAGATAAGAT-TGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATTCACAATC
* * * * * *
12382978 TTAAATCTGCTTCC-CTACT-ACCTTGGGAAGATAAGATTCGTCGTCTTTGATCTGCTCCACTAC
65 TTCAATCT-ATTCCACTGCTGACC-AGGG-AGATAAGATTCGACGTCTTCGATCTGCTCCACTAC
12383041 TGCTT
127 TGCTT
*
12383046 AGGGAGATAAGATATGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATATGATTCACAATC
1 AGGGAGATAAGAT-TGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATTCACAATC
* * * * * ** *
12383111 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCAACCTATTCCACTGCTG
65 TTCAATCTATTCCACTGCTGACCAGGGAGATAAGATTCGAC-GTCTTCGATCTGCTCCACTACTG
*
12383175 AC-C
129 -CTT
* * * ** * *
12383178 AGGGAGATAGGATT-CAATATCTTCAACCTATTCCACTGCTGAACAGGGAGATAGGATTCATAAT
1 AGGGAGATAAGATTGTAAT-T-TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATTCACAAT
* *
12383242 CTTCAATCTATTCCACTGTTGATCAGGGAGATA
64 CTTCAATCTATTCCACTGCTGACCAGGGAGATA
12383275 GAACTTACAA
Statistics
Matches: 309, Mismatches: 45, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
130 3 0.01
131 3 0.01
132 284 0.92
133 16 0.05
134 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (131 bp):
AGGGAGATAAGATTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGATTCACAATCT
TCAATCTATTCCACTGCTGACCAGGGAGATAAGATTCGACGTCTTCGATCTGCTCCACTACTGCT
T
Found at i:12383275 original size:132 final size:132
Alignment explanation
Indices: 12383067--12383321 Score: 386
Period size: 132 Copynumber: 1.9 Consensus size: 132
12383057 ATATGTAATT
** *
12383067 TTCAACCTACTCCACTGCTGCTCAGGGAGATATGATTCACAATCTTCAACCTATTCCACTGCTGA
1 TTCAACCTACTCCACTGCTGAACAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
* *
12383132 CCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCAAT
66 CCAGGGAGATAGAACTT-ACAATCTTCAACCTATGCCACTGCTGACCAGGGAGATAGGATTCAAT
12383196 ATC
130 ATC
* * * *
12383199 TTCAACCTATTCCACTGCTGAACAGGGAGATAGGATTCATAATCTTCAATCTATTCCACTGTTGA
1 TTCAACCTACTCCACTGCTGAACAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
* **
12383264 TCAGGGAGATAGAACTTACAATCTTCAACCTATGCCACTGCTTTCCAGGGAGATAGGA
66 CCAGGGAGATAGAACTTACAATCTTCAACCTATGCCACTGCTGACCAGGGAGATAGGA
12383322 CTACTATCTT
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
132 108 0.98
133 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (132 bp):
TTCAACCTACTCCACTGCTGAACAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAGAACTTACAATCTTCAACCTATGCCACTGCTGACCAGGGAGATAGGATTCAATA
TC
Found at i:12387495 original size:19 final size:19
Alignment explanation
Indices: 12387453--12387496 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
12387443 CAATGGATTT
**
12387453 TAATGCATATGATGTCATG
1 TAATGCATATGATGAAATG
12387472 TAATGCATATGCATGAAATG
1 TAATGCATATG-ATGAAATG
12387492 -AATGC
1 TAATGC
12387497 CTAAAGAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (19 bp):
TAATGCATATGATGAAATG
Found at i:12389695 original size:25 final size:23
Alignment explanation
Indices: 12389650--12389697 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
12389640 AAATAAATAT
*
12389650 AAATATACATATTTTAATATGTA
1 AAATATACATATTATAATATGTA
*
12389673 AAATATATATATATATAAGTATGTA
1 AAATATACATAT-TATAA-TATGTA
12389698 TATAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 4 0.19
25 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (23 bp):
AAATATACATATTATAATATGTA
Found at i:12390361 original size:17 final size:17
Alignment explanation
Indices: 12390339--12390390 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
12390329 ATTACAAAAT
12390339 CATATCTTTTAAGATTG
1 CATATCTTTTAAGATTG
*
12390356 CATATCATATCTAAGATTG
1 CATATC-T-TTTAAGATTG
* *
12390375 CATATCCTTGAAGATT
1 CATATCTTTTAAGATT
12390391 ATGTTTCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.45
18 1 0.03
19 15 0.52
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATATCTTTTAAGATTG
Found at i:12391440 original size:39 final size:39
Alignment explanation
Indices: 12391383--12391457 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
12391373 TTTTCCAACA
* *
12391383 TATATTACCCAAGAATCTACGACAAATGTTAGATCTTGT
1 TATATTACCCAAGAATCTACAACAAATGCTAGATCTTGT
12391422 TATATTACCCAATG-ATCTACAACAAATGCTAGATCT
1 TATATTACCCAA-GAATCTACAACAAATGCTAGATCT
12391458 CGATATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 32 0.97
40 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (39 bp):
TATATTACCCAAGAATCTACAACAAATGCTAGATCTTGT
Found at i:12392042 original size:30 final size:31
Alignment explanation
Indices: 12392006--12392073 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
12391996 TTACCCGAGA
** * **
12392006 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACGAAAAATTTGAAGGACCAATAGT
12392036 GTAAATACGAAAAATTTGAAGGACCAATAGT
1 GTAAATACGAAAAATTTGAAGGACCAATAGT
12392067 GTAAATA
1 GTAAATA
12392074 TTTTAAGGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAAATACGAAAAATTTGAAGGACCAATAGT
Found at i:12398203 original size:32 final size:32
Alignment explanation
Indices: 12398167--12398240 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
12398157 GTCCTTTTCC
* ** *
12398167 TATTTTTTATTTGTTTATTATTTGTTTTATTA
1 TATTTTTTATTTATTTATTAAATGTTTTATAA
* *
12398199 TATTTTATATTTATTTTTTAAATGTTTTATAA
1 TATTTTTTATTTATTTATTAAATGTTTTATAA
12398231 TATTTGTTTA
1 TATTT-TTTA
12398241 GGGTAAACTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 31 0.91
33 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (32 bp):
TATTTTTTATTTATTTATTAAATGTTTTATAA
Found at i:12398352 original size:31 final size:29
Alignment explanation
Indices: 12398282--12398355 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
12398272 TCCTTAGGTT
* *
12398282 ACATTTTAGTCACTTATGTTTGAATTGTT
1 ACATTTTAGTCACTTACGTTTGAATTGTA
* **
12398311 ACGTTTTAGTCACTTACGTTATCGTGTTGTA
1 ACATTTTAGTCACTTACGTT-T-GAATTGTA
12398342 ACATTTTAGTCACT
1 ACATTTTAGTCACT
12398356 GAGTCGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 18 0.49
30 1 0.03
31 18 0.49
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTTGAATTGTA
Found at i:12398920 original size:31 final size:29
Alignment explanation
Indices: 12398882--12398958 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
12398872 CTAACGGCTC
* *
12398882 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
12398913 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
12398942 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
12398959 CTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:12399271 original size:19 final size:19
Alignment explanation
Indices: 12399232--12399271 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12399222 TTGAATAAAC
**
12399232 AAATATTATAAAACATTTA
1 AAATATTATAAAACAAATA
12399251 AAATATTATAAAACAAATA
1 AAATATTATAAAACAAATA
12399270 AA
1 AA
12399272 TAATGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATATTATAAAACAAATA
Found at i:12400123 original size:19 final size:19
Alignment explanation
Indices: 12400078--12400137 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 19
12400068 AAAAAACTAT
12400078 TTTA-AAAAATTCAAAATAA
1 TTTATAAAAATTCAAAAT-A
*
12400097 TTT-T-AAAATCCAAAATA
1 TTTATAAAAATTCAAAATA
12400114 TTTATAAAAATTCAAAAT-
1 TTTATAAAAATTCAAAATA
12400132 TTTATA
1 TTTATA
12400138 TTTTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.11
18 18 0.50
19 14 0.39
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTATAAAAATTCAAAATA
Found at i:12400201 original size:16 final size:17
Alignment explanation
Indices: 12400182--12400214 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
12400172 GAATATATAA
12400182 AAAAATTT-AAAATTTT
1 AAAAATTTAAAAATTTT
12400198 AAAAATTTAAAAATTTT
1 AAAAATTTAAAAATTTT
12400215 CTAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTTAAAAATTTT
Found at i:12401706 original size:3 final size:3
Alignment explanation
Indices: 12401698--12401751 Score: 99
Period size: 3 Copynumber: 17.7 Consensus size: 3
12401688 GTTGAACTGT
12401698 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12401746 TATA TT
1 T-TA TT
12401752 TCCAAAATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12415674 original size:16 final size:17
Alignment explanation
Indices: 12415655--12415686 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12415645 TACAAATAAT
12415655 TTTTAAT-ATTTTAAAC
1 TTTTAATAATTTTAAAC
12415671 TTTTAATAATTTTAAA
1 TTTTAATAATTTTAAA
12415687 AAATCAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAATAATTTTAAAC
Found at i:12416124 original size:15 final size:15
Alignment explanation
Indices: 12416104--12416134 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12416094 TTGATCAAAG
12416104 GACTTAATTGAATGT
1 GACTTAATTGAATGT
*
12416119 GACTTAATTGATTGT
1 GACTTAATTGAATGT
12416134 G
1 G
12416135 TTTTTCGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (15 bp):
GACTTAATTGAATGT
Found at i:12418142 original size:29 final size:30
Alignment explanation
Indices: 12418074--12418156 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 30
12418064 ATAAATAGTA
**
12418074 AATTTATACATGAACTTTGGTTTAATGTGC
1 AATTTATACATGAACTTTAATTTAATGTGC
12418104 AATTTGATACATGAACTTTAATTT-A-GTGC
1 AATTT-ATACATGAACTTTAATTTAATGTGC
*
12418133 AATTATATACATGAAACTTGAATT
1 AATT-TATACATG-AACTTTAATT
12418157 GTGGTTCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 15 0.32
30 16 0.34
31 16 0.34
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (30 bp):
AATTTATACATGAACTTTAATTTAATGTGC
Found at i:12420518 original size:3 final size:3
Alignment explanation
Indices: 12420510--12420535 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12420500 TACAATCTCA
12420510 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
12420536 AAAATAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12427314 original size:9 final size:9
Alignment explanation
Indices: 12427300--12427324 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12427290 TTTATATAGG
12427300 GAGAGTTTA
1 GAGAGTTTA
12427309 GAGAGTTTA
1 GAGAGTTTA
12427318 GAGAGTT
1 GAGAGTT
12427325 CAACTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (9 bp):
GAGAGTTTA
Found at i:12429180 original size:15 final size:15
Alignment explanation
Indices: 12429141--12429172 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12429131 TATGCATGCA
12429141 AAATATAAAAGACAT
1 AAATATAAAAGACAT
*
12429156 AAATACAAAAGACAT
1 AAATATAAAAGACAT
12429171 AA
1 AA
12429173 TAGTAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:12434516 original size:16 final size:15
Alignment explanation
Indices: 12434497--12434535 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
12434487 TATGTGTTGG
12434497 ATTAAATTGAATATGA
1 ATTAAATTGAAT-TGA
*
12434513 ATTATATTGAATTGA
1 ATTAAATTGAATTGA
*
12434528 GTTAAATT
1 ATTAAATT
12434536 CATTCGTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATTAAATTGAATTGA
Found at i:12436297 original size:25 final size:24
Alignment explanation
Indices: 12436269--12436330 Score: 56
Period size: 27 Copynumber: 2.4 Consensus size: 24
12436259 TTATTTGTAA
12436269 TATTTATTTTTAATAATGT-TAAATT
1 TATTTATTTTTAA-AATGTATAAA-T
12436294 TATTATTATATTTTAAAATGTAATAAAT
1 TA-T-TTAT-TTTTAAAATGT-ATAAAT
12436322 TA-TTATTTT
1 TATTTATTTT
12436331 CGTTTGTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
24 3 0.09
25 6 0.19
26 1 0.03
27 9 0.28
28 9 0.28
29 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (24 bp):
TATTTATTTTTAAAATGTATAAAT
Found at i:12436300 original size:28 final size:28
Alignment explanation
Indices: 12436269--12436329 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
12436259 TTATTTGTAA
12436269 TATTTAT-TTTTAATAATGT-TAAATTTAT
1 TATTTATATTTTAA-AATGTATAAA-TTAT
12436297 TA-TTATATTTTAAAATGTAATAAATTAT
1 TATTTATATTTTAAAATGT-ATAAATTAT
12436325 TATTT
1 TATTT
12436330 TCGTTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
27 9 0.31
28 14 0.48
29 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
TATTTATATTTTAAAATGTATAAATTAT
Found at i:12448782 original size:44 final size:43
Alignment explanation
Indices: 12448728--12448849 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 43
12448718 AATATAACAG
* * *
12448728 ATCTTGTCTCCCTGAGCA-ATAGCGGAGCAGATTGAAGATGGTGA
1 ATCTTATCTCCCTGAG-ATACAGCGGAGCAGATTGAAGATAGT-A
*
12448772 ATCTTATCT-CCTAGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCT-GAGA-TACAGCGGAGCAGATTGAAGATAGTA
* * *
12448816 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATT
1 ATCTTATCTCCCTGAGA-TACAGCGGAGCAGATT
12448850 AAAATAAAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
43 4 0.06
44 39 0.58
45 24 0.36
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATACAGCGGAGCAGATTGAAGATAGTA
Found at i:12448868 original size:44 final size:43
Alignment explanation
Indices: 12448772--12449498 Score: 301
Period size: 44 Copynumber: 16.6 Consensus size: 43
12448762 AAGATGGTGA
* * * *
12448772 ATCTTATCT-CCTAGAGATTACAGCGGAGCAGATT-GAAGCTAGTA
1 ATCTTATCTCCCT-GAGATTACAGTGGAGCAGATTAAAATC-AG-G
* * *
12448816 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAGG
* * * * ***
12448860 ATCTTATCTCTCT-AAAGTTACAGTAGAGTAGA-TCGCATCAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAGG
** **
12448902 -TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCA-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TCAGG
** * * * *
12448947 ATCTTATCTCCCTTTGATTACAGCGGAGCAGATT-GAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG-G
* * * *
12448991 ATCCTATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAGG
* * * ***
12449035 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCATCAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAGG
* * ** **
12449077 -TCTTATCTCCCTAAAATTACAGTGGAATAGACCGAAGAATTTCA-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TCAGG
* * * *
12449122 ATCTTATCTCCCTGAGATTACAGTGGACCAGATT-GAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG-G
* * * *
12449166 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAGG
* * * * ***
12449210 ATCTTATCTCTCT-AAAGTTACAGTAGAGTAGA-TCGCATCAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAGG
* ** **
12449252 -TCTTATCTCCCTGATATTACAGTGGAATAGACAGAAGAATTTCA-G
1 ATCTTATCTCCCTGAGATTACAGTGG---AG-CAGATTAAAATCAGG
* * * *
12449297 ATCTTATCTCCCTGAGATTACAGTGGCGCAGATT-GAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG-G
* * *
12449341 AT-TCTATCTCCCTGAGCTTACAGTGGAGCGGATTAAAATAAAGG
1 ATCT-TATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAGG
* * * **
12449385 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATT-GCATCAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAGG
* ** *
12449427 -TCTTATCTCTCTGAGATTACAGTGGAATAGATCGAAGAATTTCA-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGAT-TAA-AA--TCAGG
*
12449472 ATCTTATCTCCTTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
12449499 ATAGACCGAA
Statistics
Matches: 502, Mismatches: 129, Indels: 102
0.68 0.18 0.14
Matches are distributed among these distances:
41 99 0.20
42 24 0.05
43 22 0.04
44 217 0.43
45 27 0.05
46 113 0.23
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAGG
Found at i:12449063 original size:175 final size:175
Alignment explanation
Indices: 12448772--12449494 Score: 1250
Period size: 175 Copynumber: 4.1 Consensus size: 175
12448762 AAGATGGTGA
12448772 ATCTTATCT-CCTAGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
1 ATCTTATCTCCCT-GAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
12448836 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAG
65 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAG
12448901 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
130 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
** *
12448947 ATCTTATCTCCCTTTGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
*
12449012 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* *
12449077 TCTTATCTCCCTAAAATTACAGTGGAATAGACCGAAGAATTTCAG
131 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
* *
12449122 ATCTTATCTCCCTGAGATTACAGTGGACCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
*
12449187 AGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* *
12449252 TCTTATCTCCCTGATATTACAGTGGAATAGACAGAAGAATTTCAG
131 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
* * * *
12449297 ATCTTATCTCCCTGAGATTACAGTGGCGCAGATTGAAGCTAGTAATTCTATCTCCCTGAGCTTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* *
12449362 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* *
12449427 TCTTATCTCTCTGAGATTACAGTGGAATAGATCGAAGAATTTCAG
131 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
*
12449472 ATCTTATCTCCTTGAGATTACAG
1 ATCTTATCTCCCTGAGATTACAG
12449495 TGGAATAGAC
Statistics
Matches: 519, Mismatches: 28, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
175 516 0.99
176 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
Found at i:12449144 original size:46 final size:46
Alignment explanation
Indices: 12448897--12449529 Score: 307
Period size: 44 Copynumber: 14.3 Consensus size: 46
12448887 GTAGATCGCA
* * *
12448897 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATT
** * * * * *
12448943 TCAGATCTTATCTCCCTTTGATTACAGCGGAGCAGATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAAT-T
* * ** *
12448989 T-A-ATCCTATCTCCTTGAGATTACAGTGGAGCGGAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATT
** * * *
12449030 AAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATCGAAGAATT
* * * * *
12449072 TCAGGTCTTATCTCCCTAAAATTACAGTGGAATAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATT
** * * *
12449118 TCAGATCTTATCTCCCTGAGATTACAGTGGACCAGATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAAT-T
* ** *
12449164 T-A-ATCCTATCTCCCTGAGATTACAGTGGAGCGGAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATT
** * * * *
12449205 AAAGAATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATC---GCA--
1 TCAG-ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATCGAAGAATT
* * *
12449247 TCAGGTCTTATCTCCCTGATATTACAGTGGAATAGA-CAGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATC-GAAGAATT
* * * * *
12449293 TCAGATCTTATCTCCCTGAGATTACAGTGGCGCAGATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAAT-T
* ** *
12449339 T-A-AT-TCTATCTCCCTGAGCTTACAGTGGAGCGGAT-TAA-AA-T
1 TCAGATCT-TATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATT
** * * * *
12449380 AAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT---TGCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATCGAAGAATT
* * *
12449422 TCAGGTCTTATCTCTCTGAGATTACAGTGGAATAGATCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATT
* * *
12449468 TCAGATCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATT
* *
12449514 TCAGACCTTGTCTCCC
1 TCAGATCTTATCTCCC
12449530 AGATAATGTA
Statistics
Matches: 439, Mismatches: 103, Indels: 90
0.69 0.16 0.14
Matches are distributed among these distances:
40 1 0.00
41 80 0.18
42 11 0.03
43 13 0.03
44 165 0.38
45 7 0.02
46 162 0.37
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATT
Found at i:12449544 original size:46 final size:46
Alignment explanation
Indices: 12449428--12449532 Score: 129
Period size: 46 Copynumber: 2.3 Consensus size: 46
12449418 TGCATCAGGT
* * * * *
12449428 CTTATCTCTCTGAGATTACAGTGGAATAGATCGAAGAATTTCAGAT
1 CTTATCTCCCAGAGAATACAGTGGAATAGACCGAAGAATTTCAGAC
** *
12449474 CTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAGAC
1 CTTATCTCCCAGAGAATACAGTGGAATAGACCGAAGAATTTCAGAC
*
12449520 CTTGTCTCCCAGA
1 CTTATCTCCCAGA
12449533 TAATGTAGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (46 bp):
CTTATCTCCCAGAGAATACAGTGGAATAGACCGAAGAATTTCAGAC
Found at i:12451501 original size:22 final size:22
Alignment explanation
Indices: 12451456--12451518 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 22
12451446 TATGTATATG
12451456 TTTATAAAATGTATTATAATTTATAA
1 TTTATAAAAT-T-TTAT-ATTTAT-A
*
12451482 TTTATAAAATTTTAT-TTTATG
1 TTTATAAAATTTTATATTTATA
12451503 TTT-TAAAATTTT-TATT
1 TTTATAAAATTTTATATT
12451519 CATTTCGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 3 0.09
22 5 0.14
24 4 0.11
25 1 0.03
26 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTATAAAATTTTATATTTATA
Found at i:12458974 original size:21 final size:21
Alignment explanation
Indices: 12458948--12458999 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
12458938 TTTGAAATTT
* *
12458948 TCAGGAGGAAAAAGCTGAGAA
1 TCAGGAGGAAAAAACTGAAAA
* *
12458969 TTAGGAGGAAAAAATTGAAAA
1 TCAGGAGGAAAAAACTGAAAA
12458990 TCAGGAGGAA
1 TCAGGAGGAA
12459000 GAATCTGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.50, C:0.06, G:0.31, T:0.13
Consensus pattern (21 bp):
TCAGGAGGAAAAAACTGAAAA
Found at i:12462807 original size:39 final size:39
Alignment explanation
Indices: 12462753--12462830 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
12462743 ATTTGTAAGT
*
12462753 TCAAACGAACTTAGTGAGTTTTAACCCAGATCACCCTAA
1 TCAAACGAACTTAGTGAGTTTAAACCCAGATCACCCTAA
*
12462792 TCAAACGAACTTAGTGAGTTTAAACCTAGATCACCCTAA
1 TCAAACGAACTTAGTGAGTTTAAACCCAGATCACCCTAA
12462831 AGCATTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (39 bp):
TCAAACGAACTTAGTGAGTTTAAACCCAGATCACCCTAA
Found at i:12463799 original size:23 final size:23
Alignment explanation
Indices: 12463773--12463849 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
12463763 CACAACATAG
* * *
12463773 GCTTTATAGAATACGCCACACAA
1 GCTTTACAAAATATGCCACACAA
*
12463796 GCTTTACAAAATATGTCACACAA
1 GCTTTACAAAATATGCCACACAA
12463819 GCTTTACAAAATATGCCACA-AA
1 GCTTTACAAAATATGCCACACAA
12463841 GGCTTTACA
1 -GCTTTACA
12463850 GAGAATTACG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 2 0.04
23 46 0.96
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (23 bp):
GCTTTACAAAATATGCCACACAA
Found at i:12483423 original size:36 final size:36
Alignment explanation
Indices: 12483383--12483458 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
12483373 TGAAACATAG
*
12483383 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
12483419 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
12483456 AAA
1 AAA
12483459 CGTATATATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:12484433 original size:502 final size:501
Alignment explanation
Indices: 12483492--12484485 Score: 1970
Period size: 502 Copynumber: 2.0 Consensus size: 501
12483482 ATATAAGAAA
12483492 ATTTGAAATTTAAAGGCATAAAAAAGTAAATAATAATGATACAAGATTAATGATGTCACATAATA
1 ATTTGAAATTTAAAGGCATAAAAAAGTAAATAATAATGATACAAGATTAATGATGTCACATAATA
12483557 GTATTAATAATATTAAAATAATTAATTTAATAATAAAAAAACTAAAATATCAAATAGATGATTAA
66 GTATTAATAATATTAAAATAATTAATTTAATAATAAAAAAACTAAAATATCAAATAGATGATTAA
12483622 ATAGCATCAATAATCAAAGACCAATGAATTTAAAACAAAGAGTATAAAATAAAAAAATATAAGGC
131 ATAGCATCAATAATCAAAGACCAATGAATTTAAAACAAAGAGTATAAAATAAAAAAATATAAGGC
12483687 AAAATAAAATGTAAACAAATTTGAAAATAATGAATTTGAAAATAAATAATAAGGGAAAAAGAGAT
196 AAAATAAAATGTAAACAAATTTGAAAATAATGAATTTGAAAATAAATAATAAGGGAAAAAGAGAT
12483752 TTGAAATCAACAATATACAAATCAATAAATAAATTATACACAGATCAACAAAATAAGAACAAACC
261 TTGAAATCAACAATATACAAATCAATAAATAAATTATACACAGATCAACAAAATAAGAACAAACC
12483817 ACAGAAAATAAGAACGTAAGAGAGAGAGAGAAATTTGAGTGAATACTCTGAAGTATTATTATTAC
326 ACAGAAAATAAGAACGTAAGAGAGAGAGAGAAATTTGAGTGAATACTCTGAAGTATTATTATTAC
12483882 TCTCAACTCCAGCGTTTTACAATAAAGGGAGAGGCCTCTATTTATAGTTGAGCCTCCCCAAATCC
391 TCTCAACTCCAGCGTTTTACAATAAAGGGAGAGGCCTCTATTTATAGTTGAGCCTCCCCAAATCC
12483947 AACGGTACAGATCAATTACATCAACGGCTAAGATTAATGATACAAG
456 AACGGTACAGATCAATTACATCAACGGCTAAGATTAATGATACAAG
12483993 ATTTGAAATTTAAAGGCATAAAAAAGTAAATAATAATGATACAAGATTAATGATGTCACATAATA
1 ATTTGAAATTTAAAGGCATAAAAAAGTAAATAATAATGATACAAGATTAATGATGTCACATAATA
12484058 GTATTAATAATATTAAAATAATTAATTTAATAATAAAAAAACTAAAATATCAAATAGATGATTAA
66 GTATTAATAATATTAAAATAATTAATTTAATAATAAAAAAACTAAAATATCAAATAGATGATTAA
12484123 ATAGCATCAATAATCAAAGACCAATGAATTTAAAACAAAGAGTATAAAATAAAAAAAATATAAGG
131 ATAGCATCAATAATCAAAGACCAATGAATTTAAAACAAAGAGTATAAAAT-AAAAAAATATAAGG
12484188 CAAAATAAAATGTAAACAAATTTGAAAATAATGAATTTGAAAATAAATAATAAGGGAAAAAGAGA
195 CAAAATAAAATGTAAACAAATTTGAAAATAATGAATTTGAAAATAAATAATAAGGGAAAAAGAGA
*
12484253 TTTGAAATCAACAATATACAAATCAATAAATAAATTATACACAGATCAACAAAATATGAACAAAC
260 TTTGAAATCAACAATATACAAATCAATAAATAAATTATACACAGATCAACAAAATAAGAACAAAC
12484318 CACAGAAAATAAGAACGTAAGAGAGAGAGAGAAATTTGAGTGAATACTCTGAAGTATTATTATTA
325 CACAGAAAATAAGAACGTAAGAGAGAGAGAGAAATTTGAGTGAATACTCTGAAGTATTATTATTA
12484383 CTCTCAACTCCAGCGTTTTACAATAAAGGGAGAGGCCTCTATTTATAGTTGAGCCTCCCCAAATC
390 CTCTCAACTCCAGCGTTTTACAATAAAGGGAGAGGCCTCTATTTATAGTTGAGCCTCCCCAAATC
12484448 CAACGGTACAGATCAATTACATCAACGGCTAAGATTAA
455 CAACGGTACAGATCAATTACATCAACGGCTAAGATTAA
12484486 AGGGTATCTA
Statistics
Matches: 491, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
501 180 0.37
502 311 0.63
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.25
Consensus pattern (501 bp):
ATTTGAAATTTAAAGGCATAAAAAAGTAAATAATAATGATACAAGATTAATGATGTCACATAATA
GTATTAATAATATTAAAATAATTAATTTAATAATAAAAAAACTAAAATATCAAATAGATGATTAA
ATAGCATCAATAATCAAAGACCAATGAATTTAAAACAAAGAGTATAAAATAAAAAAATATAAGGC
AAAATAAAATGTAAACAAATTTGAAAATAATGAATTTGAAAATAAATAATAAGGGAAAAAGAGAT
TTGAAATCAACAATATACAAATCAATAAATAAATTATACACAGATCAACAAAATAAGAACAAACC
ACAGAAAATAAGAACGTAAGAGAGAGAGAGAAATTTGAGTGAATACTCTGAAGTATTATTATTAC
TCTCAACTCCAGCGTTTTACAATAAAGGGAGAGGCCTCTATTTATAGTTGAGCCTCCCCAAATCC
AACGGTACAGATCAATTACATCAACGGCTAAGATTAATGATACAAG
Found at i:12484537 original size:23 final size:22
Alignment explanation
Indices: 12484494--12484551 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12484484 AAAGGGTATC
* *
12484494 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12484515 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
12484538 TGCATATCATATCT
1 TACAAATCATATCT
12484552 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12485688 original size:44 final size:44
Alignment explanation
Indices: 12485639--12485740 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
12485629 TTCTGATCCA
* ** ** *
12485639 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTG
1 CTCCACTGCAACCTCAGGGAGATAAAATTGACTTATTCAATCTG
* *
12485683 TTCCACTGCAACCTCAGGGGGATAAAATTGACTTATTCAATCTG
1 CTCCACTGCAACCTCAGGGAGATAAAATTGACTTATTCAATCTG
*
12485727 CTCCACTGTAACCT
1 CTCCACTGCAACCT
12485741 TGGAGAGATG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACCTCAGGGAGATAAAATTGACTTATTCAATCTG
Found at i:12485920 original size:45 final size:45
Alignment explanation
Indices: 12485851--12487019 Score: 1424
Period size: 45 Copynumber: 26.0 Consensus size: 45
12485841 GTTACTTCTG
* * * * *
12485851 TCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTG
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
12485896 TTTTTGATCTACTTCGCTACCAATATAGGAAGACAAGATCCGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * * *
12485941 TCTTCGATCTACTTCGCTACCAATATAGGAAGCCCAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
*
12485986 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
12486031 TCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGATTTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* *
12486076 TCTTTGATCTACTTCACTGCCATTATAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * *
12486121 GCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * * * *
12486166 TCTTTGATGTACTTCGCTGCCAGTACAGGAAGATAAGATGTATTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* *
12486211 TCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * * *
12486256 TCTTCGATCTACGTT-GCTACAAATATAGGAAGATAAGATCTGCTA
1 TCTTTGATCTAC-TTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
12486301 TATTTGATCTACTTCGCTGCCAATAAAGGAAGACAAGATCCGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * *
12486346 TCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* ** *
12486391 TCTTTGATCTACTTCGCTACCGGTACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
** * *
12486436 TCTTTGATCTACTTCATTGCCAATACAGGAAGACAAGATCTATTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* ** * * *
12486481 TCTTCGATCTACTTCGCAACCAATATAGAAAGATAAGATATGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
12486526 TCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
** * *
12486571 TCTTTGATCTACTTCGCTGCCGGTATAAGAAGACAAGATTTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
12486616 TCTTTTATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * * * * *
12486661 TCTTTGATTTACTTCACTGCCAATACAAGAAGATAAAATATGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
12486706 TCTTCGATCTACTTCGCTACCAATATAGGAAGATAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
12486751 TCTTTGATCTATTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* *
12486796 TCTTTGATCTAGTTTGCTGCCAATATAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * * *
12486841 TCTTTGATCTACTTCGCTACCAATATCA-GAAGACAAGGTTTGTTG
1 TCTTTGATCTACTTCGCTGCCAATAT-AGGAAGACAAGATCTGTTA
* * * * * *
12486886 TTTTTGATCTACTTCGTTGTCAATACAGGAATACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
12486931 TTTTTGATCTGCTTCGCTGCCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
* * *
12486976 TTTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTT
1 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTT
12487020 GTTTTCACTG
Statistics
Matches: 959, Mismatches: 161, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
44 3 0.00
45 953 0.99
46 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (45 bp):
TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
Found at i:12488273 original size:8 final size:9
Alignment explanation
Indices: 12488249--12488291 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
12488239 GGCCTCTCCT
12488249 ATTTTCTTT-
1 ATTTT-TTTG
12488258 ATTTTTTTG
1 ATTTTTTTG
12488267 ATTTTTTTG
1 ATTTTTTTG
12488276 ATTTTTTTG
1 ATTTTTTTG
12488285 ATTTTTT
1 ATTTTTT
12488292 AAGGCGCCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 3 0.09
9 30 0.91
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (9 bp):
ATTTTTTTG
Found at i:12490816 original size:11 final size:11
Alignment explanation
Indices: 12490800--12490845 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
12490790 GGTTTACCGA
12490800 AATTATATTAT
1 AATTATATTAT
12490811 AATTATATTAT
1 AATTATATTAT
*
12490822 -ATTATAAT-T
1 AATTATATTAT
12490831 AATGTA-ATTAT
1 AAT-TATATTAT
12490842 AATT
1 AATT
12490846 TTCGATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 1 0.03
10 12 0.40
11 17 0.57
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
AATTATATTAT
Found at i:12490822 original size:16 final size:15
Alignment explanation
Indices: 12490800--12490845 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 15
12490790 GGTTTACCGA
12490800 AATTATATTATAATT
1 AATTATATTATAATT
12490815 ATATTATATTATAATT
1 A-ATTATATTATAATT
12490831 AATGTA-ATTATAATT
1 AAT-TATATTATAATT
12490846 TTCGATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
AATTATATTATAATT
Found at i:12494582 original size:3 final size:3
Alignment explanation
Indices: 12494574--12494609 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
12494564 CAAGAACAAA
12494574 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12494610 GAAAAGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12494955 original size:36 final size:36
Alignment explanation
Indices: 12494915--12494990 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
12494905 TGAAACATAG
*
12494915 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
12494951 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
12494988 AAA
1 AAA
12494991 CTTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:12495564 original size:23 final size:22
Alignment explanation
Indices: 12495521--12495578 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12495511 AAAGGGTATC
* *
12495521 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12495542 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
12495565 TGCATATCATATCT
1 TACAAATCATATCT
12495579 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12495594 original size:21 final size:21
Alignment explanation
Indices: 12495557--12495611 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
12495547 AATCATATCT
12495557 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
12495576 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
12495597 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
12495612 CCTTGAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.32
21 23 0.68
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:12502986 original size:16 final size:16
Alignment explanation
Indices: 12502965--12502995 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12502955 TTAACCCTTC
12502965 TTATTTACATATTTTA
1 TTATTTACATATTTTA
12502981 TTATTTACATATTTT
1 TTATTTACATATTTT
12502996 GCTTCCTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTACATATTTTA
Found at i:12505126 original size:23 final size:24
Alignment explanation
Indices: 12505085--12505135 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
12505075 TGTATTTGTT
* * *
12505085 TTTAAATCTAGCATTA-TTTAACA
1 TTTAAATCTAACATCATTTTAAAA
*
12505108 TTTAAATTTAACATCATTTTAAAA
1 TTTAAATCTAACATCATTTTAAAA
12505132 TTTA
1 TTTA
12505136 TCATTAGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTAAATCTAACATCATTTTAAAA
Found at i:12518002 original size:44 final size:44
Alignment explanation
Indices: 12517866--12518014 Score: 140
Period size: 44 Copynumber: 3.4 Consensus size: 44
12517856 TCACTAATCC
* * * *
12517866 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCT
* * * * * * *
12517910 TATCTGCGTGAAGTTCCAATGGAGCAGA-CAGAAAAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAACAA-CAGATCT
* *
12517954 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACTACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCT
*
12517998 TATCTCTCTGAAGTTGC
1 TATCTCCCTGAAGTTGC
12518015 TGGTAGCTAT
Statistics
Matches: 79, Mismatches: 22, Indels: 8
0.72 0.20 0.07
Matches are distributed among these distances:
43 3 0.04
44 73 0.92
45 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCT
Found at i:12518457 original size:53 final size:53
Alignment explanation
Indices: 12518387--12518544 Score: 224
Period size: 53 Copynumber: 3.1 Consensus size: 53
12518377 TTTTTATTCA
* *
12518387 ATTAGAGACATTTATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
1 ATTAAAGACATTCATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
*
12518440 ATTAAAGACATTCATAACTGAAAACCTATTTTTAATT-T-T-TAT-TC-A---
1 ATTAAAGACATTCATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
*
12518485 ATTAGAGACATTCATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
1 ATTAAAGACATTCATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
12518538 ATTAAAG
1 ATTAAAG
12518545 GTGCATTTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
45 36 0.40
46 1 0.01
47 1 0.01
48 3 0.03
49 4 0.04
50 3 0.03
51 1 0.01
52 1 0.01
53 41 0.45
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (53 bp):
ATTAAAGACATTCATAACTGAAAACCTATTTTTAATTATCTCTTTGTCGACTT
Found at i:12525170 original size:41 final size:42
Alignment explanation
Indices: 12525112--12525210 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 42
12525102 ATGGCTAAAT
*
12525112 TCTC-CTCTATTCTATCACTGAATCAGACCTTTTGTACCTCGA
1 TCTCGCTCTCTTC-ATCACTGAATCAGACCTTTTGTACCTCGA
* ** **
12525154 T-TTGCTCTCTTCATCACTGTTTTGGACCTTTTGTACCTCGA
1 TCTCGCTCTCTTCATCACTGAATCAGACCTTTTGTACCTCGA
12525195 TCTCGCTCTCTTCATC
1 TCTCGCTCTCTTCATC
12525211 GCTCTCTTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 27 0.56
42 21 0.44
ACGTcount: A:0.15, C:0.31, G:0.11, T:0.42
Consensus pattern (42 bp):
TCTCGCTCTCTTCATCACTGAATCAGACCTTTTGTACCTCGA
Found at i:12525214 original size:12 final size:12
Alignment explanation
Indices: 12525197--12525224 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12525187 TACCTCGATC
12525197 TCGCTCTCTTCA
1 TCGCTCTCTTCA
12525209 TCGCTCTCTTCA
1 TCGCTCTCTTCA
12525221 TCGC
1 TCGC
12525225 AAAGTTATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.43, G:0.11, T:0.39
Consensus pattern (12 bp):
TCGCTCTCTTCA
Found at i:12528495 original size:35 final size:35
Alignment explanation
Indices: 12528449--12528516 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
12528439 TGGAGCAGAC
* *
12528449 AAAAGAAACCAATTCTATCTCCCTGAAGTTGCAAT
1 AAAAGAAACCAATCCTATCTCCCTAAAGTTGCAAT
*
12528484 AAAAGAAACCAATCCTATCTCTCTAAAGTTGCA
1 AAAAGAAACCAATCCTATCTCCCTAAAGTTGCA
12528517 TAGAGCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (35 bp):
AAAAGAAACCAATCCTATCTCCCTAAAGTTGCAAT
Found at i:12530116 original size:23 final size:24
Alignment explanation
Indices: 12530075--12530125 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
12530065 TGTATTTGTT
* * *
12530075 TTTAAATCTAGCATTA-TTTAATA
1 TTTAAATCTAACATCATTTTAAAA
*
12530098 TTTAAATTTAACATCATTTTAAAA
1 TTTAAATCTAACATCATTTTAAAA
12530122 TTTA
1 TTTA
12530126 TCATTAGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTAAATCTAACATCATTTTAAAA
Found at i:12535141 original size:39 final size:39
Alignment explanation
Indices: 12535073--12535147 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
12535063 TAGTAGAAAA
*
12535073 CTATTGTACTTCGGTACCCCTGACCGCACTTACGTGCCC
1 CTATTGTACTTCGGTACCCCTGACAGCACTTACGTGCCC
* * *
12535112 CTATTGTACTTCGGTACTCCTGATAGCACTTTCGTG
1 CTATTGTACTTCGGTACCCCTGACAGCACTTACGTG
12535148 TCATGGTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.16, C:0.32, G:0.19, T:0.33
Consensus pattern (39 bp):
CTATTGTACTTCGGTACCCCTGACAGCACTTACGTGCCC
Found at i:12541070 original size:39 final size:39
Alignment explanation
Indices: 12540961--12541070 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 39
12540951 TTAGTAGAAA
*
12540961 ACTGTTGTACTTCGGTACCCCTGATCGCACTTACATGCC
1 ACTGTTGTACTTCGGTACCCCTGATAGCACTTACATGCC
* * **
12541000 ACTATTGTACTTCGGCACCCCTGATCA-CACTTATGTGCC
1 ACTGTTGTACTTCGGTACCCCTGAT-AGCACTTACATGCC
* * *
12541039 CCTGTTGTACTTCGGTACTCTTGATAGCACTT
1 ACTGTTGTACTTCGGTACCCCTGATAGCACTT
12541071 TCGTGCCGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.02
39 58 0.98
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (39 bp):
ACTGTTGTACTTCGGTACCCCTGATAGCACTTACATGCC
Found at i:12544139 original size:23 final size:23
Alignment explanation
Indices: 12544105--12544155 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
12544095 TCGTTGAGCT
*
12544105 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
12544128 TGTAATACCCCGAAAATTATTAC
1 TGTAATACCCCGAAAATTACTAC
*
12544151 AGTAA
1 TGTAA
12544156 GAAAGTAGGT
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:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:12549434 original size:36 final size:36
Alignment explanation
Indices: 12549391--12549461 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
12549381 CTCGCTTTAG
* *
12549391 GATTTGTAATTAACTTCAAATTAGGGTTTTAGGATA
1 GATTTGTAACTAACTTCAAATTAAGGTTTTAGGATA
*
12549427 GATTTGTAACTAACTTCGAATTAAGGTTTTAGGAT
1 GATTTGTAACTAACTTCAAATTAAGGTTTTAGGAT
12549462 GAAACAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (36 bp):
GATTTGTAACTAACTTCAAATTAAGGTTTTAGGATA
Found at i:12549845 original size:21 final size:21
Alignment explanation
Indices: 12549821--12549860 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12549811 CAATTTCCAT
12549821 CAATAAAACCAA-CTCAAAACA
1 CAATAAAA-CAAGCTCAAAACA
*
12549842 CAATTAAACAAGCTCAAAA
1 CAATAAAACAAGCTCAAAA
12549861 GATGTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.60, C:0.25, G:0.03, T:0.12
Consensus pattern (21 bp):
CAATAAAACAAGCTCAAAACA
Found at i:12551950 original size:7 final size:7
Alignment explanation
Indices: 12551938--12551977 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
12551928 TGGTAAAAAA
12551938 ATATATT
1 ATATATT
12551945 ATATATT
1 ATATATT
12551952 ATATATT
1 ATATATT
12551959 ATA-ATT
1 ATATATT
12551965 ATATATT
1 ATATATT
12551972 ATATAT
1 ATATAT
12551978 ACATGAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATATATT
Found at i:12563590 original size:2 final size:2
Alignment explanation
Indices: 12563576--12563614 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
12563566 ATAACACACT
* *
12563576 GA GA AA GA G- GA GA GA GG GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
12563615 AACCTGAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:12570492 original size:13 final size:14
Alignment explanation
Indices: 12570474--12570503 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
12570464 CGAGTATGCG
12570474 TCTTTTTCTTTT-T
1 TCTTTTTCTTTTGT
12570487 TCTTTTTCTTTTGT
1 TCTTTTTCTTTTGT
12570501 TCT
1 TCT
12570504 GAGGGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (14 bp):
TCTTTTTCTTTTGT
Found at i:12570890 original size:19 final size:17
Alignment explanation
Indices: 12570853--12570892 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
12570843 TACGCCTTGG
*
12570853 TTAAAAAAATTTTTTAT
1 TTAAAAAAATTTATTAT
12570870 TTAAAATAAATTATATTAT
1 TTAAAA-AAATT-TATTAT
12570889 TTAA
1 TTAA
12570893 GAGTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAAAATTTATTAT
Found at i:12573730 original size:195 final size:195
Alignment explanation
Indices: 12573393--12573781 Score: 688
Period size: 195 Copynumber: 2.0 Consensus size: 195
12573383 ATGACAATAT
*
12573393 GGATATTTTGGCCTTGTGACTTAATGAGACCATTGGATATAGTTGACATTTCATAGGATTGTGAG
1 GGATATTTTGGCCTTGTGACTTAATGAGACCATTGGATATAGTTGACATTTCATAAGATTGTGAG
* *
12573458 TTCTTATATATATGTGTTATGATATATGGGGCGATGAGGCCTAGGGACAGTTTTGGAGAGATAAG
66 TTCTCATATATATGTGTTATGATATATGAGGCGATGAGGCCTAGGGACAGTTTTGGAGAGATAAG
* * *
12573523 GGAATGTGAGCCAAGCTCCATTCACTGGGATATATATGTGTGGTGTGTTAGAGAGCATTAGCTAA
131 GGAATATGAGCCAAACTCCATTCACTGGGATATATATGTGCGGTGTGTTAGAGAGCATTAGCTAA
* *
12573588 GGATATTTTGGCCTTGTGACTTAATGAGACCATTGGATATAGTTGGCATTTCATAAGATTGTGGG
1 GGATATTTTGGCCTTGTGACTTAATGAGACCATTGGATATAGTTGACATTTCATAAGATTGTGAG
*
12573653 TTCTCATATATATGTGTTGTGATATATGAGGCGATGAGGCCTAGGGACAGTTTTGGAGAGATAAG
66 TTCTCATATATATGTGTTATGATATATGAGGCGATGAGGCCTAGGGACAGTTTTGGAGAGATAAG
*
12573718 GGAATATGAGCCAAACTCCATTCACTGGGATATATATGTGCGGTGTGTTGGAGAGCATTAGCTA
131 GGAATATGAGCCAAACTCCATTCACTGGGATATATATGTGCGGTGTGTTAGAGAGCATTAGCTA
12573782 TATGTTTCGC
Statistics
Matches: 184, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
195 184 1.00
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (195 bp):
GGATATTTTGGCCTTGTGACTTAATGAGACCATTGGATATAGTTGACATTTCATAAGATTGTGAG
TTCTCATATATATGTGTTATGATATATGAGGCGATGAGGCCTAGGGACAGTTTTGGAGAGATAAG
GGAATATGAGCCAAACTCCATTCACTGGGATATATATGTGCGGTGTGTTAGAGAGCATTAGCTAA
Found at i:12577423 original size:18 final size:17
Alignment explanation
Indices: 12577390--12577428 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
12577380 TTGTATAAAT
12577390 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
12577408 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
12577425 TGTG
1 TGTG
12577429 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:12577561 original size:71 final size:68
Alignment explanation
Indices: 12577433--12577562 Score: 233
Period size: 71 Copynumber: 1.9 Consensus size: 68
12577423 AATGTGGAAG
12577433 GAAAGTTGTTCATGAATTATTCAAGTGATGTGTTGAAAATAAAGTGTTAAGTGTAAATTGTTGAA
1 GAAAGTTGTTCATGAATTATTCAAGTGATGTGTTGAAAATAAAGTGTTAAGTGTAAATTGTTGAA
12577498 CAT
66 CAT
12577501 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATT
1 GAAAGTTGTTCATGAATTATTCAAGTGAT---GTGTTGAAAATAAAGTGTTAAGTGTAAATT
12577563 CCCGGTTGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
68 29 0.49
71 30 0.51
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (68 bp):
GAAAGTTGTTCATGAATTATTCAAGTGATGTGTTGAAAATAAAGTGTTAAGTGTAAATTGTTGAA
CAT
Found at i:12577749 original size:23 final size:23
Alignment explanation
Indices: 12577722--12577819 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
12577712 AGTGTTATTG
12577722 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
12577745 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
12577768 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12577790 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12577813 ATCAGTG
1 ATCAGTG
12577820 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:12577788 original size:45 final size:45
Alignment explanation
Indices: 12577724--12577812 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
12577714 TGTTATTGAT
* *
12577724 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
12577769 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
12577813 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:12582970 original size:18 final size:17
Alignment explanation
Indices: 12582937--12582975 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
12582927 TTGTATAAAT
12582937 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
12582955 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
12582972 TGTG
1 TGTG
12582976 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:12583275 original size:23 final size:23
Alignment explanation
Indices: 12583248--12583345 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
12583238 AGTGTTATTG
12583248 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
12583271 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
12583294 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12583316 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12583339 ATCAGTG
1 ATCAGTG
12583346 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:12583314 original size:45 final size:45
Alignment explanation
Indices: 12583250--12583338 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
12583240 TGTTATTGAT
* *
12583250 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
12583295 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
12583339 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:12588494 original size:18 final size:17
Alignment explanation
Indices: 12588461--12588499 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
12588451 TTGTATAAAT
12588461 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
12588479 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
12588496 TGTG
1 TGTG
12588500 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:12588593 original size:31 final size:32
Alignment explanation
Indices: 12588538--12588606 Score: 115
Period size: 31 Copynumber: 2.2 Consensus size: 32
12588528 GTGATAAAGT
12588538 GTTG-AAAATAAAGTGTTAAGTGTAAATTCCCG
1 GTTGAAAAATAAAGTG-TAAGTGTAAATTCCCG
12588570 GTTGAAAAATAAAGTG-AAGTGTAAATTCCCG
1 GTTGAAAAATAAAGTGTAAGTGTAAATTCCCG
12588601 GTTGAA
1 GTTGAA
12588607 CTTAGGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
31 21 0.58
32 4 0.11
33 11 0.31
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (32 bp):
GTTGAAAAATAAAGTGTAAGTGTAAATTCCCG
Found at i:12588783 original size:23 final size:23
Alignment explanation
Indices: 12588756--12588853 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
12588746 AGTGTTATTG
12588756 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
12588779 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
12588802 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12588824 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12588847 ATCAGTG
1 ATCAGTG
12588854 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:12588822 original size:45 final size:45
Alignment explanation
Indices: 12588758--12588846 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
12588748 TGTTATTGAT
* *
12588758 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
12588803 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
12588847 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:12593999 original size:17 final size:20
Alignment explanation
Indices: 12593967--12594021 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 20
12593957 GTATAAATTG
12593967 TGAATTATAT--ATGTGAAT
1 TGAATTATATGAATGTGAAT
12593985 T-AA-TAT-TGAATGTGAAT
1 TGAATTATATGAATGTGAAT
12594002 TGAATTATGATGAATGTGAA
1 TGAATTAT-ATGAATGTGAA
12594022 GGAAATTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 1 0.03
16 3 0.10
17 11 0.35
18 3 0.10
19 3 0.10
21 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (20 bp):
TGAATTATATGAATGTGAAT
Done.