Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 38 of 362
Found at i:11208938 original size:23 final size:23
Alignment explanation
Indices: 11208908--11208954 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
11208898 ACTGTTAAAG
11208908 TTAGTTTCCAACGATACCAAGAA
1 TTAGTTTCCAACGATACCAAGAA
11208931 TTAGTTTCCAACGATACCAAGAA
1 TTAGTTTCCAACGATACCAAGAA
11208954 T
1 T
11208955 GATTAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (23 bp):
TTAGTTTCCAACGATACCAAGAA
Found at i:11227467 original size:23 final size:23
Alignment explanation
Indices: 11227440--11227486 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
11227430 TAAGAAGACT
* *
11227440 ATAGGGACTTAGATTATAATTTA
1 ATAGGGACCTAGATCATAATTTA
11227463 ATAGGGACCTAGATCATAATTTA
1 ATAGGGACCTAGATCATAATTTA
11227486 A
1 A
11227487 CCTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (23 bp):
ATAGGGACCTAGATCATAATTTA
Found at i:11227530 original size:26 final size:26
Alignment explanation
Indices: 11227494--11227546 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11227484 TAACCTTTTA
11227494 TTTTTAATATAGTTTTAACAATCATT
1 TTTTTAATATAGTTTTAACAATCATT
11227520 TTTTTAATATAGTTTTAACAATCATT
1 TTTTTAATATAGTTTTAACAATCATT
11227546 T
1 T
11227547 GTATAATGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTTTAATATAGTTTTAACAATCATT
Found at i:11227553 original size:26 final size:26
Alignment explanation
Indices: 11227498--11227553 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
11227488 CTTTTATTTT
* *
11227498 TAATATAGTTTTAACAATCATTTTTT
1 TAATATAGTTTTAACAATCATTTGTA
11227524 TAATATAGTTTTAACAATCATTTGTA
1 TAATATAGTTTTAACAATCATTTGTA
11227550 TAAT
1 TAAT
11227554 GACGGAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (26 bp):
TAATATAGTTTTAACAATCATTTGTA
Found at i:11228921 original size:23 final size:23
Alignment explanation
Indices: 11228891--11228938 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11228881 GATGATAATG
11228891 TAATAAAAGAAAATTCATGTCTT
1 TAATAAAAGAAAATTCATGTCTT
11228914 TAATAAAAGAAAATTCATGTCTT
1 TAATAAAAGAAAATTCATGTCTT
11228937 TA
1 TA
11228939 GGTTCAGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (23 bp):
TAATAAAAGAAAATTCATGTCTT
Found at i:11233167 original size:18 final size:18
Alignment explanation
Indices: 11233144--11233204 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
11233134 TTTGTTTATT
11233144 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* * * *
11233162 GTTATTTAGTATCAAACA
1 GTTATTCAATAACAATCA
11233180 ---A-TCAATAACAATCA
1 GTTATTCAATAACAATCA
11233194 GTTATTCAATA
1 GTTATTCAATA
11233205 TCGAACAATC
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
17 1 0.03
18 20 0.65
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:11233233 original size:32 final size:32
Alignment explanation
Indices: 11233149--11233225 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
11233139 TTATTGTTAT
* *
11233149 TCAATAACAATCAGTTATTTAGTATCAAACAA
1 TCAATAACAATCAGTTATTCAATATCAAACAA
*
11233181 TCAATAACAATCAGTTATTCAATATCGAACAA
1 TCAATAACAATCAGTTATTCAATATCAAACAA
11233213 TCAATAACAATCA
1 TCAATAACAATCA
11233226 ATAATTCAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (32 bp):
TCAATAACAATCAGTTATTCAATATCAAACAA
Found at i:11233509 original size:44 final size:44
Alignment explanation
Indices: 11233409--11233509 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
11233399 CGGATTAAAC
11233409 CGAAGT-AATAGTAACAGTACAACACACATGATGCCTCATCGACT
1 CGAAGTCAA-AGTAACAGTACAACACACATGATGCCTCATCGACT
* * ** *
11233453 CGAAGTCGAAGTAACAGTACGACACTTAT-AGTGCCTCATTGACT
1 CGAAGTCAAAGTAACAGTACAACACACATGA-TGCCTCATCGACT
11233497 C-AAGGTCAAAGTA
1 CGAA-GTCAAAGTA
11233510 TCACTAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.06
44 44 0.92
45 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (44 bp):
CGAAGTCAAAGTAACAGTACAACACACATGATGCCTCATCGACT
Found at i:11234870 original size:10 final size:11
Alignment explanation
Indices: 11234848--11234872 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11234838 AAATATATAT
11234848 AATACTAAAAA
1 AATACTAAAAA
11234859 AATACTAAAAA
1 AATACTAAAAA
11234870 AAT
1 AAT
11234873 TAAAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (11 bp):
AATACTAAAAA
Found at i:11235948 original size:5 final size:5
Alignment explanation
Indices: 11235938--11235965 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11235928 TATATATATA
11235938 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
11235966 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:11238787 original size:40 final size:40
Alignment explanation
Indices: 11238720--11239006 Score: 373
Period size: 40 Copynumber: 7.2 Consensus size: 40
11238710 CCTTCGGAGT
** * *
11238720 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
11238759 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
11238799 TTAGCCCGG-TATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
11238838 TTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
11238878 TTAGCCCGGATAAAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
11238918 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGGC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
** * *
11238958 TTAGCCCGGA-ATTAGCCACTAGCACAAATGCTTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
11238998 TTAGCCCGG
1 TTAGCCCGG
11239007 TTATCATCCG
Statistics
Matches: 224, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 43 0.19
40 181 0.81
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:11245348 original size:5 final size:5
Alignment explanation
Indices: 11245338--11245365 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11245328 TATATATATA
11245338 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
11245366 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:11246051 original size:20 final size:20
Alignment explanation
Indices: 11246028--11246090 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
11246018 TTAATTTATT
*
11246028 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATAATAA
*
11246048 TTTAATAA-AATAAATTATAA
1 TTTAATAATAAT-AATAATAA
*
11246068 TTTGATAGAATAATAATAATAA
1 TTT-A-ATAATAATAATAATAA
11246090 T
1 T
11246091 GATAAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.08
20 18 0.50
21 1 0.03
22 11 0.31
23 3 0.08
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (20 bp):
TTTAATAATAATAATAATAA
Found at i:11250745 original size:25 final size:25
Alignment explanation
Indices: 11250672--11250746 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 25
11250662 TTAAATAATC
*
11250672 GTGGATGGTTCCGTGCGAAA-GTACA
1 GTGGATGGTTCTGTG-GAAAGGTACA
* * * * **
11250697 ATGGATGGTATTTGTGGGAGGGTATT
1 GTGGATGGT-TCTGTGGAAAGGTACA
11250723 GTGGATGGTTCTGTGGAAAGGTAC
1 GTGGATGGTTCTGTGGAAAGGTAC
11250747 CGTAGGAGTG
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
25 21 0.58
26 15 0.42
ACGTcount: A:0.21, C:0.08, G:0.40, T:0.31
Consensus pattern (25 bp):
GTGGATGGTTCTGTGGAAAGGTACA
Found at i:11252178 original size:36 final size:36
Alignment explanation
Indices: 11252093--11252181 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 36
11252083 AAAATCGTTC
* *
11252093 ATTGATGATATAAAATGGAAGAAGTGTAGACTATCT
1 ATTGATGATATAAAATGGAAGAAGTATAAACTATCT
* * * * *
11252129 GTTAACGAGATAAAATGGAAGAAGTATAAACTATTT
1 ATTGATGATATAAAATGGAAGAAGTATAAACTATCT
*
11252165 ATTGGTGATATAAAATG
1 ATTGATGATATAAAATG
11252182 TAAGCAATTC
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.30
Consensus pattern (36 bp):
ATTGATGATATAAAATGGAAGAAGTATAAACTATCT
Found at i:11254320 original size:50 final size:50
Alignment explanation
Indices: 11254196--11254444 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
11254186 GATAATAACA
* * ** * *
11254196 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11254247 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11254297 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11254347 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
11254402 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
11254445 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11254374 original size:100 final size:104
Alignment explanation
Indices: 11254195--11254444 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
11254185 TGATAATAAC
**
11254195 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11254260 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11254297 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11254360 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
11254402 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11254445 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:11254560 original size:13 final size:13
Alignment explanation
Indices: 11254539--11254570 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11254529 GCTTGGATCA
*
11254539 TCATCAAATAAAT
1 TCATAAAATAAAT
11254552 TCATAAAATAAAT
1 TCATAAAATAAAT
11254565 TCATAA
1 TCATAA
11254571 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11254817 original size:30 final size:30
Alignment explanation
Indices: 11254782--11254839 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
11254772 CCTCGACTCT
*
11254782 AACTTTTTCAAAATTACAATTTTT-CCCCTA
1 AACTTTTACAAAATTAC-ATTTTTGCCCCTA
*
11254812 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATTTTTGCCCC
11254840 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGCCCCTA
Found at i:11261959 original size:50 final size:51
Alignment explanation
Indices: 11261787--11262037 Score: 292
Period size: 50 Copynumber: 4.8 Consensus size: 51
11261777 GATAATAACA
* ** *
11261787 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTC-GTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAGT-CTCGG
* * * *
11261838 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA-GTCTCGG
*
11261890 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-GTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAGTCTCGG
* * *
11261940 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA-G-TC-T-CGG
*
11261995 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11262038 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
50 50 0.29
51 34 0.20
52 43 0.25
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAGTCTCGG
Found at i:11261967 original size:102 final size:106
Alignment explanation
Indices: 11261786--11262037 Score: 370
Period size: 102 Copynumber: 2.4 Consensus size: 106
11261776 TGATAATAAC
**
11261786 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* * *
11261851 TCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
* *
11261890 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11261953 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
* *
11261995 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11262038 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
101 1 0.01
102 52 0.39
103 38 0.28
104 1 0.01
105 2 0.01
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (106 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
Found at i:11262154 original size:13 final size:13
Alignment explanation
Indices: 11262133--11262164 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11262123 GCTTGGATCA
*
11262133 TCATCAAATAAAT
1 TCATAAAATAAAT
11262146 TCATAAAATAAAT
1 TCATAAAATAAAT
11262159 TCATAA
1 TCATAA
11262165 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11262413 original size:30 final size:30
Alignment explanation
Indices: 11262378--11262435 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
11262368 CCTCGACTCT
*
11262378 AACTTTTTCAAAATTACAATTTTT-CCCCTA
1 AACTTTTACAAAATTAC-ATTTTTGCCCCTA
*
11262408 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATTTTTGCCCC
11262436 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGCCCCTA
Found at i:11263694 original size:80 final size:78
Alignment explanation
Indices: 11263577--11263807 Score: 277
Period size: 80 Copynumber: 2.9 Consensus size: 78
11263567 CTATGGGAAC
* *
11263577 CCTTCACGAGCTCTCTTTGCCTCACAATATTCATTATACGGATATACAAACATGTAAAGGGGCAT
1 CCTTCAC-AGCTCTCTTTGTCTCACAATATTCATTATACGGATATACAAACATGTAAA-GGGTAT
*
11263642 AACCAGTCGC-GGAA-AT
64 AACCA--C-CAGCAAGAT
* * *
11263658 CCTTCACAGCTCTCTTTGTCTCACAATATTCGTTATACGAATATACAAACATGTAAAAAGGTATA
1 CCTTCACAGCTCTCTTTGTCTCACAATATTCATTATACGGATATACAAACATGT-AAAGGGTATA
11263723 ACCACCAGCAAGGAT
65 ACCACCAGCAA-GAT
* * * * *
11263738 CCTTCATAGGATCCCTTTGTCTCACAATATTCATTATATGGATATACAAACATGCAAAGGGTATA
1 CCTTCACA-GCTCTCTTTGTCTCACAATATTCATTATACGGATATACAAACATGTAAAGGGTATA
11263803 ACCAC
65 ACCAC
11263808 TCACGGGAAC
Statistics
Matches: 131, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 4 0.03
80 76 0.58
81 50 0.38
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (78 bp):
CCTTCACAGCTCTCTTTGTCTCACAATATTCATTATACGGATATACAAACATGTAAAGGGTATAA
CCACCAGCAAGAT
Found at i:11265938 original size:16 final size:16
Alignment explanation
Indices: 11265917--11265948 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11265907 TTTCGAACCT
11265917 TGATTTATTTTATTTA
1 TGATTTATTTTATTTA
11265933 TGATTTATTTTATTTA
1 TGATTTATTTTATTTA
11265949 CGTCCTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TGATTTATTTTATTTA
Found at i:11266931 original size:2 final size:2
Alignment explanation
Indices: 11266924--11266949 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11266914 AGATATAATG
11266924 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
11266950 CCCGTTGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:11269776 original size:17 final size:17
Alignment explanation
Indices: 11269754--11269788 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11269744 ATAATAAGGT
11269754 TAAATTTTACTATTAGA
1 TAAATTTTACTATTAGA
11269771 TAAATTTTACTATTAGA
1 TAAATTTTACTATTAGA
11269788 T
1 T
11269789 TCTGTACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (17 bp):
TAAATTTTACTATTAGA
Found at i:11271544 original size:16 final size:16
Alignment explanation
Indices: 11271523--11271553 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11271513 CCAAAGTTAT
11271523 TAAACCTTTGCTAACG
1 TAAACCTTTGCTAACG
11271539 TAAACCTTTGCTAAC
1 TAAACCTTTGCTAAC
11271554 ACAATGAAAA
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:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (16 bp):
TAAACCTTTGCTAACG
Found at i:11272961 original size:2 final size:2
Alignment explanation
Indices: 11272954--11272984 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11272944 GGTCTTATAA
11272954 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11272985 AGAAGAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11272990 original size:3 final size:3
Alignment explanation
Indices: 11272982--11273006 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11272972 AGAGAGAGAG
11272982 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
11273007 ATCCAAGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11283804 original size:28 final size:28
Alignment explanation
Indices: 11283747--11283808 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
11283737 TTGATCTTAT
* *
11283747 TTGATTCTTTAATAGTACAGATACTAAA
1 TTGATTCTTTAATAGTAAAGAGACTAAA
*
11283775 TTGATTCATTTAATAGTAGAAG-GACTAAT
1 TTGATTC-TTTAATAGTA-AAGAGACTAAA
11283804 TTGAT
1 TTGAT
11283809 AAAATCCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 7 0.24
29 20 0.69
30 2 0.07
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (28 bp):
TTGATTCTTTAATAGTAAAGAGACTAAA
Found at i:11285630 original size:18 final size:18
Alignment explanation
Indices: 11285602--11285648 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
11285592 AGATTCTTAA
*
11285602 AAGATTTACAATATTCTCT
1 AAGA-TTACAATATCCTCT
*
11285621 AAGATTACAATATCCTTT
1 AAGATTACAATATCCTCT
11285639 AAGATTACAA
1 AAGATTACAA
11285649 AATATTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (18 bp):
AAGATTACAATATCCTCT
Found at i:11287233 original size:29 final size:30
Alignment explanation
Indices: 11287177--11287246 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
11287167 ATCCCAAAAT
11287177 TATACATGAACTATGATTTAATATGCAATTG
1 TATACATGAACTATGATTT-ATATGCAATTG
* *
11287208 TATACATGAACGT-TGATTT-TGTGCAATTT
1 TATACATGAAC-TATGATTTATATGCAATTG
*
11287237 TATATATGAA
1 TATACATGAA
11287247 ATTTTGATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 17 0.49
31 17 0.49
32 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (30 bp):
TATACATGAACTATGATTTATATGCAATTG
Found at i:11287435 original size:31 final size:30
Alignment explanation
Indices: 11287390--11287483 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 30
11287380 AATGTGTATG
*
11287390 ATTAAATCAAAATTAAAGTTTCAAGTATACA
1 ATTAAA-CCAAATTAAAGTTTCAAGTATACA
* * * ** *
11287421 TTTGAACCACAATTAAAGTGTCCCGTATATA
1 ATTAAACCA-AATTAAAGTTTCAAGTATACA
*
11287452 ATTAAACCAAATTAAAG-TTCATGTATACA
1 ATTAAACCAAATTAAAGTTTCAAGTATACA
11287481 ATT
1 ATT
11287484 GCACATTAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
29 11 0.22
30 10 0.20
31 28 0.57
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (30 bp):
ATTAAACCAAATTAAAGTTTCAAGTATACA
Found at i:11289569 original size:17 final size:17
Alignment explanation
Indices: 11289518--11289582 Score: 85
Period size: 17 Copynumber: 3.6 Consensus size: 17
11289508 CAAGATAAAC
*
11289518 ATTAAATTAAATTTAAT
1 ATTAAATTAATTTTAAT
*
11289535 ATTAAGATAGTCATTTTAAT
1 ATTAA-AT--TAATTTTAAT
11289555 ATTAAATTAATTTTAAT
1 ATTAAATTAATTTTAAT
11289572 ATTAAATTAAT
1 ATTAAATTAAT
11289583 AAAATACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 25 0.60
18 2 0.05
19 2 0.05
20 13 0.31
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (17 bp):
ATTAAATTAATTTTAAT
Found at i:11292118 original size:42 final size:43
Alignment explanation
Indices: 11292058--11292141 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
11292048 TATAAGTCCA
* *
11292058 TGTCTGGGACATAAGCATCG-TATCTG-ATTTCGTGTAAGACCC
1 TGTCTGGGACATAAGCATCGATAT-TGAATTACATGTAAGACCC
11292100 TGTCTGGGACA-AAGGCATCGATATTGAATTACATGTAAGACC
1 TGTCTGGGACATAA-GCATCGATATTGAATTACATGTAAGACC
11292142 ACGTCCGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 2 0.05
42 19 0.51
43 16 0.43
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTCTGGGACATAAGCATCGATATTGAATTACATGTAAGACCC
Found at i:11295526 original size:19 final size:18
Alignment explanation
Indices: 11295489--11295526 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11295479 TAATTTACTG
*
11295489 TAAGGTAGTCAATTATCA
1 TAAGGTAGTCAAATATCA
11295507 TAAGGTAGTCAACATATCA
1 TAAGGTAGTCAA-ATATCA
11295526 T
1 T
11295527 TCAAGTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (18 bp):
TAAGGTAGTCAAATATCA
Found at i:11318765 original size:33 final size:33
Alignment explanation
Indices: 11318723--11318788 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
11318713 TTTTTGCATG
11318723 GAGAACTTGAGGAGGATATTTACATGCAACAAC
1 GAGAACTTGAGGAGGATATTTACATGCAACAAC
*
11318756 GAGAACTTGATGAGGATATTTACATGCAACAAC
1 GAGAACTTGAGGAGGATATTTACATGCAACAAC
11318789 CAGAGGGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (33 bp):
GAGAACTTGAGGAGGATATTTACATGCAACAAC
Found at i:11320492 original size:14 final size:15
Alignment explanation
Indices: 11320468--11320499 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11320458 TACATATCTT
11320468 TTTATTTTTTTATTA
1 TTTATTTTTTTATTA
11320483 TTTATTTTTTT-TTA
1 TTTATTTTTTTATTA
11320497 TTT
1 TTT
11320500 TCGCTCAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTATTTTTTTATTA
Found at i:11328833 original size:50 final size:51
Alignment explanation
Indices: 11328756--11328884 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
11328746 GACCATGGCA
*
11328756 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAA-TG
*
11328807 A-AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
* * *
11328857 ACAAGTGAAAAGTGGTAGCTTCAACTAC
1 ACAAGTGATAAGTGATAGCTTCAGCTAC
11328885 CTAATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
Found at i:11328898 original size:31 final size:31
Alignment explanation
Indices: 11328860--11329039 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
11328850 ACAAATGACA
* *
11328860 AGTGAAAAGTGGTAGCTTCAACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
11328891 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
11328922 AGTGAAAAGTGGTAG-TTCAGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCA-GCTACCTGATC
* *
11328953 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
11328984 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
11329015 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
11329040 AAGTGACAAG
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
30 3 0.02
31 132 0.96
32 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:11329101 original size:30 final size:30
Alignment explanation
Indices: 11329065--11329123 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
11329055 AGTGATTTCC
*
11329065 GTATAAGACCATATTTGGGATATGGCATCT
1 GTATAAGACCATATCTGGGATATGGCATCT
11329095 GTATAAGACCATATCTGGGATATGGCATC
1 GTATAAGACCATATCTGGGATATGGCATC
11329124 AGTGAGATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (30 bp):
GTATAAGACCATATCTGGGATATGGCATCT
Found at i:11329150 original size:46 final size:43
Alignment explanation
Indices: 11329098--11329257 Score: 137
Period size: 42 Copynumber: 3.7 Consensus size: 43
11329088 GGCATCTGTA
* * * *
11329098 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTTGTG
1 TAAGACCATAGCTGGGCTATGGCATCA--GAGATATG-AATATGTG
* *
11329144 TAAGACCATAGCTAGGCTATGGCATC-GATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
* ** * * *
11329186 TAACACCATAGCTGGGCTATGGCATCA-TTATGTGAAGATGTA
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
* **
11329228 TAAGACCATAGTTGAACTATGGCATC-GAGA
1 TAAGACCATAGCTGGGCTATGGCATCAGAGA
11329258 AAACGAAGTA
Statistics
Matches: 94, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 64 0.68
43 7 0.07
46 23 0.24
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
Found at i:11329204 original size:42 final size:43
Alignment explanation
Indices: 11329140--11329255 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
11329130 ATATGTGATT
* *
11329140 TGTGTAAGACCATAGCTAGGCTATGGCATCGA-TATATGAATA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
* *
11329182 TGTGTAACACCATAGCTGGGCTATGGCATC-ATTATGTGAAGA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
* * **
11329224 TGTATAAGACCATAGTTGAACTATGGCATCGA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGA
11329256 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (43 bp):
TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
Found at i:11331452 original size:30 final size:30
Alignment explanation
Indices: 11331377--11331452 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
11331367 ATGTTGATGA
* *
11331377 TATTTTATAATTATTTAATTAGAAAATTAT
1 TATTTTATTATTATTTAATAAGAAAATTAT
* * *
11331407 TATTTTATTAATATTTAATAAGATATTTAT
1 TATTTTATTATTATTTAATAAGAAAATTAT
11331437 TATTATT-TTATTATTT
1 TATT-TTATTATTATTT
11331453 TATTTAGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 37 0.95
31 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
TATTTTATTATTATTTAATAAGAAAATTAT
Found at i:11340349 original size:22 final size:24
Alignment explanation
Indices: 11340304--11340349 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
11340294 TAAAATTTTA
* *
11340304 TTAAGTTCTATAAAAATATGTAAT
1 TTAAGTTCTATAAAAAAATCTAAT
11340328 TTAA-TTC-ATAAAAAAATCTAAT
1 TTAAGTTCTATAAAAAAATCTAAT
11340350 AGTTAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 3 0.15
24 4 0.20
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
TTAAGTTCTATAAAAAAATCTAAT
Found at i:11346025 original size:5 final size:5
Alignment explanation
Indices: 11346017--11346054 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
11346007 CTATGTGAAA
*
11346017 AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
11346055 CACAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:11346063 original size:16 final size:16
Alignment explanation
Indices: 11346017--11346054 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
11346007 CTATGTGAAA
*
11346017 AAAATAAA-ATAAAAT
1 AAAATAAAGAAAAAAT
11346032 AAAATAAAGAAAAAAT
1 AAAATAAAGAAAAAAT
11346048 AAAATAA
1 AAAATAA
11346055 CACAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAATAAAGAAAAAAT
Found at i:11350481 original size:5 final size:5
Alignment explanation
Indices: 11350471--11350495 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11350461 CCAATTTGTG
11350471 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
11350496 CACACAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:11353648 original size:46 final size:46
Alignment explanation
Indices: 11353592--11353767 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
11353582 TGGTTGAGCA
*
11353592 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
11353638 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
11353685 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
11353731 CCCGAGA-TCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11353768 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 30 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:11353748 original size:93 final size:93
Alignment explanation
Indices: 11353589--11353760 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
11353579 GGATGGTTGA
* * *
11353589 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
11353654 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
11353682 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGA-TCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGA-ACTCGTTGAG
11353746 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
11353761 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11356449 original size:23 final size:23
Alignment explanation
Indices: 11356423--11356521 Score: 126
Period size: 23 Copynumber: 4.3 Consensus size: 23
11356413 CAGGGGTATT
*
11356423 ACAGAATATGCCACAAGGGCATC
1 ACAGAATATGCCACAAAGGCATC
* *
11356446 ACAGAATATGTCACAAAAGCATC
1 ACAGAATATGCCACAAAGGCATC
*
11356469 ACAGAATATGCCACAAAGGCTTC
1 ACAGAATATGCCACAAAGGCATC
* * **
11356492 ACAAAATATGCTACAAAGGTTTC
1 ACAGAATATGCCACAAAGGCATC
11356515 ACAGAAT
1 ACAGAAT
11356522 TCCATGTTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 66 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.18
Consensus pattern (23 bp):
ACAGAATATGCCACAAAGGCATC
Found at i:11359589 original size:44 final size:43
Alignment explanation
Indices: 11359495--11359600 Score: 103
Period size: 42 Copynumber: 2.5 Consensus size: 43
11359485 ACATGTGGAT
* *
11359495 TAATTAAATACA-TATATTAGTAATTATTATTTACTTATAATA
1 TAATTAAATAAATTATATTAGTAATTATTATTTACTTATAACA
* *
11359537 TAAGTAAATATATTATATTA-T-ATTATTATTATTA-TTATAAACA
1 TAATTAAATAAATTATATTAGTAATTATTA-T-TTACTTAT-AACA
*
11359580 TAAATTAAATAAATTAAATTA
1 T-AATTAAATAAATTATATTA
11359601 ATACAATTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
41 7 0.13
42 16 0.30
43 14 0.26
44 16 0.30
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TAATTAAATAAATTATATTAGTAATTATTATTTACTTATAACA
Found at i:11364484 original size:21 final size:21
Alignment explanation
Indices: 11364459--11364498 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11364449 TCACGTCGCG
*
11364459 ACGTCGGGTACATGTCGTCAA
1 ACGTCAGGTACATGTCGTCAA
11364480 ACGTCAGGTACATGTCGTC
1 ACGTCAGGTACATGTCGTC
11364499 GTGATAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (21 bp):
ACGTCAGGTACATGTCGTCAA
Found at i:11366654 original size:27 final size:27
Alignment explanation
Indices: 11366624--11366801 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
11366614 ATATTGAGTC
* * * *
11366624 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
11366651 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
11366678 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
11366706 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
11366733 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
11366760 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
11366787 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11366802 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:11366763 original size:82 final size:81
Alignment explanation
Indices: 11366645--11366800 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
11366635 TGCTATATAA
* *
11366645 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
11366710 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11366727 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
11366791 CACTTAGTGC
65 CACTTAGTGC
11366801 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11374778 original size:27 final size:27
Alignment explanation
Indices: 11374748--11374925 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
11374738 ATATTGAGTC
* * * *
11374748 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
11374775 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
11374802 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
11374830 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
11374857 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
11374884 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
11374911 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11374926 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:11374887 original size:82 final size:81
Alignment explanation
Indices: 11374769--11374924 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
11374759 TGCTATATAA
* *
11374769 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
11374834 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11374851 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
11374915 CACTTAGTGC
65 CACTTAGTGC
11374925 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11396640 original size:11 final size:10
Alignment explanation
Indices: 11396624--11396671 Score: 55
Period size: 9 Copynumber: 4.8 Consensus size: 10
11396614 CGTCGTTCAC
11396624 CTTTCTTCTTT
1 CTTTCTT-TTT
11396635 CTTTCTATTTT
1 CTTTCT-TTTT
11396646 CTTTC-TTTT
1 CTTTCTTTTT
*
11396655 CTTTCTTCTT
1 CTTTCTTTTT
11396665 -TTTCTTT
1 CTTTCTTT
11396672 CAATTTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 15 0.45
10 3 0.09
11 14 0.42
12 1 0.03
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:11396652 original size:22 final size:21
Alignment explanation
Indices: 11396624--11396672 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
11396614 CGTCGTTCAC
11396624 CTTTC-TTCTTTCTTTCTATTTT
1 CTTTCTTTCTTTC-TTCT-TTTT
11396646 CTTTCTTTTCTTTCTTCTTTTT
1 CTTTC-TTTCTTTCTTCTTTTT
11396668 CTTTC
1 CTTTC
11396673 AATTTGCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 14 0.56
23 4 0.16
24 7 0.28
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (21 bp):
CTTTCTTTCTTTCTTCTTTTT
Found at i:11398580 original size:5 final size:5
Alignment explanation
Indices: 11398570--11398729 Score: 320
Period size: 5 Copynumber: 32.0 Consensus size: 5
11398560 CGAATATTTA
11398570 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
11398620 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
11398670 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
11398720 AATAT AATAT
1 AATAT AATAT
11398730 CATAACTTAA
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 155 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:11398878 original size:16 final size:16
Alignment explanation
Indices: 11398844--11398896 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
11398834 ATGACATCAG
11398844 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
11398860 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
11398876 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
11398892 TCATG
1 TCATG
11398897 AGTATATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:11400845 original size:28 final size:29
Alignment explanation
Indices: 11400808--11400883 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 29
11400798 AATCATATTC
* * *
11400808 ATATGACCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAAACACATGT
*
11400837 AT-TGGCCCATTAGGCCCAAAACACATTT
1 ATATGGCCCATTAGGCCCAAAACACATGT
* *
11400865 ATATGGCTCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
11400884 GTCACATTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 24 0.60
29 16 0.40
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAAACACATGT
Found at i:11400869 original size:57 final size:57
Alignment explanation
Indices: 11400774--11400883 Score: 132
Period size: 57 Copynumber: 1.9 Consensus size: 57
11400764 AATTTCACAT
* * *
11400774 ACCTGTATCTGGCCCATTAAGCCTAATCATATTCATATGACCCATTAGGCCCAAATC
1 ACCTGTATCTGGCCCATTAAGCCAAAACACATTCATATGACCCATTAGGCCCAAATC
* * * * *
11400831 ACCTGTAT-TGGCCCATTAGGCCCAAAACACATTTATATGGCTCGTTAGGCCCA
1 ACCTGTATCTGGCCCATTAAG-CCAAAACACATTCATATGACCCATTAGGCCCA
11400884 GTCACATTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
56 11 0.25
57 33 0.75
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (57 bp):
ACCTGTATCTGGCCCATTAAGCCAAAACACATTCATATGACCCATTAGGCCCAAATC
Found at i:11401132 original size:16 final size:16
Alignment explanation
Indices: 11401111--11401169 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
11401101 CCAAACTTTT
11401111 GACTTTTCGGCATTTC
1 GACTTTTCGGCATTTC
* *
11401127 GACTTTTCAGCTTTTC
1 GACTTTTCGGCATTTC
11401143 GA-TATTTCGGCATTTC
1 GACT-TTTCGGCATTTC
* *
11401159 GGCATTTCGGC
1 GACTTTTCGGC
11401170 TTTTGCCGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 1 0.03
16 34 0.97
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (16 bp):
GACTTTTCGGCATTTC
Found at i:11401149 original size:24 final size:23
Alignment explanation
Indices: 11401105--11401151 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
11401095 CCGTAGCCAA
* *
11401105 ACTTTTGACTTTTCGGCATTTCG
1 ACTTTTCACTTTTCGACATTTCG
*
11401128 ACTTTTCAGCTTTTCGATATTTCG
1 ACTTTTCA-CTTTTCGACATTTCG
11401152 GCATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (23 bp):
ACTTTTCACTTTTCGACATTTCG
Found at i:11401157 original size:8 final size:8
Alignment explanation
Indices: 11401115--11401169 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
11401105 ACTTTTGACT
11401115 TTTCGGCA
1 TTTCGGCA
* *
11401123 TTTCGACT
1 TTTCGGCA
* *
11401131 TTTCAGCT
1 TTTCGGCA
**
11401139 TTTCGATA
1 TTTCGGCA
11401147 TTTCGGCA
1 TTTCGGCA
11401155 TTTCGGCA
1 TTTCGGCA
11401163 TTTCGGC
1 TTTCGGC
11401170 TTTTGCCGAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.44
Consensus pattern (8 bp):
TTTCGGCA
Found at i:11402473 original size:16 final size:16
Alignment explanation
Indices: 11402448--11402479 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11402438 AAGTTTGAGA
*
11402448 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
11402464 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
11402480 GCATTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:11402989 original size:20 final size:21
Alignment explanation
Indices: 11402955--11403008 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
11402945 TGATGATATT
*
11402955 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
11402976 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
11402996 TTTTATTATTTTA
1 TTATATTATTTTA
11403009 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:11403014 original size:11 final size:11
Alignment explanation
Indices: 11402998--11403025 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11402988 ATGAGATATT
11402998 TTATTATTTTA
1 TTATTATTTTA
11403009 TTATTATTTTA
1 TTATTATTTTA
11403020 TTATTA
1 TTATTA
11403026 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:11405205 original size:23 final size:23
Alignment explanation
Indices: 11405171--11405323 Score: 130
Period size: 23 Copynumber: 6.5 Consensus size: 23
11405161 CCTGATATAT
* *
11405171 GGCTCTTCGTGAGCTTCCTGATA
1 GGCTCTTTGTGAGCTTCCCGATA
11405194 GGCTCTTTGTGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
*
11405217 GGCTCTTTGTGAGCTTCTCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
** *
11405240 GTGCTCGCT-TGAACTTCCCGATATA
1 G-GCTCTTTGTGAGCTTCCCG--ATA
* * * *
11405265 TGGCTATTCG-AAGCTTCCTGATA
1 -GGCTCTTTGTGAGCTTCCCGATA
* *
11405288 GGTTCTTCGTGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
*
11405311 TGGTTCTTTGTGA
1 -GGCTCTTTGTGA
11405324 ACTACCTAAT
Statistics
Matches: 104, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
22 7 0.07
23 67 0.64
24 16 0.15
25 13 0.12
26 1 0.01
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.37
Consensus pattern (23 bp):
GGCTCTTTGTGAGCTTCCCGATA
Found at i:11405223 original size:46 final size:47
Alignment explanation
Indices: 11405167--11405323 Score: 160
Period size: 46 Copynumber: 3.3 Consensus size: 47
11405157 GCGTCCTGAT
11405167 ATATGGCTCTTCGTGAGCTTCCTGATAGGCTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTCGTGAGCTTCCTGATAGGCTCTTTGTGAGCTTCCCG
* ** *
11405214 ATA-GGCTCTTTGTGAGCTT-CTCGATAGTGCTCGCT-TGAACTTCCCG
1 ATATGGCTCTTCGTGAGCTTCCT-GATAG-GCTCTTTGTGAGCTTCCCG
* * * *
11405260 ATATATGGCTATTCG-AAGCTTCCTGATAGGTTCTTCGTGAGCTTCCCG
1 --ATATGGCTCTTCGTGAGCTTCCTGATAGGCTCTTTGTGAGCTTCCCG
* *
11405308 ATATGGTTCTTTGTGA
1 ATATGGCTCTTCGTGA
11405324 ACTACCTAAT
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
45 2 0.02
46 40 0.47
47 12 0.14
48 23 0.27
49 9 0.10
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (47 bp):
ATATGGCTCTTCGTGAGCTTCCTGATAGGCTCTTTGTGAGCTTCCCG
Found at i:11406784 original size:28 final size:30
Alignment explanation
Indices: 11406729--11406784 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
11406719 TCCCTAAATT
*
11406729 TCAAAATTCTCACAATTTAGTCCCTAATAC
1 TCAAAATTCTCACAATTTAGTCCATAATAC
*
11406759 TCAAAATT-T-ACAATTTATTCCATAAT
1 TCAAAATTCTCACAATTTAGTCCATAAT
11406785 TCAATACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.62
29 1 0.04
30 8 0.33
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (30 bp):
TCAAAATTCTCACAATTTAGTCCATAATAC
Found at i:11407029 original size:17 final size:18
Alignment explanation
Indices: 11406997--11407031 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
11406987 TGAACCCTAA
11406997 CTTTTTCTCCTTTCTTTCC
1 CTTTTTCT-CTTTCTTTCC
11407016 CTTTTTCT-TTTCTTTC
1 CTTTTTCTCTTTCTTTC
11407032 ATTTTGCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCC
Found at i:11407115 original size:22 final size:21
Alignment explanation
Indices: 11407069--11407115 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
11407059 TTTGTTTCTT
*
11407069 TTATTTCATTTCTTTTATTTA
1 TTATTTCATTTCTTGTATTTA
11407090 TTATTTCATTTACTTAGTA-TTA
1 TTATTTCATTT-CTT-GTATTTA
11407112 TTAT
1 TTAT
11407116 AATAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 10 0.43
23 2 0.09
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (21 bp):
TTATTTCATTTCTTGTATTTA
Found at i:11407186 original size:19 final size:20
Alignment explanation
Indices: 11407164--11407206 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11407154 ATATTAAGTA
11407164 ATACATATAT-TATTATTTT
1 ATACATATATATATTATTTT
* *
11407183 ATACTTATGTATATTATTTT
1 ATACATATATATATTATTTT
11407203 -TACA
1 ATACA
11407207 GTTGTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (20 bp):
ATACATATATATATTATTTT
Found at i:11413191 original size:17 final size:17
Alignment explanation
Indices: 11413169--11413208 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
11413159 TTGCGGGTTA
*
11413169 AAGACTCAGACGTGCCG
1 AAGACTCAGACGAGCCG
11413186 AAGACTCAGACGAGCCG
1 AAGACTCAGACGAGCCG
11413203 AAGACT
1 AAGACT
11413209 ACTTTTCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.28, G:0.28, T:0.10
Consensus pattern (17 bp):
AAGACTCAGACGAGCCG
Found at i:11434050 original size:5 final size:5
Alignment explanation
Indices: 11434037--11434279 Score: 369
Period size: 5 Copynumber: 48.2 Consensus size: 5
11434027 AATATTTAAA
* * *
11434037 ATAAT ATAAC ATAAT ATAAT ATAAT ATAGT ATGAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * *
11434087 ATAATAT ATAAT ATAAT ATAGT ATGAT ATAAT ATAAT ATAAT ATAAT ATGAT
1 AT-A-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * **
11434139 ATAAT ATAAT ATGAT ATAAT ATGAT ATAAT ATAAT ATGAT ACGAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
11434189 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
11434239 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
11434280 GGCACAATTA
Statistics
Matches: 216, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
5 210 0.97
6 2 0.01
7 4 0.02
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:11434491 original size:32 final size:32
Alignment explanation
Indices: 11434436--11434509 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
11434426 CAGTCATGCA
* * *
11434436 ATACTCAATTTATGAATATATCATTTCATACC
1 ATACTTAATTTATAAATACATCATTTCATACC
*
11434468 ATATTTAATTTATAAATACATCATTTCATACC
1 ATACTTAATTTATAAATACATCATTTCATACC
11434500 ATACTTAATT
1 ATACTTAATT
11434510 CATGAGTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.01, T:0.43
Consensus pattern (32 bp):
ATACTTAATTTATAAATACATCATTTCATACC
Found at i:11434718 original size:40 final size:40
Alignment explanation
Indices: 11434674--11434808 Score: 98
Period size: 40 Copynumber: 3.4 Consensus size: 40
11434664 ATGCACCAGG
11434674 CACCCAGTGCCTCATCGGATAATTTGAAATAATAATTTGA
1 CACCCAGTGCCTCATCGGATAATTTGAAATAATAATTTGA
* * * ** * *
11434714 CACCCAGAGTCTCATCGGCTAAACTGAAGT-A-AA-TTGG
1 CACCCAGTGCCTCATCGGATAATTTGAAATAATAATTTGA
* * * * *
11434751 TACCCAATACCACATCGAATTAATTTGAAATAAT-ATATTGA
1 CACCCAGTGCCTCATCGGA-TAATTTGAAATAATAAT-TTGA
* *
11434792 CACCCCGTGCCTTATCG
1 CACCCAGTGCCTCATCG
11434809 ACTTGTAGTC
Statistics
Matches: 65, Mismatches: 25, Indels: 9
0.66 0.25 0.09
Matches are distributed among these distances:
37 14 0.22
38 10 0.15
39 3 0.05
40 24 0.37
41 14 0.22
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATTTGAAATAATAATTTGA
Found at i:11435717 original size:21 final size:22
Alignment explanation
Indices: 11435691--11435737 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
11435681 TTTGTTTCTT
11435691 TTATTTCATTT-CTT-TTATTTA
1 TTATTTCATTTACTTATTA-TTA
11435712 TTATTTCATTTACTTATTATTA
1 TTATTTCATTTACTTATTATTA
11435734 TTAT
1 TTAT
11435738 AATAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 11 0.46
22 10 0.42
23 3 0.12
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTTCATTTACTTATTATTA
Found at i:11435723 original size:16 final size:16
Alignment explanation
Indices: 11435698--11435732 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11435688 CTTTTATTTC
* *
11435698 ATTTCTTTTATTTATT
1 ATTTCATTTACTTATT
11435714 ATTTCATTTACTTATT
1 ATTTCATTTACTTATT
11435730 ATT
1 ATT
11435733 ATTATAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTCATTTACTTATT
Found at i:11438943 original size:30 final size:30
Alignment explanation
Indices: 11438886--11438943 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11438876 CACGGCCATG
* *
11438886 ACACGCGGGCGTGTGGACTGCCAGTGTGTC
1 ACACACGGGCGTGTGGACTACCAGTGTGTC
* *
11438916 ACACACGGGCGTGTGGATTACCTGTGTG
1 ACACACGGGCGTGTGGACTACCAGTGTG
11438944 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.24, G:0.38, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTGGACTACCAGTGTGTC
Found at i:11442703 original size:27 final size:26
Alignment explanation
Indices: 11442626--11442704 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 26
11442616 AGCAGAAGTA
11442626 GGAAAGAAAAATGGAGAAGGAGAAGTAC
1 GGAAAGAAAAATGGAGAAGGAGAA--AC
* **
11442654 -GAAAGAAGAGAA--AAGAAAAAGAAAC
1 GGAAAGAA-A-AATGGAGAAGGAGAAAC
11442679 GGGAAAGAAAAATGGAGAAGGAGAAA
1 -GGAAAGAAAAATGGAGAAGGAGAAA
11442705 GGGCTGGATG
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
25 4 0.10
26 1 0.03
27 31 0.79
28 1 0.03
29 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.33, T:0.04
Consensus pattern (26 bp):
GGAAAGAAAAATGGAGAAGGAGAAAC
Found at i:11448771 original size:93 final size:92
Alignment explanation
Indices: 11448605--11448773 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
11448595 TAGTGACATA
* *
11448605 ATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATCAGACTATAAGTCTAGCAGGCT
1 ATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATCAGACTATAAGTCTAGCAGGCT
11448670 TAATGCCGGTGCTTCAGGTAGCACAAT
66 TAATGCCGGTGCTTCAGGTAGCACAAT
*
11448697 ATTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATT-TCAGACTATAAGTCTAGCAGG
1 ATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGA-A-ATTATCAGACTATAAGTCTAGCAGG
11448761 CTTAATGCCGGTG
64 CTTAATGCCGGTG
11448774 ACACATTTCG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
92 34 0.47
93 35 0.49
94 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (92 bp):
ATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATCAGACTATAAGTCTAGCAGGCT
TAATGCCGGTGCTTCAGGTAGCACAAT
Found at i:11448814 original size:41 final size:41
Alignment explanation
Indices: 11448698--11448803 Score: 203
Period size: 41 Copynumber: 2.6 Consensus size: 41
11448688 TAGCACAATA
11448698 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
11448739 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
*
11448780 TTCGGACTATAAGTCTAGCAGGCT
1 TTCAGACTATAAGTCTAGCAGGCT
11448804 AAGAGCCGGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (41 bp):
TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
Found at i:11449074 original size:33 final size:33
Alignment explanation
Indices: 11449018--11449115 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
11449008 AGATATGTAT
*
11449018 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
11449050 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
11449083 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
11449116 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:11452299 original size:123 final size:123
Alignment explanation
Indices: 11452077--11452306 Score: 374
Period size: 123 Copynumber: 1.9 Consensus size: 123
11452067 TAGTGACATA
* *
11452077 ATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTCTAGCAGGC
1 ATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTCTAGCAGGC
* *
11452142 TTAATGCCGGTGACACATTTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATT
66 TTAATGCCGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATT
*
11452200 ATTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T-TTCAGACTATAAGTCTAGCAG
1 ATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGA-A-ATTATTCAGACTATAAGTCTAGCAG
*
11452263 GCTTAATGCCGGTGACACATTTCGGACTATAAGTCTAGCAGGCT
64 GCTTAATGCCGGTGACACATTTCAGACTATAAGTCTAGCAGGCT
11452307 AAGAGCCGGT
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
123 96 0.97
124 2 0.02
125 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (123 bp):
ATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTCTAGCAGGC
TTAATGCCGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATT
Found at i:11452317 original size:41 final size:41
Alignment explanation
Indices: 11452069--11452306 Score: 331
Period size: 41 Copynumber: 5.8 Consensus size: 41
11452059 TTTATCGTTA
* * * * *
11452069 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
11452110 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* * *
11452151 GTGACACATTTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
11452192 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
11452233 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
11452274 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
11452307 AAGAGCCGGT
Statistics
Matches: 178, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
39 2 0.01
40 3 0.02
41 167 0.94
42 4 0.02
43 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:11452317 original size:82 final size:82
Alignment explanation
Indices: 11452069--11452306 Score: 390
Period size: 82 Copynumber: 2.9 Consensus size: 82
11452059 TTTATCGTTA
* *
11452069 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
1 GTGACACATTTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
11452134 TAGCAGGCTTAATGCCG
66 TAGCAGGCTTAATGCCG
11452151 GTGACACATTTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
1 GTGACACATTTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
11452216 TAGCAGGCTTAATGCCG
66 TAGCAGGCTTAATGCCG
* * * *
11452233 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T-TTCGGACTATAAG
1 GTGACACATTTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGA-A-ATTATTCAGACTATAAG
11452296 TCTAGCAGGCT
64 TCTAGCAGGCT
11452307 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
82 145 0.98
83 2 0.01
84 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (82 bp):
GTGACACATTTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
TAGCAGGCTTAATGCCG
Found at i:11452579 original size:33 final size:33
Alignment explanation
Indices: 11452523--11452620 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
11452513 AGATATGTAT
*
11452523 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
11452555 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
11452588 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
11452621 ATGGGTATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:11453531 original size:25 final size:27
Alignment explanation
Indices: 11453494--11453546 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11453484 TCAAACATGC
11453494 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
11453520 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
11453546 A
1 A
11453547 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:11455069 original size:26 final size:26
Alignment explanation
Indices: 11455031--11455086 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
11455021 TGAAATTCTC
11455031 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11455057 ATCATGGACCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11455083 ATCA
1 ATCA
11455087 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.29, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11458724 original size:30 final size:30
Alignment explanation
Indices: 11458669--11458726 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11458659 CACGGCCATG
* **
11458669 ACACACGGGCGTGTGGACTGGCCGTGTGTC
1 ACACACGGGCGTGTGAACTACCCGTGTGTC
*
11458699 ACACACGGGCGTGTGAATTACCCGTGTG
1 ACACACGGGCGTGTGAACTACCCGTGTG
11458727 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.26, G:0.36, T:0.21
Consensus pattern (30 bp):
ACACACGGGCGTGTGAACTACCCGTGTGTC
Found at i:11463562 original size:12 final size:12
Alignment explanation
Indices: 11463545--11463690 Score: 52
Period size: 12 Copynumber: 12.0 Consensus size: 12
11463535 TATATGAAAA
11463545 ATTATTATATAT
1 ATTATTATATAT
*
11463557 ATTATT-TTTATT
1 ATTATTATATA-T
* * *
11463569 TTTATT-TGTGT
1 ATTATTATATAT
*
11463580 ATTATT-TGTGAT
1 ATTATTATAT-AT
*
11463592 ATCATT-TATAT
1 ATTATTATATAT
*
11463603 TTTATTATATATT
1 ATTATTATATA-T
* * *
11463616 TTGTTTTATACAT
1 AT-TATTATATAT
*
11463629 TTTATTATATATT
1 ATTATTATATA-T
11463642 ATTTTATTATATAT
1 A--TTATTATATAT
*
11463656 ATTATTCA-CTAT
1 ATTATT-ATATAT
*
11463668 ATTATTGT-TAT
1 ATTATTATATAT
*
11463679 TTTATTATATAT
1 ATTATTATATAT
11463691 TATAATTATT
Statistics
Matches: 104, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
11 27 0.26
12 50 0.48
13 8 0.08
14 9 0.09
15 10 0.10
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:11463625 original size:24 final size:25
Alignment explanation
Indices: 11463596--11463693 Score: 91
Period size: 26 Copynumber: 3.9 Consensus size: 25
11463586 TGTGATATCA
11463596 TTTATATTTTATTATATATT-TTGT
1 TTTATATTTTATTATATATTATTGT
11463620 TTTATACATTTTATTATATATTATT-T
1 TTTAT--ATTTTATTATATATTATTGT
11463646 TATTATATATATTATTCACTATATTATTG-
1 T-TTATAT-T-TTATT-A-TATATTATTGT
11463675 --T-TATTTTATTATATATTAT
1 TTTATATTTTATTATATATTAT
11463694 AATTATTCAT
Statistics
Matches: 65, Mismatches: 0, Indels: 21
0.76 0.00 0.24
Matches are distributed among these distances:
21 8 0.12
22 1 0.02
23 5 0.08
24 6 0.09
25 5 0.08
26 19 0.29
27 11 0.17
28 1 0.02
29 9 0.14
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTATATTTTATTATATATTATTGT
Found at i:11463644 original size:3 final size:3
Alignment explanation
Indices: 11463630--11463718 Score: 62
Period size: 3 Copynumber: 29.3 Consensus size: 3
11463620 TTTATACATT
* *
11463630 TTA TTA TATA TTA TT- TTA TTA -TA TATA TTA TTCA CTA -TA TTA TTG
1 TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA TTA TTA
*
11463675 TTA TT- TTA TTA TATA TTA TAA TTA TTCA TTA TTCA TTA TT- TTA T
1 TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TT-A TTA TTA TTA T
11463719 AATTTTAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
2 10 0.14
3 43 0.61
4 17 0.24
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:11463654 original size:29 final size:26
Alignment explanation
Indices: 11463595--11463718 Score: 94
Period size: 27 Copynumber: 4.5 Consensus size: 26
11463585 TTGTGATATC
11463595 ATTTATATTTTATTATATATT-TTGTT
1 ATTTATATTTTATTATATATTATT-TT
*
11463621 -TTATACATTTTATTATATATTATTTT
1 ATT-TATATTTTATTATATATTATTTT
*
11463647 ATTATATATATTATTCACTATATTATTGTT
1 ATT-TATATTTTATT-A-TATATTATT-TT
11463677 ATTT-TATTATATATTATA-ATTATTCATT
1 ATTTATATT-T-TATTATATATTATT--TT
*
11463705 ATTCATTATTTTAT
1 ATTTA-TATTTTAT
11463719 AATTTTAAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 20
0.76 0.06 0.19
Matches are distributed among these distances:
25 2 0.02
26 19 0.23
27 20 0.25
28 14 0.17
29 13 0.16
30 13 0.16
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
ATTTATATTTTATTATATATTATTTT
Found at i:11463658 original size:14 final size:14
Alignment explanation
Indices: 11463598--11463658 Score: 74
Period size: 15 Copynumber: 4.4 Consensus size: 14
11463588 TGATATCATT
11463598 TATATTTTATTATA
1 TATATTTTATTATA
11463612 TAT-TTTGT-TT-TA
1 TATATTT-TATTATA
*
11463624 TACATTTTATTATA
1 TATATTTTATTATA
11463638 TATTATTTTATTATA
1 TA-TATTTTATTATA
11463653 TATATT
1 TATATT
11463659 ATTCACTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
12 5 0.12
13 10 0.25
14 12 0.30
15 13 0.32
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (14 bp):
TATATTTTATTATA
Found at i:11463691 original size:12 final size:12
Alignment explanation
Indices: 11463598--11463691 Score: 68
Period size: 12 Copynumber: 7.5 Consensus size: 12
11463588 TGATATCATT
11463598 TATATTTTATTA
1 TATATTTTATTA
*
11463610 TATATTTTGTTTTA
1 TATA-TTT-TATTA
*
11463624 TACATTTTATTATA
1 TATATTTTA-T-TA
11463638 TATTATTTTATTA
1 TA-TATTTTATTA
*
11463651 TATATATTATTCA
1 TATATTTTATT-A
*
11463664 CTATA--TTATTG
1 -TATATTTTATTA
11463675 T-TATTTTATTA
1 TATATTTTATTA
11463686 TATATT
1 TATATT
11463692 ATAATTATTC
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
9 2 0.03
10 1 0.02
11 6 0.09
12 22 0.34
13 12 0.18
14 16 0.25
15 6 0.09
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:11463714 original size:35 final size:35
Alignment explanation
Indices: 11463631--11463718 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 35
11463621 TTATACATTT
*
11463631 TATTATATATTATTTTATTATATATATTATTCACTA
1 TATTAT-TATTATTTTATTATATATATAATTCACTA
*
11463667 TATTATTGTTATTTTATTATATATTATAATT-A-T-
1 TATTATTATTATTTTATTATATA-TATAATTCACTA
11463700 TCATTATTCATTATTTTAT
1 T-ATTATT-ATTATTTTAT
11463719 AATTTTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
33 1 0.02
34 7 0.15
35 26 0.57
36 12 0.26
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (35 bp):
TATTATTATTATTTTATTATATATATAATTCACTA
Found at i:11463882 original size:109 final size:109
Alignment explanation
Indices: 11463769--11463993 Score: 432
Period size: 109 Copynumber: 2.1 Consensus size: 109
11463759 TTATATATCA
11463769 TTATTAAAATTTAGTATGTAATACACCAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
1 TTATTAAAATTTAGTATGTAATACACCAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
11463834 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
66 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
* *
11463878 TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAATTTTTATTCCTATTATATAATAT
1 TTATTAAAATTTAGTATGTAATACACCAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
11463943 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
66 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
11463987 TTATTAA
1 TTATTAA
11463994 TCATTTATAA
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 114 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (109 bp):
TTATTAAAATTTAGTATGTAATACACCAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
Found at i:11475015 original size:8 final size:8
Alignment explanation
Indices: 11474997--11475035 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
11474987 AGATTTCTAA
11474997 AAAATAAAT
1 AAAA-AAAT
11475006 AAAAAAAT
1 AAAAAAAT
11475014 AAAAAATAT
1 AAAAAA-AT
*
11475023 ATAAAAAT
1 AAAAAAAT
11475031 AAAAA
1 AAAAA
11475036 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 16 0.59
9 11 0.41
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAAAAAT
Found at i:11475028 original size:17 final size:18
Alignment explanation
Indices: 11474994--11475035 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
11474984 TTGAGATTTC
11474994 TAAAAAATAAATAAAAAAA
1 TAAAAAAT-AATAAAAAAA
*
11475013 TAAAAAAT-ATATAAAAA
1 TAAAAAATAATAAAAAAA
11475030 TAAAAA
1 TAAAAA
11475036 TGGAGAGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAAAAATAATAAAAAAA
Found at i:11475907 original size:44 final size:43
Alignment explanation
Indices: 11475850--11476518 Score: 348
Period size: 44 Copynumber: 15.3 Consensus size: 43
11475840 CAGTCACATC
* * * *
11475850 TGGCATCTCTGTATTGATAGAGAGAAGATTAAAGATAGAAGATT
1 TGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGA-AGAAGATT
* * * * *
11475894 TGGCGTATCTGTATTAGACGGGGAGCAGATCGAAGGAA-AATATT
1 TGGCGTCTCTGTATT-GACAGAGAGCAGATC-AAAGAAGAAGATT
* * * * * *
11475938 TAGCGTCTTTGTATTAACAGAGAGCAGATCAAAGAATGCACATC
1 TGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGAA-GAAGATT
* ** *
11475982 TGGCATCTCTGTATTGACA-ATGAGCAGATTGAAGATAGAAAATT
1 TGGCGTCTCTGTATTGACAGA-GAGCAGATCAAAGA-AGAAGATT
* * * * * *
11476026 TGGTGTCTCTATATTAGACGGGGAGCAGATCGAAGAAAAAGATT
1 TGGCGTCTCTGTATT-GACAGAGAGCAGATCAAAGAAGAAGATT
* * *
11476070 TGGCGTCTCTGTATTGACGGATG-GCAGATCAAAGAAAGCACATT
1 TGGCGTCTCTGTATTGACAGA-GAGCAGATCAAAG-AAGAAGATT
* **
11476114 TGGCATCTCTGTATTGACAGAGAGCAGATTGAAGATAGAAGATT
1 TGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGA-AGAAGATT
* * * *
11476158 TGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGAA-ACCGATT
1 TGGCGTCTCTGTATT-GACAGAGAGCAGATCAAAGAAGA-AGATT
* * * * *
11476202 TGGTGTCTTTGTATTGAC-G-GAG-AG--C--A-AAGCATATC
1 TGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGAAGAAGATT
* * **
11476237 TGGCATTTCTGTATTGACAGAGAGCAGATCAAAGATAGCTGATT
1 TGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGA-AGAAGATT
* * * * * * *
11476281 TGGCGTCTTTGTATTGACGGGGAGCATATCAAAAATAGTAGATC
1 TGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGA-AGAAGATT
* * * *
11476325 TGACAT-TCGTGTATTCACATCGA-AGCAGATCAAAGATGACAGATT
1 TGGCGTCTC-TGTATTGACA--GAGAGCAGATCAAAGAAGA-AGATT
* * *
11476370 TGGCGTCTCTGTATTAGAC-GAGGAACAGAGCAAAGATAGCCA-ATT
1 TGGCGTCTCTGTATT-GACAGA-GAGCAGATCAAAGA-AG-AAGATT
* * * * *
11476415 TGGCGTCTCTGTATTGACGGGGAGCAGATCGAAGATAGCAGATC
1 TGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGA-AGAAGATT
* * * * *
11476459 TGACAT-TCGTGTATTCACATCGA-AGCAAATCAAAGATGACAGATT
1 TGGCGTCTC-TGTATTGACA--GAGAGCAGATCAAAGAAGA-AGATT
*
11476504 TGGCGTTTCTGTATT
1 TGGCGTCTCTGTATT
11476519 AGACGAGGAA
Statistics
Matches: 472, Mismatches: 112, Indels: 81
0.71 0.17 0.12
Matches are distributed among these distances:
35 18 0.04
36 2 0.00
37 3 0.01
38 3 0.01
40 3 0.01
41 3 0.01
42 7 0.01
43 42 0.09
44 252 0.53
45 125 0.26
46 14 0.03
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (43 bp):
TGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGAAGAAGATT
Found at i:11476083 original size:132 final size:132
Alignment explanation
Indices: 11475844--11476449 Score: 622
Period size: 132 Copynumber: 4.7 Consensus size: 132
11475834 GATCACCAGT
* * *
11475844 CACATCTGGCATCTCTGTATTGATAGAGAGAAGATTAAAGATAGAAGATTTGGCGTATCTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTAAAGATAGAAGATTTGGCGTCTCTGTATT
* * * * *
11475909 AGACGGGGAGCAGATCGAAGGAAAATATTTAGCGTCTTTGTATTAACAGAGAGCAGATCAAAGAA
66 AGACGGGGAGCAGATCGAAGAAAAAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGAA
11475974 TG
131 TG
* * * *
11475976 CACATCTGGCATCTCTGTATTGACA-ATGAGCAGATTGAAGATAGAAAATTTGGTGTCTCTATAT
1 CACATCTGGCATCTCTGTATTGACAGA-GAGCAGATTAAAGATAGAAGATTTGGCGTCTCTGTAT
*
11476040 TAGACGGGGAGCAGATCGAAGAAAAAGATTTGGCGTCTCTGTATTGACGGATG-GCAGATCAAAG
65 TAGACGGGGAGCAGATCGAAGAAAAAGATTTGGCGTCTCTGTATTGACAGA-GAGCAGATCAAAG
*
11476104 AAAG
129 AATG
* *
11476108 CACATTTGGCATCTCTGTATTGACAGAGAGCAGATTGAAGATAGAAGATTTGGCGTCTCTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTAAAGATAGAAGATTTGGCGTCTCTGTATT
** * *
11476173 AGACGGGGAGCAGATCGAAGAAACCGATTTGGTGTCTTTGTATTGAC-G-GAG-AG--C--A-AA
66 AGACGGGGAGCAGATCGAAGAAAAAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGAA
11476230 -G
131 TG
* * * ** *
11476231 CATATCTGGCATTTCTGTATTGACAGAGAGCAGATCAAAGATAGCTGATTTGGCGTCTTTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTAAAGATAGAAGATTTGGCGTCTCTGTATT
* * * * *
11476296 -GACGGGGAGCATATC-AA-AAATAGTAGATCTGACAT-TCGTGTATTCACATCGA-AGCAGATC
66 AGACGGGGAGCAGATCGAAGAAA-A--AGATTTGGCGTCTC-TGTATTGACA--GAGAGCAGATC
11476356 AAAG-ATG
125 AAAGAATG
* * * * ** *
11476363 ACAGATTTGGCGTCTCTGTATTAGAC-GAGGAACAGAGCAAAGATAGCCA-ATTTGGCGTCTCTG
1 -CACATCTGGCATCTCTGTATT-GACAGA-GAGCAGATTAAAGATAG-AAGATTTGGCGTCTCTG
11476426 TATT-GACGGGGAGCAGATCGAAGA
62 TATTAGACGGGGAGCAGATCGAAGA
11476450 TAGCAGATCT
Statistics
Matches: 401, Mismatches: 48, Indels: 46
0.81 0.10 0.09
Matches are distributed among these distances:
120 3 0.01
121 2 0.00
122 15 0.04
123 72 0.18
124 2 0.00
125 1 0.00
126 3 0.01
127 3 0.01
129 4 0.01
130 1 0.00
131 4 0.01
132 217 0.54
133 21 0.05
134 49 0.12
135 3 0.01
136 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (132 bp):
CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTAAAGATAGAAGATTTGGCGTCTCTGTATT
AGACGGGGAGCAGATCGAAGAAAAAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGAA
TG
Found at i:11476540 original size:45 final size:45
Alignment explanation
Indices: 11476350--11476558 Score: 171
Period size: 45 Copynumber: 4.7 Consensus size: 45
11476340 CACATCGAAG
*
11476350 CAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAA
1 CAGATCAAAGATGACAGATTTGGCGTTTCTGTATTAGACGAGGAA
* * * * *
11476395 CAGAGCAAAGATAGCCA-ATTTGGCGTCTCTGTATT-GACGGGGAG
1 CAGATCAAAGAT-GACAGATTTGGCGTTTCTGTATTAGACGAGGAA
* * * * * *
11476439 CAGATCGAAGAT-AGCAGATCTGAC-ATTCGTGTATTCACATCGA--AG
1 CAGATCAAAGATGA-CAGATTTGGCGTTTC-TGTATT-AGA-CGAGGAA
*
11476484 CAAATCAAAGATGACAGATTTGGCGTTTCTGTATTAGACGAGGAA
1 CAGATCAAAGATGACAGATTTGGCGTTTCTGTATTAGACGAGGAA
* * *
11476529 CAGATCGAAGATGGA-AAATTTGGCATTTCT
1 CAGATCAAAGAT-GACAGATTTGGCGTTTCT
11476559 AATGAAGCAG
Statistics
Matches: 128, Mismatches: 24, Indels: 24
0.73 0.14 0.14
Matches are distributed among these distances:
43 7 0.05
44 30 0.23
45 79 0.62
46 10 0.08
47 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (45 bp):
CAGATCAAAGATGACAGATTTGGCGTTTCTGTATTAGACGAGGAA
Found at i:11476540 original size:134 final size:134
Alignment explanation
Indices: 11476237--11476540 Score: 468
Period size: 134 Copynumber: 2.3 Consensus size: 134
11476227 AAAGCATATC
* * ** *
11476237 TGGCATTTCTGTATT-GAC-AGAGAGCAGATCAAAGATAGCTGATTTGGCGTCTTTGTATTGACG
1 TGGCGTTTCTGTATTAGACGAG-GAACAGATCAAAGATAGCCAATTTGGCGTCTCTGTATTGACG
* * *
11476300 GGGAGCATATCAAAAATAGTAGATCTGACATTCGTGTATTCACATCGAAGCAGATCAAAGATGAC
65 GGGAGCAGATCAAAAATAGCAGATCTGACATTCGTGTATTCACATCGAAGCAAATCAAAGATGAC
11476365 AGATT
130 AGATT
* *
11476370 TGGCGTCTCTGTATTAGACGAGGAACAGAGCAAAGATAGCCAATTTGGCGTCTCTGTATTGACGG
1 TGGCGTTTCTGTATTAGACGAGGAACAGATCAAAGATAGCCAATTTGGCGTCTCTGTATTGACGG
* *
11476435 GGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTATTCACATCGAAGCAAATCAAAGATGACA
66 GGAGCAGATCAAAAATAGCAGATCTGACATTCGTGTATTCACATCGAAGCAAATCAAAGATGACA
11476500 GATT
131 GATT
*
11476504 TGGCGTTTCTGTATTAGACGAGGAACAGATCGAAGAT
1 TGGCGTTTCTGTATTAGACGAGGAACAGATCAAAGAT
11476541 GGAAAATTTG
Statistics
Matches: 154, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
133 13 0.08
134 139 0.90
135 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (134 bp):
TGGCGTTTCTGTATTAGACGAGGAACAGATCAAAGATAGCCAATTTGGCGTCTCTGTATTGACGG
GGAGCAGATCAAAAATAGCAGATCTGACATTCGTGTATTCACATCGAAGCAAATCAAAGATGACA
GATT
Found at i:11478032 original size:12 final size:12
Alignment explanation
Indices: 11478017--11478110 Score: 77
Period size: 12 Copynumber: 7.5 Consensus size: 12
11478007 TTATATCATT
11478017 TATATTTTATTA
1 TATATTTTATTA
11478029 TATATTTTGATTTA
1 TATATTTT-A-TTA
*
11478043 TACATTTTATTATA
1 TATATTTTA-T-TA
11478057 TATTATTTTATTA
1 TA-TATTTTATTA
*
11478070 TATATATTATTCA
1 TATATTTTATT-A
*
11478083 CTATA--TTATTG
1 -TATATTTTATTA
11478094 T-TATTTTATTA
1 TATATTTTATTA
11478105 TATATT
1 TATATT
11478111 ATAATTATTC
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
9 2 0.03
10 1 0.01
11 6 0.09
12 25 0.37
13 9 0.13
14 19 0.28
15 6 0.09
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:11478043 original size:24 final size:24
Alignment explanation
Indices: 11478017--11478110 Score: 77
Period size: 27 Copynumber: 3.8 Consensus size: 24
11478007 TTATATCATT
11478017 TATATTTTATTATATATTTTGATTTA
1 TATATTTTATTATATATTTT-A-TTA
*
11478043 TACATTTTATTATATATTATTTTATTA
1 TATATTTTA-T-TATA-TATTTTATTA
* *
11478070 TATATATTATTCACTATA--TTATTG
1 TATATTTTATT-A-TATATTTTATTA
11478094 T-TATTTTATTATATATT
1 TATATTTTATTATATATT
11478111 ATAATTATTC
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.07
22 1 0.02
23 8 0.14
24 6 0.11
25 1 0.02
26 12 0.21
27 13 0.23
28 5 0.09
29 6 0.11
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (24 bp):
TATATTTTATTATATATTTTATTA
Found at i:11478063 original size:3 final size:3
Alignment explanation
Indices: 11478049--11478135 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
11478039 TTTATACATT
* *
11478049 TTA TTA TATA TTA TT- TTA TTA -TA TATA TTA TTCA CTA -TA TTA TTG
1 TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA TTA TTA
*
11478094 TTA TT- TTA TTA TATA TTA TAA TTA TTCA TTA TTCA TTA TTA T
1 TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TT-A TTA TTA T
11478136 ATAATTTTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
2 8 0.12
3 44 0.64
4 17 0.25
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:11478077 original size:14 final size:14
Alignment explanation
Indices: 11478017--11478077 Score: 81
Period size: 15 Copynumber: 4.4 Consensus size: 14
11478007 TTATATCATT
11478017 TATATTTTATTATA
1 TATATTTTATTATA
*
11478031 TAT-TTTGATT-TA
1 TATATTTTATTATA
*
11478043 TACATTTTATTATA
1 TATATTTTATTATA
11478057 TATTATTTTATTATA
1 TA-TATTTTATTATA
11478072 TATATT
1 TATATT
11478078 ATTCACTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 4 0.10
13 12 0.30
14 11 0.28
15 13 0.32
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (14 bp):
TATATTTTATTATA
Found at i:11484044 original size:15 final size:15
Alignment explanation
Indices: 11484017--11484072 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
11484007 AGTTCATATG
11484017 TAGGGTTCGCACATC
1 TAGGGTTCGCACATC
* *
11484032 TAGAGTTCACACATC
1 TAGGGTTCGCACATC
*
11484047 TAGGGTTTGCACATC
1 TAGGGTTCGCACATC
11484062 TAGGGTTCGCA
1 TAGGGTTCGCA
11484073 TGTATAAGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (15 bp):
TAGGGTTCGCACATC
Found at i:11484106 original size:24 final size:24
Alignment explanation
Indices: 11484078--11484141 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
11484068 TCGCATGTAT
*
11484078 AAGGTTCACATACTAATTCATATA
1 AAGGTTCACATACTAAATCATATA
** *
11484102 AAGGTTTGCATACCAAATCATATA
1 AAGGTTCACATACTAAATCATATA
** *
11484126 GGGGTTCATATACTAA
1 AAGGTTCACATACTAA
11484142 GCCCATAGGT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (24 bp):
AAGGTTCACATACTAAATCATATA
Found at i:11484247 original size:15 final size:15
Alignment explanation
Indices: 11484192--11484262 Score: 67
Period size: 15 Copynumber: 4.9 Consensus size: 15
11484182 GTTTTCACAT
*
11484192 ACATC-AGGGTTCGT
1 ACATCTAGGGTTCGC
*
11484206 ACATCTAGAGTT--C
1 ACATCTAGGGTTCGC
*
11484219 ACATATATGGGTTCGC
1 ACATCTA-GGGTTCGC
11484235 ACATCTAGGGTTCGC
1 ACATCTAGGGTTCGC
* *
11484250 GCATATAGGGTTC
1 ACATCTAGGGTTC
11484263 ATATACTAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
13 6 0.13
14 9 0.20
15 24 0.52
16 7 0.15
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (15 bp):
ACATCTAGGGTTCGC
Found at i:11484255 original size:29 final size:30
Alignment explanation
Indices: 11484197--11484262 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
11484187 CACATACATC
* *
11484197 AGGGTTCGTACATCTAGAGTTCACATATAT
1 AGGGTTCGCACATCTAGAGTTCACACATAT
* * *
11484227 -GGGTTCGCACATCTAGGGTTCGCGCATAT
1 AGGGTTCGCACATCTAGAGTTCACACATAT
11484256 AGGGTTC
1 AGGGTTC
11484263 ATATACTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (30 bp):
AGGGTTCGCACATCTAGAGTTCACACATAT
Found at i:11484415 original size:34 final size:34
Alignment explanation
Indices: 11484367--11484684 Score: 402
Period size: 34 Copynumber: 9.4 Consensus size: 34
11484357 TATTAAATCA
* * * *
11484367 CATATTATATAACATGGGGGTTTGCATATTACAT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* * * * *
11484401 CATACTGTATAACATAGAGGTTCGTATACCACGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* * *
11484435 CATACTATATAACATAGGGGTTCACATACTATGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
11484469 CATACTATATAACATGGGGGTTCGCATACTACGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* *
11484503 TATACTATATAACATAGGGGTTCGCATACTACGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
*
11484537 CATACTATATATCATGGGGGTTCGCATACTACGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* * *
11484571 CATACTATATAACATTGGGGTTCACATACTACAT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* ** *
11484605 CATACTATATAACATGGGGGTTTGCATGTTATGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* *
11484639 CATACTATATAACATGGGGATTCACATACTACGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* *
11484673 TATACTACATAA
1 CATACTATATAA
11484685 AATAAGGGGT
Statistics
Matches: 242, Mismatches: 42, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 242 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (34 bp):
CATACTATATAACATGGGGGTTCGCATACTACGT
Found at i:11484718 original size:24 final size:23
Alignment explanation
Indices: 11484691--11484775 Score: 64
Period size: 24 Copynumber: 3.7 Consensus size: 23
11484681 ATAAAATAAG
*
11484691 GGGTTTGCATATATAAGACTTATA
1 GGGTTCGCATATATAA-ACTTATA
* *
11484715 GGGTTCGCATATA-AAAGTTGTA
1 GGGTTCGCATATATAAACTTATA
* ** * *
11484737 GAGTTTACATGTATAAAACGTATA
1 GGGTTCGCATATAT-AAACTTATA
*
11484761 GGGTTCGCATCTATA
1 GGGTTCGCATATATA
11484776 CACTAAGGGA
Statistics
Matches: 45, Mismatches: 14, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
22 14 0.31
23 3 0.07
24 28 0.62
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (23 bp):
GGGTTCGCATATATAAACTTATA
Found at i:11486494 original size:43 final size:43
Alignment explanation
Indices: 11486446--11486551 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
11486436 TCCTAGATAT
* * * *
11486446 GGTCTTAAATGTTATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAG
* * * *
11486489 GGTCTTACACGAAATCGA-ATAACGATGTCAATGTCCCAGACAT
1 GGTCTTACATGTAATC-ACATAACGATGCCAATGTCCCAGACAG
11486532 GGTCTTACATGTAATCACAT
1 GGTCTTACATGTAATCACAT
11486552 CTTGTAACTT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
42 1 0.02
43 49 0.96
44 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAG
Found at i:11487363 original size:10 final size:10
Alignment explanation
Indices: 11487334--11487368 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
11487324 GAGCTTCAAG
11487334 CTTTTATTTT
1 CTTTTATTTT
11487344 CTTTTGATTTT
1 CTTTT-ATTTT
11487355 CTTTTATTTT
1 CTTTTATTTT
11487365 CTTT
1 CTTT
11487369 AATTAACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.09, C:0.11, G:0.03, T:0.77
Consensus pattern (10 bp):
CTTTTATTTT
Done.