Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 307 of 410
Found at i:95077439 original size:18 final size:18
Alignment explanation
Indices: 95077387--95077448 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
95077377 TCGAGTCAAC
*
95077387 TCGAATTTCTTTTCAAATT
1 TCGAATTTGTTTTCAAA-T
**
95077406 TCGAATTTCGAGTTCAAA-
1 TCGAATTT-GTTTTCAAAT
95077424 TCGAATTTAGTTTTCAAAT
1 TCGAATTT-GTTTTCAAAT
95077443 TCGAAT
1 TCGAAT
95077449 AACTCGAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 15 0.43
19 14 0.40
20 6 0.17
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (18 bp):
TCGAATTTGTTTTCAAAT
Found at i:95077461 original size:18 final size:18
Alignment explanation
Indices: 95077440--95077476 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
95077430 TTAGTTTTCA
*
95077440 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
*
95077458 AATTTGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
95077476 A
1 A
95077477 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:95077576 original size:30 final size:30
Alignment explanation
Indices: 95077525--95077585 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
95077515 AAACCTCTTT
*
95077525 ACTTTCCCCAAAAATTTTTACTCCT-TCCC
1 ACTTTCCCCAAAAACTTTTACTCCTCTCCC
*
95077554 ACTTTCCTCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCC-CCAAAAACTTTTACTCCTCTCCC
95077585 A
1 A
95077586 TCCCACCCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 7 0.25
30 16 0.57
31 5 0.18
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (30 bp):
ACTTTCCCCAAAAACTTTTACTCCTCTCCC
Found at i:95083409 original size:21 final size:17
Alignment explanation
Indices: 95083364--95083399 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
95083354 TACCTGAAAT
95083364 TTTGTCTTGGTTCTTGC
1 TTTGTCTTGGTTCTTGC
95083381 TTTG-CTTGGCTTCTTGC
1 TTTGTCTTGG-TTCTTGC
95083398 TT
1 TT
95083400 GCATGTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.00, C:0.19, G:0.22, T:0.58
Consensus pattern (17 bp):
TTTGTCTTGGTTCTTGC
Found at i:95095517 original size:21 final size:20
Alignment explanation
Indices: 95095491--95095549 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
95095481 ATAACTAATC
95095491 GAAAAAGAAGAAAACGAAGGA
1 GAAAAAGAAGAAAA-GAAGGA
*
95095512 GAAAAA-AATGGAGAAGAAGGA
1 GAAAAAGAA--GAAAAGAAGGA
*
95095533 -AAAAAGAAGAAGAGAAG
1 GAAAAAGAAGAAAAGAAG
95095550 TTCAGCAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 7 0.22
20 7 0.22
21 14 0.44
22 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.31, T:0.02
Consensus pattern (20 bp):
GAAAAAGAAGAAAAGAAGGA
Found at i:95102067 original size:17 final size:17
Alignment explanation
Indices: 95102047--95102080 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95102037 AACTTTTCTC
*
95102047 TTTACTTAGTTTAATTA
1 TTTAATTAGTTTAATTA
95102064 TTTAATTAGTTTAATTA
1 TTTAATTAGTTTAATTA
95102081 ATTAGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTAATTAGTTTAATTA
Found at i:95102083 original size:13 final size:13
Alignment explanation
Indices: 95102065--95102091 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95102055 GTTTAATTAT
95102065 TTAATTAGTTTAA
1 TTAATTAGTTTAA
95102078 TTAATTAGTTTAA
1 TTAATTAGTTTAA
95102091 T
1 T
95102092 AAACAACCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTAATTAGTTTAA
Found at i:95102091 original size:9 final size:9
Alignment explanation
Indices: 95102047--95102080 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
95102037 AACTTTTCTC
*
95102047 TTTACTTAG
1 TTTAATTAG
95102056 TTTAATTA-
1 TTTAATTAG
95102064 TTTAATTAG
1 TTTAATTAG
95102073 TTTAATTA
1 TTTAATTA
95102081 ATTAGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (9 bp):
TTTAATTAG
Found at i:95106935 original size:29 final size:29
Alignment explanation
Indices: 95106903--95107063 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
95106893 AATTTAAGCC
* *** *
95106903 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
95106932 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* * * *
95106961 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACTTAGTGCCATATATTTCCAGC-T
*
95106991 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
95107019 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
95107048 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
95107064 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 113 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:95114731 original size:29 final size:28
Alignment explanation
Indices: 95114669--95114856 Score: 157
Period size: 29 Copynumber: 6.6 Consensus size: 28
95114659 CTACTCGATT
* *
95114669 TCGCACACTTAGTGCCACGCAATTT-AAGC
1 TCGCACACTTAGTGCCA--TAATTTCCAGC
* * ** *
95114698 CCGCACACATAGTGCCATACCCTTCGAGC
1 TCGCACACTTAGTGCCATA-ATTTCCAGC
** * *
95114727 TCGCACACCCAGTGCCGTATTTTCCAGC
1 TCGCACACTTAGTGCCATAATTTCCAGC
* * *
95114755 TTGCACACATAGTGTCAT-ATTTCCAGC
1 TCGCACACTTAGTGCCATAATTTCCAGC
95114782 AT-GCACACTTAGTGCCATATATTTCCAGC
1 -TCGCACACTTAGTGCCATA-ATTTCCAGC
*
95114811 ACGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATA-ATTTCCAGC
*
95114840 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
95114857 ATCTCGTCAC
Statistics
Matches: 131, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
27 23 0.18
28 22 0.17
29 86 0.66
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATAATTTCCAGC
Found at i:95118110 original size:6 final size:6
Alignment explanation
Indices: 95118099--95118143 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
95118089 ACCTCTTATC
* * *
95118099 TTTTTA TTTTTA TTTTTA TTCTTC TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
95118144 CAATTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:95118150 original size:24 final size:24
Alignment explanation
Indices: 95118097--95118142 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
95118087 GAACCTCTTA
*
95118097 TCTTTTTATTTTTATTTTTATTCT
1 TCTTTTTATTTTTATTTTCATTCT
95118121 TCTTTTTATTTTTATTTTCATT
1 TCTTTTTATTTTTATTTTCATT
95118143 TCAATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (24 bp):
TCTTTTTATTTTTATTTTCATTCT
Found at i:95121081 original size:13 final size:13
Alignment explanation
Indices: 95121063--95121089 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95121053 GTTTAATTAT
95121063 TTAATTAGTTTAA
1 TTAATTAGTTTAA
95121076 TTAATTAGTTTAA
1 TTAATTAGTTTAA
95121089 T
1 T
95121090 AAACAACCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTAATTAGTTTAA
Found at i:95121089 original size:9 final size:9
Alignment explanation
Indices: 95121050--95121078 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
95121040 TTCTCTCTAC
95121050 TTAGTTTAA
1 TTAGTTTAA
95121059 TTA-TTTAA
1 TTAGTTTAA
95121067 TTAGTTTAA
1 TTAGTTTAA
95121076 TTA
1 TTA
95121079 ATTAGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (9 bp):
TTAGTTTAA
Found at i:95139094 original size:94 final size:93
Alignment explanation
Indices: 95138906--95139121 Score: 247
Period size: 94 Copynumber: 2.3 Consensus size: 93
95138896 TTATTTGTGT
* * *
95138906 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGAT-AGAGCCACTATAAGACCATGTC
* * **
95138971 TGGGACATGGCATCGGTATTGAGACGAGA
65 TGAGACATGGCATCGGCACGGAGACGAGA
* * * *
95139000 GCTAATGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT-GTGTCACTATAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATAGAGCCACTATAAGACCATGTC
* *
95139063 TGAGACATGGCATCGGCACGGATATGTGAGA
65 TGAGACATGGCATCGGCACGGAGA--CGAGA
*
95139094 GCTAGTTTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
95139122 GCTTCGACCT
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
92 36 0.35
94 51 0.50
95 16 0.16
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAGAGCCACTATAAGACCATGTCT
GAGACATGGCATCGGCACGGAGACGAGA
Found at i:95139213 original size:47 final size:50
Alignment explanation
Indices: 95139049--95139221 Score: 162
Period size: 49 Copynumber: 3.5 Consensus size: 50
95139039 GATGTGTCAC
* * * *
95139049 TATAAGACCATGTCTGAGACATGGCA-TCG-GCACGGATATGTGAGAGCTAG
1 TATAAGACCATGTCTGGGACATGGCATTCGACCTCGG-TATG-GATAGCTAG
* * * *
95139099 TTTAAGACCATGTCTGGGACATGGC-TTCGACCTCGGTTTTGATAGTTAG
1 TATAAGACCATGTCTGGGACATGGCATTCGACCTCGGTATGGATAGCTAG
* * *
95139148 TATAAGACCATGTTTGGGATATGGCATT-GA-CT-TG-ATGGATAAGCTAG
1 TATAAGACCATGTCTGGGACATGGCATTCGACCTCGGTATGGAT-AGCTAG
*
95139195 TGTAAGACCATGTCTGGGACATGGCAT
1 TATAAGACCATGTCTGGGACATGGCAT
95139222 CAGTATTATA
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
46 4 0.04
47 30 0.30
48 2 0.02
49 31 0.31
50 30 0.30
51 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (50 bp):
TATAAGACCATGTCTGGGACATGGCATTCGACCTCGGTATGGATAGCTAG
Found at i:95146462 original size:28 final size:28
Alignment explanation
Indices: 95146387--95146474 Score: 115
Period size: 28 Copynumber: 3.2 Consensus size: 28
95146377 GTGAGCAGCC
* *
95146387 CAAATATCACAAGTTGTGTAAGCAAATT
1 CAAATATCACAACTTGTGTGAGCAAATT
*
95146415 CAAATATCACAGCTTGTGTGAGCAAATT
1 CAAATATCACAACTTGTGTGAGCAAATT
** *
95146443 CAAATATCACAACTCATGTGAGTAAA-T
1 CAAATATCACAACTTGTGTGAGCAAATT
95146470 CAAAT
1 CAAAT
95146475 TATTCTTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 6 0.11
28 47 0.89
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (28 bp):
CAAATATCACAACTTGTGTGAGCAAATT
Found at i:95151794 original size:19 final size:20
Alignment explanation
Indices: 95151770--95151810 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
95151760 ACAATTGGAC
*
95151770 AAGAAA-AAAGGAAAATTAA
1 AAGAAAGAAAGGAAAATGAA
*
95151789 AAGAAAGAAATGAAAATGAA
1 AAGAAAGAAAGGAAAATGAA
95151809 AA
1 AA
95151811 AAGATGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (20 bp):
AAGAAAGAAAGGAAAATGAA
Found at i:95156836 original size:2 final size:2
Alignment explanation
Indices: 95156829--95156859 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
95156819 CTTCGTTTTC
95156829 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95156860 TTGGCATTGC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:95160769 original size:54 final size:54
Alignment explanation
Indices: 95160685--95160809 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
95160675 ACCACGGTCT
*
95160685 CGGGTGCGGGTGCTTCAATAGGTGGATCGGCCTTCTCTTCTTCCCTGACTTCAA
1 CGGGTGCGGGTGCTTCAACAGGTGGATCGGCCTTCTCTTCTTCCCTGACTTCAA
* *
95160739 CGGGTGCGGGTGCTTCAACCA-GTGGGTCGGCCTTCTCTTCTTCCTTGACTTCAA
1 CGGGTGCGGGTGCTTCAA-CAGGTGGATCGGCCTTCTCTTCTTCCCTGACTTCAA
95160793 CGGGTGCGGGTGCTTCA
1 CGGGTGCGGGTGCTTCA
95160810 GTTTCGACTT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
54 66 0.99
55 1 0.01
ACGTcount: A:0.11, C:0.28, G:0.30, T:0.30
Consensus pattern (54 bp):
CGGGTGCGGGTGCTTCAACAGGTGGATCGGCCTTCTCTTCTTCCCTGACTTCAA
Found at i:95161660 original size:16 final size:16
Alignment explanation
Indices: 95161633--95161686 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
95161623 TTTAAATTCG
95161633 TATTTT-TTAAATTAA
1 TATTTTATTAAATTAA
*
95161648 TATTTTATTAAATCAA
1 TATTTTATTAAATTAA
* *
95161664 AATTTTAATTTAATATAA
1 TATTTT-ATTAAAT-TAA
95161682 TATTT
1 TATTT
95161687 ACATGTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 6 0.19
16 13 0.42
17 6 0.19
18 6 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTATTAAATTAA
Found at i:95161912 original size:23 final size:23
Alignment explanation
Indices: 95161882--95161925 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
95161872 ACACAGTGTG
95161882 ATAGGAATTGTTGTTATTTTAAT
1 ATAGGAATTGTTGTTATTTTAAT
95161905 ATAGGAATTGTTGTTATTTTA
1 ATAGGAATTGTTGTTATTTTA
95161926 TTTTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (23 bp):
ATAGGAATTGTTGTTATTTTAAT
Found at i:95169188 original size:40 final size:40
Alignment explanation
Indices: 95169128--95169207 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
95169118 ACTTATCGAC
*
95169128 TAAAATGGCACTTAGTGTGCAGTTCGAAATAACTTTGGCT
1 TAAAATGGCACTTAGTGTGCAATTCGAAATAACTTTGGCT
* * * * *
95169168 TAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTTTGGCT
1 TAAAATGGCACTTAGTGTGCAATTCGAAATAACTTTGGCT
95169208 ATATATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (40 bp):
TAAAATGGCACTTAGTGTGCAATTCGAAATAACTTTGGCT
Found at i:95178463 original size:47 final size:47
Alignment explanation
Indices: 95178387--95178605 Score: 182
Period size: 49 Copynumber: 4.6 Consensus size: 47
95178377 TTAAAATGTT
* *
95178387 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATTAAAGTC
1 GATGCCATGTCCCAGACA-GGTCTTACACTGACTATCACATTAAAGTC
* * * * *
95178435 GATGTCGTGTCCCAGACAGGTCTTACACTGACTTTCATATCTCGAAA-CC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTATCACAT-T--AAAGTC
* * * ***
95178484 GATGCCATGTCCCAAACAGGTCTTACACTGCCTCTCATCTATTGGTGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTATCA-C-ATTAAAGTC
*
95178533 GATGCCATGTCCCAGACAGGTCTTACACTGAC-A-CACA--ACAAGCTG
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTATCACATTA-AAG-TC
95178578 GCA--CCATGTCCCAGACAGGTCTTACACT
1 G-ATGCCATGTCCCAGACAGGTCTTACACT
95178606 AGCTTGTATA
Statistics
Matches: 138, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
44 26 0.19
45 3 0.02
46 2 0.01
47 20 0.14
48 17 0.12
49 64 0.46
50 4 0.03
51 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (47 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTATCACATTAAAGTC
Found at i:95178555 original size:98 final size:97
Alignment explanation
Indices: 95178387--95178564 Score: 250
Period size: 98 Copynumber: 1.8 Consensus size: 97
95178377 TTAAAATGTT
* * * *
95178387 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATTAAAGTCGATGTCGTGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGCCTAGCACATTAAAGTCGATGCCATGTCCCAGAC
95178452 AGGTCTTACACTGACTTTCATATCTCGAAACC
66 AGGTCTTACACTGACTTTCATATCTCGAAACC
** ***
95178484 GATGCCATGTCCCAAACA-GGTCTTACACTGCCTCTCATCTATTGGTGTCGATGCCATGTCCCAG
1 GATGCCATGTCCCAAACATGGTCTTACACTGCCTAGCA-C-ATTAAAGTCGATGCCATGTCCCAG
95178548 ACAGGTCTTACACTGAC
64 ACAGGTCTTACACTGAC
95178565 ACACAACAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
96 16 0.23
97 18 0.26
98 36 0.51
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (97 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGCCTAGCACATTAAAGTCGATGCCATGTCCCAGAC
AGGTCTTACACTGACTTTCATATCTCGAAACC
Found at i:95180973 original size:9 final size:9
Alignment explanation
Indices: 95180961--95180991 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
95180951 TAGAGGAATC
95180961 GGAGGAGGT
1 GGAGGAGGT
95180970 GGAGGAGGT
1 GGAGGAGGT
95180979 GGAGGAGGT
1 GGAGGAGGT
95180988 GGAG
1 GGAG
95180992 TGTTTGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.68, T:0.10
Consensus pattern (9 bp):
GGAGGAGGT
Found at i:95190502 original size:40 final size:39
Alignment explanation
Indices: 95190457--95190586 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
95190447 CGGAATATAA
95190457 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
95190497 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
95190537 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
95190577 CCGGATATAA
1 CCGGATATAA
95190587 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:95190601 original size:40 final size:40
Alignment explanation
Indices: 95190473--95190624 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
95190463 ATAACCATGT
* * *
95190473 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
95190513 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
95190553 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
95190593 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
95190625 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:95190607 original size:80 final size:80
Alignment explanation
Indices: 95190473--95190622 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
95190463 ATAACCATGT
*
95190473 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
95190537 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
95190553 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
95190616 CCCGGAT
64 CCCGGAT
95190623 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:95193518 original size:29 final size:30
Alignment explanation
Indices: 95193485--95193542 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
95193475 AAATCGATTT
95193485 TCAA-GCCTAAGGGCAAAATGGTCATTTTG
1 TCAAGGCCTAAGGGCAAAATGGTCATTTTG
* * *
95193514 TCAAGGTCTAATGGCAAAGTGGTCATTTT
1 TCAAGGCCTAAGGGCAAAATGGTCATTTT
95193543 ACCAAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (30 bp):
TCAAGGCCTAAGGGCAAAATGGTCATTTTG
Found at i:95201132 original size:29 final size:30
Alignment explanation
Indices: 95201091--95201156 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
95201081 TTTGATAAAA
* *
95201091 ATCAATTT-TCAA-GTCTAAGGGTAAAATG
1 ATCATTTTGTCAAGGTCTAAGGGAAAAATG
* * *
95201119 GTCATTTTGTCAAGGTTTAGGGGAAAAATG
1 ATCATTTTGTCAAGGTCTAAGGGAAAAATG
95201149 ATCATTTT
1 ATCATTTT
95201157 ACCAAAGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 6 0.20
29 4 0.13
30 20 0.67
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (30 bp):
ATCATTTTGTCAAGGTCTAAGGGAAAAATG
Found at i:95201576 original size:47 final size:47
Alignment explanation
Indices: 95201501--95201727 Score: 198
Period size: 47 Copynumber: 4.9 Consensus size: 47
95201491 GGTCATTTGT
* * *
95201501 GAGAGCTAATGTAAGAGCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGAC
* *
95201549 GAGGGCTAGTGTAAGA-CATGTCAGGGACAT-GCATCGGCCTCGAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGAC
* * *
95201595 GTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTGCGAGAT
1 G-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGAC
* ** *
95201641 GATAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCTACTTGAGA-
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGAC
* * * * *
95201687 TATGAGCCAGTGTAAGATCGTGTCTAGGACATGGCATCGGC
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
95201728 ACCTTACCCT
Statistics
Matches: 149, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
45 3 0.02
46 62 0.42
47 63 0.42
48 21 0.14
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGAC
Found at i:95201595 original size:46 final size:47
Alignment explanation
Indices: 95201504--95201677 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 47
95201494 CATTTGTGAG
* * * *
95201504 AGCTAATGTAAGAGCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGA
* *
95201551 GGGCTAGTGTAAGA-CATGTCAGGGACAT-GCATCGGCCTCGAGACGTA
1 -AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACG-A
* * *
95201598 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CTGCGAGATGA
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGACGA
95201643 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 -AGCT-AGTGTAAGACCATGTCTGGGACATGGCATC
95201678 TACTTGAGAT
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
45 3 0.03
46 62 0.57
47 28 0.26
48 16 0.15
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.21
Consensus pattern (47 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGA
Found at i:95210490 original size:22 final size:22
Alignment explanation
Indices: 95210465--95210509 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
95210455 AGATACAAGT
95210465 AGATGTTGATCTTACTTGTAGG
1 AGATGTTGATCTTACTTGTAGG
95210487 AGATGTTGATCTTACTTGTAGG
1 AGATGTTGATCTTACTTGTAGG
95210509 A
1 A
95210510 TGAAAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.40
Consensus pattern (22 bp):
AGATGTTGATCTTACTTGTAGG
Found at i:95211964 original size:12 final size:12
Alignment explanation
Indices: 95211947--95211983 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
95211937 AAAATAGGGC
95211947 TTTAGCGGCGTT
1 TTTAGCGGCGTT
95211959 TTTAGCGGCGTT
1 TTTAGCGGCGTT
95211971 TTTAGCGGCGTT
1 TTTAGCGGCGTT
95211983 T
1 T
95211984 CATCAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.08, C:0.16, G:0.32, T:0.43
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:95212093 original size:41 final size:40
Alignment explanation
Indices: 95211990--95212167 Score: 205
Period size: 41 Copynumber: 4.4 Consensus size: 40
95211980 GTTTCATCAA
* ** * * *
95211990 AAAACGCCGCTAAAAATAGAGCAACAGTGGCG-TTTTAGT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGACGCTTTTGGT
95212029 AAAAAACGCCGCTAAAAACAGAGCATTAGCGACGCTTTTGGT
1 --AAAACGCCGCTAAAAACAGAGCATTAGCGACGCTTTTGGT
* *
95212071 AAAATGCCGCTAAAAACTAGAGCATTAGCGACGCTTTCGGT
1 AAAACGCCGCTAAAAAC-AGAGCATTAGCGACGCTTTTGGT
* * **
95212112 AAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTAAT
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGACGCTTTTGGT
95212153 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
95212168 GTCTTATAAC
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 16 0.13
41 97 0.81
42 7 0.06
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGACGCTTTTGGT
Found at i:95212345 original size:14 final size:14
Alignment explanation
Indices: 95212323--95212367 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
95212313 TTAATTATCA
*
95212323 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
95212337 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
95212351 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
95212365 TTA
1 TTA
95212368 AGCATGTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:95212358 original size:21 final size:21
Alignment explanation
Indices: 95212334--95212420 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 21
95212324 TATAGTTTAA
*
95212334 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
*
95212355 GGTTTAGGGTTTAAGCATGTTTAT
1 GGTTTAGGGTTTAAG-A--TATAT
* *
95212379 GAGTTAACTATGGTTTAAGATATAC
1 G-GTT---TAGGGTTTAAGATATAT
95212404 GGTTTAGGGTTTAAGAT
1 GGTTTAGGGTTTAAGAT
95212421 TTAGGAGTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
21 26 0.49
22 1 0.02
24 8 0.15
25 7 0.13
27 1 0.02
28 10 0.19
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.43
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:95212396 original size:49 final size:46
Alignment explanation
Indices: 95212338--95212434 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 46
95212328 GTTTAAGGTT
* *
95212338 TATGGTTTAAGATATATGGTTTAGGGTTTAAGCATGTTTATGAGTTAAC
1 TATGGTTTAAGATATACGGTTTAGGGTTTAAG-A--TTTAGGAGTTAAC
95212387 TATGGTTTAAGATATACGGTTTAGGGTTTAAGATTTAGGAGTTAAC
1 TATGGTTTAAGATATACGGTTTAGGGTTTAAGATTTAGGAGTTAAC
95212433 TA
1 TA
95212435 GTATTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 14 0.30
48 1 0.02
49 31 0.67
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.41
Consensus pattern (46 bp):
TATGGTTTAAGATATACGGTTTAGGGTTTAAGATTTAGGAGTTAAC
Found at i:95212957 original size:7 final size:7
Alignment explanation
Indices: 95212941--95212980 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
95212931 TATCATTATA
95212941 GTTTAGG
1 GTTTAGG
*
95212948 GTTTATG
1 GTTTAGG
95212955 GTTTAGG
1 GTTTAGG
* *
95212962 GTGTATG
1 GTTTAGG
95212969 GTTTAGG
1 GTTTAGG
95212976 GTTTA
1 GTTTA
95212981 ATTTTTAGTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:95212958 original size:14 final size:14
Alignment explanation
Indices: 95212936--95212980 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
95212926 TTAATTATCA
*
95212936 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
95212950 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
95212964 GTATGGTTTAGGGT
1 TTATGGTTTAGGGT
95212978 TTA
1 TTA
95212981 ATTTTTAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:95218774 original size:40 final size:40
Alignment explanation
Indices: 95218708--95218874 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
95218698 AAATTGAATG
* * *
95218708 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
95218747 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
95218787 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
95218827 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
95218867 ATATCCGG
1 ATATCCGG
95218875 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:95235221 original size:40 final size:40
Alignment explanation
Indices: 95235155--95235305 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
95235145 AAATTGAATG
* * *
95235155 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
95235194 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
95235234 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
95235274 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
95235306 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:95241061 original size:79 final size:80
Alignment explanation
Indices: 95240978--95241125 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
95240968 TATGGTAACC
* * *
95240978 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
95241041 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
95241057 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
95241122 CCGG
66 CCGG
95241126 TTATAATTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 1 0.02
79 30 0.53
80 26 0.46
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:95241070 original size:40 final size:40
Alignment explanation
Indices: 95241018--95241125 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
95241008 TATCACGATT
** *
95241018 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
95241058 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
95241098 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
95241126 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:95246681 original size:46 final size:46
Alignment explanation
Indices: 95246616--95246784 Score: 125
Period size: 46 Copynumber: 3.6 Consensus size: 46
95246606 ATCTCGTAGT
95246616 CGATGCATGT-TCCAGACATGTCTTACACTGGCTTATGTTTCGAGGC
1 CGATGCATGTCT-CAGACATGTCTTACACTGGCTTATGTTTCGAGGC
* * * * *
95246662 CGATGCATGTCTCACACATGTATTACACTAGC--ACTCGTCTCGATGC
1 CGATGCATGTCTCAGACATGTCTTACACTGGCTTA-T-GTTTCGAGGC
* * * * * *
95246708 CAATGCCATGTCCCAAACATGGTCTTACACTGACTCTCAT-ATT-GTGGC
1 CGATG-CATGTCTCAGACAT-GTCTTACACTGGCT-T-ATGTTTCGAGGC
95246756 CGATGCATGTC-CTAGACATGTCTTACACT
1 CGATGCATGTCTC-AGACATGTCTTACACT
95246785 AGCTCACACA
Statistics
Matches: 96, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 50 0.52
47 24 0.25
48 17 0.18
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CGATGCATGTCTCAGACATGTCTTACACTGGCTTATGTTTCGAGGC
Found at i:95249554 original size:14 final size:14
Alignment explanation
Indices: 95249530--95249573 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
95249520 CAAAATGTAC
95249530 AATAT-AATTAAAT
1 AATATAAATTAAAT
95249543 AATATAAATTAAAT
1 AATATAAATTAAAT
* * *
95249557 TATATAATTTAATT
1 AATATAAATTAAAT
95249571 AAT
1 AAT
95249574 TATTTACTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATAAATTAAAT
Found at i:95249570 original size:13 final size:13
Alignment explanation
Indices: 95249531--95249571 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
95249521 AAAATGTACA
*
95249531 ATATAATTAAATA
1 ATATAATTAAATT
95249544 ATATAAATTAAATT
1 ATAT-AATTAAATT
*
95249558 ATATAATTTAATT
1 ATATAATTAAATT
95249571 A
1 A
95249572 ATTATTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATAATTAAATT
Found at i:95253394 original size:35 final size:36
Alignment explanation
Indices: 95253336--95253404 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 36
95253326 TGATTCTGAC
95253336 CTGCATATCTGTATCTTAGATGGGCTTAAGCCCGAAT
1 CTGCATA-CTGTATCTTAGATGGGCTTAAGCCCGAAT
*
95253373 CTGCATA-TGTATCTATA-ATGGGCTTAGGCCCG
1 CTGCATACTGTATCT-TAGATGGGCTTAAGCCCG
95253405 CTTTTGTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 21 0.70
36 2 0.07
37 7 0.23
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (36 bp):
CTGCATACTGTATCTTAGATGGGCTTAAGCCCGAAT
Found at i:95254176 original size:8 final size:8
Alignment explanation
Indices: 95254163--95254216 Score: 69
Period size: 8 Copynumber: 7.1 Consensus size: 8
95254153 ACTTAAGTAT
95254163 ATAATATA
1 ATAATATA
95254171 ATAATATA
1 ATAATATA
*
95254179 TTAATATA
1 ATAATATA
95254187 ATAATATA
1 ATAATATA
95254195 AT--T-TA
1 ATAATATA
95254200 ATAATATA
1 ATAATATA
*
95254208 ATAAAATA
1 ATAATATA
95254216 A
1 A
95254217 ATAAAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.10
6 1 0.03
7 1 0.03
8 34 0.85
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:95254185 original size:16 final size:15
Alignment explanation
Indices: 95254160--95254234 Score: 66
Period size: 16 Copynumber: 5.0 Consensus size: 15
95254150 AAAACTTAAG
95254160 TATATAATATAATAA
1 TATATAATATAATAA
95254175 TATATTAATATAAT-A
1 TATA-TAATATAATAA
*
95254190 -ATATAATTTAATAA
1 TATATAATATAATAA
*
95254204 TATAATAAAATAAATAA
1 TAT-ATAATAT-AATAA
* *
95254221 AATA-AATAAAATAA
1 TATATAATATAATAA
95254235 AGAAATAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
13 8 0.16
14 9 0.18
15 10 0.20
16 15 0.31
17 7 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TATATAATATAATAA
Found at i:95254187 original size:13 final size:13
Alignment explanation
Indices: 95254161--95254225 Score: 69
Period size: 13 Copynumber: 4.8 Consensus size: 13
95254151 AAACTTAAGT
95254161 ATATAATATAATAA
1 ATATAATATAAT-A
95254175 TATATTAATATAATA
1 -ATA-TAATATAATA
*
95254190 ATATAATTTAATA
1 ATATAATATAATA
*
95254203 ATATAATAAAATA
1 ATATAATATAATA
*
95254216 A-ATAAAATAA
1 ATATAATATAA
95254226 ATAAAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
12 7 0.16
13 21 0.48
14 3 0.07
15 4 0.09
16 9 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:95254221 original size:9 final size:9
Alignment explanation
Indices: 95254202--95254250 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
95254192 ATAATTTAAT
95254202 AATATAATAA
1 AATA-AATAA
95254212 AATAAATAA
1 AATAAATAA
95254221 AATAAATAA
1 AATAAATAA
*
95254230 AATAAAGAA
1 AATAAATAA
*
95254239 ATAAAAATAA
1 A-ATAAATAA
95254249 AA
1 AA
95254251 GAAACAGAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
9 24 0.69
10 11 0.31
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (9 bp):
AATAAATAA
Found at i:95254280 original size:27 final size:26
Alignment explanation
Indices: 95254250--95254301 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
95254240 TAAAAATAAA
*
95254250 AGAAACAGAGAAAGAAACGAAAAAGAG
1 AGAAACAAAGAAAGAAA-GAAAAAGAG
* *
95254277 AGAAAGAAAGAAGGAAAGAAAAAGA
1 AGAAACAAAGAAAGAAAGAAAAAGA
95254302 AAAGGAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.69, C:0.04, G:0.27, T:0.00
Consensus pattern (26 bp):
AGAAACAAAGAAAGAAAGAAAAAGAG
Found at i:95259189 original size:46 final size:45
Alignment explanation
Indices: 95259133--95259305 Score: 138
Period size: 46 Copynumber: 3.8 Consensus size: 45
95259123 TTTGGCATCC
*
95259133 GAGCTTGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAATGTCT
1 GAGCTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATG-GAATGTCT
* * * *
95259179 GAGCTCGTTGAGTTGAGTCCGAGTT-CGTGA--GATGTAACTAGGGATCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGGAA-T---G-TCT
* * *
95259226 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG-CT
1 GAGCTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATG-GAATGTCT
* ** *
95259271 CGAACTATTTGAGTTGAGTCCGAGTTCGCTTATGG
1 -GAGCTCGTTGAGTTGAGTCCGAGTTCCCTTATGG
95259306 GTGGGTTACA
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 54 0.54
47 27 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (45 bp):
GAGCTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGGAATGTCT
Found at i:95259288 original size:93 final size:93
Alignment explanation
Indices: 95259129--95259298 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
95259119 ATATTTTGGC
* * * * *
95259129 ATCCGAGCTTGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAATGTCTGAGCTCGTTGAGTTG
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTAGTTGAGTTG
95259194 AGTCCGAGTTCGTGAGATGTAACTAGGG
66 AGTCCGAGTTCGTGAGATGTAACTAGGG
* * *
95259222 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG-CTCGAACTATTTGAGTT
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT-GAACTAGTTGAGTT
95259286 GAGTCCGAGTTCG
65 GAGTCCGAGTTCG
95259299 CTTATGGGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.32
Consensus pattern (93 bp):
ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTAGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGG
Found at i:95271889 original size:90 final size:90
Alignment explanation
Indices: 95271736--95271912 Score: 311
Period size: 90 Copynumber: 2.0 Consensus size: 90
95271726 GATGTGTGTC
* *
95271736 ACACACGGCCTAGACACATGCTCATGTGTCTACCTGTGTGGACAATATAAGGCTATTTACCAAGC
1 ACACACGACCTAGACACATGCTCATGTGTCTACCCGTGTGGACAATATAAGGCTATTTACCAAGC
95271801 TTCTTTGCCACCCTTACTTACACTG
66 TTCTTTGCCACCCTTACTTACACTG
*
95271826 ACACACGACCTAGACACATGC-CTGTGTGTCTACCCGTGTGGACAATATAAGGCTATTTACCAAG
1 ACACACGACCTAGACACATGCTC-ATGTGTCTACCCGTGTGGACAATATAAGGCTATTTACCAAG
95271890 CTTCTTTGCCACCCTTACTTACA
65 CTTCTTTGCCACCCTTACTTACA
95271913 GAACCTACAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
89 1 0.01
90 82 0.99
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (90 bp):
ACACACGACCTAGACACATGCTCATGTGTCTACCCGTGTGGACAATATAAGGCTATTTACCAAGC
TTCTTTGCCACCCTTACTTACACTG
Found at i:95273450 original size:46 final size:46
Alignment explanation
Indices: 95273395--95273575 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
95273385 TAGGATGGTT
95273395 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
95273441 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
95273487 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
95273534 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95273576 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:95273556 original size:93 final size:93
Alignment explanation
Indices: 95273397--95273567 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
95273387 GGATGGTTGA
* *
95273397 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
95273462 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
95273490 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
95273555 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
95273568 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95276549 original size:15 final size:15
Alignment explanation
Indices: 95276529--95276597 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
95276519 GTATCTTGGG
95276529 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
95276544 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
95276559 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
95276574 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
95276589 TTTCTTTAT
1 TTTCTTTAT
95276598 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:95276598 original size:30 final size:30
Alignment explanation
Indices: 95276520--95276607 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
95276510 CATAGTATCG
* * * *
95276520 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
95276550 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
95276580 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
95276608 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:95279038 original size:46 final size:46
Alignment explanation
Indices: 95278983--95279163 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
95278973 TAGGATGGTT
95278983 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
95279029 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
95279075 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
95279122 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95279164 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:95279144 original size:93 final size:93
Alignment explanation
Indices: 95278985--95279155 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
95278975 GGATGGTTGA
* *
95278985 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
95279050 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
95279078 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
95279143 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
95279156 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95281019 original size:46 final size:47
Alignment explanation
Indices: 95280927--95281102 Score: 152
Period size: 47 Copynumber: 3.7 Consensus size: 47
95280917 GTGGGTAAGG
* *
95280927 TGCTGATGCCATGTCCCAAACACGGTCTTACACTAGGTCATATCTC-A
1 TGCTGATGCCATGTCCCAGACA-TGTCTTACACTAGGTCATATCTCAA
* * *
95280974 TGTTGATGCCATGTCCCAGATATGTCTTACACTA-G-CACTCGTCTCAA
1 TGCTGATGCCATGTCCCAGACATGTCTTACACTAGGTCA-T-ATCTCAA
* *
95281021 TGCTAATGCCATGTCCCAGACATGGTCTTACACT-GGCTCCCATAATGT---
1 TGCTGATGCCATGTCCCAGACAT-GTCTTACACTAGG-T--CAT-ATCTCAA
*
95281069 GGCTGATG-CATGTCCCAGACATGTCTTACACTAG
1 TGCTGATGCCATGTCCCAGACATGTCTTACACTAG
95281103 CCCATAATAA
Statistics
Matches: 106, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
44 2 0.02
45 2 0.02
46 25 0.24
47 55 0.52
48 17 0.16
51 3 0.03
52 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
TGCTGATGCCATGTCCCAGACATGTCTTACACTAGGTCATATCTCAA
Found at i:95286481 original size:20 final size:21
Alignment explanation
Indices: 95286456--95286496 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
95286446 TTATTCCCAA
95286456 AAACTTTTTA-TTTTC-CCCTT
1 AAAC-TTTTACTTTTCACCCTT
95286476 AAACTTTTACTTTTCACCCTT
1 AAACTTTTACTTTTCACCCTT
95286497 TACACTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (21 bp):
AAACTTTTACTTTTCACCCTT
Found at i:95286749 original size:86 final size:86
Alignment explanation
Indices: 95286659--95286832 Score: 321
Period size: 86 Copynumber: 2.0 Consensus size: 86
95286649 ATTAAAATTG
* *
95286659 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATCAGTTTCACATTTTA
1 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
95286724 TCTTTAAAATAACTTTTATTA
66 TCTTTAAAATAACTTTTATTA
*
95286745 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCATATTTTA
1 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
95286810 TCTTTAAAATAACTTTTATTA
66 TCTTTAAAATAACTTTTATTA
95286831 AA
1 AA
95286833 AAATCACATT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (86 bp):
AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
TCTTTAAAATAACTTTTATTA
Found at i:95287200 original size:5 final size:5
Alignment explanation
Indices: 95287190--95287221 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
95287180 AAATTTTTTC
*
95287190 ATTCG ATTCG ATTCG ATTCA ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AT
95287222 CGAACGCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:95292837 original size:27 final size:26
Alignment explanation
Indices: 95292800--95292914 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
95292790 AGCATGGCTG
* *
95292800 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
95292826 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
95292854 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
95292881 CCAGATCAGATATTTGTGGCATAACCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
95292908 CCAGAAC
1 CCAGAAC
95292915 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.73
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:95292859 original size:54 final size:54
Alignment explanation
Indices: 95292800--95292914 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
95292790 AGCATGGCTG
*
95292800 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
95292854 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
95292908 CCAGAAC
1 CCAGAAC
95292915 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:95294569 original size:26 final size:26
Alignment explanation
Indices: 95294533--95294694 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
95294523 AATGAAATTC
*
95294533 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
95294559 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
95294585 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
95294611 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
95294637 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
95294663 TTATCATGAAACATTTACCTAGCCTA
1 TTATCATGAAACATTTACCTAACCTA
95294689 TTATCA
1 TTATCA
95294695 ATTTGTATCA
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 132 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:95298730 original size:54 final size:54
Alignment explanation
Indices: 95298671--95298785 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
95298661 AGCATGGCTG
*
95298671 CCAGAACAGATA-ATGTGACAGAGTC-ACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAG-CGACCAGAT-CAGATAATCGTAGCAGAGCCA
* * * *
95298725 CCAGAACAGATATATGTGGCAGAGCGACCAGATCAGATATTTGTAGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCGACCAGATCAGATAATCGTAGCAGAGCCA
95298779 CCAGAAC
1 CCAGAAC
95298786 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCGACCAGATCAGATAATCGTAGCAGAGCCA
Found at i:95298764 original size:27 final size:26
Alignment explanation
Indices: 95298671--95298785 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
95298661 AGCATGGCTG
* *
95298671 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
95298697 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
95298725 CCAGAACAGATATATGTGGCAGAGCGA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
95298752 CCAGATCAGATATTTGTAGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
95298779 CCAGAAC
1 CCAGAAC
95298786 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.06
27 55 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:95300431 original size:26 final size:26
Alignment explanation
Indices: 95300395--95300563 Score: 230
Period size: 26 Copynumber: 6.3 Consensus size: 26
95300385 CATGAAATTC
95300395 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
95300421 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
95300447 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
95300473 TTATCATGGAACATTTACCTAACCCATTA
1 TTATCATGAAACATTTACCTAACCC---A
* *
95300502 CCTATATCATGGAACATTTACCTAACCTA
1 --T-TATCATGAAACATTTACCTAACCCA
*
95300531 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
95300557 TTATCAT
1 TTATCAT
95300564 TTGTATCAAT
Statistics
Matches: 132, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
26 105 0.80
27 1 0.01
29 2 0.02
31 1 0.01
32 23 0.17
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:95300511 original size:32 final size:32
Alignment explanation
Indices: 95300468--95300559 Score: 115
Period size: 32 Copynumber: 3.0 Consensus size: 32
95300458 CATTTACCTA
95300468 ACCTATTATCATGGAACATTTACCTAACCCATT
1 ACCTA-TATCATGGAACATTTACCTAACCCATT
95300501 ACCTATATCATGGAACATTTACCTAA-CC--T
1 ACCTATATCATGGAACATTTACCTAACCCATT
* *
95300530 A--T-TATCATGAAACATTTACCTAACCTATT
1 ACCTATATCATGGAACATTTACCTAACCCATT
95300559 A
1 A
95300560 TCATTTGTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
26 20 0.37
27 2 0.04
29 4 0.07
31 2 0.04
32 21 0.39
33 5 0.09
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (32 bp):
ACCTATATCATGGAACATTTACCTAACCCATT
Found at i:95300518 original size:58 final size:55
Alignment explanation
Indices: 95300395--95300560 Score: 248
Period size: 58 Copynumber: 3.0 Consensus size: 55
95300385 CATGAAATTC
* *
95300395 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCC---A
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTA
*
95300447 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCCATTA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTA
*
95300502 CCTATATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCTATTA
1 --T-TATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTA
95300560 T
1 T
95300561 CATTTGTATC
Statistics
Matches: 103, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
52 48 0.47
55 1 0.01
56 1 0.01
57 1 0.01
58 52 0.50
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (55 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTA
Found at i:95300535 original size:84 final size:78
Alignment explanation
Indices: 95300395--95300563 Score: 248
Period size: 84 Copynumber: 2.1 Consensus size: 78
95300385 CATGAAATTC
*
95300395 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGAAACA
95300460 TTTACCTAACCTA
66 TTTACCTAACCTA
* * *
95300473 TTATCATGGAACATTTACCTAACCCATTACCTATATCATGGAACATTTACCTAACCTATTATCAT
1 TTATCATGAAACATTTACCTAACCC---A--T-TATCATGAAACATTTACCTAACCCATTATCAT
95300538 GAAACATTTACCTAACCTA
60 GAAACATTTACCTAACCTA
95300557 TTATCAT
1 TTATCAT
95300564 TTGTATCAAT
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
78 24 0.30
81 1 0.01
83 1 0.01
84 55 0.68
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGAAACA
TTTACCTAACCTA
Found at i:95304588 original size:27 final size:26
Alignment explanation
Indices: 95304526--95304640 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
95304516 AGCATGGCTG
* *
95304526 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
95304552 CCAAATACAGATAATCGTGCCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
95304580 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
95304607 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
95304634 CCAGAAC
1 CCAGAAC
95304641 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.05
27 57 0.74
28 16 0.21
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:95304590 original size:54 final size:54
Alignment explanation
Indices: 95304526--95304640 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
95304516 AGCATGGCTG
*
95304526 CCAGAACAGATA-ATGTGACAGAGTCACCAAATACAGATAATCGTGCCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGCCAGAGCCA
* * * * * *
95304580 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGCCAGAGCCA
95304634 CCAGAAC
1 CCAGAAC
95304641 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGCCAGAGCCA
Found at i:95307782 original size:28 final size:27
Alignment explanation
Indices: 95307715--95307783 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 27
95307705 ATAGTGAGTC
95307715 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
95307742 CGCACACTCAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
95307770 CGCACACTTAGTGC
1 CGCACACTTAGTGC
95307784 CAATCTCATG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:95308665 original size:26 final size:26
Alignment explanation
Indices: 95308629--95308764 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
95308619 CATGAAATTC
* *
95308629 TTATCATGAAACATTTTCCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
95308655 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
95308681 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
95308707 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
95308733 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
95308759 TTATCA
1 TTATCA
95308765 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:95313828 original size:25 final size:25
Alignment explanation
Indices: 95313795--95313844 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
95313785 GTAATAAATA
95313795 AGAAAAATATCTCTAGA-AATTTTCT
1 AGAAAAATATCT-TAGAGAATTTTCT
* *
95313820 AGAATAATATGTTAGAGAATTTTCT
1 AGAAAAATATCTTAGAGAATTTTCT
95313845 CTCTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (25 bp):
AGAAAAATATCTTAGAGAATTTTCT
Found at i:95320381 original size:27 final size:27
Alignment explanation
Indices: 95320108--95320384 Score: 254
Period size: 27 Copynumber: 10.3 Consensus size: 27
95320098 TAGTTTACAA
* *
95320108 AATTACTGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
95320135 AATTACTAAAATGCCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * ** *
95320162 AATTAACAAAATACCCTTGGT-TTGTAA
1 AATTACCGAAATACCCTT-GTAGGGTAG
* ** *
95320189 AATTACCAAAATACCCTTG--GTTTACAA
1 AATTACCGAAATACCCTTGTAGGGT--AG
* * *
95320216 AATTACCAAAATACCCTTGGAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
95320243 AATTACTGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
95320270 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
95320297 AATTATCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
95320324 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
95320351 AATTACCGAGATACCCTTGTGGGGAAA
1 AATTACCGAAATACCCTTGTAGGGTAG
95320378 AATTACC
1 AATTACC
95320385 ATTTTGCCCC
Statistics
Matches: 210, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.01
26 1 0.00
27 203 0.97
28 2 0.01
29 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:95320629 original size:25 final size:25
Alignment explanation
Indices: 95320589--95320658 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
95320579 AGGAAGTGCG
95320589 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
95320614 AAAAGGGCATTACCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
95320639 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
95320659 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:95320671 original size:24 final size:24
Alignment explanation
Indices: 95320639--95320685 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
95320629 CAGTTTACCA
**
95320639 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
95320662 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
95320686 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:95322916 original size:27 final size:27
Alignment explanation
Indices: 95322778--95323027 Score: 234
Period size: 27 Copynumber: 9.3 Consensus size: 27
95322768 TAGTTTACAA
* * * *
95322778 AATTACTGAAATGCCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * * * *
95322805 AATTACTAAAATGCCCCTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* ****
95322832 AATTACCAAAATACCCTTGGTTTACTA-
1 AATTACCGAAATACCCTT-GTAGGGTAG
* * * *
95322859 AATTACCAAAATACCCCTAG-AGGCTAA
1 AATTACCGAAATA-CCCTTGTAGGGTAG
*
95322886 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
95322913 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
95322940 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
95322967 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
95322994 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
95323021 AATTACC
1 AATTACC
95323028 ATTTTGCCCC
Statistics
Matches: 190, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
26 8 0.04
27 175 0.92
28 7 0.04
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:95323288 original size:24 final size:25
Alignment explanation
Indices: 95323231--95323288 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
95323221 AAGAAGTGCG
95323231 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTACC
**
95323255 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTACC
95323279 AAAAGAGGCT
1 AAAAGAGGCT
95323289 AGGCCTCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTACC
Found at i:95328907 original size:32 final size:32
Alignment explanation
Indices: 95328861--95328924 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
95328851 ACATGACCTG
95328861 CCACACGGCTGTTTGACACTGATAAAATACTT
1 CCACACGGCTGTTTGACACTGATAAAATACTT
95328893 CCACACGG-TCGTTTGACACTGATAAAATACTT
1 CCACACGGCT-GTTTGACACTGATAAAATACTT
95328925 TCATATTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (32 bp):
CCACACGGCTGTTTGACACTGATAAAATACTT
Found at i:95329900 original size:15 final size:14
Alignment explanation
Indices: 95329877--95329911 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
95329867 TCACTTGACA
95329877 AAATTTTCTAACCC
1 AAATTTTCTAACCC
95329891 AAATTCTTCTAACCC
1 AAATT-TTCTAACCC
95329906 -AATTTT
1 AAATTTT
95329912 TAGGATGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 9 0.45
15 9 0.45
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATTTTCTAACCC
Found at i:95331029 original size:12 final size:12
Alignment explanation
Indices: 95331012--95331037 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95331002 CCCACATCAG
95331012 ATTTTCACAAAA
1 ATTTTCACAAAA
95331024 ATTTTCACAAAA
1 ATTTTCACAAAA
95331036 AT
1 AT
95331038 CAGAAATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTTTCACAAAA
Found at i:95337131 original size:77 final size:78
Alignment explanation
Indices: 95337044--95337247 Score: 313
Period size: 77 Copynumber: 2.6 Consensus size: 78
95337034 TGGACAATTT
* * * *
95337044 TATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTATATCTGGGCTAAGTCCTGAAGGCATT
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCATT
95337109 CGTGCTGGTGTTA
66 CGTGCTGGTGTTA
95337122 TATCC-GGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCATT
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCATT
95337186 CGTGCTGGTGTTA
66 CGTGCTGGTGTTA
* * * *
95337199 TATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTATTATATTCGGGCT
1 TATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCT
95337248 TAAAGTCCCG
Statistics
Matches: 116, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
77 73 0.63
78 31 0.27
79 12 0.10
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.30
Consensus pattern (78 bp):
TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCATT
CGTGCTGGTGTTA
Found at i:95337268 original size:40 final size:39
Alignment explanation
Indices: 95337044--95337257 Score: 315
Period size: 39 Copynumber: 5.5 Consensus size: 39
95337034 TGGACAATTT
*
95337044 TATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
* *
95337083 TATCTGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
95337122 TATCC-GGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
*
95337160 TATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
* * *
95337199 TATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTATTA
1 TATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTGTTA
*
95337238 TATTCGGGCTTAAAGTCCCG
1 TATCCGGGC-T-AAGTCCCG
95337258 CATGCTTTGT
Statistics
Matches: 161, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 37 0.23
39 103 0.64
40 21 0.13
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
Found at i:95343139 original size:39 final size:39
Alignment explanation
Indices: 95343086--95343316 Score: 288
Period size: 39 Copynumber: 5.9 Consensus size: 39
95343076 TGGAGAATTT
*
95343086 TATCC-GGCTAAGTCCCGAAGGAATTTGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
* *
95343124 TATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
* *
95343163 TATCCGGGCTAAGCCCCTAAGGCATTTGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
* *
95343202 TATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
* * *
95343241 TATTCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTATTA
1 TATCCGGGCT-AAGTCCCGAAGGCATTTGTGCTGGTGTTA
* * * *
95343280 TATTCGGGCTTAAAGTCCCGCATGC-TTTGTGGTGGTG
1 TATCCGGGC-T-AAGTCCCGAAGGCATTTGTGCTGGTG
95343317 ATTGGATTTG
Statistics
Matches: 172, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 5 0.03
39 133 0.77
40 34 0.20
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.32
Consensus pattern (39 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
Found at i:95352850 original size:21 final size:21
Alignment explanation
Indices: 95352826--95352868 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
95352816 AAGAACACTT
95352826 TATCTCCAACTTGAAATTCGA
1 TATCTCCAACTTGAAATTCGA
95352847 TATCTCCAACTTGAAATTCGA
1 TATCTCCAACTTGAAATTCGA
95352868 T
1 T
95352869 CTCCTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (21 bp):
TATCTCCAACTTGAAATTCGA
Found at i:95354796 original size:29 final size:29
Alignment explanation
Indices: 95354754--95354813 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
95354744 TCGTCTAAGT
95354754 ATGGCCAGAATATCCTATTCATCAAGCCC
1 ATGGCCAGAATATCCTATTCATCAAGCCC
*
95354783 ATGGCCAGAATATCCTATTCATCAAGTCC
1 ATGGCCAGAATATCCTATTCATCAAGCCC
95354812 AT
1 AT
95354814 AAATACAGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (29 bp):
ATGGCCAGAATATCCTATTCATCAAGCCC
Found at i:95358566 original size:38 final size:38
Alignment explanation
Indices: 95358523--95358597 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
95358513 ACCATAAAAG
95358523 ATATTCATGCCAAACATGCATAGTATAAATTCCCTATT
1 ATATTCATGCCAAACATGCATAGTATAAATTCCCTATT
95358561 ATATTCATGCCAAACATGCATAGTATAAATTCCCTAT
1 ATATTCATGCCAAACATGCATAGTATAAATTCCCTAT
95358598 CACATACACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.33
Consensus pattern (38 bp):
ATATTCATGCCAAACATGCATAGTATAAATTCCCTATT
Found at i:95358804 original size:20 final size:20
Alignment explanation
Indices: 95358779--95358818 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
95358769 AATATACACT
95358779 CCTGTGAACCTCACTCTTAC
1 CCTGTGAACCTCACTCTTAC
95358799 CCTGTGAACCTCACTCTTAC
1 CCTGTGAACCTCACTCTTAC
95358819 AGCGAGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.10, T:0.30
Consensus pattern (20 bp):
CCTGTGAACCTCACTCTTAC
Found at i:95362708 original size:29 final size:30
Alignment explanation
Indices: 95362646--95362702 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
95362636 TAAATAAAAA
95362646 AATATAATGATAAATTTTAATATTCATTTAT
1 AATATAATGATAAATTTTAATATT-ATTTAT
95362677 AATATAATGA-AAATTTT-ATATT-TTTA
1 AATATAATGATAAATTTTAATATTATTTA
95362703 ACTAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 4 0.15
29 5 0.19
30 7 0.27
31 10 0.38
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (30 bp):
AATATAATGATAAATTTTAATATTATTTAT
Found at i:95364122 original size:13 final size:13
Alignment explanation
Indices: 95364104--95364128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95364094 AAGAGTTATT
95364104 AATTAAAAATATG
1 AATTAAAAATATG
95364117 AATTAAAAATAT
1 AATTAAAAATAT
95364129 AAAAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATTAAAAATATG
Found at i:95365161 original size:37 final size:35
Alignment explanation
Indices: 95365105--95365173 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
95365095 AAAGTTTGCG
* *
95365105 CTCTCTTTTACATTTTATTTGTTTATTGATGTGTT
1 CTCTCTTTTACATTTTATTTATTGATTGATGTGTT
*
95365140 CTCTCTTTGTACTTTTTTATTTATTGATTGATGT
1 CTCTCTTT-TAC-ATTTTATTTATTGATTGATGT
95365174 TTGTGTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 8 0.28
36 3 0.10
37 18 0.62
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.62
Consensus pattern (35 bp):
CTCTCTTTTACATTTTATTTATTGATTGATGTGTT
Found at i:95366852 original size:12 final size:12
Alignment explanation
Indices: 95366832--95366864 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
95366822 TGTGTCATCG
*
95366832 CACACGGCCTAC
1 CACATGGCCTAC
95366844 CACATGGCCTAC
1 CACATGGCCTAC
95366856 CACATGGCC
1 CACATGGCC
95366865 GTGTGGCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.12
Consensus pattern (12 bp):
CACATGGCCTAC
Found at i:95375790 original size:19 final size:19
Alignment explanation
Indices: 95375754--95375792 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
95375744 CTATTTTAAT
*
95375754 TTTTACTTTATTTTTTTTC
1 TTTTACTTTATTTCTTTTC
95375773 TTTTACTTT-TTCTCTTTTC
1 TTTTACTTTATT-TCTTTTC
95375792 T
1 T
95375793 CCACAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTACTTTATTTCTTTTC
Found at i:95392027 original size:40 final size:40
Alignment explanation
Indices: 95391865--95392066 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
95391855 CGAATGATGT
*
95391865 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
95391905 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
95391944 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
95391982 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
95392023 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
95392063 CCGG
1 CCGG
95392067 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:95392029 original size:78 final size:79
Alignment explanation
Indices: 95391864--95392015 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
95391854 TCGAATGATG
* * *
95391864 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
95391929 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
95391944 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
95392007 GTGCAAGTC
65 GTGCAAGTC
95392016 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:95396306 original size:40 final size:39
Alignment explanation
Indices: 95396262--95396479 Score: 235
Period size: 40 Copynumber: 5.5 Consensus size: 39
95396252 GCTCGATTGT
* * *
95396262 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
95396302 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
*
95396342 CTTCGGGACTTA-CCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
95396381 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
95396421 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
95396462 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
95396480 ACACCATTCG
Statistics
Matches: 155, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 38 0.25
40 89 0.57
41 27 0.17
42 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:95396382 original size:79 final size:79
Alignment explanation
Indices: 95396248--95396480 Score: 268
Period size: 79 Copynumber: 2.9 Consensus size: 79
95396238 GGATATAGCG
* * * * * * * * *
95396248 ACTCGCTCGATTGTCTTCGGGACATTGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGAC-TTACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTT
95396313 AGCCCGGATTTAGTA
65 AGCCCGGATTTAGTA
*
95396328 ACTCGCACGAATGCCTTCGGGACTTACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTA
1 ACTCGCACGAATGCCTTCGGGACTTACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTA
* * *
95396393 ACCCGGTTTTGGTA
66 GCCCGGATTTAGTA
* * * * * *
95396407 ACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACT
1 ACTCGCACGAATGCCTTCGGGACTT-ACCCGGTTTTAGTAAC-TCGCACAAATGCCTTCGGGACT
95396472 TAGCCCGGA
64 TAGCCCGGA
95396481 CACCATTCGA
Statistics
Matches: 129, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 69 0.53
80 33 0.26
81 27 0.21
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
ACTCGCACGAATGCCTTCGGGACTTACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTA
GCCCGGATTTAGTA
Found at i:95404355 original size:40 final size:39
Alignment explanation
Indices: 95404311--95404528 Score: 226
Period size: 40 Copynumber: 5.5 Consensus size: 39
95404301 GCTCGATTGT
* * *
95404311 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
95404351 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
95404391 CTTC-GGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
95404430 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
95404470 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
95404511 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
95404529 ACACCATTCG
Statistics
Matches: 154, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 36 0.23
40 90 0.58
41 27 0.18
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:95404418 original size:39 final size:40
Alignment explanation
Indices: 95404339--95404528 Score: 238
Period size: 40 Copynumber: 4.8 Consensus size: 40
95404329 TTATAGTGAT
* * * * *
95404339 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
*
95404379 TCGCACGAATGCCTTC-GGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
95404418 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
* * * * *
95404458 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
* * *
95404498 TTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 -TCGCACAAATGCCTTCGGGACTTAACCCGG
95404529 ACACCATTCG
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 34 0.26
40 72 0.55
41 25 0.19
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
Found at i:95404431 original size:79 final size:81
Alignment explanation
Indices: 95404338--95404529 Score: 253
Period size: 79 Copynumber: 2.4 Consensus size: 81
95404328 GTTATAGTGA
* * * *
95404338 TTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTTC-GGACTTA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTA
* *
95404402 ACCCGGTTTTGGTAAC
66 ACCCGGATTTAGTAAC
* * * *
95404418 -TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTG
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTA
*
95404482 ACCCGGATTTAGTCAC
66 ACCCGGATTTAGTAAC
* *
95404498 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGA
95404530 CACCATTCGA
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 50 0.53
80 18 0.19
81 27 0.28
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTA
ACCCGGATTTAGTAAC
Found at i:95410069 original size:5 final size:5
Alignment explanation
Indices: 95410048--95410100 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
95410038 TGTTAAAATA
* *
95410048 TATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
95410096 TATAT
1 TATAT
95410101 AAATAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.76
6 6 0.15
7 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:95410079 original size:10 final size:9
Alignment explanation
Indices: 95410045--95410101 Score: 59
Period size: 8 Copynumber: 6.6 Consensus size: 9
95410035 ATGTGTTAAA
95410045 ATATATATT
1 ATATATATT
*
95410054 AAAT-TATT
1 ATATATATT
95410062 AT-TATATT
1 ATATATATT
95410070 ATAGTATATT
1 ATA-TATATT
95410080 ATAT-TA-T
1 ATATATATT
95410087 ATATTATATT
1 ATA-TATATT
95410097 ATATA
1 ATATA
95410102 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.35
9 8 0.20
10 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:95410091 original size:12 final size:12
Alignment explanation
Indices: 95410046--95410101 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
95410036 TGTGTTAAAA
*
95410046 TATATATTAAAT
1 TATATATTATAT
95410058 TAT-TATTATATT
1 TATATATTATA-T
95410070 ATAGTATATTATAT
1 -TA-TATATTATAT
95410084 TATATATTATAT
1 TATATATTATAT
95410096 TATATA
1 TATATA
95410102 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:95411434 original size:18 final size:19
Alignment explanation
Indices: 95411413--95411451 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
95411403 ATATATAGAT
95411413 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
95411431 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
95411450 AT
1 AT
95411452 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:95411801 original size:39 final size:39
Alignment explanation
Indices: 95411691--95411825 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
95411681 GACCTCGAGT
* * * *
95411691 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
95411732 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
95411770 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
95411809 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
95411826 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:95411969 original size:18 final size:19
Alignment explanation
Indices: 95411948--95411988 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
95411938 AATGAAATGA
95411948 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
95411966 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
95411985 GAAA
1 GAAA
95411989 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:95416494 original size:5 final size:5
Alignment explanation
Indices: 95416473--95416520 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
95416463 TGTTAAAATA
* *
95416473 TATAT TAAAT TATTAT TATAT TATAG TATATT ATATAT TATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATA-T -TATAT TATAT TATAT
95416521 ATAAATAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 27 0.75
6 5 0.14
7 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:95416514 original size:12 final size:12
Alignment explanation
Indices: 95416471--95416522 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
95416461 TGTGTTAAAA
*
95416471 TATATATTAAAT
1 TATATATTATAT
95416483 TAT-TATTATA-
1 TATATATTATAT
*
95416493 T-TATAGTATAT
1 TATATATTATAT
95416504 TATATATTATAT
1 TATATATTATAT
95416516 TATATAT
1 TATATAT
95416523 AAATAAGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 1 0.03
10 7 0.21
11 7 0.21
12 19 0.56
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TATATATTATAT
Found at i:95419352 original size:41 final size:40
Alignment explanation
Indices: 95419134--95419353 Score: 212
Period size: 40 Copynumber: 5.5 Consensus size: 40
95419124 GCTCGATTGT
* * **
95419134 CTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAAAGC
* *
95419174 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAAGC
* * * *
95419214 CTTCGGGACTTAACCTGGTTTTGGTAACTCGCA-AAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAA-GC
* * * * *
95419254 GTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAAGC
* ** *
95419294 CTTCGGGAATT-GACCCGGATTTAGTCGCTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAAAGC
95419335 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
95419354 CACCATTCGA
Statistics
Matches: 151, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.02
40 116 0.77
41 31 0.21
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAAGC
Found at i:95427273 original size:40 final size:39
Alignment explanation
Indices: 95427229--95427447 Score: 226
Period size: 40 Copynumber: 5.5 Consensus size: 39
95427219 GCTCGATTGT
* *
95427229 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
95427269 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
95427309 CTTCGGGACTTAACCCAGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCC-GGTTTAGTAACTCGCACAAATGC
* * *
95427349 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
95427389 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
95427430 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
95427448 ACACCATTCG
Statistics
Matches: 154, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.02
40 123 0.80
41 26 0.17
42 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:95427341 original size:80 final size:80
Alignment explanation
Indices: 95427229--95427448 Score: 278
Period size: 80 Copynumber: 2.7 Consensus size: 80
95427219 GCTCGATTGT
* * * * * *
95427229 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
95427294 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* * * * *
95427309 CTTCGGGACTTAACCCAGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
95427374 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* * * * * *
95427389 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGGTTTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
95427449 CACCATTCGA
Statistics
Matches: 118, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 91 0.77
81 27 0.23
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
AACTCGCACAAATGC
Found at i:95432238 original size:18 final size:19
Alignment explanation
Indices: 95432217--95432255 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
95432207 ATATATAGAT
95432217 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
95432235 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
95432254 AT
1 AT
95432256 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Done.