Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 192 of 240
Found at i:58728732 original size:12 final size:12
Alignment explanation
Indices: 58728715--58728740 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58728705 AGAAATCATT
58728715 TTACGGAAAATA
1 TTACGGAAAATA
58728727 TTACGGAAAATA
1 TTACGGAAAATA
58728739 TT
1 TT
58728741 TTACTGGCAA
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:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (12 bp):
TTACGGAAAATA
Found at i:58729971 original size:42 final size:42
Alignment explanation
Indices: 58729924--58730039 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
58729914 ACATTTTTAA
*
58729924 ATAAACTACCACTTGGTTCGTG-ATCGAACCACATATTTGTAG
1 ATAAACTACCACTTGGTTCGTGAAT-GAACCACATAATTGTAG
* * *
58729966 ATAAACTGCCACTT-GTT-GTGAATGCACAACATAATTGTAG
1 ATAAACTACCACTTGGTTCGTGAATGAACCACATAATTGTAG
* *
58730006 ATAAAAACTATCACTTGGTTCATGAATGAACCAC
1 AT--AAACTACCACTTGGTTCGTGAATGAACCAC
58730040 GTTGTTTGCA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
40 19 0.32
41 5 0.08
42 23 0.38
43 3 0.05
44 10 0.17
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (42 bp):
ATAAACTACCACTTGGTTCGTGAATGAACCACATAATTGTAG
Found at i:58733516 original size:6 final size:6
Alignment explanation
Indices: 58733505--58733557 Score: 74
Period size: 6 Copynumber: 8.8 Consensus size: 6
58733495 AAATATTTAA
58733505 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAAG AAAAA- AGAAAAG -AAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG A-AAAAG AAAAAG
58733553 AAAAA
1 AAAAA
58733558 AAGGGAGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 6 0.14
6 31 0.72
7 6 0.14
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:58733532 original size:25 final size:24
Alignment explanation
Indices: 58733504--58733558 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 24
58733494 AAAATATTTA
58733504 AAAAAAG-AAAAAGAAAAAGAAAAAG
1 AAAAAAGAAAAAAG-AAAAG-AAAAG
58733529 AAAAAAGAAAAAAGAAAAGAAAAG
1 AAAAAAGAAAAAAGAAAAGAAAAG
58733553 AAAAAA
1 AAAAAA
58733559 AGGGAGAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 11 0.38
25 12 0.41
26 6 0.21
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAAAAAGAAAAGAAAAG
Found at i:58734230 original size:15 final size:15
Alignment explanation
Indices: 58734210--58734250 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
58734200 TAAACCCGAA
*
58734210 TAGCCCAATTACATC-
1 TAGCCCAACTACA-CG
58734225 TAGCCCAACTACACG
1 TAGCCCAACTACACG
58734240 TAGCCCAACTA
1 TAGCCCAACTA
58734251 TCATACAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.34, C:0.37, G:0.10, T:0.20
Consensus pattern (15 bp):
TAGCCCAACTACACG
Found at i:58740531 original size:12 final size:13
Alignment explanation
Indices: 58740509--58740538 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
58740499 GATTCAATAA
58740509 AAAAAAGAAAAAC
1 AAAAAAGAAAAAC
58740522 AAAAAA-AAAAAC
1 AAAAAAGAAAAAC
58740534 AAAAA
1 AAAAA
58740539 CCTCTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAC
Found at i:58741670 original size:9 final size:9
Alignment explanation
Indices: 58741654--58741714 Score: 104
Period size: 9 Copynumber: 6.8 Consensus size: 9
58741644 GGTATTTTTC
58741654 GGTAATTCG
1 GGTAATTCG
*
58741663 GTTAATTCG
1 GGTAATTCG
*
58741672 GTTAATTCG
1 GGTAATTCG
58741681 GGTAATTCG
1 GGTAATTCG
58741690 GGTAATTCG
1 GGTAATTCG
58741699 GGTAATTCG
1 GGTAATTCG
58741708 GGTAATT
1 GGTAATT
58741715 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:58741891 original size:12 final size:12
Alignment explanation
Indices: 58741874--58741898 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58741864 AGTAATTTCG
58741874 GGTCGGTTAACC
1 GGTCGGTTAACC
58741886 GGTCGGTTAACC
1 GGTCGGTTAACC
58741898 G
1 G
58741899 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:58743109 original size:44 final size:44
Alignment explanation
Indices: 58742968--58743097 Score: 233
Period size: 44 Copynumber: 3.0 Consensus size: 44
58742958 AAGTTATAAA
58742968 TCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTAAG
1 TCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTAAG
*
58743012 TCCTATCTCCCTAGACAACAGTGGAATAGGTTGAAGATTGTAAG
1 TCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTAAG
**
58743056 TCCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGTA
1 TCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTA
58743098 GATCATGTCT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 82 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
TCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTAAG
Found at i:58743358 original size:50 final size:50
Alignment explanation
Indices: 58743304--58743574 Score: 173
Period size: 50 Copynumber: 5.5 Consensus size: 50
58743294 ACAGTGGAAC
*
58743304 AGATTGAAACTACAACAGCGAATCTTACTTTCCCGACGTTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTTCCCGACGTTGCAGTTAAAT
* * * * *
58743354 AGATTGAAGCTATAACAGTGAATCTTAC-TTCCCTGATAG-TGTAG-AAGAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTTCCC-GA-CGTTGCAGTTA-AAT
* * * * **
58743404 AGATTGAAGCTACAATAGCAAATCTTACTTCCCCGACATTGCAGTTAAGC
1 AGATTGAAGCTACAACAGCGAATCTTACTTTCCCGACGTTGCAGTTAAAT
* * ** * ** * * *** *
58743454 AGACTG-AG-GACATTA---AATCTTAC-TTCCTTGGTGGTGTAGTGGGAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTTCC-CGACGTTGCAGTTAAAT
* * * *
58743499 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTTCCCGACGTTGCAGTTAAAT
*
58743549 AGATTGAAGCTACAACAGTGAATCTT
1 AGATTGAAGCTACAACAGCGAATCTT
58743575 CCCCGACATT
Statistics
Matches: 161, Mismatches: 47, Indels: 26
0.69 0.20 0.11
Matches are distributed among these distances:
44 3 0.02
45 20 0.12
46 2 0.01
47 4 0.02
48 5 0.03
49 8 0.05
50 110 0.68
51 9 0.06
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTTCCCGACGTTGCAGTTAAAT
Found at i:58743523 original size:95 final size:97
Alignment explanation
Indices: 58743274--58743557 Score: 329
Period size: 95 Copynumber: 2.9 Consensus size: 97
58743264 AAGGACAGCG
** * *
58743274 AATCTTACTTCCTTGGTGGTACAGTGGAACAGATTGAAACTACAACAGCGAATCTTACTTTCCCG
1 AATCTTACTTCCTTGGTGGTGTAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCG
* * * *
58743339 ACGTTGCAGTTAAATAGATTGAAGCTATAACAGTG
66 ACATTGCAGTTAAACAGACTGAAG---TAACAGTA
* * * ** * * *
58743374 AATCTTACTTCCCTGATAGTGTAGAAGAATAGATTGAAGCTACAATAGCAAATCTTACTTCCCCG
1 AATCTTACTTCCTTGGTGGTGTAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCG
* * *
58743439 ACATTGCAGTTAAGCAGACTG-AG-GACATTA
66 ACATTGCAGTTAAACAGACTGAAGTAACAGTA
* *
58743469 AATCTTACTTCCTTGGTGGTGTAGTGGGACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCG
1 AATCTTACTTCCTTGGTGGTGTAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCG
*
58743534 ACATTGCAGTTAAACAGATTGAAG
66 ACATTGCAGTTAAACAGACTGAAG
58743558 CTACAACAGT
Statistics
Matches: 152, Mismatches: 31, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
95 78 0.51
96 2 0.01
99 2 0.01
100 70 0.46
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (97 bp):
AATCTTACTTCCTTGGTGGTGTAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCG
ACATTGCAGTTAAACAGACTGAAGTAACAGTA
Found at i:58743593 original size:46 final size:48
Alignment explanation
Indices: 58743497--58743599 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 48
58743487 GTGTAGTGGG
58743497 ACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAA
1 ACAGATTGAAGCTACAACAGCGAA--TTGCTTCCCCGACATTGCAGTTAA
* *
58743547 ACAGATTGAAGCTACAACAGTGAA-T-CTTCCCCGACATTGTAGTTAA
1 ACAGATTGAAGCTACAACAGCGAATTGCTTCCCCGACATTGCAGTTAA
58743593 ACAGATT
1 ACAGATT
58743600 AAGGTTACGA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
46 27 0.53
47 1 0.02
50 23 0.45
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (48 bp):
ACAGATTGAAGCTACAACAGCGAATTGCTTCCCCGACATTGCAGTTAA
Found at i:58743988 original size:15 final size:15
Alignment explanation
Indices: 58743967--58744008 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
58743957 CTAAACCCAA
*
58743967 ATAGCCCAATTACAC
1 ATAGCCCAACTACAC
*
58743982 CTAGCCCAACTACAC
1 ATAGCCCAACTACAC
*
58743997 ATAGCCTAACTA
1 ATAGCCCAACTA
58744009 TCATACAACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.38, C:0.36, G:0.07, T:0.19
Consensus pattern (15 bp):
ATAGCCCAACTACAC
Found at i:58744225 original size:20 final size:20
Alignment explanation
Indices: 58744187--58744223 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58744177 AAAAAACACT
58744187 ACAGCAAATAAGAGAAAATA
1 ACAGCAAATAAGAGAAAATA
*
58744207 ACAGTAAATAAG-GAAAA
1 ACAGCAAATAAGAGAAAA
58744224 ATGTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.65, C:0.08, G:0.16, T:0.11
Consensus pattern (20 bp):
ACAGCAAATAAGAGAAAATA
Found at i:58745065 original size:11 final size:11
Alignment explanation
Indices: 58745020--58745066 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
58745010 CTTTTTTTAC
58745020 ATTTT-TTATT
1 ATTTTATTATT
*
58745030 AATTTATTAATT
1 ATTTTATT-ATT
58745042 ATTTTATTATT
1 ATTTTATTATT
58745053 ATTTTATTATT
1 ATTTTATTATT
58745064 ATT
1 ATT
58745067 GGTACATCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 4 0.12
11 19 0.58
12 10 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:58745396 original size:28 final size:27
Alignment explanation
Indices: 58745355--58745450 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 27
58745345 CTATATAGAT
*
58745355 ATTTT-ATTTCTTTCAAATATTTTAAC
1 ATTTTAATTTATTTCAAATATTTTAAC
* ** *
58745381 ATCTTTAATTTATTTCAACTTATTTCGAT
1 AT-TTTAATTTATTTCAA-ATATTTTAAC
58745410 ATTGTTAATTTA-TTCAAATTTATTTTAAC
1 ATT-TTAATTTATTTCAAA--TATTTTAAC
*
58745439 TTTTTAATTTAT
1 ATTTTAATTTAT
58745451 ATATATTATA
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 24 0.45
29 24 0.45
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (27 bp):
ATTTTAATTTATTTCAAATATTTTAAC
Found at i:58747263 original size:142 final size:142
Alignment explanation
Indices: 58746886--58747308 Score: 508
Period size: 142 Copynumber: 3.0 Consensus size: 142
58746876 CATTATGATA
* * * * *
58746886 GATCTTATCTTCCTAAAGTTGCAGTGAATCAGATTGAAGCCACTAGCCTTATCTTCCTGAAGTTG
1 GATCTTATCTTCCTGAAGTTACAGTGAGT-AGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* * *
58746951 CAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCATGGCAGTGGAACAAGATTAAAGC
65 CAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC-AGATTAAAGC
* *
58747016 TTCAAGTTATGGCG
129 TACAAATTATGGCG
* * * * * **
58747030 GATCTTATCTTCTTGAAATTTCAGTAGAGCAAATTGAAGTTACCAGCCTTATCTCCCTGAAGTTG
1 GATCTTATCTTCCTGAAGTTACAGT-GAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* * * *
58747095 CAGCAGAGCAGACTAAAGACAACGAATCTTATTTCTCTGGCGTTGCAGTGGAACAGATTAAAGCT
65 CAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT
58747160 ACAAATTATGGCG
130 ACAAATTATGGCG
* * *
58747173 GAT-TTATCTTCCTGAAGTTACAGTGGAGTAGATTGAAGCCACCAACTTTATCACCCTGAAGTAT
1 GATCTTATCTTCCTGAAGTTACAGT-GAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGT-T
* * * ** *
58747237 -TAGCGGAACAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGC
64 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGC
*
58747301 TATAAATT
129 TACAAATT
58747309 GTAGATCTTA
Statistics
Matches: 235, Mismatches: 42, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
142 109 0.46
143 26 0.11
144 98 0.42
145 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (142 bp):
GATCTTATCTTCCTGAAGTTACAGTGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
AGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTA
CAAATTATGGCG
Found at i:58747418 original size:44 final size:44
Alignment explanation
Indices: 58747358--58747461 Score: 149
Period size: 44 Copynumber: 2.4 Consensus size: 44
58747348 TATCAAACTT
* *
58747358 TATCTTCCC-AAAGTTGTAGTGGAGCA-AGTTGAAGATATTAATCT
1 TATC-TCCCTAAAGTTGTAGTGGAGCAGA-TTGAAGATACTAATCC
*
58747402 TATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATACTAATCC
1 TATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATACTAATCC
58747446 TATCTCCCTAAAGTTG
1 TATCTCCCTAAAGTTG
58747462 CAGTAAAGCG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
43 4 0.07
44 49 0.91
45 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (44 bp):
TATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATACTAATCC
Found at i:58749083 original size:11 final size:11
Alignment explanation
Indices: 58749067--58749091 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58749057 TTGTACCCCG
58749067 AATTTCATTTC
1 AATTTCATTTC
58749078 AATTTCATTTC
1 AATTTCATTTC
58749089 AAT
1 AAT
58749092 CCTTAGTCTG
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTCATTTC
Found at i:58755948 original size:40 final size:40
Alignment explanation
Indices: 58755862--58756013 Score: 119
Period size: 40 Copynumber: 3.8 Consensus size: 40
58755852 CAAAAGATTG
** * * * * **
58755862 AGCATTAGCGGTGCTTTTTGAAAAATGCTGCTATAGGTTG
1 AGCATTAGCGGCACTTTTCGAAAAACGCTGCAATAGATCA
* * *
58755902 ATCATTAGCGACACTTTTCGAAAAACGCCGCAATAGATCA
1 AGCATTAGCGGCACTTTTCGAAAAACGCTGCAATAGATCA
* * * * *
58755942 AGCATTAGCGGCGCTTTTC-AATAAACACTACTATAGATCG
1 AGCATTAGCGGCACTTTTCGAA-AAACGCTGCAATAGATCA
**
58755982 AGCATTAGCGGCTTTTTTCG-AAAACGCTGCAA
1 AGCATTAGCGGCACTTTTCGAAAAACGCTGCAA
58756014 AAAAGTTGAG
Statistics
Matches: 86, Mismatches: 24, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
39 10 0.12
40 76 0.88
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (40 bp):
AGCATTAGCGGCACTTTTCGAAAAACGCTGCAATAGATCA
Found at i:58755988 original size:80 final size:80
Alignment explanation
Indices: 58755842--58756015 Score: 181
Period size: 80 Copynumber: 2.2 Consensus size: 80
58755832 CGCTTGAACC
* ** * * ** * * * *
58755842 AAAAGCGCCGCAAAAGATTGAGCATTAGCGGTGCTTTTTGAAAAATGCTGCTATAGGTTGATCAT
1 AAAAACGCCGCAAAAGATCAAGCATTAGCGGCGCTTTTTCAAAAACACTACTATAGATCGAGCAT
58755907 TAGCGACACTTTTCG
66 TAGCGACACTTTTCG
*
58755922 AAAAACGCCGCAATAGATCAAGCATTAGCGGCGC-TTTTCAATAAACACTACTATAGATCGAGCA
1 AAAAACGCCGCAAAAGATCAAGCATTAGCGGCGCTTTTTCAA-AAACACTACTATAGATCGAGCA
* **
58755986 TTAGCGGCTTTTTTCG
65 TTAGCGACACTTTTCG
*
58756002 -AAAACGCTGCAAAA
1 AAAAACGCCGCAAAA
58756016 AAGTTGAGCA
Statistics
Matches: 76, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (80 bp):
AAAAACGCCGCAAAAGATCAAGCATTAGCGGCGCTTTTTCAAAAACACTACTATAGATCGAGCAT
TAGCGACACTTTTCG
Found at i:58756097 original size:40 final size:40
Alignment explanation
Indices: 58756053--58756160 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
58756043 TTAGTGGCAT
*
58756053 TAGCGGAGCTTTTTAAAAAACGCCGCAATAGATTGAGCAC
1 TAGCGGAGCTTTTTAAAAAACGCCGCAATAGATCGAGCAC
* ** * * *
58756093 TAGCGGCGCTTTTTGGAAAACGCCGCTATAGGTCGAGCAT
1 TAGCGGAGCTTTTTAAAAAACGCCGCAATAGATCGAGCAC
*
58756133 TAGTGGCA-CTTTTTAAAAAACGCCGCAA
1 TAGCGG-AGCTTTTTAAAAAACGCCGCAA
58756161 AAAAGTTGAG
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (40 bp):
TAGCGGAGCTTTTTAAAAAACGCCGCAATAGATCGAGCAC
Found at i:58756258 original size:145 final size:145
Alignment explanation
Indices: 58755922--58756320 Score: 453
Period size: 145 Copynumber: 2.7 Consensus size: 145
58755912 ACACTTTTCG
* * * ** *
58755922 AAAAACGCCGCAATAGATCAAGCATTAGCGGCGCTTTTCAATAAACACTACTATAGATCGAGCAT
1 AAAAACGCCGCAATAGATCGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTATAGGTCGAGCAT
* ** * *
58755987 TAGCGGCTTTTTTCGAAAACGCTGCAAAAAAGTTGAGCAAAACATGTTGTTGAGCTTTAGTGGCA
66 TAGCGGCCTTTTTAAAAAACGCCGCAAAAAAGTTGAGC-AAACATGATGTTGAGCTTTAGTGGCA
*
58756052 TTAGCGGAGCTTTTTA
130 TTAGCGGAGCTTTATA
* * ***
58756068 AAAAACGCCGCAATAGATTGAGCACTAGCGGCGCTTTTTGGAAAACGCCGCTATAGGTCGAGCAT
1 AAAAACGCCGCAATAGATCGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTATAGGTCGAGCAT
* *
58756133 TAGTGGCACTTTTTAAAAAACGCCGCAAAAAAGTTGAGC-AATATGATGTTGAGCTTTAGTGGCA
66 TAGCGGC-CTTTTTAAAAAACGCCGCAAAAAAGTTGAGCAAACATGATGTTGAGCTTTAGTGGCA
*
58756197 TTAG-TGACGCTTTATA
130 TTAGCGGA-GCTTTATA
* * * * * * *
58756213 AAAAATGCCGCAATAGCTCGAGAATTAGTGGTGCTTGTCAAAAAACGCCGCTATAGGTCTAGCAT
1 AAAAACGCCGCAATAGATCGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTATAGGTCGAGCAT
* ** * *
58756278 TAGCGACGCTTTTTGCAAAATGCCGC-AAAAAGTTGAGAAAACA
66 TAGCGGC-CTTTTTAAAAAACGCCGCAAAAAAGTTGAGCAAACA
58756321 ACGTCGTTTG
Statistics
Matches: 210, Mismatches: 40, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
144 13 0.06
145 110 0.52
146 60 0.29
147 27 0.13
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (145 bp):
AAAAACGCCGCAATAGATCGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTATAGGTCGAGCAT
TAGCGGCCTTTTTAAAAAACGCCGCAAAAAAGTTGAGCAAACATGATGTTGAGCTTTAGTGGCAT
TAGCGGAGCTTTATA
Found at i:58756420 original size:14 final size:14
Alignment explanation
Indices: 58756401--58756445 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
58756391 ATTTTAGGGG
58756401 TTTAAGGTTTAGTA
1 TTTAAGGTTTAGTA
* *
58756415 TTTAAGGTTTAATG
1 TTTAAGGTTTAGTA
* *
58756429 TTTATGGTTTAGGA
1 TTTAAGGTTTAGTA
58756443 TTT
1 TTT
58756446 TAAAGTCTAT
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:0.24, C:0.00, G:0.22, T:0.53
Consensus pattern (14 bp):
TTTAAGGTTTAGTA
Found at i:58756497 original size:14 final size:14
Alignment explanation
Indices: 58756480--58756523 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
58756470 TATTTTGGGA
58756480 TTAGAGTTTTGAGT
1 TTAGAGTTTTGAGT
*
58756494 TTAGGGTTTATG-GT
1 TTAGAGTTT-TGAGT
*
58756508 TTAGAGTTTTTAGT
1 TTAGAGTTTTGAGT
58756522 TT
1 TT
58756524 GGGGTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 22 0.88
15 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (14 bp):
TTAGAGTTTTGAGT
Found at i:58756804 original size:7 final size:7
Alignment explanation
Indices: 58756794--58756915 Score: 111
Period size: 7 Copynumber: 17.4 Consensus size: 7
58756784 TTAGGATGTA
*
58756794 GGTTTAT
1 GGTTTAG
58756801 GGTTTAG
1 GGTTTAG
* *
58756808 TGTTTAT
1 GGTTTAG
58756815 GGTTTAG
1 GGTTTAG
58756822 GGTTTAG
1 GGTTTAG
58756829 GGTTTAG
1 GGTTTAG
58756836 GGTTTA-
1 GGTTTAG
58756842 GGTTTAG
1 GGTTTAG
*
58756849 GGTTTAA
1 GGTTTAG
* *
58756856 AGTTTAT
1 GGTTTAG
* *
58756863 GATTTAA
1 GGTTTAG
58756870 GGTTTAG
1 GGTTTAG
*
58756877 GATTTAGG
1 GGTTTA-G
*
58756885 GGCTTAG
1 GGTTTAG
* *
58756892 AGTTTAT
1 GGTTTAG
58756899 GGTTTAG
1 GGTTTAG
*
58756906 TGTTTAG
1 GGTTTAG
58756913 GGT
1 GGT
58756916 CTGATTTTAA
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
6 6 0.07
7 79 0.88
8 5 0.06
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.47
Consensus pattern (7 bp):
GGTTTAG
Found at i:58756820 original size:21 final size:20
Alignment explanation
Indices: 58756748--58756915 Score: 106
Period size: 21 Copynumber: 8.1 Consensus size: 20
58756738 CTAGGCCGGT
* * *
58756748 TTTATGATTTAGTGTTAAGAG
1 TTTATGGTTTAG-GTTTAGGG
* * *
58756769 TTTATTGTTTACAGTTTAGGA
1 TTTATGGTTTA-GGTTTAGGG
* *
58756790 TGTA-GGTTTATGGTTTAGTG
1 TTTATGGTTTA-GGTTTAGGG
58756810 TTTATGGTTTAGGGTTTAGGG
1 TTTATGGTTTA-GGTTTAGGG
*
58756831 TTTAGGGTTTAGGTTTAGGG
1 TTTATGGTTTAGGTTTAGGG
** * *
58756851 TTTAAAGTTTATGATTTAAGG
1 TTTATGGTTTA-GGTTTAGGG
* *
58756872 TTTA-GGATTTAGGGGCTTAGAG
1 TTTATGG-TTTA--GGTTTAGGG
58756894 TTTATGGTTTAGTGTTTAGGG
1 TTTATGGTTTAG-GTTTAGGG
58756915 T
1 T
58756916 CTGATTTTAA
Statistics
Matches: 112, Mismatches: 28, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
20 34 0.30
21 63 0.56
22 13 0.12
23 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (20 bp):
TTTATGGTTTAGGTTTAGGG
Found at i:58756820 original size:48 final size:46
Alignment explanation
Indices: 58756782--58756911 Score: 134
Period size: 48 Copynumber: 2.7 Consensus size: 46
58756772 ATTGTTTACA
*
58756782 GTTTAGGATGTAGGTTTATGGTTTAGTGTTTATGGTTTAGGGTTTAGG
1 GTTTAGG-TGTAGGTTTATGGTTTAGTGTTTATGGTTTAAGGTTTA-G
* * ** *
58756830 GTTTAGGGTTTAGGTTTAGGGTTTAAAGTTTATGATTTAAGGTTTAG
1 GTTTA-GGTGTAGGTTTATGGTTTAGTGTTTATGGTTTAAGGTTTAG
*
58756877 GATTTAGGGGCTTAGAGTTTATGGTTTAGTGTTTA
1 G-TTTAGGTG--TAG-GTTTATGGTTTAGTGTTTA
58756912 GGGTCTGATT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
47 4 0.06
48 41 0.62
49 5 0.08
50 16 0.24
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.47
Consensus pattern (46 bp):
GTTTAGGTGTAGGTTTATGGTTTAGTGTTTATGGTTTAAGGTTTAG
Found at i:58756899 original size:36 final size:34
Alignment explanation
Indices: 58756831--58756913 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 34
58756821 GGGTTTAGGG
* *
58756831 TTTAGGGTTTAGGTTTAGGGTTTAAAGTTTATGA
1 TTTAAGGTTTAGGTTTAGGGCTTAAAGTTTATGA
* *
58756865 TTTAAGGTTTAGGATTTAGGGGCTTAGAGTTTATGG
1 TTTAAGGTTTAGG-TTTA-GGGCTTAAAGTTTATGA
58756901 TTT-AGTGTTTAGG
1 TTTAAG-GTTTAGG
58756914 GTCTGATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 12 0.29
35 6 0.14
36 24 0.57
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (34 bp):
TTTAAGGTTTAGGTTTAGGGCTTAAAGTTTATGA
Found at i:58759284 original size:9 final size:9
Alignment explanation
Indices: 58759272--58759360 Score: 74
Period size: 9 Copynumber: 9.9 Consensus size: 9
58759262 AAATATATAT
58759272 CATAACTTA
1 CATAACTTA
*
58759281 CATAACTTG
1 CATAACTTA
*
58759290 CATAATTTA
1 CATAACTTA
58759299 CATAACTTA
1 CATAACTTA
*
58759308 CATAA-ATA
1 CATAACTTA
* *
58759316 TAT-ATTGTA
1 CATAACT-TA
*
58759325 TCAAAACTTA
1 -CATAACTTA
*
58759335 CATAACTTT
1 CATAACTTA
*
58759344 CATAATTTA
1 CATAACTTA
58759353 CATAACTT
1 CATAACTT
58759361 TAAAGAATTA
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
7 1 0.02
8 4 0.07
9 51 0.84
10 3 0.05
11 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:58759432 original size:21 final size:21
Alignment explanation
Indices: 58759394--58759434 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58759384 TCTTAACTTA
*
58759394 ATAACTTATATATATCATATC
1 ATAACTTAAATATATCATATC
58759415 ATAACTTAAATA-ACTCATAT
1 ATAACTTAAATATA-TCATAT
58759435 AACATACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAACTTAAATATATCATATC
Found at i:58761326 original size:43 final size:42
Alignment explanation
Indices: 58761273--58761382 Score: 175
Period size: 43 Copynumber: 2.5 Consensus size: 42
58761263 AAAAAAGCCG
58761273 CTAAAGGTCATGCTTTTTAGCGGCGTTTGTGATAAAAGCGCCA
1 CTAAAGGTCATG-TTTTTAGCGGCGTTTGTGATAAAAGCGCCA
* *
58761316 CTAAAGGTCATATTCTTTAGCGGCGTTTGTGATAAAAGCGCCG
1 CTAAAGGTCATGTT-TTTAGCGGCGTTTGTGATAAAAGCGCCA
58761359 CTAAAGGTCATGTTTTATAGCGGC
1 CTAAAGGTCATGTTTT-TAGCGGC
58761383 CTTTTTTCAA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
42 4 0.06
43 58 0.94
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CTAAAGGTCATGTTTTTAGCGGCGTTTGTGATAAAAGCGCCA
Found at i:58763927 original size:20 final size:19
Alignment explanation
Indices: 58763876--58763925 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
58763866 ATTATTCATG
58763876 AAAAATTTAAATAATATAA
1 AAAAATTTAAATAATATAA
58763895 AAAAATTTGAAATAATA-AA
1 AAAAATTT-AAATAATATAA
*
58763914 ACAATATTTAAA
1 A-AAAATTTAAA
58763926 ATGCAAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATTTAAATAATATAA
Found at i:58764110 original size:22 final size:22
Alignment explanation
Indices: 58764084--58764125 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58764074 ATATCGATAC
* *
58764084 AATAAGAGTAATGATAATAAAT
1 AATAAGAATAACGATAATAAAT
*
58764106 AATAATAATAACGATAATAA
1 AATAAGAATAACGATAATAA
58764126 GAATAATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.26
Consensus pattern (22 bp):
AATAAGAATAACGATAATAAAT
Found at i:58764758 original size:39 final size:39
Alignment explanation
Indices: 58764670--58764761 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
58764660 ATATTTATTA
*
58764670 TTTATATTTTTAAATTTTAAAATATTTTTAAAATACTTT
1 TTTAGATTTTTAAATTTTAAAATATTTTTAAAATACTTT
* *
58764709 TTTAGTTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTAGATTTTTAAATTTTAAAATATTTTTAAAATAC-TTT
58764749 TTTA-ATTTTTAAA
1 TTTAGATTTTTAAA
58764762 ATAAATTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.85
40 7 0.15
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (39 bp):
TTTAGATTTTTAAATTTTAAAATATTTTTAAAATACTTT
Found at i:58764770 original size:21 final size:21
Alignment explanation
Indices: 58764732--58764771 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58764722 ATTTTAAAAT
**
58764732 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
58764753 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
58764772 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:58764778 original size:22 final size:20
Alignment explanation
Indices: 58764731--58764778 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
58764721 AATTTTAAAA
* *
58764731 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTG
58764751 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
58764774 TATTT
1 TATTT
58764779 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.48
22 10 0.43
23 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:58764987 original size:63 final size:64
Alignment explanation
Indices: 58764871--58764992 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 64
58764861 TATCGATAAT
* ** *
58764871 TTTAAATATTTTTCATATATATATTTGTAGTCTAATTCTTAATTCCTTGATAAATTATAATATA
1 TTTAAATATTTTTCACATATATATTTACAGTCTAATTCTTAATTCCTTAATAAATTATAATATA
* * * * *
58764935 TTTAAATA-TTTTCACATGTATATTTACAGTTTAATTTTTAGTTTCTTAATAAATTATA
1 TTTAAATATTTTTCACATATATATTTACAGTCTAATTCTTAATTCCTTAATAAATTATA
58764993 TGTTATATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
63 41 0.84
64 8 0.16
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.52
Consensus pattern (64 bp):
TTTAAATATTTTTCACATATATATTTACAGTCTAATTCTTAATTCCTTAATAAATTATAATATA
Found at i:58767272 original size:21 final size:22
Alignment explanation
Indices: 58767237--58767277 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
58767227 TTTCCCCCCA
58767237 TTGCATGTGGCTATACAATTGT
1 TTGCATGTGGCTATACAATTGT
* *
58767259 TTGCA-GTGGTTATATAATT
1 TTGCATGTGGCTATACAATT
58767278 TATTTGTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (22 bp):
TTGCATGTGGCTATACAATTGT
Found at i:58767530 original size:52 final size:52
Alignment explanation
Indices: 58767466--58767608 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 52
58767456 TAGTCCTGGA
*
58767466 GCTGTTAATTTGGTACTGTTAATTTTGAATGCTTTGAAATGTTTGAAATGGT
1 GCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGT
*
58767518 GTTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGT
1 GCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGT
* *
58767570 GCTGTT-A----CTACT-TCAACTTTGAATGCTTTGAAATGTTTG
1 GCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTG
58767609 CTCACTAATA
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
46 26 0.30
47 4 0.05
51 1 0.01
52 55 0.64
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.45
Consensus pattern (52 bp):
GCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGT
Found at i:58767706 original size:116 final size:116
Alignment explanation
Indices: 58767502--58767799 Score: 560
Period size: 116 Copynumber: 2.6 Consensus size: 116
58767492 GAATGCTTTG
*
58767502 AAATGTTTGAAATGGTGTTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
58767567 GGTGCTGTTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTAAT
66 GGTGCTGTTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTAAT
*
58767618 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAATT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
*
58767683 GGTGCTGTTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
66 GGTGCTGTTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTAAT
*
58767734 AAATGTTTGAAATGGTGCTATTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
58767799 G
66 G
58767800 AGTTAACACC
Statistics
Matches: 177, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 177 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (116 bp):
AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
GGTGCTGTTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTAAT
Found at i:58772590 original size:92 final size:92
Alignment explanation
Indices: 58772433--58772626 Score: 277
Period size: 92 Copynumber: 2.1 Consensus size: 92
58772423 TTGATTTTAG
* * *
58772433 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
58772498 ATTTAAT-ATTAATTATTTTAAATTGTA
66 ATGTAATAATT-ATTATTTTAAATTATA
*
58772525 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATT
58772588 ATATGTAATAATTATTATTTTAAATTATA
64 ATATGTAATAATTATTATTTTAAATTATA
*
58772617 CAAATTCATA
1 TAAATTCATA
58772627 AAATATAATT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
90 1 0.01
91 29 0.32
92 59 0.64
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:58772604 original size:24 final size:25
Alignment explanation
Indices: 58772569--58772616 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
58772559 TTATGAAATT
58772569 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
58772593 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
58772617 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:58772692 original size:18 final size:18
Alignment explanation
Indices: 58772666--58772710 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
58772656 AAATCTTATT
58772666 AAATCATATATTTTAAATA
1 AAAT-ATATATTTTAAATA
*
58772685 AAATATATATTTTAATTA
1 AAATATATATTTTAAATA
58772703 AAATATAT
1 AAATATAT
58772711 TTAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATATTTTAAATA
Found at i:58772715 original size:15 final size:15
Alignment explanation
Indices: 58772689--58772774 Score: 67
Period size: 15 Copynumber: 5.7 Consensus size: 15
58772679 TAAATAAAAT
58772689 ATATATTTTAATTAAA
1 ATATA-TTTAATTAAA
58772705 ATATATTTAA-TAATA
1 ATATATTTAATTAA-A
58772720 AT-TATGTTAATT---
1 ATATAT-TTAATTAAA
*
58772732 -TATATTTTATTAAA
1 ATATATTTAATTAAA
58772746 TTATATATTTTAATTAAA
1 --ATATA-TTTAATTAAA
58772764 ATATATTTAAT
1 ATATATTTAAT
58772775 AATAATTATG
Statistics
Matches: 57, Mismatches: 2, Indels: 23
0.70 0.02 0.28
Matches are distributed among these distances:
11 6 0.11
12 3 0.05
14 6 0.11
15 18 0.32
16 11 0.19
17 4 0.07
18 9 0.16
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (15 bp):
ATATATTTAATTAAA
Found at i:58772718 original size:18 final size:16
Alignment explanation
Indices: 58772671--58772771 Score: 83
Period size: 18 Copynumber: 6.5 Consensus size: 16
58772661 TTATTAAATC
*
58772671 ATATATTTTAAATAAAA
1 ATATATTTT-AATTAAA
58772688 TATATATTTTAATTAAA
1 -ATATATTTTAATTAAA
58772705 ATATA-TTTAA-TAATA
1 ATATATTTTAATTAA-A
*
58772720 AT-TATGTTAATT---
1 ATATATTTTAATTAAA
58772732 -TATATTTT-ATTAAA
1 ATATATTTTAATTAAA
58772746 TTATATATTTTAATTAAA
1 --ATATATTTTAATTAAA
58772764 ATATATTT
1 ATATATTT
58772772 AATAATAATT
Statistics
Matches: 69, Mismatches: 3, Indels: 24
0.72 0.03 0.25
Matches are distributed among these distances:
11 4 0.06
12 5 0.07
14 5 0.07
15 12 0.17
16 14 0.20
17 14 0.20
18 15 0.22
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTAAA
Found at i:58772759 original size:59 final size:59
Alignment explanation
Indices: 58772672--58772906 Score: 246
Period size: 59 Copynumber: 3.9 Consensus size: 59
58772662 TATTAAATCA
* *
58772672 TATATTTTAAATAAAATATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATT
1 TATATTTT-ATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATT
58772732 TATATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATT
1 TATATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATT
* * * * * * * *
58772791 TATATTTTA-CAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATT
1 TATATTTTATTA-AATTATATATT-TTAATT-A--AAATAT-ATTTAATAATAATTATGTTAATT
* * *
58772851 AAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTT
1 TA-TATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
58772907 TAAATATGAT
Statistics
Matches: 143, Mismatches: 21, Indels: 23
0.76 0.11 0.12
Matches are distributed among these distances:
57 11 0.08
58 6 0.04
59 70 0.49
60 20 0.14
61 18 0.13
62 6 0.04
63 12 0.08
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (59 bp):
TATATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATT
Found at i:58772883 original size:18 final size:17
Alignment explanation
Indices: 58772855--58772889 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58772845 ATTATTAAGA
*
58772855 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58772872 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58772890 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58772889 original size:16 final size:16
Alignment explanation
Indices: 58772855--58772909 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
58772845 ATTATTAAGA
58772855 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
58772872 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
58772888 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
58772902 ATGTTTAA
1 AT-TTTAA
58772910 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:58773133 original size:45 final size:44
Alignment explanation
Indices: 58773054--58773144 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
58773044 ACCTCTATTC
* * *
58773054 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
***
58773098 CATTCAACCAAACAGTTGATTTACTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCAATA
58773143 CA
1 CA
58773145 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
Found at i:58773146 original size:16 final size:16
Alignment explanation
Indices: 58773125--58773160 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
58773115 GATTTACTAT
58773125 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58773141 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58773157 TACA
1 TACA
58773161 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58776479 original size:62 final size:63
Alignment explanation
Indices: 58776408--58776527 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
58776398 TATCGATAAT
** *
58776408 TTTAAATATTTTT-CATATATATTTGTAGTCTAATTTTTAATTCCTCGATAAATTATAATATA
1 TTTAAATATTTTTACATATATATTTACAGTCTAATTTTTAATTCCTCAATAAATTATAATATA
* * * * *
58776470 TTTAAATATTTTTACATGTATATTTACAGTTTAATTTTTAGTTTCTTAATAAATTATA
1 TTTAAATATTTTTACATATATATTTACAGTCTAATTTTTAATTCCTCAATAAATTATA
58776528 CATCATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
62 13 0.27
63 36 0.73
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (63 bp):
TTTAAATATTTTTACATATATATTTACAGTCTAATTTTTAATTCCTCAATAAATTATAATATA
Found at i:58779270 original size:15 final size:15
Alignment explanation
Indices: 58779252--58779301 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
58779242 CCTTACCAGG
58779252 AAAACCCAATGGGAC
1 AAAACCCAATGGGAC
* * *
58779267 AAAACCTTACTAGG--
1 AAAACC-CAATGGGAC
58779281 AAAACCCAATGGGAC
1 AAAACCCAATGGGAC
58779296 AAAACC
1 AAAACC
58779302 TCGGTTAAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 4 0.15
14 6 0.23
15 12 0.46
16 4 0.15
ACGTcount: A:0.48, C:0.26, G:0.16, T:0.10
Consensus pattern (15 bp):
AAAACCCAATGGGAC
Found at i:58779281 original size:29 final size:29
Alignment explanation
Indices: 58779238--58779302 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
58779228 CGCCTCATTA
58779238 AAAACCTTACCAGGAAAACCCAATGGGAC
1 AAAACCTTACCAGGAAAACCCAATGGGAC
*
58779267 AAAACCTTACTAGGAAAACCCAATGGGAC
1 AAAACCTTACCAGGAAAACCCAATGGGAC
58779296 AAAACCT
1 AAAACCT
58779303 CGGTTAAGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.12
Consensus pattern (29 bp):
AAAACCTTACCAGGAAAACCCAATGGGAC
Found at i:58780121 original size:43 final size:43
Alignment explanation
Indices: 58780047--58780156 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
58780037 CATTTGCGGA
* * * *
58780047 GCTTTTCCCACAAACGCCGTTATAGACCATGACCTTTAACGGC
1 GCTTTTACCACAAACGCCGCTAAAGAACATGACCTTTAACGGC
* *
58780090 GCTTTTACCACAAATGCCGCTAAAGAACATGACCTTTAGCGGC
1 GCTTTTACCACAAACGCCGCTAAAGAACATGACCTTTAACGGC
58780133 GC-TTTACCCACAAACGCCGCTAAA
1 GCTTTTA-CCACAAACGCCGCTAAA
58780157 AGTACGTTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 4 0.07
43 55 0.93
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (43 bp):
GCTTTTACCACAAACGCCGCTAAAGAACATGACCTTTAACGGC
Found at i:58782707 original size:6 final size:6
Alignment explanation
Indices: 58782696--58782730 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
58782686 GCACCCCCTC
58782696 AAAATA AAAATA AAAATA AAAATA AATAA-A AAAAT
1 AAAATA AAAATA AAAATA AAAATA AA-AATA AAAAT
58782731 CAAACCACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.07
6 23 0.85
7 2 0.07
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:58782997 original size:11 final size:11
Alignment explanation
Indices: 58782981--58783006 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58782971 ATTGTAGAAC
58782981 AAAACAAAAAG
1 AAAACAAAAAG
58782992 AAAACAAAAAG
1 AAAACAAAAAG
58783003 AAAA
1 AAAA
58783007 ATGAGGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAG
Found at i:58784611 original size:24 final size:24
Alignment explanation
Indices: 58784579--58784626 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
58784569 GGCAAAACCA
58784579 AGCTCATGCAAGTAGGTCGTGAGG
1 AGCTCATGCAAGTAGGTCGTGAGG
*
58784603 AGCTCATGCAGGTAGGTCGTGAGG
1 AGCTCATGCAAGTAGGTCGTGAGG
58784627 GCAGTATACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.21
Consensus pattern (24 bp):
AGCTCATGCAAGTAGGTCGTGAGG
Found at i:58788482 original size:107 final size:107
Alignment explanation
Indices: 58788289--58788593 Score: 451
Period size: 107 Copynumber: 2.9 Consensus size: 107
58788279 ATCAGCGCGA
* * *
58788289 ATTTTTTT-AAGTAAAATGA-ATTTTGTGGCG-TTTTTATAAAAAATGCCGC-AAAAATTATTTC
1 ATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTAT-AAAAACGCCGCAAAAAATTATTTC
*
58788350 ATTTGGAATAAAACGACACTATTTTGCTATATAAAATGACGCT
65 ATTTGGAATAAAACGACACTGTTTTGCTATATAAAATGACGCT
58788393 ATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCAAAAAATTATTTCA
1 ATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCAAAAAATTATTTCA
* * * *
58788458 TTTGGAATAAAACCACATTGTTTTGCTCTATAAAATGGCGCT
66 TTTGGAATAAAACGACACTGTTTTGCTATATAAAATGACGCT
*
58788500 ATTTTTTTAAAGT-AAA-TATTTTTTGTGGCATTTTTTATAAAAACGCACCGCAAAAAATTATTT
1 ATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACG--CCGCAAAAAATTATTT
*
58788563 CATTTGGAATAAAACGATACTGTTTTGCTAT
64 CATTTGGAATAAAACGACACTGTTTTGCTAT
58788594 GTTAAAAATC
Statistics
Matches: 182, Mismatches: 13, Indels: 9
0.89 0.06 0.04
Matches are distributed among these distances:
104 8 0.04
105 38 0.21
106 23 0.13
107 113 0.62
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (107 bp):
ATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCAAAAAATTATTTCA
TTTGGAATAAAACGACACTGTTTTGCTATATAAAATGACGCT
Found at i:58789567 original size:89 final size:89
Alignment explanation
Indices: 58789444--58789606 Score: 256
Period size: 89 Copynumber: 1.8 Consensus size: 89
58789434 CTTAACCCAA
*
58789444 ACCCCTAACCCCTAACCCCTAAACCTTATGTAATATATAAATTAAAAAACACTAATTAATCTAAA
1 ACCCCAAACCCCTAACCCCTAAACCTTATGTAATATATAAATTAAAAAACACTAATTAATCTAAA
*
58789509 CCTTAAACCCTAAACCCTAACCCG
66 CCCTAAACCCTAAACCCTAACCCG
* * * *
58789533 ACCCCAAATCCCTAACCCCT-AACCATTATTTAATATGTAAATTAAAACACACTAATTAATCTAA
1 ACCCCAAACCCCTAACCCCTAAACC-TTATGTAATATATAAATTAAAAAACACTAATTAATCTAA
58789597 ACCCTAAACC
65 ACCCTAAACC
58789607 TTAACCTAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
88 4 0.06
89 63 0.94
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.25
Consensus pattern (89 bp):
ACCCCAAACCCCTAACCCCTAAACCTTATGTAATATATAAATTAAAAAACACTAATTAATCTAAA
CCCTAAACCCTAAACCCTAACCCG
Found at i:58789612 original size:82 final size:84
Alignment explanation
Indices: 58789434--58789636 Score: 223
Period size: 89 Copynumber: 2.4 Consensus size: 84
58789424 ATCACTAACT
* *
58789434 CTTAACCCAAACCCCTAACCCCTAACCCCTAAACCTTATGTAATATATAAATTAAAAAACACTAA
1 CTTAACCC-AACCCCAAATCCCTAACCCCT-AACCTTATGTAATATATAAATTAAAAAACACTAA
58789499 TTAATCTAAACCTTAAACCCTAAAC
64 TTAA-CT--A-CTTAAACCCTAAAC
* * * * *
58789524 CCTAACCCGACCCCAAATCCCTAACCCCTAACCATTATTTAATATGTAAATTAAAACACACTAAT
1 CTTAACCCAACCCCAAATCCCTAACCCCTAACC-TTATGTAATATATAAATTAAAAAACACTAAT
58789589 TAA-T-C-TAAACCCTAAAC
65 TAACTACTTAAACCCTAAAC
* * * *
58789606 CTTAACCTAACACCAAATCCATAAACCCTAA
1 CTTAACCCAACCCCAAATCCCTAACCCCTAA
58789637 ATCCCTAAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
82 37 0.37
83 1 0.01
87 1 0.01
88 4 0.04
89 49 0.49
90 7 0.07
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.24
Consensus pattern (84 bp):
CTTAACCCAACCCCAAATCCCTAACCCCTAACCTTATGTAATATATAAATTAAAAAACACTAATT
AACTACTTAAACCCTAAAC
Found at i:58793573 original size:14 final size:14
Alignment explanation
Indices: 58793554--58793581 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58793544 TGAAATTGAA
58793554 ACTGTTACTGAAAT
1 ACTGTTACTGAAAT
58793568 ACTGTTACTGAAAT
1 ACTGTTACTGAAAT
58793582 GGGCTTAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
ACTGTTACTGAAAT
Found at i:58797612 original size:22 final size:25
Alignment explanation
Indices: 58797587--58797639 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
58797577 TTATAAATTC
*
58797587 AATTTAAAAG-ATA-TGAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
58797609 AATTT-CAAGCATATTAATAACAAT
1 AATTTAAAAGCATATTAATAACAAT
58797633 AATTTAA
1 AATTTAA
58797640 TCATAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 3 0.12
22 8 0.33
23 3 0.12
24 10 0.42
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.34
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:58798626 original size:31 final size:31
Alignment explanation
Indices: 58798568--58798637 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
58798558 TTCATTCCGG
**
58798568 GTGACCAAAATAAAAGTGCCAGAAAAATTGA
1 GTGACCAAAATAAAAGACCCAGAAAAATTGA
* *
58798599 GTGACCAAAATAAAAGCACCCA-TAAAATTGG
1 GTGACCAAAATAAAAG-ACCCAGAAAAATTGA
58798630 GTGACCAA
1 GTGACCAA
58798638 GTAAATAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.16
Consensus pattern (31 bp):
GTGACCAAAATAAAAGACCCAGAAAAATTGA
Found at i:58802283 original size:21 final size:21
Alignment explanation
Indices: 58802259--58802301 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
58802249 TAACAATGCT
*
58802259 AAATATTATTTTA-ACAAATAA
1 AAATATTATATTATA-AAATAA
58802280 AAATATTATATTATAAAATAA
1 AAATATTATATTATAAAATAA
58802301 A
1 A
58802302 GAGAGATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATATTATATTATAAAATAA
Found at i:58808420 original size:26 final size:24
Alignment explanation
Indices: 58808391--58808457 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 24
58808381 TGATCTTTCC
58808391 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGT-CAAGCTGCAAGCTCAGC-AA
* *
58808417 AATGTACAAGCTACAAGCTTAGCAA
1 AATGT-CAAGCTGCAAGCTCAGCAA
*
58808442 GATGTCAAAGCTGCAA
1 AATGTC-AAGCTGCAA
58808458 ACTTAGCGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.03
25 14 0.40
26 20 0.57
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (24 bp):
AATGTCAAGCTGCAAGCTCAGCAA
Found at i:58808452 original size:25 final size:26
Alignment explanation
Indices: 58808391--58808464 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 26
58808381 TGATCTTTCC
* *
58808391 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGTACAAGCTGCAAGCTTAGCAAA
*
58808417 AATGTACAAGCTACAAGCTTAGC-AA
1 AATGTACAAGCTGCAAGCTTAGCAAA
* *
58808442 GATGT-CAAAGCTGCAAACTTAGC
1 AATGTAC-AAGCTGCAAGCTTAGC
58808465 GAGAAGTGCG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.02
25 20 0.49
26 20 0.49
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
AATGTACAAGCTGCAAGCTTAGCAAA
Found at i:58809317 original size:25 final size:25
Alignment explanation
Indices: 58809247--58809319 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
58809237 TGATCTTTCC
* *
58809247 AATGTGCAAGCTGCAAGCTCAGCAA
1 AATGTACAAGCTGCAAGCTTAGCAA
*
58809272 AATGTACAAGCTACAAGCTTAGCAA
1 AATGTACAAGCTGCAAGCTTAGCAA
* *
58809297 GATGT-CAAAGCTGCAAACTTAGC
1 AATGTAC-AAGCTGCAAGCTTAGC
58809320 GAGAAGTGCG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (25 bp):
AATGTACAAGCTGCAAGCTTAGCAA
Found at i:58809584 original size:856 final size:856
Alignment explanation
Indices: 58807769--58809838 Score: 3804
Period size: 856 Copynumber: 2.4 Consensus size: 856
58807759 GAGAGAAAAC
** * ** **
58807769 ATTGCTGTTACAACAAGCATACGTGCTACAGCATGTCATCAAACTGCATGCACTTCAACCAAAAA
1 ATTG-TGTTACAGTAAGCATACGTGTTGTAGCATGTCATCAAGTTGCATGCACTTCAACCAAAAA
** * * ** *
58807834 ATGTAACAGCAACATGGTTGGACAATTTCCAACACTCCTCCTTGGACTCTTTGCTGCAAATACAA
65 ATGTAACAGCAGTATGGTTGGCCAATTTCCAACACTCCTCCTTAGACTCCATGCTGTAAATACAA
* ** * * *
58807899 ATCATTCGTCAAGTTTTTTGTTTTTGAATTTGGCAATCCTTAGATGCTTTGTTTCAAGCTGACTT
130 ATCATTCATCAAGGGTTTT-TTTTT-AACTTGGTAATCCTTAGATGCTTTGTTTCAAGCTGACTC
* * * * *
58807964 TG-CTCAAGCAATTCATTTTCAACCTTAGTTTCCTTCTCAACCAAATCTGACTTACATACTTGAC
193 TGTC-CAAGCAATTCATTTTCAACCTTGGCTTCATTCTCAACCAAATTTGACTTACACACTTGAC
* *
58808028 TATACCAGTC-TTTGTGCCAAAGATTTGTTCATCAAATTGAGTCTTCTCCTCCTTCACAGCCTTG
257 TATACCAGTCTTTTATGCCAAAGATTTGTTCATCAAATGGAGTCTTCTCCTCCTTCACAGCCTTG
58808092 GTTGACAACTTGCCTTCAAACACATCTTTTCTTTCCCGCATCTTGCTTCATTGTACTGTGCTGTC
322 GTTGACAACTTGCCTTCAAACACATCTTTTCTTTCCCGCATCTTGCTTCATTGTACTGTGCTGTC
58808157 TATTCTCTTCTTTTGCTGCTACCAATGTTCCAACAATTGGTATCATGAGCCTAAATCTTAAGGGA
387 TATTCTCTTCTTTTGCTGCTACCAATGTTCCAACAATTGGTATCATGAGCCTAAATCTTAAGGGA
58808222 CCATTGATTTTTCTTTCGCTGCTTGTTAAAAAGAAAGAAGCTGTCAAAACACAAGCAAGTCATTA
452 CCATTGATTTTTCTTTCGCTGCTTGTTAAAAAGAAAGAAGCTGTCAAAACACAAGCAAGTCATTA
58808287 AGGACTACTTGTAGAGAAAACAACATTAGCTTGACCTTATGAGACCCCCAAACAATATTGAATAC
517 AGGACTACTTGTAGAGAAAACAACATTAGCTTGACCTTATGAGACCCCCAAACAATATTGAATAC
58808352 GCTGAAGGAGGAGTTTCAAGGAAAGTATGTGATCTTTCCAATGTGCAAGCTGCAAGCTCAGCAAA
582 GCTGAAGGAGGAGTTTCAAGGAAAGTATGTGATCTTTCCAATGTGCAAGCTGCAAGCTCAGCAAA
58808417 AATGTACAAGCTACAAGCTTAGCAAGATGTCAAAGCTGCAAACTTAGCGAGAAGTGCGAGCTATG
647 AATGTACAAGCTACAAGCTTAGCAAGATGTCAAAGCTGCAAACTTAGCGAGAAGTGCGAGCTATG
58808482 AGCTCATCAAAAGTGTGAGCCCTGTATAATTGCGAGCCTGTTGAAGACAGTAAGCAAAGTGTGAG
712 AGCTCATCAAAAGTGTGAGCCCTGTATAATTGCGAGCCTGTTGAAGACAGTAAGCAAAGTGTGAG
58808547 CCTGTTGAATTGCAAGCCAAAATGGTAGATTGAAGGCAAGCAAACTATACTCACAAACTGTTTGT
777 CCTGTTGAATTGCAAGCCAAAATGGTAGATTGAAGGCAAGCAAACTATACTCACAAACTGTTTGT
58808612 GCGAGAAGAAACAGG
842 GCGAGAAGAAACAGG
58808627 ATTGTGTTACAGTAAGCATACGTGTTGTAGCATGTCATCAAGTTGCATGCACTTCAACCAAAAAA
1 ATTGTGTTACAGTAAGCATACGTGTTGTAGCATGTCATCAAGTTGCATGCACTTCAACCAAAAAA
58808692 TGTAACAGCAGTATGGTTGGCCAATTTCCAACACTCCTCCTTAGACTCCATGCTGTAAATACAAA
66 TGTAACAGCAGTATGGTTGGCCAATTTCCAACACTCCTCCTTAGACTCCATGCTGTAAATACAAA
58808757 TCATTCATCAAGGGTTTTTTTTTAACTTGGTAATCCTTAGATGCTTTGTTTCAAGCTGACTCTGT
131 TCATTCATCAAGGGTTTTTTTTTAACTTGGTAATCCTTAGATGCTTTGTTTCAAGCTGACTCTGT
58808822 CCAAGCAATTCATTTTCAACCTTGGCTTCATTCTCAACCAAATTTGACTTACACACTTGACTATA
196 CCAAGCAATTCATTTTCAACCTTGGCTTCATTCTCAACCAAATTTGACTTACACACTTGACTATA
58808887 CCAGTCTTTTATGCCAAAGATTTGTTCATCAAATGGAGTCTTCTCCTCCTTCACAGCCTTGGTTG
261 CCAGTCTTTTATGCCAAAGATTTGTTCATCAAATGGAGTCTTCTCCTCCTTCACAGCCTTGGTTG
*
58808952 ACAACTTGCCTTCAAACACATCTTTTCTTTCCCGCATCTTGCTTCATTGTACTGTGTTGTCTATT
326 ACAACTTGCCTTCAAACACATCTTTTCTTTCCCGCATCTTGCTTCATTGTACTGTGCTGTCTATT
58809017 CTCTTCTTTTGCTGCTACCAATGTTCCAACAATTGGTATCATGAGCCTAAATCTTAAGGGACCAT
391 CTCTTCTTTTGCTGCTACCAATGTTCCAACAATTGGTATCATGAGCCTAAATCTTAAGGGACCAT
58809082 TGATTTTTCTTTCGCTGCTTGTTAAAAAGAAAGAAGCTGTCAAAACACAAGCAAGTCATTAAGGA
456 TGATTTTTCTTTCGCTGCTTGTTAAAAAGAAAGAAGCTGTCAAAACACAAGCAAGTCATTAAGGA
58809147 CTACTTGTAGAGAAAACAACATTAGCTTGACCTTATGAGACCCCCAAACAATATTGAATACGCTG
521 CTACTTGTAGAGAAAACAACATTAGCTTGACCTTATGAGACCCCCAAACAATATTGAATACGCTG
58809212 AAGGAGGAGTTTCAAGGAAAGTATGTGATCTTTCCAATGTGCAAGCTGCAAGCTCAGC-AAAATG
586 AAGGAGGAGTTTCAAGGAAAGTATGTGATCTTTCCAATGTGCAAGCTGCAAGCTCAGCAAAAATG
58809276 TACAAGCTACAAGCTTAGCAAGATGTCAAAGCTGCAAACTTAGCGAGAAGTGCGAGCTATGAGCT
651 TACAAGCTACAAGCTTAGCAAGATGTCAAAGCTGCAAACTTAGCGAGAAGTGCGAGCTATGAGCT
58809341 CATCAAAAAGTGTGAGCCCTGTATAATTGCGAGCCTGTTGAAGACAGTAAGCAAAGTGTGAGCCT
716 CATC-AAAAGTGTGAGCCCTGTATAATTGCGAGCCTGTTGAAGACAGTAAGCAAAGTGTGAGCCT
58809406 GTTGAATTGCAAGCCAAAATGGTAGATTGAAGGCAAGCAAACTATACTCACAAACTGTTTGTGCG
780 GTTGAATTGCAAGCCAAAATGGTAGATTGAAGGCAAGCAAACTATACTCACAAACTGTTTGTGCG
58809471 AGAAGAAACAGG
845 AGAAGAAACAGG
58809483 ATTGTGTTACAGTAAGCATACGTGTTGTAGCATGTCATCAAGTTGCATGCACTTCAACCAAAAAA
1 ATTGTGTTACAGTAAGCATACGTGTTGTAGCATGTCATCAAGTTGCATGCACTTCAACCAAAAAA
58809548 TGTAACAGCAGTATGGTTGGCCAATTTCCAACACTCCTCCTTAGACTCCATGCTGTAAATACAAA
66 TGTAACAGCAGTATGGTTGGCCAATTTCCAACACTCCTCCTTAGACTCCATGCTGTAAATACAAA
58809613 TCATTCATCAAGGGTTTTTTTTTAACTTGGTAATCCTTAGATGCTTTGTTTCAAGCTGACTCTGT
131 TCATTCATCAAGGGTTTTTTTTTAACTTGGTAATCCTTAGATGCTTTGTTTCAAGCTGACTCTGT
58809678 CCAAGCAATTCATTTTCAACCTTGGCTTCATTCTCAACCAAATTTGACTTACACACTTGACTATA
196 CCAAGCAATTCATTTTCAACCTTGGCTTCATTCTCAACCAAATTTGACTTACACACTTGACTATA
* *
58809743 CCAGTCTTTTATGCCAAAGATTTGTTCATCAAATGGAGTCTTCTCCTTCTTCATAGCCTTGGTTG
261 CCAGTCTTTTATGCCAAAGATTTGTTCATCAAATGGAGTCTTCTCCTCCTTCACAGCCTTGGTTG
58809808 ACAACTTGCCTTCAAACACATCTTTTCTTTC
326 ACAACTTGCCTTCAAACACATCTTTTCTTTC
58809839 TTGTCTTATT
Statistics
Matches: 1179, Mismatches: 30, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
855 178 0.15
856 870 0.74
857 127 0.11
858 4 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (856 bp):
ATTGTGTTACAGTAAGCATACGTGTTGTAGCATGTCATCAAGTTGCATGCACTTCAACCAAAAAA
TGTAACAGCAGTATGGTTGGCCAATTTCCAACACTCCTCCTTAGACTCCATGCTGTAAATACAAA
TCATTCATCAAGGGTTTTTTTTTAACTTGGTAATCCTTAGATGCTTTGTTTCAAGCTGACTCTGT
CCAAGCAATTCATTTTCAACCTTGGCTTCATTCTCAACCAAATTTGACTTACACACTTGACTATA
CCAGTCTTTTATGCCAAAGATTTGTTCATCAAATGGAGTCTTCTCCTCCTTCACAGCCTTGGTTG
ACAACTTGCCTTCAAACACATCTTTTCTTTCCCGCATCTTGCTTCATTGTACTGTGCTGTCTATT
CTCTTCTTTTGCTGCTACCAATGTTCCAACAATTGGTATCATGAGCCTAAATCTTAAGGGACCAT
TGATTTTTCTTTCGCTGCTTGTTAAAAAGAAAGAAGCTGTCAAAACACAAGCAAGTCATTAAGGA
CTACTTGTAGAGAAAACAACATTAGCTTGACCTTATGAGACCCCCAAACAATATTGAATACGCTG
AAGGAGGAGTTTCAAGGAAAGTATGTGATCTTTCCAATGTGCAAGCTGCAAGCTCAGCAAAAATG
TACAAGCTACAAGCTTAGCAAGATGTCAAAGCTGCAAACTTAGCGAGAAGTGCGAGCTATGAGCT
CATCAAAAGTGTGAGCCCTGTATAATTGCGAGCCTGTTGAAGACAGTAAGCAAAGTGTGAGCCTG
TTGAATTGCAAGCCAAAATGGTAGATTGAAGGCAAGCAAACTATACTCACAAACTGTTTGTGCGA
GAAGAAACAGG
Found at i:58810075 original size:25 final size:25
Alignment explanation
Indices: 58810030--58810101 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
58810020 GCATTTCTCA
*
58810030 CTAATCTTGCAGCTTTG-ACATCTTG
1 CTAAGCTTGCAGC-TTGCACATCTTG
*
58810055 CTAAGCTTGCAGCTTGCACATTTTTG
1 CTAAGCTTGCAGCTTGCACA-TCTTG
* *
58810081 TTGAGCTTGCAGCTTGCACAT
1 CTAAGCTTGCAGCTTGCACAT
58810102 TGGAAAGCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.07
25 16 0.39
26 22 0.54
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (25 bp):
CTAAGCTTGCAGCTTGCACATCTTG
Found at i:58813148 original size:6 final size:6
Alignment explanation
Indices: 58813133--58813165 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
58813123 TTTTGGAAAG
*
58813133 AAAAAT -AAAAT AAAAAT AGAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
58813166 GATTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:58813155 original size:12 final size:12
Alignment explanation
Indices: 58813128--58813162 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
58813118 AGAAATTTTG
*
58813128 GAAAGAAAAATA
1 GAAATAAAAATA
58813140 -AAATAAAAATA
1 GAAATAAAAATA
58813151 GAAATAAAAATA
1 GAAATAAAAATA
58813163 AAAGATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (12 bp):
GAAATAAAAATA
Found at i:58820473 original size:20 final size:20
Alignment explanation
Indices: 58820450--58820489 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
58820440 GTAGTGCGAT
*
58820450 TAGAGCCATCGAAGTACAAA
1 TAGAGCCACCGAAGTACAAA
* *
58820470 TAGAGGCACCGAAGTGCAAA
1 TAGAGCCACCGAAGTACAAA
58820490 CCCGTACAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (20 bp):
TAGAGCCACCGAAGTACAAA
Found at i:58822394 original size:20 final size:21
Alignment explanation
Indices: 58822359--58822398 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58822349 TTTATAGGCT
*
58822359 AAATTCGTAGATTAAATAATA
1 AAATTCGTAGAGTAAATAATA
58822380 AAATTCGTAG-GTAAATAAT
1 AAATTCGTAGAGTAAATAAT
58822399 CTAGACTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (21 bp):
AAATTCGTAGAGTAAATAATA
Found at i:58829311 original size:24 final size:24
Alignment explanation
Indices: 58829284--58829340 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
58829274 AAGCCTAATT
*
58829284 CTAATAAATG-TAAAATATATTATG
1 CTAATAAATGCT-AAATATATTATA
58829308 CTAATAAATGCTAAATATATTATA
1 CTAATAAATGCTAAATATATTATA
*
58829332 CTACTAAAT
1 CTAATAAAT
58829341 ATTCTAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (24 bp):
CTAATAAATGCTAAATATATTATA
Found at i:58830377 original size:13 final size:13
Alignment explanation
Indices: 58830338--58830365 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58830328 ATTTCATGGG
58830338 TTTGATATTTTGA
1 TTTGATATTTTGA
58830351 TTTGATATTTTGA
1 TTTGATATTTTGA
58830364 TT
1 TT
58830366 ATATATATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (13 bp):
TTTGATATTTTGA
Found at i:58837918 original size:58 final size:58
Alignment explanation
Indices: 58837854--58838015 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 58
58837844 TTGTTATTAA
*
58837854 ATTTTAATA-AGATTATTATTAAATATATTTTAATAAAAATAATAAATAATTTAATCAC
1 ATTTTAATATA-ATTATTATTAAATATATTTTAATAAAAATAATAAATAATTTAATAAC
* * * * *
58837912 ATTTTAACATAATTATTATTAAATACAATTTAAT-AAAATAACATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATATTTTAATAAAAATAATAAATAATTTAATAAC
* *
58837969 ATTCTTAATATAATTATTATTAAA-ATATGAATTAATAAAAATCATAA
1 ATT-TTAATATAATTATTATTAAATATAT--TTTAATAAAAATAATAA
58838016 TATATAATAT
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
57 25 0.29
58 48 0.56
59 6 0.07
60 7 0.08
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATATATTTTAATAAAAATAATAAATAATTTAATAAC
Found at i:58844574 original size:66 final size:66
Alignment explanation
Indices: 58844502--58844637 Score: 218
Period size: 66 Copynumber: 2.1 Consensus size: 66
58844492 GACCACAGTT
* * *
58844502 GAGGTTCAAAATAAATATGAAGAACTCCAGCTACAACTTAAAGCGGATGCGGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCGGATGCGGCAGCCAGAGAAGC
58844567 A
66 A
* * *
58844568 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGT
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCGGATGCGGCAGCCAGAGAAGC
58844633 A
66 A
58844634 GAGG
1 GAGG
58844638 CTGCAGCGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.15
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCGGATGCGGCAGCCAGAGAAGC
A
Found at i:58845061 original size:43 final size:43
Alignment explanation
Indices: 58844984--58845121 Score: 226
Period size: 42 Copynumber: 3.3 Consensus size: 43
58844974 ACCAAACAAA
* **
58844984 TAGCGGCGTTTGTG-AAAAATTGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGATCTT
58845026 TAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGATCTT
*
58845069 TAGCGGCGTTTGTGT-TAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGATCTT
58845111 TAGCGGCGTTT
1 TAGCGGCGTTT
58845122 TTAAAGATAA
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
42 51 0.56
43 40 0.44
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGATCTT
Found at i:58847683 original size:8 final size:8
Alignment explanation
Indices: 58847670--58847701 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
58847660 GCACTTCATC
58847670 TTTTGTTT
1 TTTTGTTT
58847678 TTTTGTTT
1 TTTTGTTT
*
58847686 TTTTTTTT
1 TTTTGTTT
58847694 TTTTGTTT
1 TTTTGTTT
58847702 CTTGGTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (8 bp):
TTTTGTTT
Found at i:58847691 original size:13 final size:13
Alignment explanation
Indices: 58847670--58847701 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58847660 GCACTTCATC
58847670 TTTTGTTTTTTTG
1 TTTTGTTTTTTTG
58847683 TTTT-TTTTTTT-
1 TTTTGTTTTTTTG
58847694 TTTTGTTT
1 TTTTGTTT
58847702 CTTGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 10 0.56
13 4 0.22
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (13 bp):
TTTTGTTTTTTTG
Found at i:58858517 original size:17 final size:18
Alignment explanation
Indices: 58858488--58858524 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
58858478 AACCTTTTTT
58858488 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
58858506 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
58858523 TT
1 TT
58858525 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:58858875 original size:20 final size:22
Alignment explanation
Indices: 58858832--58858875 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
58858822 TTATTATTTC
*
58858832 ATGTATCTTTGATTTGTTTATT
1 ATGTATCTTTGATTTGTTGATT
*
58858854 ATGTAT-TTT-ATTTGTTGCTT
1 ATGTATCTTTGATTTGTTGATT
58858874 AT
1 AT
58858876 TTTAGTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 3 0.15
22 6 0.30
ACGTcount: A:0.18, C:0.05, G:0.14, T:0.64
Consensus pattern (22 bp):
ATGTATCTTTGATTTGTTGATT
Found at i:58863880 original size:14 final size:13
Alignment explanation
Indices: 58863841--58863884 Score: 58
Period size: 10 Copynumber: 3.5 Consensus size: 13
58863831 GAGTCAAACA
58863841 AAAAATGAAAAAT
1 AAAAATGAAAAAT
58863854 ---AATGAAAAAT
1 AAAAATGAAAAAT
58863864 AAAAATGAAAAAGT
1 AAAAATGAAAAA-T
58863878 AAAAATG
1 AAAAATG
58863885 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.37
13 9 0.33
14 8 0.30
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAATGAAAAAT
Found at i:58865313 original size:100 final size:99
Alignment explanation
Indices: 58865140--58866465 Score: 1675
Period size: 100 Copynumber: 13.3 Consensus size: 99
58865130 AAATCATAGT
** * * * *
58865140 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTTCAGGTGATGCAGCGAAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTAC-TTCCAGGCGGTGCAGCGGAACAGA
* ** *
58865205 TTGAAGCTACGACGATGAATCTCACTTCCCCGACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * * *
58865240 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACATTCTAGGCAGTGCAGCAGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTAC-TTCCAGGCGGTGCAGCGGAACAGA
*
58865305 TTAAAGCTACAACGGCGAATCTTACTTCCCCGACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* *
58865340 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTT-CCAGGCGGTGCAGCGGAACAGA
* * * * *
58865405 TTGAAGCTACGATGGCGAACCTCACTTCCTCGACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * * * * *
58865440 TTGTAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTGCCCAGGAGGTGTAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACT-TCCAGGCGGTGCAGCGGAACAGA
* * * * *
58865505 TTGAAGCTACAACGGTGATTTTTTCTTCCCCAACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
*
58865540 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCAGACGGTGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTAC-TTCCAGGCGGTGCAGCGGAACAGA
*
58865605 TTGAAGCTACAATGGCGAATCTTACTTCCCCGACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * **
58865640 TTACAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTTCAGGCGGTGCAGTAGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTAC-TTCCAGGCGGTGCAGCGGAACAGA
** * **
58865705 TTGAAGCTATGACGGCGAATCTCACTTCCTTGACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * *
58865740 TTGCAATTTAAAAA-ATTGAAGCCACAATGGTGAATCTTACTTCCAAGGCAGTGCAGCAGAATAG
1 TTGCAA-TTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTCC-AGGCGGTGCAGCGGAACAG
* * *
58865804 ATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACA
64 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * *
58865840 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCAAGCGATGCACCGAAATAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTAC-TTCCAGGCGGTGCAGCGGAACAGA
* * *
58865905 TTGAAGCTACAACAGCGAATCTTGCTTCCCCGATA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * *
58865940 TTGTAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTTCAGGCGGTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTAC-TTCCAGGCGGTGCAGCGGAACAGA
* * **
58866005 TTGAAGTTACAACGGCAAATCTTGTTTCCCCGACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
58866040 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTAC-TTCCAGGCGGTGCAGCGGAACAGA
* * * *
58866105 TTGAAGCTGCAACGGTGAATCTTGCTTCCTCGACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * *
58866140 TTGCAATTAAAAAGATTAAAGCTACAATGGCGAATCTTACATTCCAGGTGGTACAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTAC-TTCCAGGCGGTGCAGCGGAACAGA
*
58866205 TTGAAGCTACAACGGCG-ATCTTGCTTCCCCGACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * *
58866239 TTGCAATTAAAAAGATTGAAGCTGCAATGGTGAATCTTACTTCCTAGGCGATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTCC-AGGCGGTGCAGCGGAACAGA
* * *
58866304 TTGAAGCTACGACGGCGAATCTCACTTCCTCGACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * *
58866339 TAGCAATTTAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTT-CCAGGCGGTGCAGCGGAACAGA
* *
58866404 TTGAAGCTACAACGGCGAATCTTGCTTCCCTGACA
65 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
*
58866439 TTGCAATTAAAAAGATTAAAGCTACAA
1 TTGCAATTAAAAAGATTGAAGCTACAA
58866466 GTCAGAACTC
Statistics
Matches: 1064, Mismatches: 152, Indels: 20
0.86 0.12 0.02
Matches are distributed among these distances:
98 4 0.00
99 98 0.09
100 948 0.89
101 14 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (99 bp):
TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCAGGCGGTGCAGCGGAACAGAT
TGAAGCTACAACGGCGAATCTTACTTCCCCGACA
Found at i:58866455 original size:50 final size:50
Alignment explanation
Indices: 58865140--58866465 Score: 877
Period size: 50 Copynumber: 26.5 Consensus size: 50
58865130 AAATCATAGT
* ** **
58865140 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTTCAGGTGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCA-GACA
*** * * ** * *
58865191 -TGCAGCGAAACAGATTGAAGCTACGACGATGAATCTCACTTCCCCGACA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* * * *
58865240 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACATT-CTAGGCA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGACA
* ** * * *
58865290 GTGC-AGCAGAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGACA
1 TTGCAATTA-AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
*
58865340 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGAC-A
**** * * * * *
58865391 -TGCAGCGGAACAGATTGAAGCTACGATGGCGAACCTCACTTCCTC-GACA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCC-CAGACA
* * * * * *
58865440 TTGTAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTGCCCAGGA-G
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCA-GACA
* * **** * * * * *
58865490 GTGTAGCGGAACAGATTGAAGCTACAACGGTGATTTTTTCTTCCCCA-ACA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTT-CCCAGACA
* * *
58865540 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCAGACG
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* **** * * *
58865590 GTGCAGCGGAACAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGACA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* * ** * *
58865640 TTACAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTTCAGGCG
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* * * ** * **
58865690 GTGC-AGTAGAACAGATTGAAGCTATGACGGCGAATCTCACTTCCTTGACA
1 TTGCAATTA-AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* * * * *
58865740 TTGCAATTTAAAAA-ATTGAAGCCACAATGGTGAATCTTACTTCCAAGGCA
1 TTGCAA-TTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* ** * * * *
58865790 GTGC-AGCAGAATAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACA
1 TTGCAATTA-AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* *
58865840 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCA-AGCGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGA-C-A
*** * * * * *
58865891 -TGCACCGAAATAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGATA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* * ** * *
58865940 TTGTAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTTCAGGCG
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* * ** * * * ** *
58865990 GTGCAGTGGAACAGATTGAAGTTACAACGGCAAATCTTGTTTCCCCGACA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* * * *
58866040 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCAGGCG
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* **** * * * *
58866090 GTGCAGCGGAACAGATTGAAGCTGCAACGGTGAATCTTGCTTCCTC-GACA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCC-CAGACA
* * ***
58866140 TTGCAATTAAAAAGATTAAAGCTACAATGGCGAATCTTACATT-CCAGGTG
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGACA
* * **** * * *
58866190 GTACAGCGGAACAGATTGAAGCTACAACGGCG-ATCTTGCTTCCCCGACA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* * * * *
58866239 TTGCAATTAAAAAGATTGAAGCTGCAATGGTGAATCTTACTTCCTAGGCGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGAC-A
**** * * *
58866290 -TGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTCACTTCCTC-GACA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCC-CAGACA
* * * * * *
58866339 TAGCAATTTAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCAGGCG
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
* **** * * *
58866389 GTGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
*
58866439 TTGCAATTAAAAAGATTAAAGCTACAA
1 TTGCAATTAAAAAGATTGAAGCTACAA
58866466 GTCAGAACTC
Statistics
Matches: 930, Mismatches: 313, Indels: 65
0.71 0.24 0.05
Matches are distributed among these distances:
48 3 0.00
49 54 0.06
50 847 0.91
51 24 0.03
52 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (50 bp):
TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACA
Found at i:58868136 original size:17 final size:16
Alignment explanation
Indices: 58868110--58868143 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
58868100 TTTTATTTTA
58868110 TATAGATATAAATACT
1 TATAGATATAAATACT
*
58868126 TATAGGATATATATACT
1 TATA-GATATAAATACT
58868143 T
1 T
58868144 TACACTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (16 bp):
TATAGATATAAATACT
Found at i:58871897 original size:11 final size:11
Alignment explanation
Indices: 58871883--58871915 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
58871873 TTTCTCTAAT
58871883 ATATTAAATTA
1 ATATTAAATTA
58871894 ATATT-AATTA
1 ATATTAAATTA
*
58871904 ATATTATATTA
1 ATATTAAATTA
58871915 A
1 A
58871916 CAAAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATATTAAATTA
Found at i:58872567 original size:29 final size:28
Alignment explanation
Indices: 58872491--58872569 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 28
58872481 TGAAAGGCTC
58872491 AGTGACTAAAATGTTGCAACATGTTAACATA
1 AGTGACTAAAATG-T--AACATGTTAACATA
**
58872522 AGTGACTAAAACATAACAT-TTCAAACATA
1 AGTGACTAAAATGTAACATGTT--AACATA
58872551 AGTGACTAAAATGTAACAT
1 AGTGACTAAAATGTAACAT
58872570 AAGAAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 2 0.05
28 5 0.12
29 23 0.55
30 1 0.02
31 11 0.26
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.27
Consensus pattern (28 bp):
AGTGACTAAAATGTAACATGTTAACATA
Found at i:58872580 original size:29 final size:29
Alignment explanation
Indices: 58872519--58872580 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
58872509 ACATGTTAAC
** *
58872519 ATAAGTGACTAAAACATAACATTTCAAAC
1 ATAAGTGACTAAAACATAACATAACAAAA
** *
58872548 ATAAGTGACTAAAATGTAACATAAGAAAA
1 ATAAGTGACTAAAACATAACATAACAAAA
58872577 ATAA
1 ATAA
58872581 AATTGACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.56, C:0.11, G:0.10, T:0.23
Consensus pattern (29 bp):
ATAAGTGACTAAAACATAACATAACAAAA
Found at i:58873347 original size:43 final size:42
Alignment explanation
Indices: 58873236--58873432 Score: 166
Period size: 43 Copynumber: 4.6 Consensus size: 42
58873226 CGTTATAGGC
* * *
58873236 GATGATGCACT-TATGTG-CAAGTATATTTGCTTTGGTTTATTC
1 GATGATGCACTATGTGTGCCAA-TATAATTGCTTTGG-TTATTT
* ** *
58873278 GATGATGCATTGCGGGTGCCAATATAATTGCTTTGGTTCATTT
1 GATGATGCACTATGTGTGCCAATATAATTGCTTTGGTT-ATTT
* * *
58873321 GATGATGCACTATGTGCGCCAGTATAATTG-TTCTGGCTTGTTT
1 GATGATGCACTATGTGTGCCAATATAATTGCTT-TGG-TTATTT
* * * **
58873364 GATGATGCACTATGTATGCCAATATAATTGCTTCGGCTTGTCC
1 GATGATGCACTATGTGTGCCAATATAATTGCTTTGG-TTATTT
* *
58873407 AATGATGCACTATGTGTGCCACTATA
1 GATGATGCACTATGTGTGCCAATATA
58873433 TTTCTTTTGG
Statistics
Matches: 127, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
42 14 0.11
43 106 0.83
44 7 0.06
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (42 bp):
GATGATGCACTATGTGTGCCAATATAATTGCTTTGGTTATTT
Found at i:58874602 original size:21 final size:21
Alignment explanation
Indices: 58874561--58874603 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
58874551 GTGTGTTCTG
* *
58874561 TCACATGGGTGTGTCTCCCCC
1 TCACATGGGCGTGTCTACCCC
58874582 TCACATGGGCGTGT-TGACCCC
1 TCACATGGGCGTGTCT-ACCCC
58874603 T
1 T
58874604 ACACGGCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.12, C:0.35, G:0.26, T:0.28
Consensus pattern (21 bp):
TCACATGGGCGTGTCTACCCC
Found at i:58878106 original size:46 final size:46
Alignment explanation
Indices: 58878020--58878108 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
58878010 ACAGTCAAAC
* **
58878020 TCTATCTAAGATTCTGGACTAATAGAAATACAACTTATATATCAAT
1 TCTATCCAAGATTCTGGACTAATAGAAATACAACACATATATCAAT
* * *
58878066 TCTATCCAAGATTCTGGACTACTATAAATACTACACATATATC
1 TCTATCCAAGATTCTGGACTAATAGAAATACAACACATATATC
58878109 TACTTGTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (46 bp):
TCTATCCAAGATTCTGGACTAATAGAAATACAACACATATATCAAT
Found at i:58892677 original size:50 final size:50
Alignment explanation
Indices: 58892555--58892803 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
58892545 GATAATAACA
* * * ** * *
58892555 TGCCAAAGACATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
58892606 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
58892656 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
58892706 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
58892761 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
58892804 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:58892731 original size:100 final size:104
Alignment explanation
Indices: 58892554--58892803 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
58892544 CGATAATAAC
* **
58892554 ATGCCAAAGACATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
58892619 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
58892656 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
58892719 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
58892761 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
58892804 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 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:58892919 original size:13 final size:13
Alignment explanation
Indices: 58892898--58892929 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
58892888 GCTTGGATCA
*
58892898 TCATCAAATAAAT
1 TCATAAAATAAAT
58892911 TCATAAAATAAAT
1 TCATAAAATAAAT
58892924 TCATAA
1 TCATAA
58892930 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:58893200 original size:40 final size:41
Alignment explanation
Indices: 58893138--58893225 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 41
58893128 TTTTCTTTTC
*
58893138 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTTCCTTCCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
* *
58893179 TTTCTTT-CTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCCTTCCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
58893219 TTTCTTT
1 TTTCTTT
58893226 TATTTCTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 37 0.84
41 7 0.16
ACGTcount: A:0.00, C:0.28, G:0.09, T:0.62
Consensus pattern (41 bp):
TTTCTTTCCTTCCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:58893256 original size:3 final size:3
Alignment explanation
Indices: 58893248--58893313 Score: 69
Period size: 3 Copynumber: 25.0 Consensus size: 3
58893238 TGTCATATAT
58893248 ATA ATA AT- ATA AT- ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
58893289 ATA AT- ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
58893314 TAAAAACATA
Statistics
Matches: 54, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
2 18 0.33
3 36 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:58893259 original size:8 final size:8
Alignment explanation
Indices: 58893242--58893313 Score: 64
Period size: 8 Copynumber: 9.0 Consensus size: 8
58893232 TTTCTTTGTC
58893242 ATATATATA
1 ATATA-ATA
58893251 ATA-ATATA
1 ATATA-ATA
58893259 ATATAATA
1 ATATAATA
58893267 ATATAAT-
1 ATATAATA
58893274 ATA-ATATA
1 ATATA-ATA
58893282 ATATAAT-
1 ATATAATA
58893289 ATA-ATATA
1 ATATA-ATA
58893297 ATAATAATA
1 AT-ATAATA
58893306 ATATAATA
1 ATATAATA
58893314 TAAAAACATA
Statistics
Matches: 55, Mismatches: 0, Indels: 17
0.76 0.00 0.24
Matches are distributed among these distances:
6 2 0.04
7 10 0.18
8 31 0.56
9 11 0.20
10 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:58893261 original size:5 final size:5
Alignment explanation
Indices: 58893251--58893316 Score: 95
Period size: 5 Copynumber: 13.8 Consensus size: 5
58893241 CATATATATA
58893251 ATAAT ATAAT AT-A- ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-A-
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
58893297 ATAAT AATAAT ATAAT ATAA
1 ATAAT -ATAAT ATAAT ATAA
58893317 AAACATAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
3 4 0.07
4 4 0.07
5 43 0.77
6 5 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:58893264 original size:13 final size:13
Alignment explanation
Indices: 58893242--58893316 Score: 95
Period size: 13 Copynumber: 5.8 Consensus size: 13
58893232 TTTCTTTGTC
58893242 ATAT-ATATAATA
1 ATATAATATAATA
58893254 ATATAATATAATA
1 ATATAATATAATA
58893267 ATAT-A-AT-ATA
1 ATATAATATAATA
58893277 ATATAATATAATATA
1 ATATAATAT-A-ATA
58893292 ATATAATAATAATA
1 ATATAAT-ATAATA
58893306 ATATAATATAA
1 ATATAATATAA
58893317 AAACATAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.12
11 3 0.05
12 7 0.12
13 16 0.29
14 10 0.18
15 11 0.20
16 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:58896456 original size:16 final size:14
Alignment explanation
Indices: 58896435--58896491 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 14
58896425 TAAAATACTT
58896435 AAAAATAATAATTATA
1 AAAAATAATAA--ATA
*
58896451 AAAAAT-TTAGAATA
1 AAAAATAATA-AATA
58896465 AAAAATAATAAAATA
1 AAAAATAAT-AAATA
58896480 ATAAAATAATAA
1 A-AAAATAATAA
58896492 GAGTTGATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 9 0.26
15 10 0.29
16 16 0.46
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (14 bp):
AAAAATAATAAATA
Found at i:58896458 original size:33 final size:30
Alignment explanation
Indices: 58896416--58896475 Score: 75
Period size: 33 Copynumber: 1.9 Consensus size: 30
58896406 TTAGAATTCC
*
58896416 TAAATAATTTAAAATACTTAAAAATAATAATTA
1 TAAAAAATTTAAAATA---AAAAATAATAATTA
*
58896449 TAAAAAATTTAGAATAAAAAATAATAA
1 TAAAAAATTTAAAATAAAAAATAATAA
58896476 AATAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
33 14 0.56
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (30 bp):
TAAAAAATTTAAAATAAAAAATAATAATTA
Found at i:58896479 original size:8 final size:8
Alignment explanation
Indices: 58896461--58896491 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
58896451 AAAAATTTAG
58896461 AATAA-AA
1 AATAATAA
58896468 AATAATAA
1 AATAATAA
58896476 AATAATAA
1 AATAATAA
58896484 AATAATAA
1 AATAATAA
58896492 GAGTTGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.22
8 18 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:58909494 original size:27 final size:27
Alignment explanation
Indices: 58909456--58909510 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
58909446 CAAATGAAAG
58909456 AATGTATACAATCTAATTTTTAAGTAT
1 AATGTATACAATCTAATTTTTAAGTAT
58909483 AATGTATACAATCTAATTTTTAAGTAT
1 AATGTATACAATCTAATTTTTAAGTAT
58909510 A
1 A
58909511 TATAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (27 bp):
AATGTATACAATCTAATTTTTAAGTAT
Found at i:58912540 original size:18 final size:17
Alignment explanation
Indices: 58912519--58912552 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
58912509 ACAAGCCAAT
58912519 ATAAAAAATAATGATAAA
1 ATAAAAAATAAT-ATAAA
*
58912537 ATAAAAACTAATATAA
1 ATAAAAAATAATATAA
58912553 GATGGATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (17 bp):
ATAAAAAATAATATAAA
Found at i:58912600 original size:12 final size:12
Alignment explanation
Indices: 58912585--58912617 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
58912575 AGTAAATAAG
58912585 TAAATAAAATAT
1 TAAATAAAATAT
*
58912597 TAAATGAAATAT
1 TAAATAAAATAT
58912609 TAAATAAAA
1 TAAATAAAA
58912618 CAGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:58912624 original size:12 final size:12
Alignment explanation
Indices: 58912578--58912630 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
58912568 GAGAGTAAGT
58912578 AAATAAGTAAATA
1 AAAT-AGTAAATA
* *
58912591 AAATATTAAATG
1 AAATAGTAAATA
*
58912603 AAATATTAAATA
1 AAATAGTAAATA
* *
58912615 AAACAGTAAAAA
1 AAATAGTAAATA
58912627 AAAT
1 AAAT
58912631 GATGAAAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
12 29 0.88
13 4 0.12
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (12 bp):
AAATAGTAAATA
Found at i:58914248 original size:44 final size:44
Alignment explanation
Indices: 58914028--58914421 Score: 143
Period size: 44 Copynumber: 9.1 Consensus size: 44
58914018 CTTCGATCCA
* * * ** *
58914028 CTCCACTGCAACATCAAGGAGATAAGATTTGTTGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTCAATCTG
* * * * * *
58914072 CTCCATTGCGACCTC-GAGAAGATACGATTGGTTTATTCAGTCTG
1 CTCCACTGCAACTTCAG-GGAGATAAGATTGGTTTATTCAATCTG
* * * * *
58914116 CTCCGCTGCAACTTTAGAGAGATAAGACCT-G---ATGT-AATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTTAT-TCAATCTG
* * ** *** * *
58914157 CTCTACTGCAACTTTAAAGAGATAAGATCCATCATT-TT-AACCGG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGT--TTATTCAATCTG
* *
58914201 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTCAATCTG
* * * * * *
58914245 CTCCTCTACAACCTC-GTGGAGATACGATTGGTTTATTTAGTCTG
1 CTCCACTGCAACTTCAG-GGAGATAAGATTGGTTTATTCAATCTG
* * * * * * *
58914289 CTTCGCTACAACTTCATGGAGATAAGACCT-G---ATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGGTTTATTCAATCTG
* * *** * *
58914330 CTCTACTGCAACTTCAGAGAGATAAGATCCATCATT-TT-AACCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGT--TTATTCAATCTG
* * *
58914374 CTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTCAATCTG
58914418 CTCC
1 CTCC
58914422 TCTACAACCT
Statistics
Matches: 249, Mismatches: 78, Indels: 46
0.67 0.21 0.12
Matches are distributed among these distances:
41 57 0.23
42 5 0.02
43 5 0.02
44 177 0.71
45 5 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTCAATCTG
Found at i:58914317 original size:173 final size:173
Alignment explanation
Indices: 58914028--58914438 Score: 592
Period size: 173 Copynumber: 2.4 Consensus size: 173
58914018 CTTCGATCCA
* * * * * * * * *
58914028 CTCCACTGCAACATCAAGGAGATAAGATTTGTTGCTTTAATCTGCTCCAT-TGCGACCTCGAGAA
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCC-TCTACAACCTCGAGGA
* * * *
58914092 GATACGATTGGTTTATTCAGTCTGCTCCGCTGCAACTTTAGAGAGATAAGACCTGATGTAATTTG
65 GATACGATTGGTTTATTCAGTCTGCTCCGCTACAACTTCAGAGAGATAAGACCTGATGCAATCTG
* *
58914157 CTCTACTGCAACTTTAAAGAGATAAGATCCATCATTTTAACCGG
130 CTCTACTGCAACTTCAAAGAGATAAGATCCATCATTTTAACCCG
*
58914201 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCTCTACAACCTCGTGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCTCTACAACCTCGAGGAG
* * *
58914266 ATACGATTGGTTTATTTAGTCTGCTTCGCTACAACTTCATG-GAGATAAGACCTGATGCGATCTG
66 ATACGATTGGTTTATTCAGTCTGCTCCGCTACAACTTCA-GAGAGATAAGACCTGATGCAATCTG
*
58914330 CTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAACCCG
130 CTCTACTGCAACTTCAAAGAGATAAGATCCATCATTTTAACCCG
* *
58914374 CTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCAATCTGCTCCTCTACAACCTCGGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCTCTACAACCTCGAGGAG
58914439 GTAAAATCTA
Statistics
Matches: 214, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
172 1 0.00
173 212 0.99
174 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (173 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCTCTACAACCTCGAGGAG
ATACGATTGGTTTATTCAGTCTGCTCCGCTACAACTTCAGAGAGATAAGACCTGATGCAATCTGC
TCTACTGCAACTTCAAAGAGATAAGATCCATCATTTTAACCCG
Found at i:58914386 original size:85 final size:85
Alignment explanation
Indices: 58914115--58914397 Score: 216
Period size: 85 Copynumber: 3.3 Consensus size: 85
58914105 TATTCAGTCT
* * * * * *
58914115 GCTCCGCTGCAACTTTAGAGAGATAAGACCTGATGTAATTTGCTCTACTGCAACTTTAAAGAGAT
1 GCTCCACTGCAACTTCAGAGAGATAAGACCTGATGCAATCTGCTCTACTGCAACTTCAGAGAGAT
*
58914180 AAGATCCATCATTTTAACCG
66 AAGATCCATCATTTTAACCC
* * * * * * *
58914200 GCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTTCAATCTGCTCCT-CTACAACCTC-GT
1 GCTCCACTGCAACTTCAGAGAGATAAGACCT-G---ATGCAATCTGCT-CTACTGCAACTTCAG-
* * *** * ** *
58914262 GGAGATACGATTGGT-TTATTTAGTCT
60 AGAGATAAGATCCATCAT-TTTAACCC
* * * *
58914288 GCTTCGCTACAACTTCATG-GAGATAAGACCTGATGCGATCTGCTCTACTGCAACTTCAGAGAGA
1 GCTCCACTGCAACTTCA-GAGAGATAAGACCTGATGCAATCTGCTCTACTGCAACTTCAGAGAGA
58914352 TAAGATCCATCATTTTAACCC
65 TAAGATCCATCATTTTAACCC
58914373 GCTCCACTGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGAGAGATA
58914398 GGATTGGTTT
Statistics
Matches: 141, Mismatches: 44, Indels: 26
0.67 0.21 0.12
Matches are distributed among these distances:
84 4 0.03
85 77 0.55
86 2 0.01
87 1 0.01
88 53 0.38
89 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (85 bp):
GCTCCACTGCAACTTCAGAGAGATAAGACCTGATGCAATCTGCTCTACTGCAACTTCAGAGAGAT
AAGATCCATCATTTTAACCC
Found at i:58914551 original size:45 final size:45
Alignment explanation
Indices: 58914472--58914742 Score: 335
Period size: 45 Copynumber: 5.8 Consensus size: 45
58914462 TAGTCTGTTA
*
58914472 CAACGCCAGGGAAATAAGATTCGATGCCTTCAGCTTTAATCTACTG
1 CAACGCCAGGGAAA-AAGATTCGCTGCCTTCAGCTTTAATCTACTG
* * * *
58914518 TAATGCCAGGGAAAAAGATTTGCTGCCTTCAGCTTTAATCTACTA
1 CAACGCCAGGGAAAAAGATTCGCTGCCTTCAGCTTTAATCTACTG
* * * *
58914563 CAACACCAGGGAAAATGATTTGTTGCCTTCAGCTTTAATCTACTG
1 CAACGCCAGGGAAAAAGATTCGCTGCCTTCAGCTTTAATCTACTG
58914608 CAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTACTG
1 CAACGCCAGGG-AAAAAGATTCGCTGCCTTCAGCTTTAA-----TCTACTG
* * * * *
58914659 CCACGCTAGGAAAAAAGATTTGCTGCCTTTAGCTTTAATCTACTG
1 CAACGCCAGGGAAAAAGATTCGCTGCCTTCAGCTTTAATCTACTG
*
58914704 CAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAA
1 CAACGCCAGGGAAA-AAGATTCGCTGCCTTCAGCTTTAA
58914743 GCTGCTCAAC
Statistics
Matches: 192, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
45 94 0.49
46 58 0.30
50 25 0.13
51 15 0.08
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (45 bp):
CAACGCCAGGGAAAAAGATTCGCTGCCTTCAGCTTTAATCTACTG
Found at i:58914699 original size:96 final size:95
Alignment explanation
Indices: 58914481--58914760 Score: 363
Period size: 96 Copynumber: 3.0 Consensus size: 95
58914471 ACAACGCCAG
* * * * *
58914481 GGAAATAAGATTCGATGCCTTCAGCTTTAATCTACTGTAATGCCAGGG-AAAAAGATTTGCTGCC
1 GGAAAAAAGATTTGATGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAAAAAGATTCGCTGCC
* **
58914545 TTCAGCTTTAATCT--ACTAC-AACAC-CA
66 TTCAGCTTTAATCTGCTCTACTGCCACGCA
* * *
58914571 GGGAAAATGATTTGTTGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAAAAAGATTCGCTGCC
1 GGAAAAAAGATTTGATGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAAAAAGATTCGCTGCC
58914636 TTCAGCTTTAATCTGCTCTACTGCCACGCTA
66 TTCAGCTTTAATCTGCTCTACTGCCACGC-A
* * * *
58914667 GGAAAAAAGATTTGCTGCCTTTAGCTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCC
1 GGAAAAAAGATTTGATGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAAAAAGATTCGCTGCC
* *
58914732 TTCAGCTTTAAGCTGCTCAACTGCCACGC
66 TTCAGCTTTAATCTGCTCTACTGCCACGC
58914761 CAGGGGTATA
Statistics
Matches: 165, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
90 41 0.25
91 29 0.18
93 4 0.02
94 3 0.02
95 1 0.01
96 87 0.53
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (95 bp):
GGAAAAAAGATTTGATGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAAAAAGATTCGCTGCC
TTCAGCTTTAATCTGCTCTACTGCCACGCA
Found at i:58919370 original size:30 final size:30
Alignment explanation
Indices: 58919334--58919392 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
58919324 CTATTCTACC
58919334 ATCCTCAACAAGTACGAAGATAAACCACAA
1 ATCCTCAACAAGTACGAAGATAAACCACAA
*
58919364 ATCCTCAACAAGTTCGAAGATAAACCACA
1 ATCCTCAACAAGTACGAAGATAAACCACA
58919393 GTCTATGTCA
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:0.47, C:0.27, G:0.10, T:0.15
Consensus pattern (30 bp):
ATCCTCAACAAGTACGAAGATAAACCACAA
Found at i:58925908 original size:27 final size:27
Alignment explanation
Indices: 58925878--58925937 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
58925868 TCTCACTCCC
58925878 ACTTAAAGGGGTAAAATTGACCAACTT
1 ACTTAAAGGGGTAAAATTGACCAACTT
*
58925905 ACTTAAAGGGGTAAAATTGACTAACTT
1 ACTTAAAGGGGTAAAATTGACCAACTT
*
58925932 GCTTAA
1 ACTTAA
58925938 TGCAAAATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (27 bp):
ACTTAAAGGGGTAAAATTGACCAACTT
Found at i:58927111 original size:18 final size:17
Alignment explanation
Indices: 58927090--58927123 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
58927080 ACAAGCCAAT
58927090 ATAAAAAATAATGATAAA
1 ATAAAAAATAAT-ATAAA
*
58927108 ATAAAAACTAATATAA
1 ATAAAAAATAATATAA
58927124 GATGGATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (17 bp):
ATAAAAAATAATATAAA
Found at i:58927171 original size:12 final size:12
Alignment explanation
Indices: 58927156--58927188 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
58927146 AGTAAATAAG
58927156 TAAATAAAATAT
1 TAAATAAAATAT
*
58927168 TAAATGAAATAT
1 TAAATAAAATAT
58927180 TAAATAAAA
1 TAAATAAAA
58927189 CAGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:58927195 original size:12 final size:12
Alignment explanation
Indices: 58927149--58927200 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
58927139 GAGAGTAAGT
58927149 AAATAAGTAAATA
1 AAAT-AGTAAATA
* *
58927162 AAATATTAAATG
1 AAATAGTAAATA
*
58927174 AAATATTAAATA
1 AAATAGTAAATA
*
58927186 AAACAGTAAA-A
1 AAATAGTAAATA
58927197 AAAT
1 AAAT
58927201 GATGAAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 4 0.12
12 25 0.76
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (12 bp):
AAATAGTAAATA
Found at i:58930842 original size:29 final size:30
Alignment explanation
Indices: 58930766--58930929 Score: 278
Period size: 30 Copynumber: 5.5 Consensus size: 30
58930756 TATATGTATA
* * *
58930766 ATATACAAATCAATTCGACAATATATATAC
1 ATATACAAATCAATTCGGCAATGTATATCC
*
58930796 GTATACAAATCAATTCGGCAATGTATATCC
1 ATATACAAATCAATTCGGCAATGTATATCC
58930826 ATA-ACAAATCAATTCGGCAATGTATATCC
1 ATATACAAATCAATTCGGCAATGTATATCC
58930855 ATATACAAATCAATTCGGCAATGTATATCC
1 ATATACAAATCAATTCGGCAATGTATATCC
58930885 ATA-ACAAATCAATTCGGCAATGTATATCC
1 ATATACAAATCAATTCGGCAATGTATATCC
58930914 ATATACAAATCAATTC
1 ATATACAAATCAATTC
58930930 AGAAGTATAT
Statistics
Matches: 127, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
29 58 0.46
30 69 0.54
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (30 bp):
ATATACAAATCAATTCGGCAATGTATATCC
Found at i:58930852 original size:59 final size:59
Alignment explanation
Indices: 58930770--58930929 Score: 284
Period size: 59 Copynumber: 2.7 Consensus size: 59
58930760 TGTATAATAT
* * * *
58930770 ACAAATCAATTCGACAATATATATACGTATACAAATCAATTCGGCAATGTATATCCATA
1 ACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCGGCAATGTATATCCATA
58930829 ACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCGGCAATGTATATCCATA
1 ACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCGGCAATGTATATCCATA
58930888 ACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTC
1 ACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTC
58930930 AGAAGTATAT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 97 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (59 bp):
ACAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCGGCAATGTATATCCATA
Done.