Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 299 of 345
Found at i:89994632 original size:2 final size:2
Alignment explanation
Indices: 89994593--89994618 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
89994583 AGTCATGCGC
89994593 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
89994619 TAATGCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89994632 original size:68 final size:65
Alignment explanation
Indices: 89994547--89994681 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 65
89994537 GCTTCATTTA
** *
89994547 ATATTAATGCATATATATAATGTTTTCCTTCATTTAAGTCATGCGCATATATATATATATATATA
1 ATATTAATGCATATATATAACATTTACCTTCATTTAAGTCAT--GCATATAT-TATATATATATA
89994612 TAT
63 TAT
** *
89994615 ATATTAATGCATATATATTCCATTTAGCTTCATTTAAGTCATGCATATATTATATATATATATAT
1 ATATTAATGCATATATATAACATTTACCTTCATTTAAGTCATGCATATATTATATATATATATAT
89994680 AT
1 AT
89994682 TATAAAAACC
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
65 17 0.28
66 8 0.13
68 36 0.59
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (65 bp):
ATATTAATGCATATATATAACATTTACCTTCATTTAAGTCATGCATATATTATATATATATATAT
Found at i:90008275 original size:44 final size:43
Alignment explanation
Indices: 90008224--90008365 Score: 146
Period size: 42 Copynumber: 3.3 Consensus size: 43
90008214 ATCTGAGATA
** * * *
90008224 TCGTGTAAGACTGTGTCTAGGACACAGGCCTCGAT-TTTAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATATCT-GATT
*
90008267 TACGTGTAAGACCATGTCTGGGACATAGGCATC-ATATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCGATATCTGATT
* *
90008310 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATA-CTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATATCTG-ATT
* *
90008353 ACATGTAAGACCA
1 TCGTGTAAGACCA
90008366 CGTCCAGGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
42 32 0.38
43 24 0.29
44 28 0.33
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATATCTGATT
Found at i:90009661 original size:40 final size:40
Alignment explanation
Indices: 90009598--90009679 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
90009588 TTCTGATTGT
*
90009598 GTTTTGTTTAGTCTGAACATTTTCTAAAAGTATGTCTTAA
1 GTTTAGTTTAGTCTGAACATTTTCTAAAAGTATGTCTTAA
*
90009638 GTTTAGTTTAGTCTGAACCTTTTCTAAAAGTATGTCTTAA
1 GTTTAGTTTAGTCTGAACATTTTCTAAAAGTATGTCTTAA
90009678 GT
1 GT
90009680 CTTGGGGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (40 bp):
GTTTAGTTTAGTCTGAACATTTTCTAAAAGTATGTCTTAA
Found at i:90011302 original size:23 final size:23
Alignment explanation
Indices: 90011252--90011371 Score: 98
Period size: 23 Copynumber: 5.2 Consensus size: 23
90011242 GGACTCACCA
* * * *
90011252 TAGCTTGTATGAGCTTACCGATT
1 TAGCTCGTAAGAGCTTACTGTTT
*
90011275 CAGCTCGTAAGAGCTTACTGTTT
1 TAGCTCGTAAGAGCTTACTGTTT
* ** *
90011298 TAGCTCATTGGTGCTTACTGTTT
1 TAGCTCGTAAGAGCTTACTGTTT
* * ** *
90011321 CAGCTCATTGGAGCTTACTGATT
1 TAGCTCGTAAGAGCTTACTGTTT
90011344 TAGCTCG-ATAGAGCTTACTGTTT
1 TAGCTCGTA-AGAGCTTACTGTTT
90011367 TAGCT
1 TAGCT
90011372 AATTAGAGCT
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (23 bp):
TAGCTCGTAAGAGCTTACTGTTT
Found at i:90011323 original size:46 final size:46
Alignment explanation
Indices: 90011262--90011410 Score: 147
Period size: 46 Copynumber: 3.2 Consensus size: 46
90011252 TAGCTTGTAT
* * * * *
90011262 GAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTTTTAGCTC-ATTG
1 GAGCTTACTGTTTCAGCTCATAAGAGCTTACTGATTTAGCTCGA-TA
* **
90011308 GTGCTTACTGTTTCAGCTCATTGGAGCTTACTGATTTAGCTCGATA
1 GAGCTTACTGTTTCAGCTCATAAGAGCTTACTGATTTAGCTCGATA
* * * * * **
90011354 GAGCTTACTGTTTTAGCTAATTAGAGCTTACCGATTCAGCTTAATA
1 GAGCTTACTGTTTCAGCTCATAAGAGCTTACTGATTTAGCTCGATA
90011400 GAGCTTACTGT
1 GAGCTTACTGT
90011411 CCATCAGCTC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 85 0.99
47 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (46 bp):
GAGCTTACTGTTTCAGCTCATAAGAGCTTACTGATTTAGCTCGATA
Found at i:90011378 original size:23 final size:23
Alignment explanation
Indices: 90011284--90011410 Score: 123
Period size: 23 Copynumber: 5.5 Consensus size: 23
90011274 TCAGCTCGTA
*
90011284 AGAGCTTACTGTTTTAGCTCATT
1 AGAGCTTACTGTTTTAGCTAATT
* * * *
90011307 GGTGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTTAGCTAATT
* * *
90011330 GGAGCTTACTGATTTAGCTCGA-T
1 AGAGCTTACTGTTTTAGCT-AATT
90011353 AGAGCTTACTGTTTTAGCTAATT
1 AGAGCTTACTGTTTTAGCTAATT
* * *
90011376 AGAGCTTACCGATTCAGCTTAA-T
1 AGAGCTTACTGTTTTAGC-TAATT
90011399 AGAGCTTACTGT
1 AGAGCTTACTGT
90011411 CCATCAGCTC
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
22 1 0.01
23 81 0.94
24 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (23 bp):
AGAGCTTACTGTTTTAGCTAATT
Found at i:90011383 original size:69 final size:69
Alignment explanation
Indices: 90011262--90011409 Score: 190
Period size: 69 Copynumber: 2.1 Consensus size: 69
90011252 TAGCTTGTAT
* * * * * *
90011262 GAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTTTTAGCTCATTGGTGCTTACTGTTTCAGCTC
1 GAGCTTACTGATTCAGCTCGTAAGAGCTTACTGTTTTAGCTAATTAGAGCTTACCGATTCAGCTC
* *
90011327 ATTG
66 AATA
*
90011331 GAGCTTACTGATTTAGCTCG-ATAGAGCTTACTGTTTTAGCTAATTAGAGCTTACCGATTCAGCT
1 GAGCTTACTGATTCAGCTCGTA-AGAGCTTACTGTTTTAGCTAATTAGAGCTTACCGATTCAGCT
*
90011395 TAATA
65 CAATA
90011400 GAGCTTACTG
1 GAGCTTACTG
90011410 TCCATCAGCT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
68 1 0.01
69 67 0.99
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (69 bp):
GAGCTTACTGATTCAGCTCGTAAGAGCTTACTGTTTTAGCTAATTAGAGCTTACCGATTCAGCTC
AATA
Found at i:90017193 original size:17 final size:17
Alignment explanation
Indices: 90017171--90017203 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
90017161 TTTTCAGACC
90017171 TTTCAAACTTTACATCT
1 TTTCAAACTTTACATCT
90017188 TTTCAAACTTTACATC
1 TTTCAAACTTTACATC
90017204 AAAACCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTCAAACTTTACATCT
Found at i:90020258 original size:23 final size:23
Alignment explanation
Indices: 90020228--90020274 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
90020218 GGCCACCAGA
90020228 CACACCCGTGTGTCTAAGCCGTG
1 CACACCCGTGTGTCTAAGCCGTG
*
90020251 CACACCCGTGTGTCTAGGCCGTG
1 CACACCCGTGTGTCTAAGCCGTG
90020274 C
1 C
90020275 TTGAGACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (23 bp):
CACACCCGTGTGTCTAAGCCGTG
Found at i:90025041 original size:46 final size:46
Alignment explanation
Indices: 90024985--90025154 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
90024975 TGGTTGAGCA
90024985 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
90025031 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
**
90025076 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* **
90025124 -CTCGAGCTCGTTGAGTTGAGTTTGAGTTCAC
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCAC
90025155 TTAGGGGCGG
Statistics
Matches: 103, Mismatches: 9, Indels: 24
0.76 0.07 0.18
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 53 0.51
47 28 0.27
48 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:90025418 original size:19 final size:20
Alignment explanation
Indices: 90025381--90025418 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
90025371 ATAAGGTGGT
90025381 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
90025401 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
90025419 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:90030765 original size:20 final size:21
Alignment explanation
Indices: 90030740--90030779 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
90030730 CTCTTGGAAC
90030740 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
90030760 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
90030780 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:90030952 original size:28 final size:28
Alignment explanation
Indices: 90030898--90030952 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
90030888 ATAGGGGTTT
*
90030898 TCACATGGCCTGACACATGCCCGTGTCCC
1 TCACACGGCCTGACACA-GCCCGTGTCCC
90030927 TCACACGGCCATGACAC-GCCCGTGTC
1 TCACACGGCC-TGACACAGCCCGTGTC
90030953 TAAAAACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.18, C:0.42, G:0.22, T:0.18
Consensus pattern (28 bp):
TCACACGGCCTGACACAGCCCGTGTCCC
Found at i:90032359 original size:47 final size:47
Alignment explanation
Indices: 90032253--90032425 Score: 187
Period size: 47 Copynumber: 3.6 Consensus size: 47
90032243 TGAGGCTGGC
90032253 GCCATGTCCCAGACATGATCTTACACTAGC-C-CTCACATATTCGTGCCGAT
1 GCCATGTCCCAGACATG-TCTTACACTAGCTCTCTCACATA----TGCCGAT
90032303 GCCATGTCCCAGACATGTCTTACACTAGCTCTCGTCACA-ATGCCGAT
1 GCCATGTCCCAGACATGTCTTACACTAGCTCTC-TCACATATGCCGAT
* *
90032350 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-A-ATGTGGCCGAT
1 GCCATGTCCCAGACAT-GTCTTACACTAGCTCTC-TCACATAT-GCCGAT
* *
90032398 G-CATGTCCCAAACATGTCTTACATTAGC
1 GCCATGTCCCAGACATGTCTTACACTAGC
90032426 ACACAAATAA
Statistics
Matches: 111, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
46 12 0.11
47 38 0.34
48 24 0.22
49 12 0.11
50 18 0.16
51 2 0.02
52 5 0.05
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACATGTCTTACACTAGCTCTCTCACATATGCCGAT
Found at i:90032372 original size:97 final size:94
Alignment explanation
Indices: 90032253--90032425 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
90032243 TGAGGCTGGC
* *
90032253 GCCATGTCCCAGACATGATCTTACACTAGCCCTCACATATTCGT-GCCGATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGATCTTACACT-G-CCTCACATAAT-GTGGCCGATG-CATGTCCCAAAC
90032317 ATGTCTTACACTAGCTCTCGTCACAATGCCGAT
62 ATGTCTTACACTAGCTCTCGTCACAATGCCGAT
* * *
90032350 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAAACATGT
1 GCCATGTCCCAGACATGATCTTACACTGCCTCACATAATGTGGCCGATGCATGTCCCAAACATGT
*
90032415 CTTACATTAGC
66 CTTACACTAGC
90032426 ACACAAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
94 27 0.39
95 15 0.22
96 1 0.01
97 26 0.38
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (94 bp):
GCCATGTCCCAGACATGATCTTACACTGCCTCACATAATGTGGCCGATGCATGTCCCAAACATGT
CTTACACTAGCTCTCGTCACAATGCCGAT
Found at i:90034139 original size:46 final size:46
Alignment explanation
Indices: 90034082--90034205 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 46
90034072 CAGCTCGTAT
* *
90034082 GAGCTTACCGATTCAGCTCG-TAAGAGTTTACTATTTCAGCTCAATG
1 GAGCTTACCGATTCAGCTCGAT-AGAGCTTACTATTTCAACTCAATG
* * * *
90034128 GAGCTTACCGATTCAACTCGATAGAGCTTGCTGTTTCAACTCATTG
1 GAGCTTACCGATTCAGCTCGATAGAGCTTACTATTTCAACTCAATG
*
90034174 GAGCTTACCGATTCAGCTCAATAGAGCTTACT
1 GAGCTTACCGATTCAGCTCGATAGAGCTTACT
90034206 GTCCATCAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 67 0.99
47 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (46 bp):
GAGCTTACCGATTCAGCTCGATAGAGCTTACTATTTCAACTCAATG
Found at i:90034193 original size:23 final size:23
Alignment explanation
Indices: 90034082--90034204 Score: 106
Period size: 23 Copynumber: 5.3 Consensus size: 23
90034072 CAGCTCGTAT
*
90034082 GAGCTTACCGATTCAGCTC-GTAA
1 GAGCTTACCGATTCAGCTCAAT-A
* * *
90034105 GAGTTTA-CTATTTCAGCTCAATG
1 GAGCTTACCGA-TTCAGCTCAATA
* *
90034128 GAGCTTACCGATTCAACTCGATA
1 GAGCTTACCGATTCAGCTCAATA
* * * * * *
90034151 GAGCTTGCTGTTTCAACTCATTG
1 GAGCTTACCGATTCAGCTCAATA
90034174 GAGCTTACCGATTCAGCTCAATA
1 GAGCTTACCGATTCAGCTCAATA
90034197 GAGCTTAC
1 GAGCTTAC
90034205 TGTCCATCAG
Statistics
Matches: 76, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
22 2 0.03
23 71 0.93
24 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (23 bp):
GAGCTTACCGATTCAGCTCAATA
Found at i:90038255 original size:13 final size:14
Alignment explanation
Indices: 90038222--90038260 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
90038212 TTCAAATTAG
90038222 TTAAAAACCAATTC
1 TTAAAAACCAATTC
90038236 TTAAAAACCAAGTT-
1 TTAAAAACCAA-TTC
*
90038250 TTAAAACCCAA
1 TTAAAAACCAA
90038261 ATCCACAGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.51, C:0.21, G:0.03, T:0.26
Consensus pattern (14 bp):
TTAAAAACCAATTC
Found at i:90040974 original size:13 final size:12
Alignment explanation
Indices: 90040956--90040998 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
90040946 ACCTTAGCTT
90040956 TTTCTCCTTTTTC
1 TTTCT-CTTTTTC
90040969 TTTCTCTTTTTCC
1 TTTCTCTTTTT-C
*
90040982 TTCTTTCTTTTTC
1 TT-TCTCTTTTTC
90040995 TTTC
1 TTTC
90040999 ATTTTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.27
13 11 0.42
14 8 0.31
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTCTCTTTTTC
Found at i:90040987 original size:22 final size:21
Alignment explanation
Indices: 90040953--90040995 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
90040943 AAAACCTTAG
90040953 CTTTTTCTCCTTT-TTCTTTCT
1 CTTTTTCTCCTTTCTT-TTTCT
*
90040974 CTTTTTCCTTCTTTCTTTTTCT
1 CTTTTT-CTCCTTTCTTTTTCT
90040996 TTCATTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 11 0.58
23 2 0.11
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
CTTTTTCTCCTTTCTTTTTCT
Found at i:90040988 original size:20 final size:20
Alignment explanation
Indices: 90040955--90040997 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
90040945 AACCTTAGCT
90040955 TTTTCTCCTTTTTCTTTCTC
1 TTTTCTCCTTTTTCTTTCTC
*
90040975 TTTT-TCCTTCTTTCTTTTTC
1 TTTTCTCCTT-TTTCTTTCTC
90040995 TTT
1 TTT
90040998 CATTTTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTCTCCTTTTTCTTTCTC
Found at i:90041143 original size:20 final size:19
Alignment explanation
Indices: 90041118--90041165 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
90041108 AAGTATTACA
*
90041118 TATATTATTATATACATATG
1 TATATTATT-TATACACATG
*
90041138 TATATTATTTTTACACATG
1 TATATTATTTATACACATG
90041157 TA-ATTATTT
1 TATATTATTT
90041166 TTACCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 10 0.38
20 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTATACACATG
Found at i:90041164 original size:18 final size:19
Alignment explanation
Indices: 90041118--90041169 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
90041108 AAGTATTACA
* *
90041118 TATATTATTATATACATATG
1 TATATTATT-TTTACACATG
90041138 TATATTATTTTTACACATG
1 TATATTATTTTTACACATG
90041157 TA-ATTATTTTTAC
1 TATATTATTTTTAC
90041170 CATACACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 10 0.33
20 9 0.30
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTTTACACATG
Found at i:90050342 original size:2 final size:2
Alignment explanation
Indices: 90050335--90050369 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
90050325 GAGTTGTAAG
90050335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90050370 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:90050892 original size:50 final size:50
Alignment explanation
Indices: 90050774--90051218 Score: 424
Period size: 50 Copynumber: 8.8 Consensus size: 50
90050764 GTTGTGAGAA
* * *** *
90050774 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT--TGTTAGGT
* * *
90050826 TACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * ** * * *
90050876 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTGATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* *
90050927 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
90050977 CACGTATGTAGTACTAAGTGTAGGCTACTACGTATACCAAATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * *
90051027 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGT
* * * * * * *
90051078 CACGTGTGTAGTAATAAGTACAGGCTACTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * **
90051128 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCAGATTCATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
90051178 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
90051219 GAGCTTCGGT
Statistics
Matches: 313, Mismatches: 76, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
49 2 0.01
50 200 0.64
51 76 0.24
52 35 0.11
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:90050974 original size:101 final size:101
Alignment explanation
Indices: 90050774--90051214 Score: 433
Period size: 101 Copynumber: 4.4 Consensus size: 101
90050764 GTTGTGAGAA
* * * * *
90050774 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGATAGTTTTAGGTTACGTGTGTAGC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACT-AGATAG-TTTAGGTCACATGTGTAGT
*
90050838 ACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
64 ACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAGGT
* * * * *
90050876 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTGATAGTTTCGATCACATGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAGTTTAGGTCACATGTGTAGTAC
* **
90050941 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
66 TAAGTGCAGGCTACTACGTGTACCAGATTCTTAGGT
* * * * * * * * * *
90050977 CACGTATGTAGTACTAAGTGTAGGCTACTACGTATACCAAATTG-ATAGGTCGCATGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAGTTTAGGTCACATGTGTAGTAC
* * * * *
90051041 TAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTGAT
66 TAAGTGCAGGCTACTACGTGTACCAGATT--CTTAGGT
* * * * ** * *
90051078 CACGTGTGTAGTAATAAGTACAGGCTACTACGTGTA-TCAGAT-GGATAAGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACT-AGATAGTTTAGGTCACATGTGTAGTA
* *
90051141 CTAAGTGAAGGCTACTACGTGTACCAGATTCATAGGT
65 CTAAGTGCAGGCTACTACGTGTACCAGATTCTTAGGT
* *
90051178 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
90051215 CAGAGAGCTT
Statistics
Matches: 274, Mismatches: 58, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
99 1 0.00
100 73 0.27
101 160 0.58
102 39 0.14
103 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAGTTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGTGTACCAGATTCTTAGGT
Found at i:90051050 original size:151 final size:151
Alignment explanation
Indices: 90050774--90051215 Score: 643
Period size: 151 Copynumber: 2.9 Consensus size: 151
90050764 GTTGTGAGAA
* * * * * * *
90050774 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTTACGTGTGTAGCA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-G-GTTAGGTCACGTGTGTAGTA
* *
90050839 CTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
64 CTAAGTGAAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
** *
90050904 TATGCGTACTTGAT-AGTTTCGAT
129 TATGCGTACCCGATAACTTT-GAT
*
90050927 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTATGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
* * *
90050992 AAGTGTAGGCTACTACGTATACCAAATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 AAGTGAAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
*
90051057 TGCGTACCCGTTAACTTTGAT
131 TGCGTACCCGATAACTTTGAT
* * * * *
90051078 CACGTGTGTAGTAATAAGTACAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
*
90051143 AAGTGAAGGCTACTACGTGTACCAGATTCATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 AAGTGAAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
90051208 TGCGTACC
131 TGCGTACC
90051216 AGAGAGCTTC
Statistics
Matches: 262, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
151 219 0.84
152 5 0.02
153 38 0.15
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGAAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
TGCGTACCCGATAACTTTGAT
Found at i:90052096 original size:180 final size:180
Alignment explanation
Indices: 90051773--90052099 Score: 485
Period size: 180 Copynumber: 1.8 Consensus size: 180
90051763 TCCGAGAGTT
* ** *
90051773 GTACCATGAAATAAATAATTATTAGTGAAGAGAGGTCAGAACTGTCGGACAGTGAAACAGGGGTA
1 GTACCATGAAATAAATAATTATTAGTGAAGAGAGGTCAAAACTGTCGGACAGCAAAACAGAGGTA
* * * * *
90051838 TCTTTAATGAATAAACTGTACTAATTAGCTAAACTAAAAATTCTAAAAATTTTATGATAATAATA
66 TATTTAATGAATAAACTATACTAATTAGCTAAACCAAAAATTCTAAAAATTTTATGATAAGAAGA
*
90051903 TATGTGAGTCTAGTTTCTGGTAAAATTAGTTGTTCTCAATTTGGAGTCTC
131 TATATGAGTCTAGTTTCTGGTAAAATTAGTTGTTCTCAATTTGGAGTCTC
*
90051953 GTACCATGAAATAAATAATTTTTAGTGAAGAG-GGCTCAAAACTGTCGGACAGCAAAACAGAGGT
1 GTACCATGAAATAAATAATTATTAGTGAAGAGAGG-TCAAAACTGTCGGACAGCAAAACAGAGGT
* * * * *
90052017 ATATTTAATGAATAAACTATACTTATTGGCTAGACCAAAAATTCTGAAAATTTTATGGTAAGAAG
65 ATATTTAATGAATAAACTATACTAATTAGCTAAACCAAAAATTCTAAAAATTTTATGATAAGAAG
*
90052082 ATATATGCGTCTAGTTTC
130 ATATATGAGTCTAGTTTC
90052100 ATAGAAAATT
Statistics
Matches: 129, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
179 2 0.02
180 127 0.98
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (180 bp):
GTACCATGAAATAAATAATTATTAGTGAAGAGAGGTCAAAACTGTCGGACAGCAAAACAGAGGTA
TATTTAATGAATAAACTATACTAATTAGCTAAACCAAAAATTCTAAAAATTTTATGATAAGAAGA
TATATGAGTCTAGTTTCTGGTAAAATTAGTTGTTCTCAATTTGGAGTCTC
Found at i:90059647 original size:44 final size:42
Alignment explanation
Indices: 90059590--90059749 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 42
90059580 TGTTTTCCTA
* * *
90059590 TAAGATCACGTCTGGGACATTGGCATCG-ACTTATGATTTATGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTA-TT-TGATTT-CGTG
*
90059634 TAAGACCATGTCTGGGACATCGGCATCGTATTTGATTTCGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCGTG
* * * * * * * *
90059676 TAAAACCCTGTCTAGGACAGTGGCATTGATATTTGGTTACATG
1 TAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTTCGTG
* * ** *
90059719 TAAGACCACGTCTAGGATGTTGGCATTGTAT
1 TAAGACCATGTCTGGGACATTGGCATCGTAT
90059750 GAGCTTTCCG
Statistics
Matches: 95, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 28 0.29
43 39 0.41
44 27 0.28
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCGTG
Found at i:90059694 original size:42 final size:44
Alignment explanation
Indices: 90059599--90059694 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
90059589 ATAAGATCAC
* * *
90059599 GTCTGGGACATTGGCATCGACTTATGATTTATGTGTAAGACCAT
1 GTCTGGGACATCGGCATCGACTTATGATTTACGTGTAAAACCAT
*
90059643 GTCTGGGACATCGGCATCGTA-TT-TGATTT-CGTGTAAAACCCT
1 GTCTGGGACATCGGCATCG-ACTTATGATTTACGTGTAAAACCAT
*
90059685 GTCTAGGACA
1 GTCTGGGACA
90059695 GTGGCATTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 19 0.41
43 6 0.13
44 20 0.43
45 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (44 bp):
GTCTGGGACATCGGCATCGACTTATGATTTACGTGTAAAACCAT
Found at i:90059701 original size:42 final size:42
Alignment explanation
Indices: 90059599--90059710 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 42
90059589 ATAAGATCAC
* *
90059599 GTCTGGGACATTGGCATCG-ACTTATGATTTATGTGTAAGACCAT
1 GTCTGGGACA-TGGCATCGTA-TT-TGATTTACGTGTAAAACCAT
*
90059643 GTCTGGGACATCGGCATCGTATTTGATTT-CGTGTAAAACCCT
1 GTCTGGGACAT-GGCATCGTATTTGATTTACGTGTAAAACCAT
* *
90059685 GTCTAGGACAGTGGCATTGATATTTG
1 GTCTGGGACA-TGGCATCG-TATTTG
90059711 GTTACATGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
42 25 0.42
43 14 0.24
44 19 0.32
45 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
GTCTGGGACATGGCATCGTATTTGATTTACGTGTAAAACCAT
Found at i:90060510 original size:22 final size:24
Alignment explanation
Indices: 90060485--90060529 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
90060475 GTTTTTGGCT
90060485 TATGAAATG-ACATGA-ATTGGTA
1 TATGAAATGAACATGAGATTGGTA
**
90060507 TATGTTATGAACATGAGATTGGT
1 TATGAAATGAACATGAGATTGGT
90060530 TGATAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (24 bp):
TATGAAATGAACATGAGATTGGTA
Found at i:90065221 original size:6 final size:6
Alignment explanation
Indices: 90065202--90065244 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
90065192 GAAGCAGTGG
* * *
90065202 AGAAAA AGAGAA AGAAAA AGGAAA AGAAAA ATAAAA TAGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA -AGAAAA
90065245 CTAAGGATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (6 bp):
AGAAAA
Found at i:90065931 original size:38 final size:39
Alignment explanation
Indices: 90065825--90065937 Score: 95
Period size: 38 Copynumber: 2.9 Consensus size: 39
90065815 CTTCGACCTC
* *
90065825 GAGTCAATGAGACACTGGGTGTCATACTGTTACTTCGGATA
1 GAGTCGATGAGACACTAGGTGTCA-ACT-TTACTTCGGATA
* ** * * * * *
90065866 GATTCGATGAGGTACTCGGT-ACCACTTTACTTTGGCTA
1 GAGTCGATGAGACACTAGGTGTCAACTTTACTTCGGATA
*
90065904 G-GTCGATGAGACACTAGGTGTCAACTTTGCTTCG
1 GAGTCGATGAGACACTAGGTGTCAACTTTACTTCG
90065938 AACTATCCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
37 14 0.26
38 21 0.39
39 3 0.06
40 1 0.02
41 15 0.28
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (39 bp):
GAGTCGATGAGACACTAGGTGTCAACTTTACTTCGGATA
Found at i:90071841 original size:51 final size:49
Alignment explanation
Indices: 90071649--90071813 Score: 276
Period size: 49 Copynumber: 3.4 Consensus size: 49
90071639 ATCAAGATTC
* *
90071649 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
90071698 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
90071747 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATAAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
90071796 GTGAAAGTGTATATATAT
1 GTGAAAGTGTATATATAT
90071814 ATGTGGTAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 109 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (49 bp):
GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:90076216 original size:23 final size:23
Alignment explanation
Indices: 90076190--90076239 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
90076180 TTTATTTAGG
90076190 TTATATTTAAATATTATATATAA
1 TTATATTTAAATATTATATATAA
90076213 TTATATTTAAATATTATATATAA
1 TTATATTTAAATATTATATATAA
90076236 TTAT
1 TTAT
90076240 TATAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTATATTTAAATATTATATATAA
Found at i:90076254 original size:13 final size:13
Alignment explanation
Indices: 90076190--90076243 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 13
90076180 TTTATTTAGG
* *
90076190 TTATATTTAAATA
1 TTATATATAATTA
90076203 TTATATATAATTA
1 TTATATATAATTA
*
90076216 -TAT-T-TAAATA
1 TTATATATAATTA
90076226 TTATATATAATTA
1 TTATATATAATTA
90076239 TTATA
1 TTATA
90076244 ATTATTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 4 0.12
13 21 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATATATAATTA
Found at i:90076801 original size:19 final size:17
Alignment explanation
Indices: 90076757--90076806 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
90076747 TGCGTTAATT
90076757 AAATAAAA-AGTAAAAAA
1 AAATAAAAGAG-AAAAAA
90076774 AATATAAAAGAGAAATAAA
1 AA-ATAAAAGAGAAA-AAA
90076793 GAAATAAAAGAGAA
1 -AAATAAAAGAGAA
90076807 TAGAAACAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.07
18 9 0.31
19 16 0.55
20 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAATAAAAGAGAAAAAA
Found at i:90079431 original size:2 final size:2
Alignment explanation
Indices: 90079424--90079451 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
90079414 AGTCATTAAC
90079424 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90079452 GTGTGCCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90080217 original size:40 final size:40
Alignment explanation
Indices: 90080055--90080218 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
90080045 TGAATGATAC
* * *
90080055 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
90080095 CCAGGCTAAGACCAGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
90080135 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
90080175 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
90080215 CCGG
1 CCGG
90080219 TTAAATCCCG
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
39 3 0.03
40 91 0.92
41 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:90081849 original size:71 final size:71
Alignment explanation
Indices: 90081765--90081901 Score: 247
Period size: 71 Copynumber: 1.9 Consensus size: 71
90081755 TAGCAAAAGA
* *
90081765 TTTATATGAACTTATGATTATATTATAACATGTTCGATAATTATTTAAATATTAATCGTAAATTA
1 TTTATATGAACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATTA
90081830 TATGAT
66 TATGAT
*
90081836 TTTATATGTACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATTA
1 TTTATATGAACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATTA
90081901 T
66 T
90081902 CTAATTATCT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (71 bp):
TTTATATGAACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATTA
TATGAT
Found at i:90084915 original size:44 final size:42
Alignment explanation
Indices: 90084867--90085023 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 42
90084857 TGTGTTTTTG
90084867 TGTAAGACCATGTCTGGGACATTGGCATCGACTTATGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TGATTTACA
** *
90084911 TGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGATTTACA
* * *
90084953 TGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTG-GTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCG--ATTTGATTTACA
* *
90084996 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
90085024 TGTATGAGCT
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 29 0.30
43 37 0.38
44 30 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTTGATTTACA
Found at i:90085796 original size:22 final size:24
Alignment explanation
Indices: 90085765--90085809 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
90085755 GTTTTTGACT
90085765 TATGTAATG-ACATGA-ATTGGTA
1 TATGTAATGAACATGAGATTGGTA
*
90085787 TATGTTATGAACATGAGATTGGT
1 TATGTAATGAACATGAGATTGGT
90085810 TGATAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 6 0.30
24 6 0.30
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.38
Consensus pattern (24 bp):
TATGTAATGAACATGAGATTGGTA
Found at i:90087487 original size:31 final size:30
Alignment explanation
Indices: 90087430--90087488 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
90087420 ATAAATACTC
* * *
90087430 AAAATTTGAGGGAATAAAGTGTAAATATGA
1 AAAAGTTGAAGGAATAAAGTGCAAATATGA
*
90087460 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGAATAA-AGTGCAAATAT
90087489 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.49, C:0.03, G:0.22, T:0.25
Consensus pattern (30 bp):
AAAAGTTGAAGGAATAAAGTGCAAATATGA
Found at i:90097994 original size:18 final size:17
Alignment explanation
Indices: 90097967--90098032 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 17
90097957 ATTATAAAAT
*
90097967 AATTTTTAAAATTTAAA
1 AATTTATAAAATTTAAA
* *
90097984 ATATTTATAAAGGTTTCAA
1 A-ATTTATAAA-ATTTAAA
**
90098003 AATTTAT-ATTTTTAAA
1 AATTTATAAAATTTAAA
*
90098019 AAATTATAAAATTT
1 AATTTATAAAATTT
90098033 CTAAAAAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
16 11 0.30
17 6 0.16
18 14 0.38
19 6 0.16
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTATAAAATTTAAA
Found at i:90104326 original size:11 final size:9
Alignment explanation
Indices: 90104294--90104350 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
90104284 GACTTTAATT
90104294 TTTTTTATA
1 TTTTTTATA
* *
90104303 ATTTCTA-A
1 TTTTTTATA
90104311 TTTTTT-TA
1 TTTTTTATA
90104319 GTATTTTTATA
1 -T-TTTTTATA
90104330 TTTTTTATA
1 TTTTTTATA
90104339 TTTTTT-TA
1 TTTTTTATA
90104347 TTTT
1 TTTT
90104351 ATTTTTGAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
8 12 0.30
9 20 0.50
10 6 0.15
11 2 0.05
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTTTATA
Found at i:90104439 original size:10 final size:10
Alignment explanation
Indices: 90104390--90104488 Score: 52
Period size: 9 Copynumber: 10.6 Consensus size: 10
90104380 TTTAAATATG
*
90104390 TTTTTATCAA
1 TTTTTATAAA
*
90104400 -TTTTAT-AC
1 TTTTTATAAA
90104408 TTTTTA-AAA
1 TTTTTATAAA
* *
90104417 TTTAT-TAGA
1 TTTTTATAAA
90104426 -TTTTATAAA
1 TTTTTATAAA
90104435 TTTTTAT-AA
1 TTTTTATAAA
* *
90104444 TATTTATAAG
1 TTTTTATAAA
* * *
90104454 TTTGTGT-GA
1 TTTTTATAAA
90104463 TTTCTTATAAA
1 TTT-TTATAAA
90104474 TTTTTA-AAA
1 TTTTTATAAA
90104483 TTTTTA
1 TTTTTA
90104489 AAGTTTATAT
Statistics
Matches: 65, Mismatches: 16, Indels: 17
0.66 0.16 0.17
Matches are distributed among these distances:
8 4 0.06
9 41 0.63
10 16 0.25
11 4 0.06
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:90105187 original size:23 final size:23
Alignment explanation
Indices: 90105134--90105181 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
90105124 ATTTATGTGA
90105134 GTAGTT-TTTATTTATTATTATG
1 GTAGTTATTTATTTATTATTATG
90105156 GTAGTTATTTATTTATTTATTATG
1 GTAGTTATTTATTTA-TTATTATG
90105180 GT
1 GT
90105182 TTTATTATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (23 bp):
GTAGTTATTTATTTATTATTATG
Found at i:90108221 original size:42 final size:42
Alignment explanation
Indices: 90108155--90108284 Score: 163
Period size: 42 Copynumber: 3.1 Consensus size: 42
90108145 TATTTTAAGG
* * * * *
90108155 AGGAGCAGGCATAGGAGGATTCCTAATTAACCCGGAAGAAGT
1 AGGAGTAGTCATAGGAGAACTCCTAAGTAACCCGGAAGAAGT
* *
90108197 AGGAGTAGTTATAGGAGAACTCCTAAGTAACACGGAA-AATGT
1 AGGAGTAGTCATAGGAGAACTCCTAAGTAACCCGGAAGAA-GT
* *
90108239 AGGAGTTGTCATATGAGAACTCCTAAGTAACCCGGAAGAAGT
1 AGGAGTAGTCATAGGAGAACTCCTAAGTAACCCGGAAGAAGT
90108281 AGGA
1 AGGA
90108285 CCAGCAGAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 71 0.95
43 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (42 bp):
AGGAGTAGTCATAGGAGAACTCCTAAGTAACCCGGAAGAAGT
Found at i:90118518 original size:2 final size:2
Alignment explanation
Indices: 90118457--90118500 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
90118447 TCTATAAAGT
90118457 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90118499 TA
1 TA
90118501 ACAATCAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90119444 original size:43 final size:43
Alignment explanation
Indices: 90119383--90119468 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
90119373 CATAACTCTG
*
90119383 TAAATATTCTTATTTTATATTTACAGACTCGGTTTATGAAAAT
1 TAAATATTCTTATTTTATATTTACAGACTCGGTTTACGAAAAT
90119426 TAAATATTCTTATTTTATATTTACAGACTCGGTTTACGAAAAT
1 TAAATATTCTTATTTTATATTTACAGACTCGGTTTACGAAAAT
90119469 GAGATTCCGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.45
Consensus pattern (43 bp):
TAAATATTCTTATTTTATATTTACAGACTCGGTTTACGAAAAT
Found at i:90119762 original size:10 final size:10
Alignment explanation
Indices: 90119747--90119780 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
90119737 TTTATATATC
90119747 TATATCTATA
1 TATATCTATA
90119757 TATATCTATA
1 TATATCTATA
*
90119767 TATATATATA
1 TATATCTATA
90119777 TATA
1 TATA
90119781 GATATTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (10 bp):
TATATCTATA
Found at i:90119780 original size:6 final size:6
Alignment explanation
Indices: 90119739--90119785 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
90119729 TTAGTTCTTT
* * * *
90119739 TATATA TCTATA TCTATA TATATC TATATA TATATA TATATA GATAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATAT
90119786 TTCTGTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (6 bp):
TATATA
Found at i:90119785 original size:16 final size:16
Alignment explanation
Indices: 90119739--90119777 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
90119729 TTAGTTCTTT
*
90119739 TATATATCTATATCTA
1 TATATATCTATATATA
90119755 TATATATCTATATATA
1 TATATATCTATATATA
90119771 TATATAT
1 TATATAT
90119778 ATAGATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATATCTATATATA
Found at i:90119843 original size:26 final size:25
Alignment explanation
Indices: 90119814--90119888 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
90119804 TTTTAGTTCT
90119814 TTTATATGTTTATATATTTTTATAAA
1 TTTATAT-TTTATATATTTTTATAAA
* *
90119840 TTTATAAATTTTAAAT-TTTTTATTAA
1 TTTAT--ATTTTATATATTTTTATAAA
* *
90119866 TTTATATATTATAAATTTTTATA
1 TTTATATTTTATATATTTTTATA
90119889 CGTTTTCTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
24 6 0.15
25 7 0.17
26 19 0.47
27 6 0.15
28 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (25 bp):
TTTATATTTTATATATTTTTATAAA
Found at i:90122326 original size:28 final size:28
Alignment explanation
Indices: 90122295--90122350 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
90122285 GCTTTGGAAG
90122295 AATAACACACTTTGTACTACTTCTGATT
1 AATAACACACTTTGTACTACTTCTGATT
90122323 AATAACACACTTTGTACTACTTCTGATT
1 AATAACACACTTTGTACTACTTCTGATT
90122351 TAGCGAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (28 bp):
AATAACACACTTTGTACTACTTCTGATT
Found at i:90124033 original size:28 final size:28
Alignment explanation
Indices: 90123996--90124051 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
90123986 GGAAGGAAAG
90123996 AAAGAATATTAGAATTTGTTGGTATGAT
1 AAAGAATATTAGAATTTGTTGGTATGAT
90124024 AAAGAATATTAGAATTTGTTGGTATGAT
1 AAAGAATATTAGAATTTGTTGGTATGAT
90124052 TTCCAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (28 bp):
AAAGAATATTAGAATTTGTTGGTATGAT
Found at i:90125237 original size:19 final size:19
Alignment explanation
Indices: 90125213--90125273 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
90125203 AATCTTTAAG
90125213 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
90125232 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
90125251 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
90125268 GATATG
1 GATATG
90125274 ATATGATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:90130920 original size:1 final size:1
Alignment explanation
Indices: 90130914--90130966 Score: 88
Period size: 1 Copynumber: 53.0 Consensus size: 1
90130904 CTTCTATTTC
* *
90130914 AAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
90130967 TGGAGAGGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:90130949 original size:27 final size:27
Alignment explanation
Indices: 90130914--90130966 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
90130904 CTTCTATTTC
90130914 AAAAAAAAAGAAAAAAAAAAAAAAAAA
1 AAAAAAAAAGAAAAAAAAAAAAAAAAA
90130941 AAAAAAAAAGAAAAAAAAAAAAAAAA
1 AAAAAAAAAGAAAAAAAAAAAAAAAA
90130967 TGGAGAGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAAAAAAAAAAAAA
Found at i:90132374 original size:204 final size:205
Alignment explanation
Indices: 90131907--90133067 Score: 1897
Period size: 204 Copynumber: 5.7 Consensus size: 205
90131897 GCAGATCTAG
* * * *
90131907 CTGAAGCAAGATCCAAGATGGTTTGGCGTCCTTGTGCTTACAATGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCT
* ** *
90131972 GATTTGGTTTTCGTGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
90132037 AGAGCAAATCAAAGTTTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTC
130 AGAACAAATCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTC
90132102 AGATGTTTATA
195 AGATGTTTATA
*
90132113 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAACTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
*
90132178 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
90132243 GAACAAATCAAAGTCTGGCATCTCCATTTCGAC-GAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
90132307 GATGTTTATA
196 GATGTTTATA
* *
90132317 GTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
* *
90132382 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAA-ATGATTTGGCATCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *
90132446 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAAATACATAGCAAATCTAACCTTTA
131 GAACAAATCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
90132511 GATGTTTATA
196 GATGTTTATA
90132521 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
* *
90132586 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATCGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
** * *
90132651 GAACAAATTGAAGTCTAGTATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
90132716 GATGTTTATA
196 GATGTTTATA
* *
90132726 CTGAAGCAGATCCAAGATGGTTTGACATACTTGTGCTTACAAGGAA-AAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
*
90132790 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
90132855 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAACAGATCTAACCTTCA
131 GAACAAATCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
90132920 GATG-----A
196 GATGTTTATA
* * * *
90132925 CTAAAGCAGATCCAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCGAAGGCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
* * * *
90132990 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATTTAAGATGATTTGGCATCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
90133055 GAACAAATCAAAG
131 GAACAAATCAAAG
90133068 AAACAGATTT
Statistics
Matches: 900, Mismatches: 52, Indels: 12
0.93 0.05 0.01
Matches are distributed among these distances:
199 43 0.05
200 88 0.10
203 58 0.06
204 422 0.47
205 282 0.31
206 7 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
GATGTTTATA
Found at i:90133721 original size:19 final size:19
Alignment explanation
Indices: 90133697--90133757 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
90133687 AATCTTTAAG
90133697 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
90133716 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
90133735 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
90133752 GATATG
1 GATATG
90133758 ATATGATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:90138089 original size:13 final size:13
Alignment explanation
Indices: 90138071--90138101 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
90138061 GGGTTGTGGC
90138071 GGCTGATGGTGTT
1 GGCTGATGGTGTT
90138084 GGCTGATGGTGTT
1 GGCTGATGGTGTT
90138097 GGCTG
1 GGCTG
90138102 TTAGGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.10, G:0.48, T:0.35
Consensus pattern (13 bp):
GGCTGATGGTGTT
Found at i:90138848 original size:177 final size:177
Alignment explanation
Indices: 90138550--90139159 Score: 756
Period size: 177 Copynumber: 3.5 Consensus size: 177
90138540 TCTCTGAGTC
* * * * * * *
90138550 GGTGGCTAAAATCTG-TTCTGTAGCCGATACATAGAGATAAGACTCACCATTTCTGATCTGCTTC
1 GGTGGCTAAAATCTGCTTC-ATATCCGATACATGGAGATAAGATTCGCCATTTTTGATCTGCTCC
* ** * *
90138614 ATAG-C----C---G-GATAAGATTTGTAATTTCCAATCTGCTTCTTGTAACTTCAGGAAGATAA
65 ATAGCCGATACATGGAGATAAGATTCGTAATTTCCAGCCTGCTTCCTATAACTTCAGGAAGATAA
*
90138670 GACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT
130 GACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACT
* * * * *
90138718 GGTGGCTAAAATCTACTTCATAGCCAATCCATGAAGATAAGATTCGCCATTTTTGATCTGCTCCA
1 GGTGGCTAAAATCTGCTTCATATCCGATACATGGAGATAAGATTCGCCATTTTTGATCTGCTCCA
** *
90138783 TAGCCGATACATGGAGATAAGATTCGTAATTTGTAGCCTGCTTCCTATAGCTTCAGGAAGATAAG
66 TAGCCGATACATGGAGATAAGATTCGTAATTTCCAGCCTGCTTCCTATAACTTCAGGAAGATAAG
* * *
90138848 ACTTGTGTCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGACC
131 ACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACT
* *
90138895 GGTGGCTAAAATCTGCCTCATATCCGATACATGGAGATAAGACTT-GCCATTTCTGATCTGCTCC
1 GGTGGCTAAAATCTGCTTCATATCCGATACATGGAGATAAGA-TTCGCCATTTTTGATCTGCTCC
** * * * *
90138959 ATAGGTGGTACATGGAGATAAGATTTGTAATTTCCAGTCTGCTTCCTATAACTTTAGGAAGATAA
65 ATAGCCGATACATGGAGATAAGATTCGTAATTTCCAGCCTGCTTCCTATAACTTCAGGAAGATAA
* * * *
90139024 GACTTGTATCTTCAACCTGCTTTTTTGCTATCTAAGAGAGATAAGACT
130 GACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACT
* * * *
90139072 GGTGGCTAAAATTTGCTCCATATCCGATACATGGAGATAAGACTCGCCATTTTTGATCTGCTGCA
1 GGTGGCTAAAATCTGCTTCATATCCGATACATGGAGATAAGATTCGCCATTTTTGATCTGCTCCA
*
90139137 TAGCCGATACGTGGAGATAAGAT
66 TAGCCGATACATGGAGATAAGAT
90139160 CTATAATTTT
Statistics
Matches: 375, Mismatches: 55, Indels: 15
0.84 0.12 0.03
Matches are distributed among these distances:
168 54 0.14
169 4 0.01
173 1 0.00
176 2 0.01
177 312 0.83
178 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (177 bp):
GGTGGCTAAAATCTGCTTCATATCCGATACATGGAGATAAGATTCGCCATTTTTGATCTGCTCCA
TAGCCGATACATGGAGATAAGATTCGTAATTTCCAGCCTGCTTCCTATAACTTCAGGAAGATAAG
ACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACT
Found at i:90139169 original size:45 final size:45
Alignment explanation
Indices: 90139085--90139171 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
90139075 GGCTAAAATT
* * *
90139085 TGCTCCATATCCGATACATGGAGATAAGACTCGCCATTTTTGATC
1 TGCTCCATAGCCGATACATGGAGATAAGACTCACAATTTTTGATC
* * *
90139130 TGCTGCATAGCCGATACGTGGAGATAAGA-TCTATAATTTTTG
1 TGCTCCATAGCCGATACATGGAGATAAGACTC-ACAATTTTTG
90139172 GCTTATTACC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 2 0.06
45 33 0.94
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (45 bp):
TGCTCCATAGCCGATACATGGAGATAAGACTCACAATTTTTGATC
Found at i:90139543 original size:15 final size:15
Alignment explanation
Indices: 90139523--90139554 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
90139513 TTAAGCTTGA
90139523 TGGGTTCTGAATAAT
1 TGGGTTCTGAATAAT
90139538 TGGGTTCTGAATAAT
1 TGGGTTCTGAATAAT
90139553 TG
1 TG
90139555 ACCTGTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.41
Consensus pattern (15 bp):
TGGGTTCTGAATAAT
Found at i:90145611 original size:19 final size:19
Alignment explanation
Indices: 90145570--90145613 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
90145560 GTGAAGTTTG
* *
90145570 ATGCACATGATGCGATGTA
1 ATGCAAATGATGAGATGTA
90145589 ATGCAAATGCATGAGATGT-
1 ATGCAAATG-ATGAGATGTA
90145608 ATGCAA
1 ATGCAA
90145614 GACTAAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (19 bp):
ATGCAAATGATGAGATGTA
Found at i:90150551 original size:2 final size:2
Alignment explanation
Indices: 90150544--90150579 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
90150534 GAAATATGTG
90150544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90150580 GAAGATTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90154904 original size:29 final size:29
Alignment explanation
Indices: 90154871--90154944 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
90154861 CCTTCGAGCT
90154871 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
90154900 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
90154929 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
90154945 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:90154905 original size:58 final size:58
Alignment explanation
Indices: 90154812--90154944 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
90154802 ATACTCGATT
* * * * *
90154812 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
90154870 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
90154928 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
90154945 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:90162784 original size:29 final size:29
Alignment explanation
Indices: 90162751--90162824 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
90162741 CCTTCGAGCT
90162751 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
90162780 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
90162809 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
90162825 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:90162785 original size:58 final size:58
Alignment explanation
Indices: 90162692--90162824 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
90162682 ATACTCGATT
* * * * *
90162692 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
90162750 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
90162808 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
90162825 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:90174207 original size:11 final size:11
Alignment explanation
Indices: 90174190--90174239 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
90174180 TCTTTTTTTC
90174190 ACTATTTTGCT
1 ACTATTTTGCT
* *
90174201 ACCATTTTACT
1 ACTATTTTGCT
* *
90174212 ATTATGTTGCT
1 ACTATTTTGCT
*
90174223 ACTATTTTGTT
1 ACTATTTTGCT
90174234 ACTATT
1 ACTATT
90174240 GTTTAGATAT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (11 bp):
ACTATTTTGCT
Found at i:90177217 original size:16 final size:16
Alignment explanation
Indices: 90177196--90177227 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
90177186 TAGGGTTGAG
*
90177196 AAAATTATTTAATTAA
1 AAAATTAATTAATTAA
90177212 AAAATTAATTAATTAA
1 AAAATTAATTAATTAA
90177228 TTTAACTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATTAATTAATTAA
Found at i:90178706 original size:30 final size:30
Alignment explanation
Indices: 90178665--90178745 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
90178655 AGCCTAATCT
* *
90178665 ATGTCAGCTTGTGTAAGCAACCTTGATATA
1 ATGTCAGCTTGTGTGAGCAACCCTGATATA
*
90178695 ATGTTAGCTTGTGTGAGCAACCCTGATATA
1 ATGTCAGCTTGTGTGAGCAACCCTGATATA
90178725 ATGTCAGCTTGTGTGAGCAAC
1 ATGTCAGCTTGTGTGAGCAAC
90178746 TTATTCACCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (30 bp):
ATGTCAGCTTGTGTGAGCAACCCTGATATA
Found at i:90191507 original size:20 final size:20
Alignment explanation
Indices: 90191479--90191516 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90191469 CTAGGAACTA
90191479 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
90191499 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
90191517 TATATGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:90196303 original size:93 final size:93
Alignment explanation
Indices: 90196143--90196316 Score: 251
Period size: 93 Copynumber: 1.9 Consensus size: 93
90196133 GTTTCAGAAG
* * * *
90196143 GATGTTAAGTTTGAGTGATCAGAAAAGTGTAAGCAAATCTTCGAGAAATTTAAGATGTTGTTAAC
1 GATGTAAAGTTTGAGTGATCAGAAAAGTGTAAGCAAAGCTTCGAGAAATTGAAGATGTTATTAAC
90196208 TGAAGCA-CTGATTTTATTGCTTCAAAAT
66 TGAAGCATC-GATTTTATTGCTTCAAAAT
* * * * *
90196236 GATGTAAAGTTTGTGTGGTTAGAAAAGTGTCAGCAAAGCTTCGAGAAATTGAAGATGTTATTGAC
1 GATGTAAAGTTTGAGTGATCAGAAAAGTGTAAGCAAAGCTTCGAGAAATTGAAGATGTTATTAAC
90196301 TGAAGCATCGATTTTA
66 TGAAGCATCGATTTTA
90196317 GTACAACCTG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.33
Consensus pattern (93 bp):
GATGTAAAGTTTGAGTGATCAGAAAAGTGTAAGCAAAGCTTCGAGAAATTGAAGATGTTATTAAC
TGAAGCATCGATTTTATTGCTTCAAAAT
Found at i:90202102 original size:52 final size:52
Alignment explanation
Indices: 90202037--90202139 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
90202027 TATGAACACA
90202037 CGATTGACCCTATCTCATGATGGTGAAATTCTAGCAGAGTTGAGAGCTAGAC
1 CGATTGACCCTATCTCATGATGGTGAAATTCTAGCAGAGTTGAGAGCTAGAC
90202089 CGATTGACCCTATCTCATGATGGTGAAATTCTAGCAGAGTTGAGAGCTAGA
1 CGATTGACCCTATCTCATGATGGTGAAATTCTAGCAGAGTTGAGAGCTAGA
90202140 TCGACCTTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (52 bp):
CGATTGACCCTATCTCATGATGGTGAAATTCTAGCAGAGTTGAGAGCTAGAC
Found at i:90208937 original size:20 final size:20
Alignment explanation
Indices: 90208912--90208955 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
90208902 CGGGCTGAGG
*
90208912 ACACAGGCGTGTTCCAAGCC
1 ACACAGGCATGTTCCAAGCC
90208932 ACACAGGCATGTTCCAAGCC
1 ACACAGGCATGTTCCAAGCC
90208952 ACAC
1 ACAC
90208956 GGGTGTGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.20, T:0.14
Consensus pattern (20 bp):
ACACAGGCATGTTCCAAGCC
Found at i:90208988 original size:31 final size:31
Alignment explanation
Indices: 90208950--90209026 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
90208940 ATGTTCCAAG
*
90208950 CCACACGGGTGTGTGTGACCACACGGCCTAC
1 CCACACGGGCGTGTGTGACCACACGGCCTAC
90208981 CCACACGGGCGTGTGTGACCACACGGCCTAC
1 CCACACGGGCGTGTGTGACCACACGGCCTAC
*
90209012 CCACACGGACGTGTG
1 CCACACGGGCGTGTG
90209027 ACTCTCCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.14
Consensus pattern (31 bp):
CCACACGGGCGTGTGTGACCACACGGCCTAC
Found at i:90225981 original size:5 final size:5
Alignment explanation
Indices: 90225971--90225996 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
90225961 TTTTTCTTGC
90225971 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
90225997 TTATTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:90234472 original size:40 final size:39
Alignment explanation
Indices: 90234427--90234614 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 39
90234417 GTAACCACAA
* * *** *
90234427 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTC
90234467 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
90234507 GCACGAATACCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * * *
90234547 GCATAAATGCCTTCGGGACTTAGCCCGGATATAATC-GCTA
1 GCA-CAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
90234587 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCA-CAATGCCTTCGGGTCTTAGCCCGG
90234615 GTATCATTCA
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 129 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:90234600 original size:80 final size:80
Alignment explanation
Indices: 90234398--90234614 Score: 231
Period size: 80 Copynumber: 2.7 Consensus size: 80
90234388 AACCGAGTCT
* * * * * * * * **
90234398 CTTCGGAATTTAGCCC-GATGTAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAT
*
90234462 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* * * *
90234477 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATACCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAT
* *
90234542 CACTAGCATAAATGC
66 AACTAGCACAAATGC
* * *
90234557 CTTCGGGACTTAGCCCGGATATAATC-GCTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
90234615 GTATCATTCA
Statistics
Matches: 112, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
79 13 0.12
80 98 0.88
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAT
AACTAGCACAAATGC
Found at i:90245185 original size:27 final size:27
Alignment explanation
Indices: 90245128--90245185 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
90245118 AGTAAGTTAG
* * *
90245128 AAATAAATAAGGAGTAAAGAAAATAAG
1 AAATAAATAAGGAATAAAGAAAAGAAA
*
90245155 AAATAAATAAGGAATAAA-ATAGAGAAA
1 AAATAAATAAGGAATAAAGA-AAAGAAA
90245182 AAAT
1 AAAT
90245186 TGGAATGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (27 bp):
AAATAAATAAGGAATAAAGAAAAGAAA
Found at i:90255548 original size:14 final size:14
Alignment explanation
Indices: 90255529--90255561 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
90255519 TAGAGACATG
90255529 ATGTCATAAACAAA
1 ATGTCATAAACAAA
90255543 ATGTCATAAACAAA
1 ATGTCATAAACAAA
90255557 ATGTC
1 ATGTC
90255562 CAGGTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (14 bp):
ATGTCATAAACAAA
Found at i:90280554 original size:40 final size:40
Alignment explanation
Indices: 90280504--90280584 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
90280494 TGTTACAGTA
90280504 ATAGGTCTTACTTTCCCAATTCCCAACTTACTAAAAATAG
1 ATAGGTCTTACTTTCCCAATTCCCAACTTACTAAAAATAG
* *
90280544 ATAGGTCTTACTTTCCCAATTCTCAACTTCCTAAAAATAG
1 ATAGGTCTTACTTTCCCAATTCCCAACTTACTAAAAATAG
90280584 A
1 A
90280585 CATAAGTAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (40 bp):
ATAGGTCTTACTTTCCCAATTCCCAACTTACTAAAAATAG
Found at i:90286114 original size:80 final size:81
Alignment explanation
Indices: 90286030--90286179 Score: 223
Period size: 80 Copynumber: 1.9 Consensus size: 81
90286020 TTATAGTGAT
* * * *
90286030 TCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTT
90286093 AACCCGATTTTGGTAAC
65 AACCCGATTTTGGTAAC
*
90286110 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
*
90286175 GCCCG
66 ACCCG
90286180 GATACCATTC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
80 36 0.58
81 26 0.42
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGATTTTGGTAAC
Found at i:90286180 original size:41 final size:40
Alignment explanation
Indices: 90286002--90286182 Score: 190
Period size: 40 Copynumber: 4.5 Consensus size: 40
90285992 GCTCGATTGT
* * *
90286002 CTTCGGGACATT-GCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGATT-TAGTAACTCGCACAAATGC
* *
90286042 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* *
90286082 CTTCGGGACTTAACCC-GATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGA-TTTAGTAACTCGCACAAATGC
* * * *
90286122 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
90286163 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAGCCCGGAT
90286183 ACCATTCGAA
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 4 0.03
40 82 0.69
41 31 0.26
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:90294521 original size:108 final size:107
Alignment explanation
Indices: 90294409--90294637 Score: 295
Period size: 104 Copynumber: 2.1 Consensus size: 107
90294399 TTTTTTTTTT
*
90294409 TGGGACACTGATGGACAG-ACCAACTTTATTAGATTAAAATTTTTTTTTGGTTTTGGGACACTGA
1 TGGGACACTGATGGACAGTACCAACTTTATTAGA-T----TTTTTTTTGGGTTTTGGGACACTGA
*
90294473 TGGCCAGCACCAACCTTATCAAATT-AAAAAA-A-TTTGTTTGGTTC
61 TCGCCAGCACCAACCTTATCAAATTAAAAAAATATTTTGTTTGGTTC
* * * *
90294517 TGGGACACTAATGGTCGGTACCAACTTTGTTAGATTTTTTTTTGGGTTTTGGGACACTGATCGCC
1 TGGGACACTGATGGACAGTACCAACTTTATTAGATTTTTTTTTGGGTTTTGGGACACTGATCGCC
* * *
90294582 AGCACCAACGTTATCAGATTAAAAAAAATATTTTTTTTGGTTC
66 AGCACCAACCTTATCAAATT-AAAAAAATATTTTGTTTGGTTC
90294625 TGGGACACTGATG
1 TGGGACACTGATG
90294638 ACCGGTAGCA
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
104 46 0.43
106 6 0.06
107 1 0.01
108 39 0.37
109 14 0.13
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (107 bp):
TGGGACACTGATGGACAGTACCAACTTTATTAGATTTTTTTTTGGGTTTTGGGACACTGATCGCC
AGCACCAACCTTATCAAATTAAAAAAATATTTTGTTTGGTTC
Found at i:90294601 original size:49 final size:48
Alignment explanation
Indices: 90294509--90294601 Score: 87
Period size: 49 Copynumber: 1.9 Consensus size: 48
90294499 AAAAAATTTG
* * * * * * * *
90294509 TTTGGTTCTGGGACACTAATGGTCGGTACCAACTTTGTTAGATTTTTT
1 TTTGGTTTTGGGACACTGATGGCCAGCACCAACCTTATCAGATTTTTT
* *
90294557 TTTGGGTTTTGGGACACTGATCGCCAGCACCAACGTTATCAGATT
1 TTT-GGTTTTGGGACACTGATGGCCAGCACCAACCTTATCAGATT
90294602 AAAAAAAATA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
48 3 0.09
49 32 0.91
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (48 bp):
TTTGGTTTTGGGACACTGATGGCCAGCACCAACCTTATCAGATTTTTT
Found at i:90296066 original size:46 final size:46
Alignment explanation
Indices: 90296013--90296188 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
90296003 TATTTGGGCA
* *
90296013 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
90296059 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
90296106 TCC-AAGCTCGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
90296152 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90296189 GCAGGTTACA
Statistics
Matches: 101, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
46 68 0.67
47 33 0.33
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:90296168 original size:93 final size:93
Alignment explanation
Indices: 90296009--90296180 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
90295999 AGGATATTTG
* *
90296009 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
90296074 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
90296102 GGCATCC-AAGCTCGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGA
*
90296166 GTTGAGTTCGAGTTC
65 GTTGAGTCCGAGTTC
90296181 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:90297065 original size:20 final size:20
Alignment explanation
Indices: 90297040--90297077 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90297030 CTGTTCTGAC
* *
90297040 TTTAAAAATTCATTATAAAT
1 TTTAAAAAATAATTATAAAT
90297060 TTTAAAAAATAATTATAA
1 TTTAAAAAATAATTATAA
90297078 GTCATCCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAAAAAATAATTATAAAT
Found at i:90298051 original size:89 final size:89
Alignment explanation
Indices: 90297898--90298228 Score: 352
Period size: 89 Copynumber: 3.7 Consensus size: 89
90297888 TATTCAAAAT
** * * *
90297898 TTTTGTATTATTTTTGTATCTGTAAATCAAATTTAGTTTGTATTATTTGTTGTTCGAATTTTATA
1 TTTT-TATT-TTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTTTTGTTTGAATTTTATA
* *
90297963 TTTTCATGTATTAATTTTTTGGAATG
64 TTTTCGTGTATTAATTTTTTAGAATG
*
90297989 TTTTTATTTTTTTGTATTTGTAAATTTAATTTAGTCTGTATTATTTTTTGTTTGAATTTTATATT
1 TTTTTATTTTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTTTTGTTTGAATTTTATATT
90298054 TTCGTGTATTAATTTTTTAGAATG
66 TTCGTGTATTAATTTTTTAGAATG
* * ** * *
90298078 TTTGTATTTTTTGGGGTCTCTAAATTTTA-TTAGTCTG---TATTTTTTGTTTGAATTTTATATT
1 TTTTTATTTTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTTTTGTTTGAATTTTATATT
* * * *
90298139 TTCGTGTAGTAATATTCTAAAATG
66 TTCGTGTATTAATTTTTTAGAATG
* * * * * *
90298163 TTTATATTTTCTTGTATTTGTAAAGTTAATTT-GT-TGCGTATTATTAATTT-TTTGAATTATAT
1 TTTTTATTTTTTTGTATCTGTAAATTTAATTTAGTCT--GTATTATT-TTTTGTTTGAATTTTAT
90298225 ATTT
63 ATTT
90298229 GTTTTATTAA
Statistics
Matches: 203, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
84 1 0.00
85 66 0.33
86 3 0.01
88 8 0.04
89 114 0.56
90 7 0.03
91 4 0.02
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.60
Consensus pattern (89 bp):
TTTTTATTTTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTTTTGTTTGAATTTTATATT
TTCGTGTATTAATTTTTTAGAATG
Found at i:90298344 original size:20 final size:21
Alignment explanation
Indices: 90298299--90298337 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
90298289 TTTATATTGA
90298299 AAAATAGAATATTTACAAAAT
1 AAAATAGAATATTTACAAAAT
90298320 AAAAT-GAATATTTACAAA
1 AAAATAGAATATTTACAAA
90298338 TCAAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAATAGAATATTTACAAAAT
Found at i:90300174 original size:20 final size:20
Alignment explanation
Indices: 90300130--90300167 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
90300120 TGACAGATGT
*
90300130 GATCGGTGGTGAATGGTAAC
1 GATCAGTGGTGAATGGTAAC
90300150 GATCAGTGGTGAATGGTA
1 GATCAGTGGTGAATGGTA
90300168 GTTATCAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.39, T:0.26
Consensus pattern (20 bp):
GATCAGTGGTGAATGGTAAC
Found at i:90300484 original size:18 final size:18
Alignment explanation
Indices: 90300457--90300491 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90300447 TGTCCACATT
*
90300457 TTTTTCATTTCAATTTAA
1 TTTTTAATTTCAATTTAA
*
90300475 TTTTTAATTTCATTTTA
1 TTTTTAATTTCAATTTA
90300492 TATTCATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTAATTTCAATTTAA
Found at i:90300487 original size:23 final size:22
Alignment explanation
Indices: 90300459--90300525 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
90300449 TCCACATTTT
*
90300459 TTTCATTTCAATTTAATTTTTAA
1 TTTCATTT-AATTTCATTTTTAA
* **
90300482 TTTCATTTTATATTCATTTCAAA
1 TTTCATTTAAT-TTCATTTTTAA
90300505 TTTCATTTGAATTTCATTTTT
1 TTTCATTT-AATTTCATTTTT
90300526 CTCATGTCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.06
23 31 0.89
24 2 0.06
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.61
Consensus pattern (22 bp):
TTTCATTTAATTTCATTTTTAA
Found at i:90300490 original size:11 final size:11
Alignment explanation
Indices: 90300459--90300524 Score: 62
Period size: 11 Copynumber: 5.8 Consensus size: 11
90300449 TCCACATTTT
*
90300459 TTTCATTTCAA
1 TTTCATTTTAA
*
90300470 TTTAATTTTTAA
1 TTTCA-TTTTAA
90300482 TTTCATTTT-A
1 TTTCATTTTAA
*
90300492 TATTCATTTCAAA
1 T-TTCATTT-TAA
*
90300505 TTTCATTTGAA
1 TTTCATTTTAA
90300516 TTTCATTTT
1 TTTCATTTT
90300525 TCTCATGTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 2 0.04
11 25 0.56
12 16 0.36
13 2 0.04
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTCATTTTAA
Found at i:90300499 original size:34 final size:32
Alignment explanation
Indices: 90300453--90300530 Score: 95
Period size: 34 Copynumber: 2.4 Consensus size: 32
90300443 GTTTTGTCCA
*
90300453 CATTTTTTTCATTTC-AATTTAATTTTTAATTT
1 CATTTTTTTCATTTCAAATTTAA-TTTGAATTT
*
90300485 CATTTTATATTCATTTCAAATTTCATTTGAATTT
1 CATTTT-T-TTCATTTCAAATTTAATTTGAATTT
*
90300519 CATTTTTCTCAT
1 CATTTTTTTCAT
90300531 GTCATTTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 10 0.25
33 2 0.05
34 22 0.55
35 6 0.15
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.60
Consensus pattern (32 bp):
CATTTTTTTCATTTCAAATTTAATTTGAATTT
Found at i:90300684 original size:17 final size:17
Alignment explanation
Indices: 90300664--90300697 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
90300654 TTCTCATGTT
90300664 ATTTGAATTTCATTTCA
1 ATTTGAATTTCATTTCA
90300681 ATTTGAATTTCATTTCA
1 ATTTGAATTTCATTTCA
90300698 CTTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTTGAATTTCATTTCA
Found at i:90300793 original size:32 final size:32
Alignment explanation
Indices: 90300757--90300843 Score: 81
Period size: 32 Copynumber: 2.7 Consensus size: 32
90300747 TTTCTTTTAA
*
90300757 TTTCTTTTTAAATTT-CATTTGAATTTCA-TTTT
1 TTTCTTTTT-AATTTAAATTT-AATTTCACTTTT
*
90300789 TTTCTATTTT-ATTTAAATTTCATTTCACTTTT
1 TTTCT-TTTTAATTTAAATTTAATTTCACTTTT
* *
90300821 TTTCTTTTTTAATTAAAACTTAA
1 TTTC-TTTTTAATTTAAATTTAA
90300844 ATTGAATTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
31 10 0.22
32 21 0.47
33 14 0.31
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.63
Consensus pattern (32 bp):
TTTCTTTTTAATTTAAATTTAATTTCACTTTT
Found at i:90300797 original size:130 final size:124
Alignment explanation
Indices: 90300502--90300797 Score: 283
Period size: 137 Copynumber: 2.3 Consensus size: 124
90300492 TATTCATTTC
* *
90300502 AAATTTCATTTGAATTTCATTTTTCTCATGTCATTTGAATTTCATCTCAATTTTAATTTCATTTC
1 AAATTTCATTTGAATTTCATTTTT-TC-TCT-ATTTGAATTTCATCTCAATTTGAATTTCATTTC
**
90300567 ACTTTTTTAATTAAAACTTTATTTCTCATGTCAATTTTATTTTGTAATTTCAATTTCTTTTT
63 ACTTTTTTAATTAAAAAATTATTTCTCATGTCAATTTTATTTTGTAATTTCAATTTCTTTTT
** * * * *
90300629 AAATTTTGTTTTATTTTAATTTTTGTTCTCATGTTATTTGAATTTCATTTCAATTTGAATTTCAT
1 AAATTTCATTTGAATTTCA-TTTT-TTCTC----TATTTGAATTTCATCTCAATTTGAATTTCAT
* ** *
90300694 TTCACTTTTTTATTTTTTAATTAAAAAATTATTTTGTCATGTCAATTTT-TTCTT-TTCTTTTAA
60 TTCAC-------TTTTTTAATTAAAAAATTA-TTTCTCATGTCAATTTTATT-TTGTAATTTCAA
90300757 TTTCTTTTT
116 TTTCTTTTT
90300766 AAATTTCATTTGAATTTCATTTTTT-TCTATTT
1 AAATTTCATTTGAATTTCATTTTTTCTCTATTT
90300798 TATTTAAATT
Statistics
Matches: 135, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
127 15 0.11
128 6 0.04
129 1 0.01
130 38 0.28
131 1 0.01
134 2 0.01
135 2 0.01
136 4 0.03
137 48 0.36
138 18 0.13
ACGTcount: A:0.25, C:0.11, G:0.04, T:0.60
Consensus pattern (124 bp):
AAATTTCATTTGAATTTCATTTTTTCTCTATTTGAATTTCATCTCAATTTGAATTTCATTTCACT
TTTTTAATTAAAAAATTATTTCTCATGTCAATTTTATTTTGTAATTTCAATTTCTTTTT
Found at i:90300804 original size:37 final size:37
Alignment explanation
Indices: 90300763--90300889 Score: 122
Period size: 37 Copynumber: 3.5 Consensus size: 37
90300753 TTAATTTCTT
90300763 TTTAAATTTCATTTGAATTTCATTTTTTTCTATTTTA
1 TTTAAATTTCATTTGAATTTCATTTTTTTCTATTTTA
* *
90300800 TTTAAATTTCATTT-CA---C-TTTTTTTCTTTTTTAA
1 TTTAAATTTCATTTGAATTTCATTTTTTTCTATTTT-A
* * * *
90300833 TTAAAACTTAAATTGAATTTCA-TTTTTTCTCATTTTA
1 TTTAAATTTCATTTGAATTTCATTTTTTTCT-ATTTTA
* *
90300870 TTTGAATTTCATTTCAATTT
1 TTTAAATTTCATTTGAATTT
90300890 GAATTTCATT
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
32 13 0.19
33 12 0.17
34 1 0.01
36 1 0.01
37 38 0.55
38 4 0.06
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.61
Consensus pattern (37 bp):
TTTAAATTTCATTTGAATTTCATTTTTTTCTATTTTA
Found at i:90300883 original size:11 final size:11
Alignment explanation
Indices: 90300864--90300920 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
90300854 ATTTTTTCTC
* *
90300864 ATTTTATTTGA
1 ATTTCATTTCA
90300875 ATTTCATTTCA
1 ATTTCATTTCA
*
90300886 ATTTGAATTTC-
1 ATTT-CATTTCA
90300897 ATTTCATTTTCAA
1 ATTTCA-TTTC-A
90300910 ATTTCATTTCA
1 ATTTCATTTCA
90300921 GCCAAAACAG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 1 0.03
11 22 0.58
12 9 0.24
13 6 0.16
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.56
Consensus pattern (11 bp):
ATTTCATTTCA
Found at i:90300889 original size:118 final size:118
Alignment explanation
Indices: 90300681--90300906 Score: 262
Period size: 118 Copynumber: 1.9 Consensus size: 118
90300671 TTTCATTTCA
* ** *
90300681 ATTTGAATTTCATTTCACTTTTTTATTTTTTAATTAAAAAATTATTTTGTCATGTCAATTTTTTC
1 ATTTAAATTTCATTTCACTTTTTTATTTTTTAATTAAAAAATTAAATTGTAATGTCAATTTTTTC
* * * *
90300746 TTTTCTTTTAATTTCTTTTTAAATTT-CATTTGAATTTCATTTTTTTCTATTTT
66 TTTTATTTGAATTTCTATTTAAATTTGAATTT-AATTTCATTTTTTTCTATTTT
* * * *
90300799 ATTTAAATTTCATTTCACTTTTTTTCTTTTTTAATT-AAAACTTAAATTG-AATTTCATTTTTTC
1 ATTTAAATTTCATTTCAC-TTTTTTATTTTTTAATTAAAAAATTAAATTGTAATGTCAATTTTT-
* *
90300862 TCATTTTATTTGAATTTC-ATTTCAATTTGAATTTCATTTCATTTT
64 TC-TTTTATTTGAATTTCTATTTAAATTTGAATTTAATTTCATTTT
90300907 CAAATTTCAT
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
117 10 0.11
118 47 0.52
119 33 0.37
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (118 bp):
ATTTAAATTTCATTTCACTTTTTTATTTTTTAATTAAAAAATTAAATTGTAATGTCAATTTTTTC
TTTTATTTGAATTTCTATTTAAATTTGAATTTAATTTCATTTTTTTCTATTTT
Found at i:90300891 original size:17 final size:17
Alignment explanation
Indices: 90300869--90300920 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
90300859 TTCTCATTTT
90300869 ATTTGAATTTCATTTCA
1 ATTTGAATTTCATTTCA
90300886 ATTTGAATTTCATTTCA
1 ATTTGAATTTCATTTCA
* *
90300903 TTTTCAAATTTCATTTCA
1 ATTT-GAATTTCATTTCA
90300921 GCCAAAACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 20 0.62
18 12 0.38
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.54
Consensus pattern (17 bp):
ATTTGAATTTCATTTCA
Found at i:90301219 original size:25 final size:23
Alignment explanation
Indices: 90301190--90301254 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
90301180 AATAAAAAAC
*
90301190 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
90301215 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
90301236 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
90301255 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:90301249 original size:19 final size:20
Alignment explanation
Indices: 90301216--90301254 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
90301206 TCAAATACAT
90301216 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
90301236 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
90301255 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:90301363 original size:22 final size:20
Alignment explanation
Indices: 90301310--90301364 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
90301300 AATAAAAAGT
*
90301310 AATTATATTAAAATTGAAACA
1 AATTATATT-AAATTAAAACA
*
90301331 AATTAAAATTAAATTAAGAACTA
1 AATT-ATATTAAATTAA-AAC-A
90301354 AATTATATTAA
1 AATTATATTAA
90301365 TAACAAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.36
22 13 0.46
23 5 0.18
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (20 bp):
AATTATATTAAATTAAAACA
Found at i:90301785 original size:22 final size:21
Alignment explanation
Indices: 90301745--90301809 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 21
90301735 TTATATTTTC
90301745 ATTTCAATTTCTATTCAATTTGA
1 ATTTC-ATTTC-ATTCAATTTGA
*
90301768 ATTTCATTTCATTCCAATTTTA
1 ATTTCATTTCATT-CAATTTGA
90301790 ATTTCATTTCATTTCAATTT
1 ATTTCATTTCA-TTCAATTT
90301810 CTTTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 3 0.08
22 29 0.74
23 7 0.18
ACGTcount: A:0.28, C:0.15, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTCATTTCATTCAATTTGA
Found at i:90301809 original size:11 final size:11
Alignment explanation
Indices: 90301741--90301810 Score: 65
Period size: 11 Copynumber: 6.4 Consensus size: 11
90301731 TTAATTATAT
90301741 TTTCATTTCAA
1 TTTCATTTCAA
90301752 TTTC-TATTCAA
1 TTTCAT-TTCAA
*
90301763 TTTGAATTTC-A
1 TTT-CATTTCAA
*
90301774 TTTCATTCCAA
1 TTTCATTTCAA
*
90301785 TTTTAATTTC-A
1 -TTTCATTTCAA
90301796 TTTCATTTCAA
1 TTTCATTTCAA
90301807 TTTC
1 TTTC
90301811 TTTTTAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
10 13 0.28
11 23 0.49
12 10 0.21
13 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.01, T:0.56
Consensus pattern (11 bp):
TTTCATTTCAA
Found at i:90301980 original size:23 final size:24
Alignment explanation
Indices: 90301949--90302002 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
90301939 TCAAATATAA
90301949 TTCC-ATTTTAATT-TAATTCCAT
1 TTCCAATTTTAATTATAATTCCAT
* *
90301971 TTCCAATTTTAATTATATTTTCAT
1 TTCCAATTTTAATTATAATTCCAT
90301995 TT-CAATTT
1 TTCCAATTT
90302003 CTTTTCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 4 0.14
23 15 0.54
24 9 0.32
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (24 bp):
TTCCAATTTTAATTATAATTCCAT
Found at i:90301984 original size:34 final size:34
Alignment explanation
Indices: 90301946--90302024 Score: 79
Period size: 34 Copynumber: 2.3 Consensus size: 34
90301936 TTTTCAAATA
*
90301946 TAATTCCATTTTAATTT-AATTCCATTTCCAATTT
1 TAATTACATTTTAATTTCAATTCC-TTTCCAATTT
* * * *
90301980 TAATTATATTTTCATTTCAATTTCTTTTCAATTT
1 TAATTACATTTTAATTTCAATTCCTTTCCAATTT
* *
90302014 GAATTTCATTT
1 TAATTACATTT
90302025 CAATACAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
34 31 0.86
35 5 0.14
ACGTcount: A:0.28, C:0.14, G:0.01, T:0.57
Consensus pattern (34 bp):
TAATTACATTTTAATTTCAATTCCTTTCCAATTT
Found at i:90302013 original size:17 final size:17
Alignment explanation
Indices: 90301974--90302028 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
90301964 ATTCCATTTC
* *
90301974 CAATTTTAATTATATTTT
1 CAATTTCAATT-TCTTTT
90301992 C-ATTTCAATTTCTTTT
1 CAATTTCAATTTCTTTT
* *
90302008 CAATTTGAATTTCATTT
1 CAATTTCAATTTCTTTT
90302025 CAAT
1 CAAT
90302029 ACAAATTCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 6 0.19
17 25 0.78
18 1 0.03
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.56
Consensus pattern (17 bp):
CAATTTCAATTTCTTTT
Found at i:90305974 original size:58 final size:58
Alignment explanation
Indices: 90305870--90305980 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
90305860 TCCTAGAACC
* * *
90305870 AAAAAAATATTTTTAATCTGATAAGGTTGATGCCGACCATCGGTGTCCCAAAACCAAA
1 AAAAAAATATTTTTAATCTGATAAAGTTGATACCGACCATCAGTGTCCCAAAACCAAA
* * * *
90305928 AAAAAAATATTTTTAATCTGATAAAGTTGGTATCGGCCATTAGTGTCCCAAAA
1 AAAAAAATATTTTTAATCTGATAAAGTTGATACCGACCATCAGTGTCCCAAAA
90305981 AAAAAACAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (58 bp):
AAAAAAATATTTTTAATCTGATAAAGTTGATACCGACCATCAGTGTCCCAAAACCAAA
Found at i:90308683 original size:3 final size:3
Alignment explanation
Indices: 90308677--90308712 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
90308667 CATCATCATC
90308677 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
90308713 GTTAAAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:90316407 original size:42 final size:42
Alignment explanation
Indices: 90316359--90316471 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
90316349 ACCGAGATTC
* *
90316359 CGTATAAGACCATATCTAGGATATGGCATCAGTATTTGAT-TTT
1 CGTATAAGACCATATCAAGGATATGGCATCA--ATATGATATTT
*
90316402 -GTATAAGACCATGT-AAGGGATATGGCATCAATATGATATTT
1 CGTATAAGACCATATCAA-GGATATGGCATCAATATGATATTT
* * **
90316443 CATGTAAGACCATATCCGGGATATGGCAT
1 CGTATAAGACCATATCAAGGATATGGCAT
90316472 TGATACGATA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
40 6 0.10
41 4 0.07
42 48 0.83
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (42 bp):
CGTATAAGACCATATCAAGGATATGGCATCAATATGATATTT
Found at i:90321140 original size:7 final size:7
Alignment explanation
Indices: 90321120--90321184 Score: 109
Period size: 7 Copynumber: 9.7 Consensus size: 7
90321110 ATTAGTTTTA
90321120 TTTT-AT
1 TTTTCAT
90321126 TTTT-AT
1 TTTTCAT
90321132 TTTTCAT
1 TTTTCAT
90321139 TTTTCAT
1 TTTTCAT
90321146 TTTTCAT
1 TTTTCAT
90321153 TTTTCAT
1 TTTTCAT
90321160 TTTTCAT
1 TTTTCAT
90321167 TTTTCAT
1 TTTTCAT
90321174 TTTT-AT
1 TTTTCAT
90321180 TTTTC
1 TTTTC
90321185 CCAAATTTTC
Statistics
Matches: 57, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
6 16 0.28
7 41 0.72
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTCAT
Done.