Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 8 of 284
Found at i:2511333 original size:8 final size:8
Alignment explanation
Indices: 2511322--2511410 Score: 63
Period size: 9 Copynumber: 10.5 Consensus size: 8
2511312 AAAAACAAAC
*
2511322 AAAAAATA
1 AAAAAAGA
*
2511330 AAAAAATA
1 AAAAAAGA
*
2511338 AAAAACAAA
1 AAAAA-AGA
2511347 ACAAAAAG-
1 A-AAAAAGA
2511355 AAAAAAGAA
1 AAAAAAG-A
2511364 AAAAAAGAA
1 AAAAAAG-A
2511373 AAAAAAGA
1 AAAAAAGA
2511381 AAAAAGAGA
1 AAAAA-AGA
* * *
2511390 GAAGAGGA
1 AAAAAAGA
2511398 AAAAAGAGA
1 AAAAA-AGA
2511407 AAAA
1 AAAA
2511411 TGGAGAGGCC
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
7 6 0.09
8 25 0.37
9 32 0.48
10 4 0.06
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:2511333 original size:27 final size:25
Alignment explanation
Indices: 2511309--2511385 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 25
2511299 TTCGAAAATC
2511309 AAAAAAAACAAACAAAAA-ATAAAAA
1 AAAAAAAACAAACAAAAAGA-AAAAA
2511334 AATAAAAAACAAAACAAAAAGAAAAAA
1 AA-AAAAAAC-AAACAAAAAGAAAAAA
*
2511361 GAAAAAAAAGAAA-AAAAAGAAAAAA
1 -AAAAAAAACAAACAAAAAGAAAAAA
2511386 GAGAGAAGAG
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
25 14 0.30
26 10 0.21
27 20 0.43
28 3 0.06
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (25 bp):
AAAAAAAACAAACAAAAAGAAAAAA
Found at i:2511352 original size:18 final size:17
Alignment explanation
Indices: 2511309--2511385 Score: 75
Period size: 18 Copynumber: 4.4 Consensus size: 17
2511299 TTCGAAAATC
*
2511309 AAAAAAAACAAACAAAAA
1 AAAAAAAAGAAA-AAAAA
*
2511327 ATAAAAAAATAAAAAACAA
1 A-AAAAAAAGAAAAAA-AA
* *
2511346 AACAAAAAG-AAAAAAG
1 AAAAAAAAGAAAAAAAA
2511362 AAAAAAAAGAAAAAAAA
1 AAAAAAAAGAAAAAAAA
2511379 GAAAAAA
1 -AAAAAA
2511386 GAGAGAAGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
16 9 0.18
17 11 0.22
18 16 0.33
19 13 0.27
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAA
Found at i:2511386 original size:25 final size:25
Alignment explanation
Indices: 2511312--2511410 Score: 85
Period size: 25 Copynumber: 3.9 Consensus size: 25
2511302 GAAAATCAAA
* * *
2511312 AAAAACAAACAAAAAATA-AAAAAAT
1 AAAAA-AAAGAAAAAAAAGAAAAAAG
*
2511337 AAAAAACAA-AACAAAAAGAAAAAAG
1 AAAAAA-AAGAAAAAAAAGAAAAAAG
2511362 AAAAAAAAGAAAAAAAAGAAAAAAG
1 AAAAAAAAGAAAAAAAAGAAAAAAG
* * * *
2511387 AGAGAAGAGGAAAAAAGAGAAAAA
1 A-AAAAAAAGAAAAAAAAGAAAAA
2511411 TGGAGAGGCC
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
24 9 0.15
25 35 0.56
26 18 0.29
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (25 bp):
AAAAAAAAGAAAAAAAAGAAAAAAG
Found at i:2511402 original size:1 final size:1
Alignment explanation
Indices: 2511309--2511385 Score: 64
Period size: 1 Copynumber: 77.0 Consensus size: 1
2511299 TTCGAAAATC
* * * * * * * * *
2511309 AAAAAAAACAAACAAAAAATAAAAAAATAAAAAACAAAACAAAAAGAAAAAAGAAAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
2511374 AAAAAGAAAAAA
1 AAAAAAAAAAAA
2511386 GAGAGAAGAG
Statistics
Matches: 56, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (1 bp):
A
Found at i:2511410 original size:9 final size:9
Alignment explanation
Indices: 2511349--2511410 Score: 69
Period size: 8 Copynumber: 7.3 Consensus size: 9
2511339 AAAACAAAAC
2511349 AAAA-AGAA
1 AAAAGAGAA
2511357 AAAAGA-AA
1 AAAAGAGAA
2511365 AAAA-AGAA
1 AAAAGAGAA
*
2511373 AAAAAAGAA
1 AAAAGAGAA
*
2511382 AAAAGAGAG
1 AAAAGAGAA
*
2511391 AAGAG-GAA
1 AAAAGAGAA
2511399 AAAAGAGAA
1 AAAAGAGAA
2511408 AAA
1 AAA
2511411 TGGAGAGGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
7 1 0.02
8 22 0.49
9 22 0.49
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAGAGAA
Found at i:2512640 original size:206 final size:206
Alignment explanation
Indices: 2512277--2513244 Score: 1528
Period size: 206 Copynumber: 4.7 Consensus size: 206
2512267 GCAGATCTGG
* * * *
2512277 CTGAAGCAAGATCCAATATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGC
1 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAATAAATCGAA-ATCATAGC
* * *
2512341 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
64 TGATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCA
* * *
2512406 GAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGTAGATACATAACAGATCTGGCCT
129 GAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACCGAGAGCAGATACATAACAGATCTGGCCT
2512471 TCAGATGTTTATA
194 TCAGATGTTTATA
* *
2512484 CTGAAGCCGATCCAAGATGATTTGGCATCCTTGTGTTTATAAGGAATAAATCGAAATCATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAATAAATCGAAATCATAGCTG
2512549 ATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
2512614 GAACAAATCGAAGTTTGGCGTCTCCATATTTGACCGAGAGCAGATACATAACAGATCTGGCCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACCGAGAGCAGATACATAACAGATCTGGCCTTC
2512679 AGATGTTTATA
196 AGATGTTTATA
*
2512690 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAATAAATCAAAATCATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAATAAATCGAAATCATAGCTG
* * *
2512755 ATGTAGCTTTCACCTGCTTACACTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
2512820 GAACAAATCGAAGTTTGGCGTCTCCATATTTGACCGAGAGCAGATACATAACAGATCTGGCCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACCGAGAGCAGATACATAACAGATCTGGCCTTC
2512885 AGATGTTTATA
196 AGATGTTTATA
*
2512896 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAATAAATCAAAATCATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAATAAATCGAAATCATAGCTG
* *
2512961 ATTTAGCTTTCACCTGCTTACACTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * **
2513026 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACCGAGAGCAGATACATAACAGATCTGGCCTTC
* *
2513091 AGATGATTAGA
196 AGATGTTTATA
* * * **
2513102 CTGAACCAGATCCAAGATGGTTT-GCTATCCTTGTGCTTACAAGGAGCAAATCGAAGA-CATAGC
1 CTGAAGCAGATCCAAGATGATTTGGC-ATCCTTGTGTTTACAAGGAATAAATCGAA-ATCATAGC
* * * *
2513165 TGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
64 TGATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCA
2513230 GAGAACAAATCGAAG
129 GAGAACAAATCGAAG
2513245 AAACAGATTT
Statistics
Matches: 716, Mismatches: 42, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
205 3 0.00
206 705 0.98
207 8 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAATAAATCGAAATCATAGCTG
ATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTCTCCATATTCGACCGAGAGCAGATACATAACAGATCTGGCCTTC
AGATGTTTATA
Found at i:2513263 original size:43 final size:44
Alignment explanation
Indices: 2513207--2513289 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
2513197 AATCTAAGAT
* *
2513207 GATTTGGCATCTCTGTATT-GTCAGAGAACAAATCGAAGAAACA
1 GATTTAGCATCTCTGTATTCGACAGAGAACAAATCGAAGAAACA
* * *
2513250 GATTTAGCGTCTCTGTATTCGACGGAGAGCAAATCGAAGA
1 GATTTAGCATCTCTGTATTCGACAGAGAACAAATCGAAGA
2513290 TATCAACATG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 17 0.50
44 17 0.50
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (44 bp):
GATTTAGCATCTCTGTATTCGACAGAGAACAAATCGAAGAAACA
Found at i:2514867 original size:26 final size:27
Alignment explanation
Indices: 2514838--2514906 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 27
2514828 CCTTTATCCT
*
2514838 TTTTAAAATTATTTATA-ACTTA-TTTA
1 TTTTAAAATTATATATATA-TTATTTTA
*
2514864 TTTT-AAATTGTATATATATTATTTTA
1 TTTTAAAATTATATATATATTATTTTA
*
2514890 TTTTAATA-TATATATAT
1 TTTTAAAATTATATATAT
2514907 GTGTATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 13 0.36
26 21 0.58
27 2 0.06
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
TTTTAAAATTATATATATATTATTTTA
Found at i:2514925 original size:26 final size:24
Alignment explanation
Indices: 2514896--2514970 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 24
2514886 TTTATTTTAA
*
2514896 TATATATATATGTGTATTATATATTT
1 TATATATATATGT-TACT-TATATTT
2514922 TATAT-TATTAT-TTACTTATATTT
1 TATATATA-TATGTTACTTATATTT
2514945 TAT-TATATCATGTTACTTCATATTT
1 TATATATAT-ATGTTACTT-ATATTT
2514970 T
1 T
2514971 TCTATTATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
22 2 0.05
23 14 0.33
24 9 0.21
25 10 0.23
26 8 0.19
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (24 bp):
TATATATATATGTTACTTATATTT
Found at i:2514926 original size:28 final size:24
Alignment explanation
Indices: 2514874--2515030 Score: 73
Period size: 26 Copynumber: 6.5 Consensus size: 24
2514864 TTTTAAATTG
2514874 TATATATATTA-TT--TTAT-TTT
1 TATATATATTATTTACTTATATTT
* *
2514894 AATATATATATATGTGTATTATATATTT
1 TATATATAT-TAT-T-TACT-TATATTT
2514922 TATAT-TATTATTTACTTATATTT
1 TATATATATTATTTACTTATATTT
*
2514945 TAT-TATATCATGTTACTTCATATTT
1 TATATATATTAT-TTACTT-ATATTT
* * *
2514970 T-TCTATTATCATATTAATATATATTT
1 TATATA-TATTAT-TTACT-TATATTT
* *
2514996 TAACATATATCA-TTACTTAT-TATT
1 T-ATATATATTATTTACTTATAT-TT
2515020 TAT-TATATTAT
1 TATATATATTAT
2515031 ATTTTTATCA
Statistics
Matches: 108, Mismatches: 11, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
20 8 0.07
21 2 0.02
22 7 0.06
23 18 0.17
24 17 0.16
25 14 0.13
26 21 0.19
27 12 0.11
28 9 0.08
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.59
Consensus pattern (24 bp):
TATATATATTATTTACTTATATTT
Found at i:2514945 original size:23 final size:24
Alignment explanation
Indices: 2514915--2514997 Score: 80
Period size: 26 Copynumber: 3.4 Consensus size: 24
2514905 ATGTGTATTA
*
2514915 TATATTTTATATTATTAT-TTACT
1 TATATTTTATATTATCATATTACT
*
2514938 TATATTTTAT-TATATCATGTTACT
1 TATATTTTATAT-TATCATATTACT
* *
2514962 TCATATTTTTCTATTATCATATTAAT
1 T-ATA-TTTTATATTATCATATTACT
2514988 ATATATTTTA
1 -TATATTTTA
2514998 ACATATATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
22 1 0.02
23 15 0.31
24 6 0.12
25 7 0.14
26 18 0.37
27 2 0.04
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (24 bp):
TATATTTTATATTATCATATTACT
Found at i:2519107 original size:27 final size:27
Alignment explanation
Indices: 2519061--2519113 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
2519051 CAGTAACAGT
*
2519061 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAATAACAGAATCAGG
2519088 TGGGCCTAAGCCCAAT-ACAGAATCAG
1 TGGGCCT-AGCCCAATAACAGAATCAG
2519114 TATCAAATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAGAATCAGG
Found at i:2519737 original size:41 final size:41
Alignment explanation
Indices: 2519692--2519812 Score: 179
Period size: 41 Copynumber: 3.0 Consensus size: 41
2519682 AAGCCACTGG
*
2519692 TGGATCCACGATCATCAAGCAACCATGCAATCCTTAATTGA
1 TGGATCCACGATCATCAAGCAACCATGCAATCCTCAATTGA
* * * * *
2519733 TGGATCCATGATCGTCAAGAAACCATGCAATCCTCAATCGG
1 TGGATCCACGATCATCAAGCAACCATGCAATCCTCAATTGA
*
2519774 TGGATCCACGATCACCAAGCAACCATGCAATCCTCAATT
1 TGGATCCACGATCATCAAGCAACCATGCAATCCTCAATT
2519813 TCTTCCTCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (41 bp):
TGGATCCACGATCATCAAGCAACCATGCAATCCTCAATTGA
Found at i:2520079 original size:27 final size:27
Alignment explanation
Indices: 2520061--2520119 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
2520051 AGGGTGTCTT
2520061 GGTAAATCTACAAACCAAGGGTATTTC
1 GGTAAATCTACAAACCAAGGGTATTTC
* * *
2520088 GGTAATTTTACAAACCAATGGTATTTC
1 GGTAAATCTACAAACCAAGGGTATTTC
*
2520115 TGTAA
1 GGTAA
2520120 TTTTTAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (27 bp):
GGTAAATCTACAAACCAAGGGTATTTC
Found at i:2520120 original size:27 final size:26
Alignment explanation
Indices: 2520069--2520418 Score: 240
Period size: 27 Copynumber: 13.0 Consensus size: 26
2520059 TTGGTAAATC
* *
2520069 TACAAACCAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTT-TGTAATTT
* *
2520096 TACAAACCAATGGTATTTCTGTAATTTT
1 TACAAATCAAGGGTATTT-TGTAA-TTT
*
2520124 TA-AAAGTCAAGAGTATTTTTGTAATTT
1 TACAAA-TCAAGGGTA-TTTTGTAATTT
** *
2520151 TTTAAATCAGGGGTATTTTTGTAATTT
1 TACAAATCAAGGGTA-TTTTGTAATTT
* * *
2520178 TCCAAACCAA-AGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTT-GTAATTT
* *
2520204 TCCAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTT-GTAATTT
* **
2520231 TAAAAATTGAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTT-GTAATTT
* * **
2520258 TACAAGTCGAGGGTATTTCAATAATTT
1 TACAAATCAAGGGTATTT-TGTAATTT
* * *
2520285 TACAAGTCGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTT-TGTAATTT
* *
2520312 CACAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTT-GTAATTT
* *
2520339 TACAAACCAGGGGTATTTTGGTAA-TT
1 TACAAATCAAGGGTATTTT-GTAATTT
* * *
2520365 TACAAACCTTA-GGTATTTTGATAACTT
1 TACAAATC-AAGGGTATTTTG-TAATTT
**
2520392 TACAAATCGGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTT-GTAATTT
2520419 CGTAAACCAA
Statistics
Matches: 268, Mismatches: 42, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
25 5 0.02
26 39 0.15
27 201 0.75
28 20 0.07
29 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (26 bp):
TACAAATCAAGGGTATTTTGTAATTT
Found at i:2520272 original size:54 final size:54
Alignment explanation
Indices: 2520069--2520418 Score: 291
Period size: 54 Copynumber: 6.5 Consensus size: 54
2520059 TTGGTAAATC
* * * * **
2520069 TACAAACCAAGGGTATTTCGGTAATTTTACAAACCAATGGTATTTCTG-TAATTTT
1 TACAAATCGAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTT-TGATAA-TTT
* * * **
2520124 TA-AAAGTCAAGAGTATTTTTGTAATTTTTTAAATCAGGGGTATTTTTG-TAATTT
1 TACAAA-TCGAGGGTATTTTGGTAATTTTACAAATCAGGGGTA-TTTTGATAATTT
* * ** * *
2520178 TCCAAA-CCAAAGTATTTTGGTAATTTTCCAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCGAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGATAATTT
* * * * **
2520231 TAAAAATTGAGGGTATTTTAGTAATTTTACAAGTC-GAGGGTATTTCAATAATTT
1 TACAAATCGAGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGATAATTT
* * * *
2520285 TACAAGTCGAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCGAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGATAATTT
* * *** *
2520339 TACAAA-CCAGGGGTATTTTGGTAA-TTTACAAACCTTAGGTATTTTGATAACTT
1 TACAAATCGA-GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGATAATTT
*
2520392 TACAAATCGGGGGTATTTTGGTAATTT
1 TACAAATCGAGGGTATTTTGGTAATTT
2520419 CGTAAACCAA
Statistics
Matches: 236, Mismatches: 49, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
52 5 0.02
53 85 0.36
54 105 0.44
55 38 0.16
56 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
TACAAATCGAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGATAATTT
Found at i:2523144 original size:27 final size:27
Alignment explanation
Indices: 2523088--2523147 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
2523078 CAGCCCTCAT
* *
2523088 CAGAATCAATTGGGCCTAGCCCATTAA
1 CAGAATCAAGTGGGCCTAGCCCAGTAA
* *
2523115 CAGAATCAGGTGGGCCTAAGCCTAGT-A
1 CAGAATCAAGTGGGCCT-AGCCCAGTAA
2523142 CAGAAT
1 CAGAAT
2523148 TAGTATCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGAATCAAGTGGGCCTAGCCCAGTAA
Found at i:2523852 original size:11 final size:11
Alignment explanation
Indices: 2523836--2523861 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2523826 ACTACTAATT
2523836 ATTTATGGTAA
1 ATTTATGGTAA
2523847 ATTTATGGTAA
1 ATTTATGGTAA
2523858 ATTT
1 ATTT
2523862 CCAAAGTCAG
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:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (11 bp):
ATTTATGGTAA
Found at i:2524857 original size:40 final size:40
Alignment explanation
Indices: 2524779--2524959 Score: 260
Period size: 40 Copynumber: 4.5 Consensus size: 40
2524769 ACCCAAGTAT
* *
2524779 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
2524818 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
2524858 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
2524898 CTTCGGGACTTAGCCCGGATATAGTAACCTA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
2524938 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
2524960 CATCCGAATA
Statistics
Matches: 129, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 11 0.09
40 114 0.88
41 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:2526917 original size:41 final size:41
Alignment explanation
Indices: 2526858--2527021 Score: 258
Period size: 41 Copynumber: 4.0 Consensus size: 41
2526848 TAAAAGCTAC
* *
2526858 CGGTGGATCCAC-AGTCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGA-TCGTCAAGCAACCATGCAATCCTCAAT
2526899 CGGTGGATCCACGATCGTCAAGCAACCATGCAATCCTCAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCAATCCTCAAT
* * *
2526940 CTGTGGATCCACGGTTGTCAAGCAACCATGCAATCCTCAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCAATCCTCAAT
*
2526981 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCAATCCTCAAT
2527022 TTCTTCCTCC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 112 0.99
42 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (41 bp):
CGGTGGATCCACGATCGTCAAGCAACCATGCAATCCTCAAT
Found at i:2527299 original size:27 final size:27
Alignment explanation
Indices: 2527269--2527323 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2527259 CAAGGATGTC
2527269 TTGGTAAATCTACAAACCAAGGGTATT
1 TTGGTAAATCTACAAACCAAGGGTATT
* * * *
2527296 TTGGTAATTTTGCAAACCAATGGTATT
1 TTGGTAAATCTACAAACCAAGGGTATT
2527323 T
1 T
2527324 CTGTAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (27 bp):
TTGGTAAATCTACAAACCAAGGGTATT
Found at i:2527329 original size:27 final size:27
Alignment explanation
Indices: 2527281--2527621 Score: 196
Period size: 27 Copynumber: 12.6 Consensus size: 27
2527271 GGTAAATCTA
*
2527281 CAAACCAAGGGTATTT-TGGTAATTTTG
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* *
2527308 CAAACCAATGGTATTTCTGTAATTTTTG
1 CAAATCAAGGGTATTTCTGTAA-TTTTG
*
2527336 -AAAGTCAAGGGTATTTCTATAATTTTG
1 CAAA-TCAAGGGTATTTCTGTAATTTTG
* * * *
2527363 TAAATTAGGGGTATTTCTGTAATTTTC
1 CAAATCAAGGGTATTTCTGTAATTTTG
* *
2527390 CAAATCAAGTGTATTTC-GATAATTTTC
1 CAAATCAAGGGTATTTCTG-TAATTTTG
* *
2527417 CAAATTAAGGGTATTT-TGTTAATTTTA
1 CAAATCAAGGGTATTTCTG-TAATTTTG
* * *
2527444 CAAATCGAGGATATTTC-GATAATTTTA
1 CAAATCAAGGGTATTTCTG-TAATTTTG
* * * *
2527471 CAAGTCGAAGGTTA-TTCAGTAATTTTA
1 CAAATC-AAGGGTATTTCTGTAATTTTG
* ** * *
2527498 TAGGTCAAGGGTATTTC-GACAATTTTA
1 CAAATCAAGGGTATTTCTG-TAATTTTG
** ** **
2527525 CAGGTCAAGGGTATTTCAATAATTTCA
1 CAAATCAAGGGTATTTCTGTAATTTTG
* *
2527552 CAAATCAGGGGTATTT-TGGTAATTTTA
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* * *
2527579 CAAACCAAGGGTATATT-GGTAATTTTA
1 CAAATCAAGGGTAT-TTCTGTAATTTTG
* *
2527606 CAAACCAGGGGTATTT
1 CAAATCAAGGGTATTT
2527622 AGTAATTCTA
Statistics
Matches: 259, Mismatches: 41, Indels: 29
0.79 0.12 0.09
Matches are distributed among these distances:
26 10 0.04
27 217 0.84
28 32 0.12
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCTGTAATTTTG
Found at i:2527512 original size:26 final size:27
Alignment explanation
Indices: 2527371--2527682 Score: 122
Period size: 27 Copynumber: 11.6 Consensus size: 27
2527361 TGTAAATTAG
* * **
2527371 GGGTATTTCTGTAATTTTCCAAATCAA
1 GGGTATTTCAGTAATTTTACAGGTCAA
* * ** *
2527398 GTGTATTTC-GATAATTTTCCAAATTAA
1 GGGTATTTCAG-TAATTTTACAGGTCAA
* ** *
2527425 GGGTATTT-TGTTAATTTTACAAATCGA
1 GGGTATTTCAG-TAATTTTACAGGTCAA
* *
2527452 GGATATTTC-GATAATTTTACAAGTCGAA
1 GGGTATTTCAG-TAATTTTACAGGTC-AA
* *
2527480 GGTTA-TTCAGTAATTTTATAGGTCAA
1 GGGTATTTCAGTAATTTTACAGGTCAA
*
2527506 GGGTATTTC-GACAATTTTACAGGTCAA
1 GGGTATTTCAG-TAATTTTACAGGTCAA
* * ** *
2527533 GGGTATTTCAATAATTTCACAAATCAG
1 GGGTATTTCAGTAATTTTACAGGTCAA
** ***
2527560 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTCAGTAATTTTACAGGTCAA
* *** *
2527587 GGGTATATT-GGTAATTTTACAAACCAG
1 GGGTAT-TTCAGTAATTTTACAGGTCAA
* **
2527614 GGGTATTT-AGTAATTCTAC-CCTCCAA
1 GGGTATTTCAGTAATTTTACAGGT-CAA
* * *
2527640 GGGCATTTCAGTAATTCTACCA--TACAG
1 GGGTATTTCAGTAATTTTA-CAGGT-CAA
2527667 GGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
2527683 CTAGCTTACA
Statistics
Matches: 232, Mismatches: 40, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
26 28 0.12
27 195 0.84
28 9 0.04
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAGGTCAA
Found at i:2527654 original size:53 final size:52
Alignment explanation
Indices: 2527530--2527685 Score: 152
Period size: 54 Copynumber: 2.9 Consensus size: 52
2527520 TTTTACAGGT
* * * *
2527530 CAAGGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTACAAA-CAGGGGTA-TTTAGTAATTCTACAAAC
* ***
2527584 CAAGGGTATATT-GGTAATTTTACAAACCAGGGGTATTTAGTAATTCTACCCTC
1 CAAGGGTAT-TTCAGTAATTTTACAAA-CAGGGGTATTTAGTAATTCTACAAAC
* * *
2527637 CAAGGGCATTTCAGTAATTCTACCATACAGGGGTATTTCAGTAATTCTA
1 CAAGGGTATTTCAGTAATTTTA-CAAACAGGGGTATTT-AGTAATTCTA
2527686 GCTTACAGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 40 0.47
54 41 0.48
55 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (52 bp):
CAAGGGTATTTCAGTAATTTTACAAACAGGGGTATTTAGTAATTCTACAAAC
Found at i:2529880 original size:27 final size:27
Alignment explanation
Indices: 2529849--2529918 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
2529839 GCGAAAATCG
** *
2529849 AGGGTATTTTGGAAATTTTGTAAGCCA
1 AGGGTATTTCAGAAATTTTGTAAACCA
* *
2529876 AGGGTA-TTCAGTAATTTTGTAAACTA
1 AGGGTATTTCAGAAATTTTGTAAACCA
*
2529902 AGGGTATTTCAGTAATT
1 AGGGTATTTCAGAAATT
2529919 CTACCCTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 21 0.57
27 16 0.43
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGAAATTTTGTAAACCA
Found at i:2529895 original size:26 final size:27
Alignment explanation
Indices: 2529862--2529918 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
2529852 GTATTTTGGA
*
2529862 AATTTTGTAAGCCAAGGGTA-TTCAGT
1 AATTTTGTAAACCAAGGGTATTTCAGT
*
2529888 AATTTTGTAAACTAAGGGTATTTCAGT
1 AATTTTGTAAACCAAGGGTATTTCAGT
2529915 AATT
1 AATT
2529919 CTACCCTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AATTTTGTAAACCAAGGGTATTTCAGT
Found at i:2529937 original size:27 final size:27
Alignment explanation
Indices: 2529907--2529983 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
2529897 AACTAAGGGT
2529907 ATTTCAGTAATTCTACCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
**
2529934 ATTTCAGTAATTCTACCCTACAGGGTT
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
2529961 ATTTCAGTAATACTAGCCTACAG
1 ATTTCAGTAATTCTACCCTACAG
2529984 ATATGAGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:2532869 original size:24 final size:24
Alignment explanation
Indices: 2532830--2532942 Score: 92
Period size: 23 Copynumber: 4.8 Consensus size: 24
2532820 GCTCCTCCTG
2532830 AGCTGATAAACAGTAAGCTCTATTC
1 AGCTGA-AAACAGTAAGCTCTATTC
* *
2532855 AGCTGAAAACAGTAAGATCTATTG
1 AGCTGAAAACAGTAAGCTCTATTC
* * *
2532879 AGTTG--AATAGTAAGCTC-CTTC
1 AGCTGAAAACAGTAAGCTCTATTC
* * * *
2532900 GAGCT-AAATCGGTAAGCTCTAATA
1 -AGCTGAAAACAGTAAGCTCTATTC
2532924 AGCT-AAAACAGTAAGCTCT
1 AGCTGAAAACAGTAAGCTCT
2532943 TACAAGCAGT
Statistics
Matches: 68, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
21 2 0.03
22 13 0.19
23 26 0.38
24 21 0.31
25 6 0.09
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (24 bp):
AGCTGAAAACAGTAAGCTCTATTC
Found at i:2532949 original size:23 final size:23
Alignment explanation
Indices: 2532887--2532949 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
2532877 TGAGTTGAAT
* *
2532887 AGTAAGCTCCTT-CGAGCTAAATC
1 AGTAAGCT-CTTACAAGCTAAAAC
* * *
2532910 GGTAAGCTCTAATAAGCTAAAAC
1 AGTAAGCTCTTACAAGCTAAAAC
2532933 AGTAAGCTCTTACAAGC
1 AGTAAGCTCTTACAAGC
2532950 AGTGGTGAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
22 2 0.06
23 29 0.94
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTTACAAGCTAAAAC
Found at i:2548203 original size:93 final size:93
Alignment explanation
Indices: 2548091--2548262 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
2548081 CGCCCATAAG
* *
2548091 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
2548156 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
2548184 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
2548249 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
2548263 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:2548259 original size:46 final size:46
Alignment explanation
Indices: 2548084--2548259 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
2548074 TGTAACCCGC
* * *
2548084 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
2548130 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
2548180 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
2548223 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
2548260 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:2553940 original size:19 final size:19
Alignment explanation
Indices: 2553898--2553940 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2553888 TAATAAGCAA
* *
2553898 ATATAAATAATTTTATTTC
1 ATATAAATAATTATATTCC
2553917 ATATAAATAA-TATATTCC
1 ATATAAATAATTATATTCC
2553935 ACTATA
1 A-TATA
2553941 GCATTTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATAAATAATTATATTCC
Found at i:2556471 original size:27 final size:27
Alignment explanation
Indices: 2556425--2556550 Score: 76
Period size: 27 Copynumber: 4.7 Consensus size: 27
2556415 AGCGAGAAAA
* ** *
2556425 CAGTCAATTTACCATGTAGGGGAATTT
1 CAGTCATTTTACCAACTAGGGGAATAT
* *
2556452 CAGTCATTTTACCAACTAGGGAAAAAT
1 CAGTCATTTTACCAACTAGGGGAATAT
* * * * *
2556479 -AGTCATTTTGCCACACAAAGGCAA-AA
1 CAGTCATTTTACCA-ACTAGGGGAATAT
* * ** * *
2556505 CTGTCAATTTACCATGTAGGGGCATTT
1 CAGTCATTTTACCAACTAGGGGAATAT
2556532 CAGTCATTTTACCAACTAG
1 CAGTCATTTTACCAACTAG
2556551 ATGGTCTAGG
Statistics
Matches: 70, Mismatches: 26, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
26 17 0.24
27 53 0.76
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (27 bp):
CAGTCATTTTACCAACTAGGGGAATAT
Found at i:2567678 original size:25 final size:24
Alignment explanation
Indices: 2567644--2567701 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
2567634 TGACTAATGA
*
2567644 AGCCAATAACGTCCGCAAATT-AAGG
1 AGCCATTAACGT-C-CAAATTAAAGG
*
2567669 AGCCATTAACGTCTAAATTAAAGG
1 AGCCATTAACGTCCAAATTAAAGG
2567693 AGCC-TTAAC
1 AGCCATTAAC
2567702 CTCAATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.33
24 9 0.30
25 11 0.37
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (24 bp):
AGCCATTAACGTCCAAATTAAAGG
Found at i:2578675 original size:29 final size:29
Alignment explanation
Indices: 2578619--2578675 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
2578609 TCTAATTTAA
* *
2578619 TTTAATTTAATTATTTAATAGTATAAAAT
1 TTTAATTTAATTATTTAATAATAGAAAAT
2578648 TTTAA-TTAATTTATTTAATAATAGAAAA
1 TTTAATTTAA-TTATTTAATAATAGAAAA
2578676 ATTAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TTTAATTTAATTATTTAATAATAGAAAAT
Found at i:2579791 original size:36 final size:35
Alignment explanation
Indices: 2579751--2579828 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 35
2579741 AAAAATATAT
*
2579751 AATAATAAATTA-AATTTTATATTCATATTAATATTA
1 AATAA-AAATTATAATTTTATATTCATATTAA-ATAA
* *
2579787 AATAAAAATTATTATTTTATATTTATATTAAATAA
1 AATAAAAATTATAATTTTATATTCATATTAAATAA
2579822 AATAAAA
1 AATAAAA
2579829 TAAAAACTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 16 0.42
36 22 0.58
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (35 bp):
AATAAAAATTATAATTTTATATTCATATTAAATAA
Found at i:2579809 original size:30 final size:30
Alignment explanation
Indices: 2579745--2579823 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
2579735 GTTTTAAAAA
* *
2579745 ATATATAATAATAAAT-TAAATTTTATATTC
1 ATAT-TAATATTAAATAAAAATTTTATATTC
*
2579775 ATATTAATATTAAATAAAAATTATTAT-TTT
1 ATATTAATATTAAATAAAAATT-TTATATTC
*
2579805 ATATTTATATTAAATAAAA
1 ATATTAATATTAAATAAAA
2579824 TAAAATAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 10 0.23
30 29 0.67
31 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATTAATATTAAATAAAAATTTTATATTC
Found at i:2585127 original size:14 final size:15
Alignment explanation
Indices: 2585090--2585131 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
2585080 AAATATGAAC
2585090 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
2585106 TATA-ATGTGATA-G
1 TATATATGTGAAATG
2585119 TATATATGTGAAA
1 TATATATGTGAAA
2585132 GCTGAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:2585317 original size:43 final size:43
Alignment explanation
Indices: 2585270--2585423 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
2585260 GTTTTCTCAA
*
2585270 GTAAGACCATATCTGGGACGTTGGCATCGATATGTGATTACGT
1 GTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTACGT
* *** *
2585313 GTAAGACCATGTCTGGGACATCAACATCG-TATTTGATT-CGT
1 GTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTACGT
* * * * *
2585354 GTAAGACCCTGTTTGGGACAG-TGGCATCGATATGAG-GTAGCAT
1 GTAAGACCATGTCTGGGAC-GTTGGCATCGATATGTGATTA-CGT
*
2585397 GTAAGACCACGTCTGGGACGTTGGCAT
1 GTAAGACCATGTCTGGGACGTTGGCAT
2585424 TGTACGATAT
Statistics
Matches: 87, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
41 26 0.30
42 13 0.15
43 48 0.55
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTACGT
Found at i:2595831 original size:14 final size:15
Alignment explanation
Indices: 2595794--2595835 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
2595784 AAATATGAAC
2595794 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
2595810 TATA-ATGTGATA-G
1 TATATATGTGAAATG
2595823 TATATATGTGAAA
1 TATATATGTGAAA
2595836 GCCGAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:2596021 original size:43 final size:43
Alignment explanation
Indices: 2595974--2596127 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 43
2595964 GTGTTCTCGA
*
2595974 GTAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
* * * * * *
2596017 GTAAGACCATGTCTGGGACATCGGCATCG-TATTTGGTT-TGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
* *
2596058 GTAAGACC-CTGTCTGGGATAG-TGGCATCGATATGTGA-TAGCAT
1 GTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATGTGATTA-CGT
* * *
2596101 GTAATACCACGTTTGGGGCGTTGGCAT
1 GTAAGACCACGTCTGGGACGTTGGCAT
2596128 TGTATGATAT
Statistics
Matches: 85, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
41 26 0.31
42 13 0.15
43 45 0.53
44 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.31
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
Found at i:2596084 original size:41 final size:43
Alignment explanation
Indices: 2595974--2596095 Score: 137
Period size: 41 Copynumber: 2.9 Consensus size: 43
2595964 GTGTTCTCGA
2595974 GTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATGTGATTACGT
1 GTAAGACC-CTGTCTGGGATAG-TGGCATCGATATGTGATTACGT
* * * * *
2596017 GTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGGTT-TGT
1 GTAAGACCCTGTCTGGGATAGT-GGCATCGATATGTGATTACGT
2596058 GTAAGACCCTGTCTGGGATAGTGGCATCGATATGTGAT
1 GTAAGACCCTGTCTGGGATAGTGGCATCGATATGTGAT
2596096 AGCATGTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
41 27 0.42
42 15 0.23
43 23 0.35
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.31
Consensus pattern (43 bp):
GTAAGACCCTGTCTGGGATAGTGGCATCGATATGTGATTACGT
Found at i:2599189 original size:27 final size:27
Alignment explanation
Indices: 2599157--2600141 Score: 598
Period size: 27 Copynumber: 36.6 Consensus size: 27
2599147 TTAGTTTACT
* *
2599157 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*** *
2599184 AAATTACC-GTTTAACCCTCGA-TTAGCA
1 AAATTACCAAAAT-ACCCTCGATTTA-TA
* *
2599211 AAATTACCAAAATACCCT-TAGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
2599238 AAATTACCAACATACCC-CTG-GTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * * *
2599264 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *
2599291 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
2599318 AAATTACTGAAAA-ACCCTCGACTTGTA
1 AAATTAC-CAAAATACCCTCGATTTATA
* *
2599345 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
2599372 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *
2599399 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
2599426 AAATTACTGAAAA-ACCCTCGACTTGTA
1 AAATTAC-CAAAATACCCTCGATTTATA
* *
2599453 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
2599480 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *
2599507 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
** ** *
2599534 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
2599561 GAATTACCAAAATACCCTTGGTTTA-A
1 AAATTACCAAAATACCCTCGATTTATA
* * *
2599587 AAATTACCAAAATACCCTTGGTTTAGA
1 AAATTACCAAAATACCCTCGATTTATA
* **
2599614 AAATTACCAAAATACCC-CTGGTTTGCA
1 AAATTACCAAAATACCCTC-GATTTATA
** ** *
2599641 GGATTACCAAAATA-CCTTTAGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTATA
* *
2599668 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
2599695 AAATTATCAAAATACCCT-TAGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTATA
* *
2599722 AAATTACCAAAATA-CCTCTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
*** * *
2599749 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
2599776 AAATTACCAAAATACCATTCG-TTTACA
1 AAATTACCAAAATACC-CTCGATTTATA
* *
2599803 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
2599830 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
2599857 AAATTTCCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
** ** *
2599884 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * * * **
2599911 GAATTACCAAAATATCCTTGGTTTACG
1 AAATTACCAAAATACCCTCGATTTATA
* * *
2599938 AAATTACCAAAATACCCTTGGTTTAGA
1 AAATTACCAAAATACCCTCGATTTATA
* *
2599965 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
2599992 GAATTACCAAAATACCCT-TAGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
2600019 AAATTACCAAAATAACCTAG-TTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
2600045 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *
2600072 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
*** * *
2600099 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
2600126 AAAATACCAAAATACC
1 AAATTACCAAAATACC
2600142 TGTAACACCC
Statistics
Matches: 743, Mismatches: 168, Indels: 94
0.74 0.17 0.09
Matches are distributed among these distances:
25 1 0.00
26 87 0.12
27 628 0.85
28 27 0.04
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:2599405 original size:108 final size:108
Alignment explanation
Indices: 2599237--2600061 Score: 929
Period size: 108 Copynumber: 7.7 Consensus size: 108
2599227 CTTAGTTTAC
* *
2599237 AAAATTACCAACATACCCCTGG-TTGTAAAATTACCAAAATACCATTGGTTTACAAAATTACCAA
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
2599301 AATACCCCTGATTTGTGAAATTACTGAAAAACCCTCGACTTGT
66 AATACCCCTGATTTGTGAAATTACTGAAAAACCCTCGACTTGT
2599344 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
2599409 AATACCCCTGATTTGTGAAATTACTGAAAAACCCTCGACTTGT
66 AATACCCCTGATTTGTGAAATTACTGAAAAACCCTCGACTTGT
2599452 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
* *
2599517 AATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTGT
66 AATACCCCTGATTTGTGAAATTACTGAAAAACCCTCGACTTGT
* * * *
2599560 AGAATTACCAAAATACCCTTGGTTT-AAAAATTACCAAAATACCCTTGGTTTAGAAAATTACCAA
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
* * * * ** *
2599624 AATACCCCTGGTTTG-CAGGATTAC-CAAAATA-CCTTTAGTT-T
66 AATACCCCTGATTTGTGA-AATTACTGAAAA-ACCCTCGACTTGT
* *
2599665 ACAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCTTAGTTTACAAAATTACC
1 --AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACC
* * *
2599730 AAAATACCTCTGATTTGTGAAATTATTGAAATACCCTCGACTTGT
64 AAAATACCCCTGATTTGTGAAATTACTGAAAAACCCTCGACTTGT
** * ** * **
2599775 AAAATTACCAAAATACCATTCGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
* * *** * * *
2599840 AATACCCTTGGTTTACAAAATTTC-CAAAATACCC-CTGATTTGT
66 AATACCCCTGATTTGTGAAATTACTGAAAA-ACCCTC-GACTTGT
* ** *** * * *
2599883 GAAATTACTGAAATA-CCCTCGACCTGTAGAATTACCAAAATATCCTTGGTTTACGAAATTACCA
1 AAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA
* * * * **
2599947 AAATACCCTTGGTTTAG-AAAATTAC-CAAAATACCC-CTGGTTTGT
65 AAATACCCCTGATTT-GTGAAATTACTGAAAA-ACCCTC-GACTTGT
* * * ** * * **
2599991 AGAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATAACC-TAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
2600055 AATACCC
66 AATACCC
2600062 TTGGTTTACA
Statistics
Matches: 612, Mismatches: 91, Indels: 30
0.83 0.12 0.04
Matches are distributed among these distances:
105 1 0.00
106 9 0.01
107 129 0.21
108 459 0.75
109 13 0.02
110 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (108 bp):
AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
AATACCCCTGATTTGTGAAATTACTGAAAAACCCTCGACTTGT
Found at i:2602259 original size:27 final size:27
Alignment explanation
Indices: 2602229--2602443 Score: 270
Period size: 27 Copynumber: 8.0 Consensus size: 27
2602219 TGGTTTGTAA
* *
2602229 AATTACCAAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
2602256 AATTACTGAAATACCCCTATAGAGG-AG
1 AATTACCGAAATACCCCTGTAG-GGTAG
* *
2602283 AGTTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
2602310 AAATATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
2602337 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
2602364 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
2602391 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
2602418 AATTACCGAGATACCCTTGTGGGGTA
1 AATTACCGAAATACCCCTGTAGGGTA
2602444 AAATGACTGT
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 160 0.98
28 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:2602348 original size:81 final size:81
Alignment explanation
Indices: 2602232--2602433 Score: 316
Period size: 81 Copynumber: 2.5 Consensus size: 81
2602222 TTTGTAAAAT
* * * *
2602232 TACCAAAATACCCCTGTAGAGTAGAATTACTGAAATACCCCTATAGAGG-AGAGTTACCGAAATA
1 TACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAG-GGTAGAATTACCGAAATA
2602296 CCCTTGTAGGGTAGAAA
65 CCCTTGTAGGGTAGAAA
* * *
2602313 TATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCGAAATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATAC
2602378 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
*
2602394 TACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCC
1 TACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCC
2602434 TTGTGGGGTA
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 2 0.02
81 107 0.98
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (81 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATAC
CCTTGTAGGGTAGAAA
Found at i:2602665 original size:25 final size:25
Alignment explanation
Indices: 2602629--2602698 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
2602619 AGGAAGTGCG
2602629 AAAAGGGCTTTGCCCCAGTTTACC-A
1 AAAAGGG-TTTGCCCCAGTTTACCAA
2602654 AAAAGGGTTTTGCCCCAGTTTACCAA
1 AAAAGGG-TTTGCCCCAGTTTACCAA
2602680 AAAAGGGTTTGCCCCAGTT
1 AAAAGGGTTTGCCCCAGTT
2602699 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 35 0.81
26 8 0.19
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGTTTGCCCCAGTTTACCAA
Found at i:2605529 original size:27 final size:27
Alignment explanation
Indices: 2604917--2605530 Score: 522
Period size: 27 Copynumber: 22.7 Consensus size: 27
2604907 CTCGATTAGC
* * * *
2604917 AAAATTACCAAAATACCCATCGATTAGC
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
2604945 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
2604972 AAAACTACAAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
2604999 GAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
2605026 AAAATTACCAAAATACCTCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
** **
2605053 AAAATTACCAAAATACCATTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
**
2605080 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * ** * **
2605107 GAAATTTCTGAAAT-TCCCTCGACCTT-T
1 AAAATTACCAAAATACCCCT-G-GTTTGT
* * ** **
2605134 AGAATTACCAAAATATCTTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
2605161 AAAATTACCAAAATACCCTTGGTTTAG-
1 AAAATTACCAAAATACCCCTGGTTT-GT
* **
2605188 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
2605215 AAAATTACCAAAA-ACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
2605241 AAAATTAGCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
2605268 AAAATTACCAAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * ***
2605295 GAAATTACTAAAATA-CCCTCGACATGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* * * **
2605322 AGAATTACCAAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
2605349 AAAATTACCAAAATACCCTTGGTTTAG-
1 AAAATTACCAAAATACCCCTGGTTT-GT
*
2605376 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
2605403 AAAATTAGCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
2605430 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* ** **
2605457 GAAATTACTGAAATA-CCCTAGACTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
2605484 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
2605511 AAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
2605531 ATAGGGTAGA
Statistics
Matches: 467, Mismatches: 106, Indels: 27
0.78 0.18 0.05
Matches are distributed among these distances:
26 36 0.08
27 400 0.86
28 31 0.07
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:2605529 original size:81 final size:81
Alignment explanation
Indices: 2604917--2605530 Score: 589
Period size: 81 Copynumber: 7.6 Consensus size: 81
2604907 CTCGATTAGC
* * * * *
2604917 AAAATTACCAAAATACCCATCGATTAGCAAAATTACCAAAATACCCCT-AGTTTGTAAAACTACA
1 AAAATTACCAAAATACCCTTGGTTTA-CAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACC
2604981 AAAATACCCCTA-GTTTGT
64 AAAATA-CCCTAGGTTTGT
* *
2604999 GAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCTCT-AGTTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCA
* * **
2605063 AAATACCATTGGTTTAC
65 AAATACCCTAGGTTTGT
* ** *** * ** * * *
2605080 AAAATTACCAAAATACCCCTAATTTGTGAAATTTCTGAAAT-TCCCTCGACCTT-TAGAATTACC
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCT-GA-TTTGTAAAATTACC
* * * **
2605143 AAAATATCTTTGGTTTAC
64 AAAATACCCTAGGTTTGT
* * * **
2605161 AAAATTACCAAAATACCCTTGGTTTAGAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
2605226 AA-ACCCCT-GGTTTGT
66 AATA-CCCTAGGTTTGT
* * * * *
2605241 AAAATTAGCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAATTTGTGAAATTACTAA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
* ***
2605306 AATACCCTCGACATGT
66 AATACCCTAGGTTTGT
* * * *
2605322 AGAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTTGGTTTAG-AAAATTACCA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTT-GTAAAATTACCA
2605386 AAATACCCCTA-GTTTGT
65 AAATA-CCCTAGGTTTGT
* * **
2605403 AAAATTAGCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
**
2605468 AATACCCTAGACTTGT
66 AATACCCTAGGTTTGT
* **
2605484 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCT
2605531 ATAGGGTAGA
Statistics
Matches: 437, Mismatches: 83, Indels: 25
0.80 0.15 0.05
Matches are distributed among these distances:
80 83 0.19
81 321 0.73
82 33 0.08
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
AATACCCTAGGTTTGT
Found at i:2605543 original size:27 final size:27
Alignment explanation
Indices: 2605486--2605700 Score: 234
Period size: 27 Copynumber: 8.0 Consensus size: 27
2605476 AGACTTGTAA
* ** *
2605486 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
2605513 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
2605540 AATTACTGAAATACCCCTGTAGGGGAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
2605567 AGTTACTGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
2605594 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
2605621 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
2605648 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
2605675 AATTACCGAGATACCCTTGTGGGGTA
1 AATTACCGAAATACCCCTGTAGGGTA
2605701 AAATGATTGT
Statistics
Matches: 162, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.01
27 161 0.99
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:2605579 original size:54 final size:54
Alignment explanation
Indices: 2605521--2605704 Score: 271
Period size: 54 Copynumber: 3.4 Consensus size: 54
2605511 AAAATTACCA
* * * * *
2605521 AAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGGAGAGTTACTG
1 AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTG
*
2605575 AAATACCCTTGTAGGGTAAAAATACTGAAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTG
* *
2605629 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTG
* *
2605683 AGATACCCTTGTGGGGTA-AAAT
1 AAATACCCTTGTAGGGTAGAAAT
2605705 GATTGTTTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 4 0.03
54 115 0.97
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTG
Found at i:2605689 original size:81 final size:81
Alignment explanation
Indices: 2605509--2605700 Score: 258
Period size: 81 Copynumber: 2.4 Consensus size: 81
2605499 CCCCTGGTTT
* * ** *
2605509 GTAAAATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGGAGAGTTACT
1 GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGGAGAAATACC
*
2605574 GAAATACCCTTGTAGG
66 GAAATACCCCTGTAGG
* * * *
2605590 GTAAAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACC
1 GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGGAGAAATACC
2605655 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGG
* * * *
2605671 GTAGAATTACCGAGATACCCTTGTGGGGTA
1 GTAAAATTACCGAAATACCCCTGTAGGGTA
2605701 AAATGATTGT
Statistics
Matches: 95, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (81 bp):
GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGGAGAAATACC
GAAATACCCCTGTAGG
Found at i:2615137 original size:43 final size:42
Alignment explanation
Indices: 2615089--2615244 Score: 197
Period size: 43 Copynumber: 3.7 Consensus size: 42
2615079 TGTGATATTG
2615089 TGTAAGACCATGTCTGGGACATTGGCATCGATTTGAGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATTT-AGATTACA
* * **
2615132 TGTAAGACCATGTCTGGGACATTGGCATTGATCTAAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAT-TTAGATTACA
* * * *
2615175 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGAT-TTAGATTACA
*
2615218 TGTAAGACCATGTCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
2615245 TGTACTAGTT
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 6 0.06
43 90 0.93
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTTAGATTACA
Found at i:2615219 original size:86 final size:85
Alignment explanation
Indices: 2615087--2615246 Score: 250
Period size: 86 Copynumber: 1.9 Consensus size: 85
2615077 GATGTGATAT
* *
2615087 TGTGTAAGACCATGTCTGGGACATTGGCATCGATTTGAGATTACATGTAAGACCATGTCTGGGAC
1 TGTGTAAGACCATGTCTGGGACAGTGGCATCGATTTGAGATAACATGTAAGACCATGTCTGGGAC
2615152 ATTGGCATTGATCTAAGATTA
66 A-TGGCATTGATCTAAGATTA
* *
2615173 TGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT-TGATAACATGTAAGACCATGTCTGGGA
1 TGTGTAAGACCATGTCTGGGACAGTGGCATCGAT-TTGAGATAACATGTAAGACCATGTCTGGGA
*
2615237 TATGGCATTG
65 CATGGCATTG
2615247 TACTAGTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
85 8 0.12
86 58 0.85
87 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (85 bp):
TGTGTAAGACCATGTCTGGGACAGTGGCATCGATTTGAGATAACATGTAAGACCATGTCTGGGAC
ATGGCATTGATCTAAGATTA
Found at i:2621427 original size:10 final size:11
Alignment explanation
Indices: 2621402--2621427 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2621392 TGTATACATG
2621402 TTTTTTATTTA
1 TTTTTTATTTA
2621413 TTTTTTATTTA
1 TTTTTTATTTA
2621424 TTTT
1 TTTT
2621428 AAGAACAAGT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:2628598 original size:13 final size:13
Alignment explanation
Indices: 2628580--2628630 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
2628570 CTCGGCAGGA
*
2628580 ACACGCCCATGTG
1 ACACGCCCGTGTG
2628593 ACACGCCCGTGTG
1 ACACGCCCGTGTG
2628606 ACACGCCCGTGTG
1 ACACGCCCGTGTG
2628619 ACACGCCCGTGT
1 ACACGCCCGTGT
2628631 ACTATTACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.18, C:0.39, G:0.27, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:2646875 original size:43 final size:43
Alignment explanation
Indices: 2646826--2646943 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 43
2646816 AATGCCAACG
* * * *
2646826 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCC-ATT
1 TCCCAGACGTGGTCTTACACGAAAACACATATCGATACCAATT
* *
2646868 GTTCCAGATAG-GGTCTTACACGAAAACACATATCGATACCAATT
1 -TCCCAGA-CGTGGTCTTACACGAAAACACATATCGATACCAATT
* *
2646912 TCCCAGACGTGGTCTTACGCGAGAACACATAT
1 TCCCAGACGTGGTCTTACACGAAAACACATAT
2646944 TAGAAATCCT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
42 1 0.02
43 57 0.92
44 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACACGAAAACACATATCGATACCAATT
Found at i:2652724 original size:50 final size:50
Alignment explanation
Indices: 2652663--2652888 Score: 212
Period size: 50 Copynumber: 4.5 Consensus size: 50
2652653 TGAATACACG
* *
2652663 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATATTG-TTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATA-TGATTAAGTCACA
* * * * *
2652713 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCA-ATGACTT-CGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCATATGA-TTAAG-TCACA
* * * *
2652764 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATATGATTAAGTCACA
* * * *
2652814 TGTGTAGTACTAAGTGCAGGCTATTACGTGTACTGGAT-TG-TTGA-TCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-T-CATATGATTAAGTCACA
*
2652863 TGTGTAGTACTAAGTGCAAGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
2652889 TACGTATCAG
Statistics
Matches: 148, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
49 29 0.20
50 73 0.49
51 45 0.30
52 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATATGATTAAGTCACA
Found at i:2652835 original size:101 final size:99
Alignment explanation
Indices: 2652659--2652888 Score: 275
Period size: 101 Copynumber: 2.3 Consensus size: 99
2652649 ATTGTGAATA
* * * *
2652659 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATATTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTGAAGTCACATGTGTAGTACT
* *
2652724 AAGTGTAGGCTACTATGCGTACT-CAATGACTTCGAT
66 AAGTGCAGGCTACTACGCGTACTGCAATG--TT-GAT
* *
2652760 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGTCACGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTG-TGAAGTCACATGTGTAGTAC
* * * *
2652824 TAAGTGCAGGCTATTACGTGTACTGGATTGTTGAT
65 TAAGTGCAGGCTACTACGCGTACTGCAATGTTGAT
* * *
2652859 CGCATGTGTAGTACTAAGTGCAAGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
2652889 TACGTATCAG
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
99 30 0.27
100 4 0.04
101 75 0.67
102 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (99 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTGAAGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACTGCAATGTTGAT
Found at i:2653017 original size:27 final size:26
Alignment explanation
Indices: 2652987--2653038 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
2652977 GGGAAAATCG
2652987 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGT-G-AATATGTGCAAAGTTATT
* *
2653014 ATAAGGTGAATATGTGCAAATTTAT
1 ATAAAGTGAATATGTGCAAAGTTAT
2653039 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 8 0.36
27 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (26 bp):
ATAAAGTGAATATGTGCAAAGTTATT
Found at i:2657905 original size:12 final size:12
Alignment explanation
Indices: 2657888--2657912 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2657878 ATGTAAGTGA
2657888 TCTTGATGATTT
1 TCTTGATGATTT
2657900 TCTTGATGATTT
1 TCTTGATGATTT
2657912 T
1 T
2657913 TTACATTTTT
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:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:2658704 original size:47 final size:46
Alignment explanation
Indices: 2658630--2658947 Score: 204
Period size: 47 Copynumber: 6.7 Consensus size: 46
2658620 GATTTCTTGT
*
2658630 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATGA-GATGA
* *
2658676 GTGCCAATGTAAGACCATGTCTGGGACATGGCATCGG-CGTGGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAT-GAGATGA
* * *
2658724 GTGCTAGTGTAATACATGTTTGGGACATGCATCGGCC-TCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-GA-GATGA
* * * * *
2658771 -TAGCCAGTCTAAGACGTGTCTGGGACATGCATCGGCTAAGAG-T-T
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATGAGATGA
* * * * ** * *
2658815 GTGCTAGCGTAAGACATGTCAGGGACATGGATCATCAAAT-ATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CATGAGAT--GA
* * * *
2658863 G-ACCTAGTATAAGACCATGCCTGGGACATGGCATCGGCCTTGATGATGA
1 GTGCC-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATGA-GATGA
*
2658912 -TAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
2658948 ACAACTTATC
Statistics
Matches: 207, Mismatches: 44, Indels: 39
0.71 0.15 0.13
Matches are distributed among these distances:
44 27 0.13
45 4 0.02
46 25 0.12
47 67 0.32
48 30 0.14
49 44 0.21
50 8 0.04
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATGAGATGA
Found at i:2658796 original size:94 final size:93
Alignment explanation
Indices: 2658630--2658806 Score: 225
Period size: 94 Copynumber: 1.9 Consensus size: 93
2658620 GATTTCTTGT
** *
2658630 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGTGCCAATGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGAGTGCCAATCTAAGACCATG
2658695 TCTGGGACATGGCATCGGCGTGGAGATGA
66 TCTGGGACAT-GCATCGGCGTGGAGATGA
* * * *
2658724 GTGCTAGTGTAATACATGTTTGGGACATGCATCGGCC-TCGACGATGA-TAGCCAGTCTAAGA-C
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ACGATGAGT-GCCAATCTAAGACC
*
2658786 GTGTCTGGGACATGCATCGGC
63 ATGTCTGGGACATGCATCGGC
2658807 TAAGAGTTGT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
93 9 0.12
94 48 0.67
95 15 0.21
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (93 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGAGTGCCAATCTAAGACCATG
TCTGGGACATGCATCGGCGTGGAGATGA
Found at i:2661715 original size:27 final size:27
Alignment explanation
Indices: 2661677--2661728 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
2661667 TTGTATGAGA
* *
2661677 TAGGTATGAAACTATATCAGGCAAAGT
1 TAGGCATGAAACTATATCAGACAAAGT
2661704 TAGGCATGAAACTATATCAGACAAA
1 TAGGCATGAAACTATATCAGACAAA
2661729 TTAAAACCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.23
Consensus pattern (27 bp):
TAGGCATGAAACTATATCAGACAAAGT
Found at i:2663350 original size:43 final size:43
Alignment explanation
Indices: 2663287--2663373 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
2663277 TTTATAAAAG
*
2663287 TATGAATTTTGGATTGATTTGAATAGCATGAATATTAAACAGA
1 TATGAATTTTGGATTAATTTGAATAGCATGAATATTAAACAGA
2663330 TATGAATTTTGGATTAATTTGAATAGCATGAATATTAAACAGA
1 TATGAATTTTGGATTAATTTGAATAGCATGAATATTAAACAGA
2663373 T
1 T
2663374 TTAATTTACT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (43 bp):
TATGAATTTTGGATTAATTTGAATAGCATGAATATTAAACAGA
Found at i:2665741 original size:19 final size:19
Alignment explanation
Indices: 2665719--2665756 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2665709 TTGAAAAATA
2665719 AAAATAAAATAAAAATTTT
1 AAAATAAAATAAAAATTTT
* *
2665738 AAAATTAATTAAAAATTTT
1 AAAATAAAATAAAAATTTT
2665757 CTTTTCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAAAATAAAAATTTT
Found at i:2676671 original size:21 final size:21
Alignment explanation
Indices: 2676647--2676688 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2676637 GGGGTTTGTT
2676647 TTAACTAACTAATTAACTAAA
1 TTAACTAACTAATTAACTAAA
2676668 TTAACTAACTAATTAACTAAA
1 TTAACTAACTAATTAACTAAA
2676689 CTAAGGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAACTAACTAATTAACTAAA
Found at i:2676678 original size:13 final size:13
Alignment explanation
Indices: 2676660--2676692 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2676650 ACTAACTAAT
2676660 TAACTAAATTAAC
1 TAACTAAATTAAC
2676673 TAACT-AATTAAC
1 TAACTAAATTAAC
2676685 TAAACTAA
1 T-AACTAA
2676693 GGATTCACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 9 0.50
14 1 0.06
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TAACTAAATTAAC
Found at i:2682025 original size:79 final size:82
Alignment explanation
Indices: 2681914--2682098 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
2681904 GCTACTCGTT
* *
2681914 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
2681977 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
2681994 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
2682057 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
2682074 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2682099 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:2682098 original size:40 final size:40
Alignment explanation
Indices: 2681895--2682098 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
2681885 CGGAATTTAA
** *
2681895 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
2681935 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
2681975 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
2682014 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
2682054 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
2682094 CCGGA
1 CCGGA
2682099 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:2683797 original size:20 final size:20
Alignment explanation
Indices: 2683772--2683812 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2683762 TATTATACAA
* *
2683772 TGCCAACGTCCCAGACGTGG
1 TGCCAACATCCCAAACGTGG
2683792 TGCCAACATCCCAAACGTGG
1 TGCCAACATCCCAAACGTGG
2683812 T
1 T
2683813 CTGACATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.34, G:0.24, T:0.17
Consensus pattern (20 bp):
TGCCAACATCCCAAACGTGG
Found at i:2683923 original size:43 final size:43
Alignment explanation
Indices: 2683830--2683993 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
2683820 GTAATCACAT
* * * * * **
2683830 ATCGATGCCACTG-TCCTAGGCAGGGTCTTACATGAAATCTGTA
1 ATCGATGCCAGTGCTCC-AGACATGGTCTTACACGATATCTCAA
* *
2683873 ATTGATGCCAGTGCTCCAGACATGGTCTTACACGATATTTCAA
1 ATCGATGCCAGTGCTCCAGACATGGTCTTACACGATATCTCAA
**
2683916 ATCGATGCCAGTG-TCCCAGACACAGTCTTACACGATATCTCAA
1 ATCGATGCCAGTGCT-CCAGACATGGTCTTACACGATATCTCAA
**
2683959 ATCGATGCCAACGT-C-CCAGATGTGGTCTTACACGA
1 ATCGATGCC-A-GTGCTCCAGACATGGTCTTACACGA
2683994 AATCATATCT
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 1 0.01
43 92 0.93
44 4 0.04
45 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
ATCGATGCCAGTGCTCCAGACATGGTCTTACACGATATCTCAA
Found at i:2683966 original size:86 final size:86
Alignment explanation
Indices: 2683830--2683993 Score: 188
Period size: 86 Copynumber: 1.9 Consensus size: 86
2683820 GTAATCACAT
* * ** * ** *
2683830 ATCGATGCCACTGTCCTAGGCAGGGTCTTACATGAAATCTGTAATTGATGCC-A-GTGCTCCAGA
1 ATCGATGCCACTGTCCCAGACACAGTCTTACACGAAATCTCAAATCGATGCCAACGT-C-CCAGA
2683893 CATGGTCTTACACGATATTTCAA
64 CATGGTCTTACACGATATTTCAA
* * **
2683916 ATCGATGCCAGTGTCCCAGACACAGTCTTACACGATATCTCAAATCGATGCCAACGTCCCAGATG
1 ATCGATGCCACTGTCCCAGACACAGTCTTACACGAAATCTCAAATCGATGCCAACGTCCCAGACA
2683981 TGGTCTTACACGA
66 TGGTCTTACACGA
2683994 AATCATATCT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
86 60 0.94
87 2 0.03
88 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (86 bp):
ATCGATGCCACTGTCCCAGACACAGTCTTACACGAAATCTCAAATCGATGCCAACGTCCCAGACA
TGGTCTTACACGATATTTCAA
Found at i:2691629 original size:41 final size:40
Alignment explanation
Indices: 2691569--2691696 Score: 139
Period size: 41 Copynumber: 3.1 Consensus size: 40
2691559 ACAAAAATAC
* * *
2691569 ATTTAGGGCTACCAGAGTACAAACAGGGGCCCGTATGTGCA
1 ATTTAGGGATACCA-AGTACAAACAAGGGCACGTATGTGCA
* *
2691610 ATTTAGGGGTACCGAAGTACAAACAAGGGAACGTATGTGCA
1 ATTTAGGGATACC-AAGTACAAACAAGGGCACGTATGTGCA
* * ** *
2691651 ATTCAAGGATATTAAAGTACAAACAAGGGCACATATGTGCA
1 ATTTAGGGATA-CCAAGTACAAACAAGGGCACGTATGTGCA
2691692 ATTTA
1 ATTTA
2691697 AGAATAATGT
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
41 72 0.99
42 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (40 bp):
ATTTAGGGATACCAAGTACAAACAAGGGCACGTATGTGCA
Found at i:2720266 original size:6 final size:6
Alignment explanation
Indices: 2720255--2720282 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2720245 CCTTCTCCAT
2720255 AGAATA AGAATA AGAATA AGAATA AGAA
1 AGAATA AGAATA AGAATA AGAATA AGAA
2720283 CGGGCTCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.14
Consensus pattern (6 bp):
AGAATA
Found at i:2726258 original size:16 final size:16
Alignment explanation
Indices: 2726237--2726290 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
2726227 TTCAAGAATG
2726237 TCTAGATACATTTGAA
1 TCTAGATACATTTGAA
*
2726253 TCTAGACACATGGTTG--
1 TCTAGATACAT--TTGAA
2726269 TCTAGATACATTTGAA
1 TCTAGATACATTTGAA
2726285 TCTAGA
1 TCTAGA
2726291 CGACTATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.09
16 26 0.81
18 3 0.09
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (16 bp):
TCTAGATACATTTGAA
Found at i:2734966 original size:15 final size:15
Alignment explanation
Indices: 2734946--2734988 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
2734936 TTCTGTAAAT
*
2734946 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
2734961 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
2734976 TGGATTTCTTTAT
1 TGGATTTCTTTAT
2734989 TCTGGGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:2740242 original size:36 final size:37
Alignment explanation
Indices: 2740195--2740273 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
2740185 ATACCATTAC
2740195 ATGCATATGTGTTTATAAA-TTACTTTAGATTAACTT
1 ATGCATATGTGTTTATAAACTTACTTTAGATTAACTT
2740231 ATGCATATGTGTTTATAAACTTACTTTAGATTAACTT
1 ATGCATATGTGTTTATAAACTTACTTTAGATTAACTT
*
2740268 AGGCAT
1 ATGCAT
2740274 TAAAATCATT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 19 0.46
37 22 0.54
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (37 bp):
ATGCATATGTGTTTATAAACTTACTTTAGATTAACTT
Found at i:2742789 original size:31 final size:31
Alignment explanation
Indices: 2742751--2742829 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
2742741 TTTAACGATT
2742751 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
2742782 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
2742813 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
2742830 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:2742900 original size:42 final size:42
Alignment explanation
Indices: 2742853--2742944 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
2742843 TGGCCCATAG
* ** *
2742853 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
2742895 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
2742937 GCCCATTT
1 GCCCATTT
2742945 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:2744054 original size:27 final size:27
Alignment explanation
Indices: 2744002--2744344 Score: 268
Period size: 27 Copynumber: 12.7 Consensus size: 27
2743992 TTCATCCTAC
* * *
2744002 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* ** *
2744029 AAGGGTATTTTAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
2744056 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
*
2744084 GAAGGGTATTTCT-GTAACTTTGTA-AATC-
1 -AAGGGTATTT-TGGTAA-TTT-TACAAACT
* * *
2744112 AGGGGTATTTTGGTAAATTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
2744139 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
*
2744166 AATGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
2744193 AGGGGTATTTTGGTAATTTTAC--TC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
2744217 AGGGGTATTTTGGTAAATTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
2744244 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
*
2744271 AATGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
2744298 AGGGGTGTTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
2744325 AATGGTATTTTAGTAATTTT
1 AAGGGTATTTTGGTAATTTT
2744345 GTAAATCAAG
Statistics
Matches: 246, Mismatches: 60, Indels: 20
0.75 0.18 0.06
Matches are distributed among these distances:
24 21 0.09
25 3 0.01
26 5 0.02
27 188 0.76
28 8 0.03
29 19 0.08
30 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:2744252 original size:105 final size:105
Alignment explanation
Indices: 2744004--2744319 Score: 420
Period size: 105 Copynumber: 3.0 Consensus size: 105
2743994 CATCCTACAA
* * * * ** ***
2744004 GGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTTAGTAATTTTGTAAACCAATGGTATTTCT-
1 GGGTATTTTGGTAAATTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTT-TG
* * * * *
2744068 ATAATTTTTAGAAAGTGAAGGGTATTTCT-GTAACTTTGTAAATCAG
65 GTAA-TTTTACAAACT-AGGGGTATTT-TGGTAA-TTT-T-ACTCAG
2744114 GGGTATTTTGGTAAATTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTGG
1 GGGTATTTTGGTAAATTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTGG
2744179 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTCAG
66 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTCAG
2744219 GGGTATTTTGGTAAATTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTGG
1 GGGTATTTTGGTAAATTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTGG
*
2744284 TAATTTTACAAACTAGGGGTGTTTTGGTAATTTTAC
66 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC
2744320 AAACCAATGG
Statistics
Matches: 189, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
105 105 0.56
106 1 0.01
107 4 0.02
108 13 0.07
109 10 0.05
110 56 0.30
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (105 bp):
GGGTATTTTGGTAAATTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTGG
TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTCAG
Found at i:2744341 original size:54 final size:54
Alignment explanation
Indices: 2744009--2744344 Score: 308
Period size: 54 Copynumber: 6.2 Consensus size: 54
2743999 TACAAGGGTG
* * * * **
2744009 TTTTGGTAAATCTACAAACTAAGGGTATTTTAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAATGGTA
* * * * * ** * **
2744063 TTTCT-ATAATTTTTAGAAAGTGAAGGGTATTTCT-GTAACTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAACT-AGGGGTATTT-TGGTAATTTTACAAACCAATGGTA
* * * *
2744119 TTTTGGTAAATTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACCAATGGTA
* **
2744173 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC---TCAGGGGTA
1 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAATGGTA
* * * *
2744224 TTTTGGTAAATTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACCAATGGTA
*
2744278 TTTTGGTAATTTTACAAACTAGGGGTGTTTTGGTAATTTTACAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAATGGTA
*
2744332 TTTTAGTAATTTT
1 TTTTGGTAATTTT
2744345 GTAAATCAAG
Statistics
Matches: 227, Mismatches: 42, Indels: 26
0.77 0.14 0.09
Matches are distributed among these distances:
50 2 0.01
51 41 0.18
54 129 0.57
55 20 0.09
56 34 0.15
57 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAATGGTA
Found at i:2744366 original size:27 final size:27
Alignment explanation
Indices: 2744336--2744513 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
2744326 ATGGTATTTT
*
2744336 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
2744363 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
2744390 -GATAATTCTATAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * *
2744417 GGTAATTCTATAAGTCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
2744444 -GATAATTATGTAAATTAGGGGTAAAAC
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* *
2744471 AGTAATTATGTAAATC-GGGAGTAAAAC
1 AGTAATTCTGTAAATCAAGG-GTAAAAC
2744498 AGTAATTCTGTAAATC
1 AGTAATTCTGTAAATC
2744514 GGGGTACTTT
Statistics
Matches: 134, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.04
27 127 0.95
28 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:2744396 original size:54 final size:54
Alignment explanation
Indices: 2744338--2744513 Score: 221
Period size: 54 Copynumber: 3.3 Consensus size: 54
2744328 GGTATTTTAG
*
2744338 TAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGA
* * * * *
2744392 TAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAGTCAAGGGTAAAACGA
1 TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGA
* * * * *
2744446 TAATTATGTAAATTAGGGGTAAAACAGTAATTATGTAAATCG-GGAGTAAAAC-A
1 TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGG-GTAAAACGA
2744499 GTAATTCTGTAAATC
1 -TAATTCTGTAAATC
2744514 GGGGTACTTT
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.03
54 99 0.97
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.28
Consensus pattern (54 bp):
TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGA
Found at i:2744594 original size:28 final size:27
Alignment explanation
Indices: 2744525--2744596 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
2744515 GGGTACTTTG
* *
2744525 GTAATTTTAC-AAGTCAAAGGTATTTCA
1 GTAATTTTACAAACT-AAGGGTATTTCA
* *
2744552 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGGGTATTTCA
*
2744579 GTAATTTTAGTAAACTAA
1 GTAATTTTA-CAAACTAA
2744597 AGTATTCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 27 0.73
28 10 0.27
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGGGTATTTCA
Found at i:2749137 original size:22 final size:22
Alignment explanation
Indices: 2749099--2749140 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2749089 AATTTCATCC
2749099 AACATATTAATTTATACAATAA
1 AACATATTAATTTATACAATAA
*
2749121 AACAT-TTCATTTCATACAAT
1 AACATATTAATTT-ATACAAT
2749141 TTGGTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (22 bp):
AACATATTAATTTATACAATAA
Found at i:2772056 original size:10 final size:10
Alignment explanation
Indices: 2772041--2772079 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
2772031 CTGATTTGTA
2772041 CATGATATGC
1 CATGATATGC
2772051 CATGATATGC
1 CATGATATGC
*
2772061 ACATGATATGT
1 -CATGATATGC
2772072 CATGATAT
1 CATGATAT
2772080 ATTCATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (10 bp):
CATGATATGC
Found at i:2772056 original size:21 final size:21
Alignment explanation
Indices: 2772040--2772079 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2772030 ACTGATTTGT
2772040 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
*
2772061 ACATGATATGTCATGATAT
1 ACATGATATGCCATGATAT
2772080 ATTCATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:2777170 original size:18 final size:18
Alignment explanation
Indices: 2777144--2777178 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2777134 TGGCCCATTA
2777144 CAGTAACAGTAAACAGTG
1 CAGTAACAGTAAACAGTG
* *
2777162 CAGTTACAGTAAGCAGT
1 CAGTAACAGTAAACAGT
2777179 ATGCAAGTCC
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:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (18 bp):
CAGTAACAGTAAACAGTG
Found at i:2777563 original size:27 final size:27
Alignment explanation
Indices: 2777523--2777790 Score: 286
Period size: 27 Copynumber: 9.9 Consensus size: 27
2777513 ATATATACAT
* * *
2777523 CACAT-AGGGAAAAATAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* **
2777549 CATATAAGGGCAAAACAGTCACCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
2777576 CACATAAGAGCAAAACAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
2777603 CACATAAGGGAAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * **
2777630 CATATAAGGGGTAAAATGGTCATTTTAC
1 CACATAA-GGGCAAAACAGTCATTTTAC
* * *
2777658 CATATAAAGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
2777685 CACATAAGGGCAAAACAGTCATTTTAA
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
2777712 CATATAAGGGCAAAACAGTCACTGTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
2777739 CACGTAAGGGCAAAACTGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
2777766 CACATAAGGGTAAATCATTCATTTT
1 CACATAAGGGCAAAACAGTCATTTT
2777791 GTCAATTCAG
Statistics
Matches: 201, Mismatches: 39, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
26 4 0.02
27 174 0.87
28 23 0.11
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:2777727 original size:109 final size:107
Alignment explanation
Indices: 2777523--2777772 Score: 295
Period size: 109 Copynumber: 2.3 Consensus size: 107
2777513 ATATATACAT
* * *
2777523 CACAT-AGGGAAAAATAGTCATCTTACCATATAAGGGCAAAACAGTCACCTTACCACATAAGAGC
1 CACATAAGGGCAAAAT-GTCATTTTACCATATAAAGGCAAAACAGTCACCTTACCACATAAGAGC
* * *
2777587 AAAACAGTCATTTCACCACATAAGGGAAAAACAATCATTTTAC
65 AAAACAGTCATTTCAACACATAAGGGAAAAACAATCACTGTAC
* * * ** *
2777630 CATATAAGGGGTAAAATGGTCATTTTACCATATAAAGGCAAAATAGTCATTTTACCACATAAGGG
1 CACATAA-GGGCAAAAT-GTCATTTTACCATATAAAGGCAAAACAGTCACCTTACCACATAAGAG
* * * *
2777695 CAAAACAGTCATTTTAACATATAAGGGCAAAACAGTCACTGTAC
64 CAAAACAGTCATTTCAACACATAAGGGAAAAACAATCACTGTAC
* *
2777739 CACGTAAGGGCAAAACTGTCATTTTACCACATAA
1 CACATAAGGGCAAAA-TGTCATTTTACCATATAA
2777773 GGGTAAATCA
Statistics
Matches: 120, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
107 4 0.03
108 24 0.20
109 92 0.77
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (107 bp):
CACATAAGGGCAAAATGTCATTTTACCATATAAAGGCAAAACAGTCACCTTACCACATAAGAGCA
AAACAGTCATTTCAACACATAAGGGAAAAACAATCACTGTAC
Found at i:2783931 original size:19 final size:19
Alignment explanation
Indices: 2783863--2783948 Score: 75
Period size: 19 Copynumber: 4.5 Consensus size: 19
2783853 CACTCTCAAT
* *
2783863 CATATAAACAGTAAATCATT
1 CATAT-AACAGTAATTCATC
* * *
2783883 C-GATAATAGTAACTCATC
1 CATATAACAGTAATTCATC
* *
2783901 CATTTAAACAGTACTTCATC
1 CATAT-AACAGTAATTCATC
2783921 CATATAACAGTAATTCATC
1 CATATAACAGTAATTCATC
*
2783940 CGTATAACA
1 CATATAACA
2783949 CATAGCTTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
18 12 0.23
19 24 0.46
20 16 0.31
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (19 bp):
CATATAACAGTAATTCATC
Found at i:2784158 original size:23 final size:23
Alignment explanation
Indices: 2784132--2784187 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
2784122 AAGCTCTATT
2784132 GAGCTGAAAC-GATAAGCACTGAC
1 GAGCTGAAACAG-TAAGCACTGAC
* * *
2784155 GAGCTAAAAACAGTAAGCTCTGAT
1 GAGCT-GAAACAGTAAGCACTGAC
2784179 GAGCTGAAA
1 GAGCTGAAA
2784188 ATAGTAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 8 0.30
24 18 0.67
25 1 0.04
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCACTGAC
Found at i:2784171 original size:24 final size:24
Alignment explanation
Indices: 2784144--2784194 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2784134 GCTGAAACGA
2784144 TAAGCACTGACGAGCTAAAAACAG
1 TAAGCACTGACGAGCTAAAAACAG
* * * *
2784168 TAAGCTCTGATGAGCTGAAAATAG
1 TAAGCACTGACGAGCTAAAAACAG
2784192 TAA
1 TAA
2784195 ACTCTTACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.20
Consensus pattern (24 bp):
TAAGCACTGACGAGCTAAAAACAG
Found at i:2787459 original size:13 final size:13
Alignment explanation
Indices: 2787441--2787465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2787431 AATTGATGTT
2787441 TGTGAAAATTTTG
1 TGTGAAAATTTTG
2787454 TGTGAAAATTTT
1 TGTGAAAATTTT
2787466 CTCGTTTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:2791514 original size:40 final size:41
Alignment explanation
Indices: 2791470--2791550 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
2791460 GCTATAAATA
*
2791470 GCACTAAATGTGC-AAACTG-GAATAGCTTCGGTTATATGAG
1 GCACTAAATGTGCGAAACTGAG-ATAGATTCGGTTATATGAG
* * *
2791510 GCACTAAGTGTGCGATACTGAGATAGATTCGGTTATTTGAG
1 GCACTAAATGTGCGAAACTGAGATAGATTCGGTTATATGAG
2791551 ATGGCACTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 12 0.34
41 22 0.63
42 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (41 bp):
GCACTAAATGTGCGAAACTGAGATAGATTCGGTTATATGAG
Found at i:2805657 original size:5 final size:5
Alignment explanation
Indices: 2805647--2805675 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2805637 GGATGAAGTA
2805647 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
2805676 ATTAGCTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:2808452 original size:58 final size:58
Alignment explanation
Indices: 2808362--2808477 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
2808352 ATTAGTCTCG
2808362 AGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGT
1 AGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGT
2808420 AGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGT
1 AGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGT
2808478 CTGATTCAGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (58 bp):
AGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGT
Found at i:2814949 original size:60 final size:59
Alignment explanation
Indices: 2814810--2814922 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 59
2814800 CTATTCAGAA
* *
2814810 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAG
1 ATCAGAGTAT-ACTGGGCC-TAACCCATATCAATATCAATCTGGGCCATAGCCCCTTACAG
* *
2814870 TATCAGAGTATACTGGGCCTAACCCATATCAGTATCAATCTGGGCCGTAGCCC
1 -ATCAGAGTATACTGGGCCTAACCCATATCAATATCAATCTGGGCCATAGCCC
2814923 TATAACAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
60 30 0.64
61 16 0.34
62 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (59 bp):
ATCAGAGTATACTGGGCCTAACCCATATCAATATCAATCTGGGCCATAGCCCCTTACAG
Found at i:2814959 original size:60 final size:59
Alignment explanation
Indices: 2814810--2814961 Score: 150
Period size: 60 Copynumber: 2.5 Consensus size: 59
2814800 CTATTCAGAA
*
2814810 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAG
1 ATCAGAGTAT-ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAG
** * *
2814870 TATCAGAGTATACTGGGCCTAACCCATATCAGTATCAATCTGGGCCGTAG-CCCTATAACA-
1 -ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCCT-T-ACAG
* *
2814930 AGTC-GAGATATATTGGGCCTTGCCAATATCAA
1 A-TCAGAG-TATACTGGGCCTTGCCCATATCAA
2814962 CACAGTTGGC
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
59 8 0.11
60 47 0.62
61 20 0.26
62 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (59 bp):
ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAG
Found at i:2824895 original size:27 final size:27
Alignment explanation
Indices: 2824857--2824910 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2824847 TGTTTCTCAC
2824857 TCTTTTTACTCTCCTATGCTCACCTAA
1 TCTTTTTACTCTCCTATGCTCACCTAA
2824884 TCTTTTTACTCTCCTATGCTCACCTAA
1 TCTTTTTACTCTCCTATGCTCACCTAA
2824911 GTATAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.33, G:0.04, T:0.44
Consensus pattern (27 bp):
TCTTTTTACTCTCCTATGCTCACCTAA
Found at i:2826375 original size:19 final size:20
Alignment explanation
Indices: 2826351--2826394 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
2826341 GGGCTCACAT
2826351 GCCC-GTAGTCTAGGGACAC
1 GCCCGGTAGTCTAGGGACAC
*
2826370 GCCCGTGTGGTCTAGGGACAC
1 GCCCG-GTAGTCTAGGGACAC
2826391 GCCC
1 GCCC
2826395 ATGTGGTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
21 18 0.82
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (20 bp):
GCCCGGTAGTCTAGGGACAC
Found at i:2826384 original size:21 final size:21
Alignment explanation
Indices: 2826358--2826402 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
2826348 CATGCCCGTA
*
2826358 GTCTAGGGACACGCCCGTGTG
1 GTCTAGGGACACGCCCATGTG
2826379 GTCTAGGGACACGCCCATGTG
1 GTCTAGGGACACGCCCATGTG
2826400 GTC
1 GTC
2826403 AGGCCATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.29, G:0.36, T:0.20
Consensus pattern (21 bp):
GTCTAGGGACACGCCCATGTG
Found at i:2831408 original size:43 final size:44
Alignment explanation
Indices: 2831295--2831408 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 44
2831285 TGTGTTTTCG
*
2831295 TGTAAGACCATGTCTAGGACGTTGGCATCGACTTATGATTTACA
1 TGTAAGACCATGTCTAGGACGTTGGCACCGACTTATGATTTACA
* * * *
2831339 TGTAAGACTATGACTGGGACAG-TGGCACCGA-TATTTGA-TTACA
1 TGTAAGACCATGTCTAGGAC-GTTGGCACCGACT-TATGATTTACA
* * *
2831382 TGTAAGACCACGTCTTGAACGTTGGCA
1 TGTAAGACCATGTCTAGGACGTTGGCA
2831409 TTGTACGAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
42 1 0.02
43 26 0.46
44 29 0.51
45 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
TGTAAGACCATGTCTAGGACGTTGGCACCGACTTATGATTTACA
Found at i:2833062 original size:16 final size:17
Alignment explanation
Indices: 2833041--2833075 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2833031 AATTTTAATT
*
2833041 AATTAATTAA-TTTCTC
1 AATTAAATAAGTTTCTC
2833057 AATTAAATAAGTTTCTC
1 AATTAAATAAGTTTCTC
2833074 AA
1 AA
2833076 CCCAATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (17 bp):
AATTAAATAAGTTTCTC
Found at i:2834662 original size:86 final size:84
Alignment explanation
Indices: 2834559--2834717 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 84
2834549 GATACTTTTA
2834559 AAAAAAATATTTTAACATAAT-AATGATATATATAAAA-TATTTTCATTATATAACTACATATTT
1 AAAAAAATATTTTAACATAATGAAT--TA-ATATAAAACTATTTTCATTATATAACTACATATTT
*
2834622 ATTTTTTTATAAGTTATTAATT
63 ATTATTTTATAAGTTATTAATT
* *
2834644 AAAAAAATATTTTTAACATAATGAATTAATATAAAATCTATTTTCATTATATAATTCCATATTTA
1 AAAAAAATA-TTTTAACATAATGAATTAATATAAAA-CTATTTTCATTATATAACTACATATTTA
2834709 TTATTTTAT
64 TTATTTTAT
2834718 TTATATAAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
84 8 0.12
85 11 0.16
86 45 0.67
87 3 0.04
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (84 bp):
AAAAAAATATTTTAACATAATGAATTAATATAAAACTATTTTCATTATATAACTACATATTTATT
ATTTTATAAGTTATTAATT
Found at i:2834737 original size:17 final size:16
Alignment explanation
Indices: 2834715--2834748 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2834705 TTTATTATTT
2834715 TATTTATATAAATAAAA
1 TATTTAT-TAAATAAAA
*
2834732 TATTTATTAATTAAAA
1 TATTTATTAAATAAAA
2834748 T
1 T
2834749 TAAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTATTAAATAAAA
Found at i:2834781 original size:20 final size:20
Alignment explanation
Indices: 2834724--2834784 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
2834714 TTATTTATAT
*
2834724 AAATAAAAT-ATTTATTAATTA
1 AAATAAAATAATTTA--AAATA
* *
2834745 AAATTAAA-AATTAAAAATA
1 AAATAAAATAATTTAAAATA
2834764 AAATAAAATAATTTAAAATA
1 AAATAAAATAATTTAAAATA
2834784 A
1 A
2834785 CATGTTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 11 0.33
20 11 0.33
21 11 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAAAATAATTTAAAATA
Found at i:2835061 original size:60 final size:58
Alignment explanation
Indices: 2834929--2835108 Score: 179
Period size: 59 Copynumber: 3.1 Consensus size: 58
2834919 ATATAATATA
* *
2834929 TGGTATCTAAACTTGACACTTTTTCTTAATTTGATACCTAAATTTTTCTTGGTCCAATT
1 TGGTACCTAAACTTGACACTTTTTCTTAATTTGGTA-CTAAATTTTTCTTGGTCCAATT
* * * ***
2834988 TGGTACCCAAACTTGACACTTTTTCTTAAGTTGGTACTTAATCTTTT-TTAGGGTTTGATT
1 TGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACTAAAT-TTTTCTT--GGTCCAATT
* * * *
2835048 TGGTACCTAAACTTGACTCTTTTTCCTAATTTGGTACCT--ATTTTT-TTTGTTCAATT
1 TGGTACCTAAACTTGACACTTTTTCTTAATTTGGTA-CTAAATTTTTCTTGGTCCAATT
2835104 TGGTA
1 TGGTA
2835109 TTTGTCAAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
56 11 0.11
58 13 0.13
59 38 0.37
60 38 0.37
61 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.48
Consensus pattern (58 bp):
TGGTACCTAAACTTGACACTTTTTCTTAATTTGGTACTAAATTTTTCTTGGTCCAATT
Found at i:2837117 original size:59 final size:58
Alignment explanation
Indices: 2837012--2837135 Score: 160
Period size: 59 Copynumber: 2.1 Consensus size: 58
2837002 ATAACATTTA
* * * *
2837012 ATAAATTGAGGTATCAAATTGTGCTTAAAAAAAGCTTAGGTACCAAATTATAAAAAAAT
1 ATAAATTCAGGTATCAAATTGGGCTCAAAAAAAGCTTAGATACCAAATTA-AAAAAAAT
* * *
2837071 ATTAAATTCAGGTATCAAATTGGGC-CCAAAAAAGTTTAGATACCAAATTAAAAAAATT
1 A-TAAATTCAGGTATCAAATTGGGCTCAAAAAAAGCTTAGATACCAAATTAAAAAAAAT
2837129 ATAAATT
1 ATAAATT
2837136 TAAAAATCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
57 6 0.11
58 8 0.14
59 22 0.39
60 21 0.37
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (58 bp):
ATAAATTCAGGTATCAAATTGGGCTCAAAAAAAGCTTAGATACCAAATTAAAAAAAAT
Found at i:2839433 original size:50 final size:50
Alignment explanation
Indices: 2839358--2839457 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
2839348 GACATTAGTT
2839358 AGCAAAGGAATTGTTTTAGTACACATACAAGTTGAAGGCATTCAGCAATC
1 AGCAAAGGAATTGTTTTAGTACACATACAAGTTGAAGGCATTCAGCAATC
2839408 AGCAAAGGAATTGTTTTAGTACACATACAAGTTGAAGGCATTCAGCAATC
1 AGCAAAGGAATTGTTTTAGTACACATACAAGTTGAAGGCATTCAGCAATC
2839458 TTAACCAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (50 bp):
AGCAAAGGAATTGTTTTAGTACACATACAAGTTGAAGGCATTCAGCAATC
Found at i:2846900 original size:13 final size:13
Alignment explanation
Indices: 2846882--2846906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2846872 TACTAAATTT
2846882 TCATGGATTCAAG
1 TCATGGATTCAAG
2846895 TCATGGATTCAA
1 TCATGGATTCAA
2846907 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:2850830 original size:56 final size:56
Alignment explanation
Indices: 2850737--2850889 Score: 163
Period size: 56 Copynumber: 2.8 Consensus size: 56
2850727 GATGACATGA
** * *
2850737 TACATGCTAGGTCCGAAAGC-TGTGTAGCCCCGTTGAGAGGCAT-GTAATTATG-TGG
1 TACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAA-TATGAT-G
**
2850792 TACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGTGTGGTAATATGATG
1 TACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATATGATG
* *
2850848 --CCTGCTAGGTCCGGGTGCTCATATGTAGCCCTGTTGAGAGGC
1 TACATGCTAGGTCCGGGAGCT--TATGTAGCCCTGTTGAGAGGC
2850890 GTGCTATGTC
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
54 17 0.20
55 18 0.21
56 44 0.52
57 5 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (56 bp):
TACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATATGATG
Found at i:2852343 original size:23 final size:23
Alignment explanation
Indices: 2852312--2852388 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
2852302 TTTAAACCTC
*
2852312 ACACGCCCGTGTGGAGGCAATGT
1 ACACGCCCGTGTGGAGGCAATGA
* **
2852335 ACACACCCGTGT----GCTTTGA
1 ACACGCCCGTGTGGAGGCAATGA
*
2852354 ACACGCCCGTGTGGAGGCAATGC
1 ACACGCCCGTGTGGAGGCAATGA
2852377 ACACGCCCGTGT
1 ACACGCCCGTGT
2852389 CCTTCACCCA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 15 0.36
23 27 0.64
ACGTcount: A:0.21, C:0.31, G:0.30, T:0.18
Consensus pattern (23 bp):
ACACGCCCGTGTGGAGGCAATGA
Found at i:2855788 original size:107 final size:107
Alignment explanation
Indices: 2855623--2855870 Score: 273
Period size: 107 Copynumber: 2.3 Consensus size: 107
2855613 CAAGCTGACG
* ** *** * * * * **
2855623 AGAATCCACAACGTATGCAAGATCTCAATCATTTTAATGATCCATTTCATCAGTATAGAGTATTC
1 AGAATCCACAACATATGCAAGATCTCAGCCATCGGAACGGTCTATGTCATCAGTATAGAGTAGCC
* * * *
2855688 AGTCATTTCACCAGTTCACGATGCTACTCACACAAGCTGTCG
66 AGTCAATTCACCAGTTCACGATGCTACTCACACAAACTATCA
* * *
2855730 AGAATCCGCAACATATGTAGGATCTCAGCCATCGGAACGGTCTATGTCATCA-TAATAGAGTAGC
1 AGAATCCACAACATATGCAAGATCTCAGCCATCGGAACGGTCTATGTCATCAGT-ATAGAGTAGC
* * * *
2855794 CATTCAATTCACCAGTTCACGATGTTGCTCACACAAACTATTA
65 CAGTCAATTCACCAGTTCACGATGCTACTCACACAAACTATCA
2855837 AGAATCCACAACATATGCAAGATCTCAGCCATCG
1 AGAATCCACAACATATGCAAGATCTCAGCCATCG
2855871 TGATGGTGTG
Statistics
Matches: 114, Mismatches: 26, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
106 1 0.01
107 113 0.99
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (107 bp):
AGAATCCACAACATATGCAAGATCTCAGCCATCGGAACGGTCTATGTCATCAGTATAGAGTAGCC
AGTCAATTCACCAGTTCACGATGCTACTCACACAAACTATCA
Found at i:2864377 original size:6 final size:6
Alignment explanation
Indices: 2864363--2864396 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2864353 AATAGTAATT
* *
2864363 AGTAAC AGTAGC AGTAAC AGTAAC AGCAAC AGTA
1 AGTAAC AGTAAC AGTAAC AGTAAC AGTAAC AGTA
2864397 TTCAACACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (6 bp):
AGTAAC
Found at i:2864436 original size:39 final size:39
Alignment explanation
Indices: 2864380--2864472 Score: 114
Period size: 39 Copynumber: 2.4 Consensus size: 39
2864370 GTAGCAGTAA
*
2864380 CAGTAACAGCAACAGTATTCAACACACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
* * * * * *
2864419 CTGTAACGGTAACAGTATTCGACATATAAAGTGTTGAAT
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
*
2864458 CAGTAGCAGTAACAG
1 CAGTAACAGTAACAG
2864473 CAGATAAGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
Found at i:2865557 original size:19 final size:17
Alignment explanation
Indices: 2865523--2865559 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
2865513 GTTTCTTTGT
2865523 TTTTCTTTTATATTTTA
1 TTTTCTTTTATATTTTA
2865540 TTTTCTTTGTATTATTTTA
1 TTTTCTTT-TA-TATTTTA
2865559 T
1 T
2865560 CATTTAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 2 0.11
19 8 0.44
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTATATTTTA
Done.