Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 125 of 255
Found at i:39947651 original size:61 final size:61
Alignment explanation
Indices: 39947573--39947695 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
39947563 ACATTCATCA
*
39947573 CATCGGCCATTATGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
39947634 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
39947695 C
1 C
39947696 CTTATCACAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (61 bp):
CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
Found at i:39947659 original size:108 final size:108
Alignment explanation
Indices: 39947526--39947742 Score: 407
Period size: 108 Copynumber: 2.0 Consensus size: 108
39947516 ACATTCATCA
* *
39947526 CATCGGCCATTAGGCCTTACCACATATATATACTTTCACATTCATCACATCGGCCATTATGCCTT
1 CATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
39947591 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
66 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
*
39947634 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 CATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
39947699 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
66 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
39947742 C
1 C
39947743 CATACTATCA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.31
Consensus pattern (108 bp):
CATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
Found at i:39947687 original size:47 final size:47
Alignment explanation
Indices: 39947634--39947743 Score: 220
Period size: 47 Copynumber: 2.3 Consensus size: 47
39947624 GGCCATTAGG
39947634 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
39947681 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
39947728 CATCGGCCATTAGGCC
1 CATCGGCCATTAGGCC
39947744 ATACTATCAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (47 bp):
CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
Found at i:39951558 original size:40 final size:40
Alignment explanation
Indices: 39951272--39951612 Score: 357
Period size: 40 Copynumber: 8.5 Consensus size: 40
39951262 AGCATGATTA
* * * *
39951272 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* ** * *
39951312 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
*
39951352 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * *
39951392 CTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
** *
39951432 CTCTTCGAAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * *
39951472 CTCTTCGGGACTTAGTCCGGATACATCGCTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
** * * *
39951512 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATG
* * ** *
39951553 C-CTTC-GGATCCTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATG
39951593 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
39951613 CATCATTCGA
Statistics
Matches: 253, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
39 3 0.01
40 231 0.91
41 19 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:39951958 original size:29 final size:29
Alignment explanation
Indices: 39951924--39951996 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
39951914 AATCAACCAT
* *
39951924 GCACACTTAGTGCCATGTACTTT-AAACTC
1 GCACACTTAGTGCCATGCA-TTTCAAACCC
*
39951953 GCACACTTAGTGCCATGCATTTCAAGCCC
1 GCACACTTAGTGCCATGCATTTCAAACCC
39951982 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
39951997 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCATTTCAAACCC
Found at i:39953953 original size:37 final size:37
Alignment explanation
Indices: 39953903--39953981 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39953893 TTATTACGAA
* * *
39953903 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39953940 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39953977 GTCTT
1 GTCTT
39953982 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39954157 original size:40 final size:44
Alignment explanation
Indices: 39954103--39954336 Score: 245
Period size: 49 Copynumber: 5.0 Consensus size: 44
39954093 TTCGGGACTT
39954103 ATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATA
1 ATCACATT-ATCACATCGGCCATTAGGCCCTATCACATATATATA
39954148 CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATA
1 -A---TCACATT-ATCACATCGGCCATTAGGCCCTATCACATATATATA
* *
39954197 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 -A---TCACATT-ATCACATCGGCCATTAGGCCCTATCACATATATATA
* * * *
39954246 CTTTCACATTCATCACATCGGCCATCAGGCCTTATCACATATATACA
1 --ATCACATT-ATCACATCGGCCATTAGGCCCTATCACATATATATA
*
39954293 CTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATA
1 --ATCACATT-ATCACATCGGCCATTAGGCCCTATCACATATATA
39954337 CGCCTTATCA
Statistics
Matches: 177, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
46 15 0.08
47 71 0.40
49 91 0.51
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (44 bp):
ATCACATTATCACATCGGCCATTAGGCCCTATCACATATATATA
Found at i:39954259 original size:47 final size:47
Alignment explanation
Indices: 39954099--39954528 Score: 549
Period size: 47 Copynumber: 8.7 Consensus size: 47
39954089 GCCCTTCGGG
*
39954099 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
39954149 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
39954198 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39954245 ACTTTCACATTCATCACATCGGCCATCAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39954292 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* ** *
39954338 GCCTTATCACATATATACACTTTCACATTCATCACA-TCGGCCATTAGGCATTATCACATATATA
1 -ACTT-TCAC--AT-T-CA---TCACA-TCGGC-CATTAGG-C------C-TTATCACATATATA
39954402 C
47 C
*
39954403 ACTTTCACATTCATCACATCGGCCATCAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39954450 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39954497 ACTTTCACATTCATCATATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
39954529 ATACTATCAT
Statistics
Matches: 345, Mismatches: 14, Indels: 45
0.85 0.03 0.11
Matches are distributed among these distances:
46 14 0.04
47 180 0.52
48 5 0.01
49 83 0.24
50 6 0.02
51 1 0.00
52 2 0.01
54 3 0.01
55 10 0.03
56 11 0.03
57 3 0.01
59 2 0.01
60 1 0.00
61 2 0.01
63 5 0.01
64 3 0.01
65 14 0.04
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:39954344 original size:64 final size:65
Alignment explanation
Indices: 39954274--39954402 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 65
39954264 CGGCCATCAG
39954274 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC-CTATCACATATATAC
1 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCACTATCACATATATAC
*
39954338 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCACTATCACATATATAC
39954403 ACTTTCACAT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 49 0.78
65 14 0.22
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (65 bp):
GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCACTATCACATATATAC
Found at i:39954352 original size:111 final size:112
Alignment explanation
Indices: 39954227--39954449 Score: 412
Period size: 111 Copynumber: 2.0 Consensus size: 112
39954217 CGGCCATTAG
*
39954227 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATCAGGCCTTATCACATATATAC
1 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATCAGGCATTATCACATATATAC
*
39954292 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
66 ACTTTCACATTCATCACATCGGCCATCAGGCCTTATCACATATATAC
*
39954338 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATCAGGCATTATCACATATATAC
39954403 ACTTTCACATTCATCACATCGGCCATCAGGCCTTATCACATATATAC
66 ACTTTCACATTCATCACATCGGCCATCAGGCCTTATCACATATATAC
39954450 ACTTTCACAT
Statistics
Matches: 108, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
111 94 0.87
112 14 0.13
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (112 bp):
GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATCAGGCATTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATCAGGCCTTATCACATATATAC
Found at i:39954363 original size:16 final size:18
Alignment explanation
Indices: 39954324--39954365 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
39954314 CCATTAGGCC
*
39954324 TATCACATATATACGCCT
1 TATCACATATATACGACT
39954342 TATCACATATATAC-ACT
1 TATCACATATATACGACT
39954359 T-TCACAT
1 TATCACAT
39954366 TCATCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.26
17 3 0.13
18 14 0.61
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (18 bp):
TATCACATATATACGACT
Found at i:39954419 original size:25 final size:25
Alignment explanation
Indices: 39954343--39954421 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
39954333 TATACGCCTT
39954343 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
39954368 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
39954390 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
39954415 ATCACAT
1 ATCACAT
39954422 CGGCCATCAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:39954478 original size:158 final size:159
Alignment explanation
Indices: 39954190--39954496 Score: 598
Period size: 158 Copynumber: 1.9 Consensus size: 159
39954180 CCTATCACAT
*
39954190 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACAT
39954255 TCATCACATCGGCCATCAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATCAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
39954320 GGCC-TATCACATATATACGCCTTATCAC
131 GGCCTTATCACATATATACGCCTTATCAC
39954348 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACAT
39954413 TCATCACATCGGCCATCAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATCAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
39954478 GGCCTTATCACATATATAC
131 GGCCTTATCACATATATAC
39954497 ACTTTCACAT
Statistics
Matches: 147, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
158 133 0.90
159 14 0.10
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (159 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACAT
TCATCACATCGGCCATCAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
GGCCTTATCACATATATACGCCTTATCAC
Found at i:39954495 original size:205 final size:206
Alignment explanation
Indices: 39954141--39954528 Score: 715
Period size: 205 Copynumber: 1.9 Consensus size: 206
39954131 CCTATCACAT
*
39954141 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCACTATCACA-ATATATACACTTTCAC
*
39954206 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
65 ATTCATCACATCGGCCATCAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
39954271 CAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATAT
130 CAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATAT
39954336 ACGCCTTATCAC
195 ACGCCTTATCAC
*
39954348 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCAC-ATATATACACTTTCACA
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCACTATCACAATATATACACTTTCACA
*
39954412 TTCATCACATCGGCCATCAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
66 TTCATCACATCGGCCATCAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATC
*
39954477 AGGCCTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGCC
131 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
39954529 ATACTATCAT
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
205 131 0.74
207 45 0.26
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (206 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCACTATCACAATATATACACTTTCACA
TTCATCACATCGGCCATCAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATC
AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATA
CGCCTTATCAC
Found at i:39957463 original size:17 final size:17
Alignment explanation
Indices: 39957438--39957473 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39957428 AGGGGACACA
*
39957438 CGGCGAAACTATACCCC
1 CGGCCAAACTATACCCC
*
39957455 CGGCCAAACTATACTCC
1 CGGCCAAACTATACCCC
39957472 CG
1 CG
39957474 TACATATGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.42, G:0.17, T:0.14
Consensus pattern (17 bp):
CGGCCAAACTATACCCC
Found at i:39961769 original size:28 final size:30
Alignment explanation
Indices: 39961705--39961769 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
39961695 CTTTTTTTAT
* **
39961705 TAATTTATATTTTTAAATTTTTGAAAATGT
1 TAATATATATTTTTAAATTTTTGAAAATAA
**
39961735 TTTTATATATTTTTAAA-TTTT-AAAATAA
1 TAATATATATTTTTAAATTTTTGAAAATAA
39961763 TAATATA
1 TAATATA
39961770 AATAACTTGA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
28 10 0.36
29 4 0.14
30 14 0.50
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (30 bp):
TAATATATATTTTTAAATTTTTGAAAATAA
Found at i:39973384 original size:11 final size:12
Alignment explanation
Indices: 39973359--39973386 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
39973349 TGAGTGTAGT
39973359 AAAATATTTTAA
1 AAAATATTTTAA
39973371 AAAATATTTTAA
1 AAAATATTTTAA
39973383 AAAA
1 AAAA
39973387 GAGATATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAATATTTTAA
Found at i:39976486 original size:51 final size:52
Alignment explanation
Indices: 39976365--39976490 Score: 186
Period size: 52 Copynumber: 2.5 Consensus size: 52
39976355 ATGTTACTAG
39976365 TGACT-CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTT
* * *
39976416 TG-GTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTT
*
39976467 TGACTACAAGGGTGGTACTATGTG
1 TGACTACAAGTGTGGTACTATGTG
39976491 CAGCCCACCG
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
50 1 0.01
51 31 0.46
52 35 0.52
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.29
Consensus pattern (52 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTT
Found at i:39978628 original size:40 final size:40
Alignment explanation
Indices: 39978583--39978734 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
39978573 ATAACCACAA
* *
39978583 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
39978623 GCACAAATGCCTTTGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * *
39978663 GCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
39978703 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
39978735 CATTCAAATG
Statistics
Matches: 98, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 93 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:39978711 original size:80 final size:80
Alignment explanation
Indices: 39978583--39978734 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
39978573 ATAACCACAA
* * * * * * *
39978583 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTTGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAAAGCAACTAGCACAAATGCCTTCGGGACTTAGCC
39978648 CGGATATATCAACTC
66 CGGATATATCAACTC
* * *
39978663 GCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCAGAT-AAAGCAACTAGCACAAATGCCTTCGGGACTTAGC
39978727 CCGGATAT
65 CCGGATAT
39978735 CATTCAAATG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 58 0.95
81 3 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGATAAAGCAACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATATATCAACTC
Found at i:39986750 original size:40 final size:40
Alignment explanation
Indices: 39986692--39986843 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
39986682 ATAACCACAA
* * * *
39986692 GCACAATTGCCTTTGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
39986732 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
39986772 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * *
39986812 GCATAAATGCCTTCGGGACCTAGCCCAGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
39986844 CATTCAAATG
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:39990799 original size:24 final size:23
Alignment explanation
Indices: 39990757--39990840 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 23
39990747 GAGATGGAAA
* * *
39990757 TGAAGACGAAAACAGGGGTGGAGG
1 TGAAGATGAAGAC-GGGGTCGAGG
* *
39990781 TGAAGATGAAGACGAGGGTCAAGA
1 TGAAGATGAAGACG-GGGTCGAGG
* *
39990805 TGAAGATGAATATGGGAGTCGAGG
1 TGAAGATGAAGACGGG-GTCGAGG
*
39990829 TAAAGATGAAGA
1 TGAAGATGAAGA
39990841 TGATGATCAT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 3 0.06
24 44 0.94
ACGTcount: A:0.40, C:0.06, G:0.39, T:0.14
Consensus pattern (23 bp):
TGAAGATGAAGACGGGGTCGAGG
Found at i:40001637 original size:29 final size:29
Alignment explanation
Indices: 40001574--40001641 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
40001564 TAATCAACCA
40001574 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
40001603 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
40001632 CGCACACTTA
1 CGCACACTTA
40001642 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:40001782 original size:29 final size:30
Alignment explanation
Indices: 40001743--40001821 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
40001733 CTTAATAATC
40001743 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
40001773 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
40001802 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
40001822 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:40013558 original size:46 final size:46
Alignment explanation
Indices: 40013494--40013665 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
40013484 TGGGCATCCA
*
40013494 AACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAATGTTCC-
1 AACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACG-TCCG
** * * * * *
40013540 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-AGTTATGGATGCGA-ACGTCCG
* * * *
40013587 AGCTCGTTGAGTTGAGTTCGAGTTCAATTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGTCCG
40013633 AGA-TCGTTGAGTTGAGTCCGAGTTC-GCTTATGG
1 A-ACTCGTTGAGTTGAGTCCGAGTTCAG-TTATGG
40013666 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
46 67 0.68
47 31 0.32
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGTCCG
Found at i:40013645 original size:93 final size:93
Alignment explanation
Indices: 40013486--40013658 Score: 260
Period size: 93 Copynumber: 1.9 Consensus size: 93
40013476 GGGATATTTG
* * *
40013486 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAATGTTCCAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGTCCCAACTCGTTGAG
40013551 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
40013579 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCAATTATGGATGCGAACG-CCCGAGA-TCGTTG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGTCCC-A-ACTCGTTG
40013642 AGTTGAGTCCGAGTTCG
64 AGTTGAGTCCGAGTTCG
40013659 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
92 2 0.03
93 69 0.96
94 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:40016625 original size:15 final size:15
Alignment explanation
Indices: 40016586--40016665 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
40016576 GTATCTTGGG
*
40016586 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
40016601 TATCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
40016616 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
40016631 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
40016646 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
40016660 TTTCTT
1 TTTCTT
40016666 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:40016655 original size:30 final size:30
Alignment explanation
Indices: 40016577--40016664 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
40016567 CATAGTATCG
* * *
40016577 TATCTTGGGTTTCTTTA-TCCTGGATATCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
40016607 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
40016637 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
40016665 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:40022621 original size:20 final size:19
Alignment explanation
Indices: 40022585--40022635 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
40022575 TAGGGCTATT
*
40022585 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
40022604 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
40022624 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
40022636 GTTTCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:40023377 original size:46 final size:44
Alignment explanation
Indices: 40023287--40023402 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 44
40023277 TATGTGTGCT
*
40023287 AGTGTAAGAAATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTATGAGAGCC
*
40023333 AGTGTAAGACATGTCTGGGACATGCATCGG-CATTGA-GACAAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATT-ATG---AGAGCC
*
40023379 AGTGTAAGACATGTATGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
40023403 TATGGGACAT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
43 5 0.08
44 1 0.02
46 57 0.90
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTATGAGAGCC
Found at i:40023402 original size:11 final size:11
Alignment explanation
Indices: 40023386--40023413 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
40023376 GCTAGTGTAA
40023386 GACATGTATGG
1 GACATGTATGG
40023397 GACATGTATGG
1 GACATGTATGG
40023408 GACATG
1 GACATG
40023414 CATCAGCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.36, T:0.25
Consensus pattern (11 bp):
GACATGTATGG
Found at i:40023458 original size:59 final size:57
Alignment explanation
Indices: 40023340--40023461 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 57
40023330 GCCAGTGTAA
* * * *
40023340 GACATGTCTGGGACATGCATCGGCATTGAGACAAGAGCTAGTGTAAGACATGTATGG
1 GACATGTATGGGACATGCATCAGCATCGAGACAAAAGCTAGTGTAAGACATGTATGG
* * * *
40023397 GACATGTATGGGACATGCATCAGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGG
1 GACATGTATGGGACATGCATCAGCATCGAGACA-A-AAGCTAGTGTAAGACATGTATGG
40023456 GACATG
1 GACATG
40023462 GCATCGACAC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 28 0.51
58 1 0.02
59 26 0.47
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (57 bp):
GACATGTATGGGACATGCATCAGCATCGAGACAAAAGCTAGTGTAAGACATGTATGG
Found at i:40023507 original size:48 final size:49
Alignment explanation
Indices: 40023405--40023560 Score: 167
Period size: 48 Copynumber: 3.2 Consensus size: 49
40023395 GGGACATGTA
* * * *
40023405 TGGGACAT-GCATCAGCCTCGAGATATACAAGCTAGTGTAAGACCTGTC
1 TGGGACATGGCATCAGCCTCGATAGATAAAAGCCAGTGTAAGACCTGTC
* *
40023453 TGGGACATGGCATC-GACAC-CGATAGATGAGAGCCAGTGTAAGACCTGTC
1 TGGGACATGGCATCAG-C-CTCGATAGATAAAAGCCAGTGTAAGACCTGTC
* * * * *
40023502 T-GGACACGACATCAGCCTCGATATATAAAAGTCAGTGTAAGACCTATC
1 TGGGACATGGCATCAGCCTCGATAGATAAAAGCCAGTGTAAGACCTGTC
40023550 TGGGACATGGC
1 TGGGACATGGC
40023561 GTCGGCATCT
Statistics
Matches: 87, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
47 1 0.01
48 46 0.53
49 39 0.45
50 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (49 bp):
TGGGACATGGCATCAGCCTCGATAGATAAAAGCCAGTGTAAGACCTGTC
Found at i:40028782 original size:13 final size:14
Alignment explanation
Indices: 40028762--40028831 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 14
40028752 TTTATGTTAT
40028762 ATATATATAATATA
1 ATATATATAATATA
40028776 ATA-ATATAATATA
1 ATATATATAATATA
*
40028789 TTATAATATTAATACCTA
1 ATAT-ATA-TAATA--TA
*
40028807 A-ATAT-TAATTTA
1 ATATATATAATATA
40028819 ATATAT-TAATATA
1 ATATATATAATATA
40028832 TATTTTAACT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
12 3 0.07
13 22 0.48
14 7 0.15
15 3 0.07
16 7 0.15
17 2 0.04
18 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATATATAATATA
Found at i:40041310 original size:26 final size:28
Alignment explanation
Indices: 40041248--40041313 Score: 100
Period size: 30 Copynumber: 2.4 Consensus size: 28
40041238 AAAACAAAGC
40041248 ACATTCATGCCATATCATAAAAAACATACA
1 ACATTCATGCCATATCATAAAAAAC--ACA
40041278 ACATTCATGCCATATCATAAAAAAC-CA
1 ACATTCATGCCATATCATAAAAAACACA
40041305 A-ATTCATGC
1 ACATTCATGC
40041314 TTATAACCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.22
27 3 0.08
30 25 0.69
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (28 bp):
ACATTCATGCCATATCATAAAAAACACA
Found at i:40042167 original size:43 final size:42
Alignment explanation
Indices: 40042120--40042216 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
40042110 CTAGACATGT
* * *
40042120 TCTTACATGTGATCAAATATTGATGCCATTGTCCCAAATAGGG
1 TCTTACATGTAATCAAATA-TGATGCCAATGTCCCAAACAGGG
* * * * *
40042163 TCTTACACGAAATCAAATATGATGCCAATGTCCTAGACATGG
1 TCTTACATGTAATCAAATATGATGCCAATGTCCCAAACAGGG
40042205 TCTTACATGTAA
1 TCTTACATGTAA
40042217 ATCATAAGTC
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 28 0.64
43 16 0.36
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (42 bp):
TCTTACATGTAATCAAATATGATGCCAATGTCCCAAACAGGG
Found at i:40042219 original size:43 final size:44
Alignment explanation
Indices: 40042099--40042220 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 44
40042089 AGCTCATACA
* * *
40042099 ATGCCAACGTCCTAGACATGTTCTTACATGT-GATCAAATATTG
1 ATGCCAATGTCCTAGACATGGTCTTACATGTAAATCAAATATTG
* * * * * *
40042142 ATGCCATTGTCCCAAATAGGGTCTTACACG-AAATCAAATA-TG
1 ATGCCAATGTCCTAGACATGGTCTTACATGTAAATCAAATATTG
40042184 ATGCCAATGTCCTAGACATGGTCTTACATGTAAATCA
1 ATGCCAATGTCCTAGACATGGTCTTACATGTAAATCA
40042221 TAAGTCGATG
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
42 26 0.42
43 36 0.58
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (44 bp):
ATGCCAATGTCCTAGACATGGTCTTACATGTAAATCAAATATTG
Found at i:40046968 original size:23 final size:23
Alignment explanation
Indices: 40046938--40046983 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
40046928 TTGGAGTGCT
40046938 ATTGGGCTATTTGCACACTTTCG
1 ATTGGGCTATTTGCACACTTTCG
40046961 ATTGGGCTATTTGCACACTTTCG
1 ATTGGGCTATTTGCACACTTTCG
40046984 CAAACAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (23 bp):
ATTGGGCTATTTGCACACTTTCG
Found at i:40047444 original size:26 final size:27
Alignment explanation
Indices: 40047406--40047471 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
40047396 TTTACCTAGA
*
40047406 GCCCCTA-ATTGATAAAATGACT-TTAT
1 GCCCCTATA-TGATAAAATAACTGTTAT
* *
40047432 GCCCTTATGTGATAAAATAACTGTTAT
1 GCCCCTATATGATAAAATAACTGTTAT
40047459 GCCCCTATATGAT
1 GCCCCTATATGAT
40047472 GTATGATTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.35
Consensus pattern (27 bp):
GCCCCTATATGATAAAATAACTGTTAT
Found at i:40048110 original size:20 final size:20
Alignment explanation
Indices: 40048085--40048132 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
40048075 CCTCTTTGGA
40048085 TTTTATTTTTAATTTGGGAT
1 TTTTATTTTTAATTTGGGAT
*
40048105 TTTTATTTTTAATTTGGGGT
1 TTTTATTTTTAATTTGGGAT
40048125 TTTTATTT
1 TTTTATTT
40048133 GCTTCGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.69
Consensus pattern (20 bp):
TTTTATTTTTAATTTGGGAT
Found at i:40048559 original size:42 final size:44
Alignment explanation
Indices: 40048469--40048612 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 44
40048459 TTACACTACG
*
40048469 TCTGGGACGTTGGCATCGACTTATGATTTACATGTAAGACCACG
1 TCTGGGACGTTGGCATCGACTTATGATTTACATGTAAGACCACA
*
40048513 TCTGGGATGTTGGCATCGTAC-T-TGATTT-CATGTAAGACC-CTA
1 TCTGGGACGTTGGCATCG-ACTTATGATTTACATGTAAGACCAC-A
* * *
40048555 TCTGGGACAG-TGGCATC-AATATTTGA-TTACATATAAGACCACA
1 TCTGGGAC-GTTGGCATCGACT-TATGATTTACATGTAAGACCACA
* *
40048598 TCTGAGACATTGGCA
1 TCTGGGACGTTGGCA
40048613 GTATACGAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 28 0.33
43 33 0.39
44 19 0.23
45 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (44 bp):
TCTGGGACGTTGGCATCGACTTATGATTTACATGTAAGACCACA
Found at i:40058523 original size:40 final size:40
Alignment explanation
Indices: 40058361--40058509 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
40058351 TATTCAGATG
* *
40058361 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
40058401 A-ATTTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
40058441 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40058481 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
40058510 AGCAAGTAGC
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 97 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:40058523 original size:80 final size:80
Alignment explanation
Indices: 40058361--40058532 Score: 233
Period size: 80 Copynumber: 2.2 Consensus size: 80
40058351 TATTCAGATG
* **
40058361 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
* *
40058426 TTTGTGCGAGTTACT
66 TTTGAGCAAGTTACT
* *
40058441 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
40058505 ATTTGAGCAAG-TAGCT
65 ATTTGAGCAAGTTA-CT
*
40058521 ATATCC-GGCTAA
1 ATAACCGGGCTAA
40058533 ATTTCGAAGG
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
79 10 0.12
80 71 0.88
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
TTTGAGCAAGTTACT
Found at i:40058542 original size:39 final size:40
Alignment explanation
Indices: 40058361--40058534 Score: 174
Period size: 40 Copynumber: 4.4 Consensus size: 40
40058351 TATTCAGATG
* * * *
40058361 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
** * * *
40058401 A-ATTTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
* * * *
40058441 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
*
40058481 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTA-CT
*
40058521 ATATCC-GGCTAAAT
1 ATAACCGGGCTAAAT
40058535 TTCGAAGGTA
Statistics
Matches: 119, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 10 0.08
40 108 0.91
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
Found at i:40062354 original size:21 final size:23
Alignment explanation
Indices: 40062325--40062373 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 23
40062315 AACCAAATGC
*
40062325 ACAAGATAATGGCACATTTGCAT
1 ACAACATAATGGCACATTTGCAT
40062348 CACATAACATAATGGCACATTTGCAT
1 -AC--AACATAATGGCACATTTGCAT
40062374 CACATATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
26 20 0.91
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (23 bp):
ACAACATAATGGCACATTTGCAT
Found at i:40062361 original size:26 final size:26
Alignment explanation
Indices: 40062330--40062384 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
40062320 AATGCACAAG
40062330 ATAATGGCACATTTGCATCACATAAC
1 ATAATGGCACATTTGCATCACATAAC
*
40062356 ATAATGGCACATTTGCATCACATATC
1 ATAATGGCACATTTGCATCACATAAC
40062382 ATA
1 ATA
40062385 TATCAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (26 bp):
ATAATGGCACATTTGCATCACATAAC
Found at i:40063066 original size:43 final size:43
Alignment explanation
Indices: 40062946--40063080 Score: 109
Period size: 43 Copynumber: 3.1 Consensus size: 43
40062936 AGCTCGTACA
* * *
40062946 ATGCCAACATCCCAGACTTGGTCTTACATGT-AATCAAATATCG
1 ATGCCACCATCCCAAAC-AGGTCTTACATGTAAATCAAATATCG
** *
40062989 ATGCCACTGTCCCAAACAGGTTCTTACACG-AAATCAAATAT-G
1 ATGCCACCATCCCAAACAGG-TCTTACATGTAAATCAAATATCG
* * *
40063031 ATGTCACCATCCCATATGC-GGTCTTACATGTAAATCATAA-GTCG
1 ATGCCACCATCCCA-A-ACAGGTCTTACATGTAAATCA-AATATCG
40063075 ATGCCA
1 ATGCCA
40063081 ACGTCCCACA
Statistics
Matches: 72, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
42 22 0.31
43 41 0.57
44 9 0.12
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCACCATCCCAAACAGGTCTTACATGTAAATCAAATATCG
Found at i:40065013 original size:93 final size:93
Alignment explanation
Indices: 40064904--40065074 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
40064894 GCCCCTAAGT
* * * * *
40064904 GAACTCGGACTGAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
40064969 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
40064997 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40065062 CGAGTTCGGATGC
66 CGAGTTCGGATGC
40065075 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:40065071 original size:46 final size:46
Alignment explanation
Indices: 40064899--40065071 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
40064889 ATCCCGCCCC
* * * * *
40064899 TAAGTGAACTCGGACTGAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * * *
40064945 TAAGTGAACTTGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
40064993 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
40065038 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40065072 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:40067169 original size:40 final size:40
Alignment explanation
Indices: 40067114--40067297 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
40067104 ATTTGAATGA
*
40067114 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
40067154 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
40067194 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * *
40067234 TATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* *
40067274 TACCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCA
40067298 ATTGTGCTTG
Statistics
Matches: 134, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 131 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:40067316 original size:80 final size:80
Alignment explanation
Indices: 40067117--40067324 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
40067107 TGAATGATAT
* * * * * *
40067117 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCTGGGCTAAGACCCGAAGGCATTTA
* * * *
40067182 TGCTAGTGATTTTAT
66 TGCGAGTGACTATAC
* * * *
40067197 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCTGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCTGGGCTAAGACCCGAAGGCATTTA
40067262 TGCGAGTTG-CTATAC
66 TGCGAG-TGACTATAC
* * *
40067277 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCT-GGCTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCTGGGCTAA
40067325 ATTCCGAAGA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
79 6 0.06
80 99 0.93
81 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCTGGGCTAAGACCCGAAGGCATTTA
TGCGAGTGACTATAC
Found at i:40068926 original size:30 final size:30
Alignment explanation
Indices: 40068892--40068951 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
40068882 ATTTAATACG
*
40068892 AACTTTGGAAAAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
40068922 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
40068952 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:40074381 original size:43 final size:44
Alignment explanation
Indices: 40074277--40074385 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
40074267 TATGTGTTTT
* * * *
40074277 CATGTAAGACGACATCTGGGACATTGGCATCGACTTATAATTTA
1 CATGTAAGACCACGTCTGGGACAGTGGCATCGACTTATAATTCA
* *
40074321 CATGTAAGACC-CTGTCTGGGACAGTGGCATCGA-TATTTGA-TCA
1 CATGTAAGACCAC-GTCTGGGACAGTGGCATCGACT-TATAATTCA
40074364 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCACGTCTGGGAC
40074386 GTTCGCTTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
43 24 0.43
44 32 0.57
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
CATGTAAGACCACGTCTGGGACAGTGGCATCGACTTATAATTCA
Found at i:40082014 original size:13 final size:13
Alignment explanation
Indices: 40081996--40082020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40081986 TAATGGTATA
40081996 TTGAATCCATGAT
1 TTGAATCCATGAT
40082009 TTGAATCCATGA
1 TTGAATCCATGA
40082021 AAATTTAGTA
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:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:40083825 original size:25 final size:25
Alignment explanation
Indices: 40083797--40083875 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
40083787 CTAATGGCTG
40083797 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * * *
40083822 ATGTGAT-AAGGCCGAATG-GCA-A-
1 ATGTGATGAATG-TGAAAGTGTATAT
40083844 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
40083869 ATGTGAT
1 ATGTGAT
40083876 AAGGCCTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:40083825 original size:47 final size:47
Alignment explanation
Indices: 40083772--40083925 Score: 263
Period size: 47 Copynumber: 3.3 Consensus size: 47
40083762 ACAAGATATG
*
40083772 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTA
* *
40083819 TATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTA
* *
40083866 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTA
40083913 TATATGTGATAAG
1 TATATGTGATAAG
40083926 CCCCGAAGGA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTA
Found at i:40094005 original size:24 final size:24
Alignment explanation
Indices: 40093972--40094048 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
40093962 AAGGCTATCA
*
40093972 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
40093996 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
40094020 GGAGAGCATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
40094044 GGAGA
1 GGAGA
40094049 ACGGTGTTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.34, C:0.05, G:0.40, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:40095286 original size:21 final size:21
Alignment explanation
Indices: 40095260--40095300 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
40095250 TTTTGGTCGT
40095260 ATGAAAATGGCTATCCTATGC
1 ATGAAAATGGCTATCCTATGC
40095281 ATGAAAATGGCTATCCTATG
1 ATGAAAATGGCTATCCTATG
40095301 GAAATTACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (21 bp):
ATGAAAATGGCTATCCTATGC
Found at i:40095493 original size:27 final size:26
Alignment explanation
Indices: 40095453--40095563 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
40095443 AGGAAGCGTC
* *
40095453 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
40095480 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
40095507 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * *
40095534 CTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTGTT
40095560 CTGG
1 CTGG
40095564 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 15 0.19
27 60 0.78
28 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:40100265 original size:21 final size:21
Alignment explanation
Indices: 40100239--40100303 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
40100229 GATATGGTGT
40100239 TGAAGAGGCCACGTGGGAGCC
1 TGAAGAGGCCACGTGGGAGCC
* ** * *
40100260 TGAAGATGTTA--T-GGTG-T
1 TGAAGAGGCCACGTGGGAGCC
40100277 TGAAGAGGCCACGTGGGAGCC
1 TGAAGAGGCCACGTGGGAGCC
40100298 TGAAGA
1 TGAAGA
40100304 TGTTACGAGA
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
20 3 0.10
21 14 0.47
ACGTcount: A:0.26, C:0.15, G:0.40, T:0.18
Consensus pattern (21 bp):
TGAAGAGGCCACGTGGGAGCC
Found at i:40100282 original size:38 final size:38
Alignment explanation
Indices: 40100231--40100308 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
40100221 GTGGCATCGA
40100231 TATGGTGTTGAAGAGGCCACGTGGGAGCCTGAAGATGT
1 TATGGTGTTGAAGAGGCCACGTGGGAGCCTGAAGATGT
40100269 TATGGTGTTGAAGAGGCCACGTGGGAGCCTGAAGATGT
1 TATGGTGTTGAAGAGGCCACGTGGGAGCCTGAAGATGT
40100307 TA
1 TA
40100309 CGAGACAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.24, C:0.13, G:0.38, T:0.24
Consensus pattern (38 bp):
TATGGTGTTGAAGAGGCCACGTGGGAGCCTGAAGATGT
Found at i:40103559 original size:14 final size:15
Alignment explanation
Indices: 40103540--40103568 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
40103530 ACACATTTGG
40103540 CTTTTAATTT-TTTT
1 CTTTTAATTTATTTT
40103554 CTTTTAATTTATTTT
1 CTTTTAATTTATTTT
40103569 ACCCCTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTTAATTTATTTT
Found at i:40110126 original size:226 final size:226
Alignment explanation
Indices: 40109773--40110223 Score: 839
Period size: 226 Copynumber: 2.0 Consensus size: 226
40109763 ACGGGCACCA
* *
40109773 GACACGCCCATGAGGTCCAGCCATGCCAAAGTAGAGTATACATACTGACTTTTACACACGGCCAA
1 GACACGCCCATGAGGTCCAGCCATGCCAAAATAGAGTATACATACTGAATTTTACACACGGCCAA
40109838 CAGACACGGCCATGTGATACTTAGCTAGCTATTGAATTAAGCCCACAACCATATGACACGCCCAT
66 CAGACACGGCCATGTGATACTTAGCTAGCTATTGAATTAAGCCCACAACCATATGACACGCCCAT
*
40109903 GTGTCTTAACCGTATGGCCTTAAGAGGTTACTACTTTGCATACACGGCTACAAGGCACGCCCGTG
131 GTGTCTTAACCGTATGGCCTTAAGAGGTTACTACTTTGCATACACAGCTACAAGGCACGCCCGTG
40109968 TTCACTGACCGTGTGGCACAATGCAGGCTTG
196 TTCACTGACCGTGTGGCACAATGCAGGCTTG
40109999 GACACGCCCATGAGGTCCAGCCATGCCAAAATAGAGTATACATACTGAATTTTACACACGGCCAA
1 GACACGCCCATGAGGTCCAGCCATGCCAAAATAGAGTATACATACTGAATTTTACACACGGCCAA
*
40110064 CAGACACGGCCATGTGATACTTAGCTAGCTATTGAATTAAGCCCACAGCCATATGACACGCCCAT
66 CAGACACGGCCATGTGATACTTAGCTAGCTATTGAATTAAGCCCACAACCATATGACACGCCCAT
* * *
40110129 GTGTCTTAATCGTATGGCCTTAAGAGGTTACTGCTTTGCATACATAGCTACAAGGCACGCCCGTG
131 GTGTCTTAACCGTATGGCCTTAAGAGGTTACTACTTTGCATACACAGCTACAAGGCACGCCCGTG
40110194 TTCACTGACCGTGTGGCACAATGCAGGCTT
196 TTCACTGACCGTGTGGCACAATGCAGGCTT
40110224 AGTTTAAGCC
Statistics
Matches: 218, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
226 218 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (226 bp):
GACACGCCCATGAGGTCCAGCCATGCCAAAATAGAGTATACATACTGAATTTTACACACGGCCAA
CAGACACGGCCATGTGATACTTAGCTAGCTATTGAATTAAGCCCACAACCATATGACACGCCCAT
GTGTCTTAACCGTATGGCCTTAAGAGGTTACTACTTTGCATACACAGCTACAAGGCACGCCCGTG
TTCACTGACCGTGTGGCACAATGCAGGCTTG
Found at i:40111102 original size:42 final size:43
Alignment explanation
Indices: 40110998--40111148 Score: 139
Period size: 42 Copynumber: 3.5 Consensus size: 43
40110988 CAATGCTGAC
* * * * *
40110998 GTCCCGGACGTGGTCTTACATGTAATTCAG-TATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATA-CGATGCCTAT
* * * *
40111041 GTCCCAAATAGGGTTTTACACG-AAATCAGATACGATGCCTAT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGCCTAT
* *
40111083 GTCCCAGACATGGTCTTACATGTAAATCTCAAAT-CG-TGGCCTAT
1 GTCCCAGACATGGTCTTACACGTAAA--TCAGATACGAT-GCCTAT
40111127 GTCCCAGACATGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
40111149 ATATCTCAGA
Statistics
Matches: 87, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 32 0.37
43 21 0.24
44 29 0.33
45 5 0.06
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGCCTAT
Found at i:40114658 original size:40 final size:40
Alignment explanation
Indices: 40114591--40114767 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
40114581 ACCCAAGTAT
*
40114591 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
40114630 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
40114670 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
40114710 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
40114750 CTTCAGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
40114768 TTATCATCCG
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 103 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:40116579 original size:15 final size:15
Alignment explanation
Indices: 40116555--40116588 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
40116545 TAAAAAAAAC
40116555 AGAAAACCAAGATAG
1 AGAAAACCAAGATAG
* *
40116570 AGAAATCCAAGATGG
1 AGAAAACCAAGATAG
40116585 AGAA
1 AGAA
40116589 GCCCGGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.24, T:0.09
Consensus pattern (15 bp):
AGAAAACCAAGATAG
Found at i:40124055 original size:73 final size:74
Alignment explanation
Indices: 40123922--40124060 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 74
40123912 TGAATGAACT
* * * * *
40123922 TAATTACTTTAATATTAAATTAATATAATATTTATCAAGATAAAATAAATATTATATTAAT-TTA
1 TAATCACTTTAATAATAAATTAATAAAATATCTATCAAGATAAAATAAATATTAGATTAATATTA
40123986 ATATTAAGA
66 ATATTAAGA
* *
40123995 TAATCACTTTAATAATAAATTAATAAAATA-CTATCAAGATAAGTATTAA-ATTAGATTTAATAT
1 TAATCACTTTAATAATAAATTAATAAAATATCTATCAAGATAA-AATAAATATTAGA-TTAATAT
40124058 TAA
64 TAA
40124061 AACTATTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
72 16 0.29
73 36 0.64
74 4 0.07
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (74 bp):
TAATCACTTTAATAATAAATTAATAAAATATCTATCAAGATAAAATAAATATTAGATTAATATTA
ATATTAAGA
Found at i:40128711 original size:17 final size:16
Alignment explanation
Indices: 40128673--40128714 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
40128663 TTTGTACTAT
*
40128673 TACTGAAACTGAACCC
1 TACTGAAACTGAACCA
40128689 TAACTGAAACTGAACCAA
1 T-ACTGAAACTGAACC-A
40128707 TACTGAAA
1 TACTGAAA
40128715 TGGGCTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.19
Consensus pattern (16 bp):
TACTGAAACTGAACCA
Found at i:40134048 original size:20 final size:20
Alignment explanation
Indices: 40134023--40134067 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
40134013 AGGGACTAAA
* *
40134023 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
40134043 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
40134063 ATGAA
1 ATGAA
40134068 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:40137862 original size:37 final size:37
Alignment explanation
Indices: 40137812--40137884 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
40137802 TTATTGTTGC
40137812 ATGAATTGTATGTTTGATTATGTGAATGAGTATAACG
1 ATGAATTGTATGTTTGATTATGTGAATGAGTATAACG
40137849 ATGAATTGTATGTTTGATTATGTGAATGAGTATAAC
1 ATGAATTGTATGTTTGATTATGTGAATGAGTATAAC
40137885 TTTACGAACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (37 bp):
ATGAATTGTATGTTTGATTATGTGAATGAGTATAACG
Found at i:40140105 original size:40 final size:40
Alignment explanation
Indices: 40140050--40140273 Score: 247
Period size: 40 Copynumber: 5.5 Consensus size: 40
40140040 TATTCGGATG
*
40140050 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
40140090 ATATCCGGGCTAAGTCCCGAAGGCATTTGT-CTGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--A--AGTTACT
* ** * *
40140133 ATACCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
40140173 ATATTCGGGCTAAGTCCCGAAGGC-TTTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTT-GTGCAAGTTACT
* * *
40140213 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
40140253 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
40140274 ATACTTGGGT
Statistics
Matches: 158, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.10
40 104 0.66
41 4 0.03
43 33 0.21
44 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:40140193 original size:83 final size:80
Alignment explanation
Indices: 40140054--40140273 Score: 250
Period size: 83 Copynumber: 2.7 Consensus size: 80
40140044 CGGATGATAT
* * *
40140054 CCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATTCGGGCTAAGTCCCGAAGGC--TT-
*
40140119 TC-TGAGTAGTTG-CTATAC
63 TCATG-CTAG-TGACTATAC
** *
40140137 CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATTCGGGCTAAGTCCCGAAGGCTTTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATTCGGGCTAAGTCCCGAAGGCTTTCA
*
40140202 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * * *
40140217 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATA-TCCGGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATTCGGGCTAAGTCCCGAAG
40140274 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
79 18 0.15
80 42 0.35
81 6 0.05
83 54 0.45
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATTCGGGCTAAGTCCCGAAGGCTTTCA
TGCTAGTGACTATAC
Found at i:40148272 original size:47 final size:47
Alignment explanation
Indices: 40148218--40148411 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
40148208 TTAGGATTTT
** * *
40148218 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40148265 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
40148312 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
40148359 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40148406 ATGTGA
1 ATGTGA
40148412 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:40148318 original size:22 final size:22
Alignment explanation
Indices: 40148247--40148318 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
40148237 GTATATATGA
40148247 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
40148269 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
40148294 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
40148316 GAT
1 GAT
40148319 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:40148367 original size:25 final size:25
Alignment explanation
Indices: 40148292--40148367 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
40148282 ATGCATATAT
40148292 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
40148317 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
40148339 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
40148364 GTGA
1 GTGA
40148368 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:40148540 original size:98 final size:96
Alignment explanation
Indices: 40148382--40148565 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
40148372 GAACATGCAT
*
40148382 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
40148447 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
40148478 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
40148542 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
40148566 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:40148581 original size:50 final size:48
Alignment explanation
Indices: 40148381--40148565 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
40148371 TGAACATGCA
40148381 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
40148429 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
40148477 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
40148527 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
40148566 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:40148761 original size:37 final size:37
Alignment explanation
Indices: 40148711--40148782 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
40148701 GGAAATATAT
*
40148711 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTA
*
40148748 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
40148783 CGTCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTA
Found at i:40150111 original size:40 final size:40
Alignment explanation
Indices: 40150052--40150243 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
40150042 GAGAATTGAG
*
40150052 AGTGATATATCCAGG-CTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCC-GGACTAAGTCCCGAAGAGCATTCGTGCT
40150092 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
40150132 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * *
40150172 AGTGATGTATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * * * * **
40150212 GGTGTTATATTCGGGCTCGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA
40150244 ATCATGCTGG
Statistics
Matches: 139, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:40154325 original size:47 final size:47
Alignment explanation
Indices: 40154271--40154464 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
40154261 TTAGGATTTT
** * *
40154271 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40154318 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
40154365 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
40154412 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40154459 ATGTGA
1 ATGTGA
40154465 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:40154371 original size:22 final size:22
Alignment explanation
Indices: 40154300--40154371 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
40154290 GTATATATGA
40154300 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
40154322 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
40154347 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
40154369 GAT
1 GAT
40154372 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:40154420 original size:25 final size:25
Alignment explanation
Indices: 40154345--40154420 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
40154335 ATGCATATAT
40154345 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
40154370 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
40154392 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
40154417 GTGA
1 GTGA
40154421 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:40154510 original size:94 final size:95
Alignment explanation
Indices: 40154306--40154601 Score: 322
Period size: 94 Copynumber: 3.1 Consensus size: 95
40154296 ATGAGATAAG
* * * *
40154306 GCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
1 GCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
* * * *
40154371 TGA-ATG--TGAG-CATGCATATGTGTGATAAG
66 -AATATGTATGAGATATGTATATGTG-G-TAAA
*
40154400 GCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 GCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
40154465 AATATGTATGAGATATGTATATGTGGTAAA
66 AATATGTATGAGATATGTATATGTGGTAAA
* * *
40154495 GCCGAATGG-CTATGTGAAAT-ATGTATGAGATATGC--ATATGTGGTAAAGCCGAATGG-TCAA
1 GCCGAATGGCCAATGTG--ATGA-ATATGA-ACATGCATATATGTGGTAAAGCCGAATGGCT-AA
*
40154555 TGTGAAATATATATATGAGATATGTATATGTGGTAAA
61 TGTG-AA-ATATGTATGAGATATGTATATGTGGTAAA
40154592 GCCGAATGGC
1 GCCGAATGGC
40154602 TAGTGTGAAA
Statistics
Matches: 176, Mismatches: 14, Indels: 20
0.84 0.07 0.10
Matches are distributed among these distances:
93 1 0.01
94 70 0.40
95 40 0.23
96 13 0.07
97 52 0.30
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (95 bp):
GCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
AATATGTATGAGATATGTATATGTGGTAAA
Found at i:40154596 original size:97 final size:96
Alignment explanation
Indices: 40154435--40154617 Score: 316
Period size: 97 Copynumber: 1.9 Consensus size: 96
40154425 GAACATGCAT
*
40154435 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
40154500 ATGGCTA-TGTGAAATATGTATGAGATATGC
66 ATGGCTAGTGTGAAATATGTATGAGATATGC
40154530 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
40154594 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAGTGTGAAATATGTA
40154618 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
94 1 0.01
95 27 0.33
96 2 0.02
97 40 0.48
98 13 0.16
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAGTGTGAAATATGTATGAGATATGC
Found at i:40154633 original size:50 final size:48
Alignment explanation
Indices: 40154434--40154617 Score: 300
Period size: 47 Copynumber: 3.8 Consensus size: 48
40154424 TGAACATGCA
40154434 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
40154482 TATATGTGGTAAAGCCGAATGGCT-ATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
40154529 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
40154579 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
40154618 GGCGATGTGC
Statistics
Matches: 126, Mismatches: 5, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
46 1 0.01
47 44 0.35
48 35 0.28
49 4 0.03
50 41 0.33
51 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:40154813 original size:37 final size:37
Alignment explanation
Indices: 40154763--40154834 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
40154753 GGAAATATAT
* *
40154763 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTTTG
*
40154800 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTT
40154835 CGTCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACATGTGGAGATTTTG
Found at i:40162737 original size:10 final size:10
Alignment explanation
Indices: 40162719--40162754 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
40162709 ATACCAGTGA
40162719 TTCTGTATTG
1 TTCTGTATTG
*
40162729 TTTTGTATTG
1 TTCTGTATTG
*
40162739 TTCTGTAATG
1 TTCTGTATTG
40162749 TTCTGT
1 TTCTGT
40162755 CTGACCGGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.11, C:0.08, G:0.19, T:0.61
Consensus pattern (10 bp):
TTCTGTATTG
Found at i:40165319 original size:19 final size:19
Alignment explanation
Indices: 40165295--40165333 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
40165285 GTTCATACAC
40165295 ATAGAATCAAATACCACAT
1 ATAGAATCAAATACCACAT
**
40165314 ATAGAATCATCTACCACAT
1 ATAGAATCAAATACCACAT
40165333 A
1 A
40165334 GGTATCGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (19 bp):
ATAGAATCAAATACCACAT
Found at i:40167280 original size:21 final size:21
Alignment explanation
Indices: 40167256--40167295 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
40167246 CTACATACGA
* *
40167256 TTTCTAACGATCTGCAACTGT
1 TTTCAAACGATCTCCAACTGT
*
40167277 TTTCAAACTATCTCCAACT
1 TTTCAAACGATCTCCAACT
40167296 ACTTTCACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTCAAACGATCTCCAACTGT
Found at i:40172978 original size:40 final size:40
Alignment explanation
Indices: 40172923--40173019 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
40172913 TATCTCAGTA
*
40172923 TCACACACTTCGTGCC-TCATGTAGCCGAAGCTATTCCAAC
1 TCACACACTTAGTGCCAT-ATGTAGCCGAAGCTATTCCAAC
* * *
40172963 TCACACAATTAGTGCCATTTGTAGCCGAAGTTATTCCAAC
1 TCACACACTTAGTGCCATATGTAGCCGAAGCTATTCCAAC
* *
40173003 TCGCACACTTACTGCCA
1 TCACACACTTAGTGCCA
40173020 AACTTAATCA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
40 48 0.98
41 1 0.02
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (40 bp):
TCACACACTTAGTGCCATATGTAGCCGAAGCTATTCCAAC
Found at i:40178116 original size:43 final size:43
Alignment explanation
Indices: 40178055--40178381 Score: 591
Period size: 43 Copynumber: 7.6 Consensus size: 43
40178045 CCGGCATTAC
*
40178055 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
40178098 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
40178141 GCCTACTAGGAACAAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
40178184 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
40178227 GCCTGCTATGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
40178270 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
40178313 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
40178356 GCCTGCTAGGCACGAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
40178382 TAATACCAGC
Statistics
Matches: 272, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 272 1.00
ACGTcount: A:0.31, C:0.34, G:0.25, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:40178430 original size:38 final size:38
Alignment explanation
Indices: 40178379--40178497 Score: 157
Period size: 38 Copynumber: 3.1 Consensus size: 38
40178369 GAAGGCCCAA
* * * * *
40178379 ATATAATACCAGCACTAGGCCTACGGGATTTATCCCTG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
40178417 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
**
40178455 ATATTTTACCAGCACGAAGCCTGCGGGTATTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
40178495 ATA
1 ATA
40178498 CACATCAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 58 0.81
39 6 0.08
40 8 0.11
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:40184502 original size:40 final size:40
Alignment explanation
Indices: 40184450--40184543 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
40184440 CTCAGTATCA
40184450 CACACTTAGTGCC-TCATGTAGCCGAAGCTATTCCAACTCG
1 CACACTTAGTGCCAT-ATGTAGCCGAAGCTATTCCAACTCG
* * *
40184490 CACAATTAGTGCCATTTGTAGCCGAAGTTATTCCAACTCG
1 CACACTTAGTGCCATATGTAGCCGAAGCTATTCCAACTCG
*
40184530 CACACTTACTGCCA
1 CACACTTAGTGCCA
40184544 AACTTTATCA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 47 0.98
41 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (40 bp):
CACACTTAGTGCCATATGTAGCCGAAGCTATTCCAACTCG
Found at i:40191861 original size:40 final size:40
Alignment explanation
Indices: 40191817--40191894 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
40191807 TAGTGCCTCA
* * *
40191817 TGTAGCCGAAGCTATTCCAACTCGCACAATTAGTGCCATT
1 TGTAGCCAAAGCTATTCCAACTCACACAATTACTGCCATT
* *
40191857 TGTAGCCAAAGTTATTCCAACTCACACACTTACTGCCA
1 TGTAGCCAAAGCTATTCCAACTCACACAATTACTGCCA
40191895 AACTTAATCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (40 bp):
TGTAGCCAAAGCTATTCCAACTCACACAATTACTGCCATT
Found at i:40196629 original size:43 final size:43
Alignment explanation
Indices: 40196581--40196685 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
40196571 CCCAAATATA
* * * *
40196581 GTCTTACATGTTATCACATATCGATGCCACTGTCCAAGACAGG
1 GTCTTACACGTAATCACATAACGATGCCAATGTCCAAGACAGG
* * * * * *
40196624 GTCTTATACGAAATCATATAACGATGCTAATGTCCCAGACATG
1 GTCTTACACGTAATCACATAACGATGCCAATGTCCAAGACAGG
40196667 GTCTTACACGTAATCACAT
1 GTCTTACACGTAATCACAT
40196686 CTCAGTAAAC
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
GTCTTACACGTAATCACATAACGATGCCAATGTCCAAGACAGG
Found at i:40198684 original size:18 final size:19
Alignment explanation
Indices: 40198652--40198687 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
40198642 TGCGTTCTTG
40198652 TGTTTACTTTGTAAAACAT
1 TGTTTACTTTGTAAAACAT
*
40198671 TGTTT-CTTTTTAAAACA
1 TGTTTACTTTGTAAAACA
40198688 CGAGTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (19 bp):
TGTTTACTTTGTAAAACAT
Found at i:40201765 original size:21 final size:21
Alignment explanation
Indices: 40201697--40201765 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
40201687 AACTCATTGA
40201697 GTTGTGGTCTGAGTTCATGAT
1 GTTGTGGTCTGAGTTCATGAT
* * *
40201718 ATATGTGACATCTGAGCTCATTG-T
1 GT-TGTG--GTCTGAGTTCA-TGAT
*
40201742 GTTGTGGTTTGAGTTCATGAT
1 GTTGTGGTCTGAGTTCATGAT
40201763 GTT
1 GTT
40201766 TGTTGCACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
20 2 0.06
21 13 0.36
22 4 0.11
23 4 0.11
24 11 0.31
25 2 0.06
ACGTcount: A:0.17, C:0.10, G:0.29, T:0.43
Consensus pattern (21 bp):
GTTGTGGTCTGAGTTCATGAT
Found at i:40204011 original size:47 final size:47
Alignment explanation
Indices: 40203942--40204075 Score: 174
Period size: 47 Copynumber: 3.0 Consensus size: 47
40203932 TAAAATTTGA
40203942 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
1 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* *
40203989 AGGCATTTGTGCGAGTTACTATATCTGGGCTAGGTCCC----G-A--
1 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* * *
40204029 AGGCATTTGTGCGAGTTACTATAACCGAGCTAAGTCCTGAAGGCATT
1 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
40204076 TGAGCGAGTA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
40 33 0.45
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
47 36 0.49
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (47 bp):
AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
Found at i:40204044 original size:40 final size:39
Alignment explanation
Indices: 40203989--40204110 Score: 147
Period size: 40 Copynumber: 3.1 Consensus size: 39
40203979 CGAAGGCATT
*
40203989 AGGCATTTGTGCGAGTTACTATATCTGGGCTAGGTCCCGA
1 AGGCATTTGTGCGAGTTACTATATC-GGGCTAAGTCCCGA
* * *
40204029 AGGCATTTGTGCGAGTTACTATAACCGAGCTAAGTCCTGA
1 AGGCATTTGTGCGAGTTACTAT-ATCGGGCTAAGTCCCGA
* * *
40204069 AGGCATTTGAGCGAG-TAGCTATATCCGGCTAAATCCCGA
1 AGGCATTTGTGCGAGTTA-CTATATCGGGCTAAGTCCCGA
40204108 AGG
1 AGG
40204111 TACTTGGTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
39 17 0.24
40 51 0.73
41 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
AGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGA
Found at i:40212021 original size:40 final size:40
Alignment explanation
Indices: 40211966--40212192 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
40211956 CGGATGATAA
* *
40211966 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
40212006 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
40212046 CCGGGCTAAGTCCCGAAGGCATTAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCC----G-A--AGGCATTTGTGCGAGTTACTATAT
* *
40212093 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
40212133 CCGGGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
40212173 CC-GGCTAAATCCCGAAGGCA
1 CCGGGCTAAGTCCCGAAGGCA
40212193 CTTGGTTAGG
Statistics
Matches: 168, Mismatches: 10, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
39 18 0.11
40 108 0.64
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
47 37 0.22
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:40212091 original size:47 final size:47
Alignment explanation
Indices: 40212022--40212155 Score: 192
Period size: 47 Copynumber: 3.0 Consensus size: 47
40212012 TAAGTCCCGA
40212022 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
1 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
*
40212069 AGGCATTTGTGCGAGTTACTATATCCGGGCTAGGTCCC----G-A--
1 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* *
40212109 AGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCTGAAGGCATT
1 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
40212156 TGAGCGAGTA
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
40 35 0.46
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
47 37 0.49
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
Found at i:40212098 original size:87 final size:87
Alignment explanation
Indices: 40211982--40212155 Score: 287
Period size: 87 Copynumber: 2.0 Consensus size: 87
40211972 TAAGTCCCGA
* *
40211982 AGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 AGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
40212047 CGGGCTAAGTCCCGAAGGCATT
66 CGGGCTAAGTCCCGAAGGCATT
* *
40212069 AGGCATTTGTGCGAGTTACT-ATATCCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 AGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40212133 CCGGGCTAAGTCCTGAAGGCATT
65 CCGGGCTAAGTCCCGAAGGCATT
40212156 TGAGCGAGTA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
86 2 0.02
87 79 0.98
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (87 bp):
AGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
CGGGCTAAGTCCCGAAGGCATT
Found at i:40217502 original size:125 final size:125
Alignment explanation
Indices: 40217280--40217526 Score: 413
Period size: 125 Copynumber: 2.0 Consensus size: 125
40217270 TGTTACGCCA
*
40217280 ATATAGATCAGATCCTTCACATGTGATTTCACCGACAGAAGTTAAGATTCAACCAGATATGACTT
1 ATATACATCAGATCCTTCACATGTGATTTCACCGACAGAAGTTAAGATTCAACCAGATATGACTT
*
40217345 ATGGTGAGGAACAGGTTAAGATTTTGGCACGAGAAGTTAAACAATTGAGAAACAAAACCG
66 ATGGTGAGGAACAAGTTAAGATTTTGGCACGAGAAGTTAAACAATTGAGAAACAAAACCG
** * * * *
40217405 ATATACATCAGATCCTTCACATGTGATTTCATTGACAGCAGTTGAGATTCGACCGGATATGACTT
1 ATATACATCAGATCCTTCACATGTGATTTCACCGACAGAAGTTAAGATTCAACCAGATATGACTT
*
40217470 ATGGTGAGGAGCAAGTTAAGATTTTGGCACGAGAAGTTAAACAATTGAGAAACAAAA
66 ATGGTGAGGAACAAGTTAAGATTTTGGCACGAGAAGTTAAACAATTGAGAAACAAAA
40217527 GCATTGCCTT
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 113 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (125 bp):
ATATACATCAGATCCTTCACATGTGATTTCACCGACAGAAGTTAAGATTCAACCAGATATGACTT
ATGGTGAGGAACAAGTTAAGATTTTGGCACGAGAAGTTAAACAATTGAGAAACAAAACCG
Found at i:40221370 original size:37 final size:37
Alignment explanation
Indices: 40221311--40221419 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
40221301 AGCTCAGACG
* *
40221311 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
*
40221348 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
*
40221385 TAATCTCCACACGTAGTCATCGGGTCTTACCTGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGA
40221420 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
Found at i:40221623 original size:50 final size:50
Alignment explanation
Indices: 40221568--40221748 Score: 271
Period size: 50 Copynumber: 3.7 Consensus size: 50
40221558 CATCGCCTAC
40221568 ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATACATATCTCATATAT
* * * *
40221618 ATATTTCACATTGACCATTCGGTTTTACCACATATGCATATCTC--ATAC
1 ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
40221666 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATACATATCTCATATAT
*
40221716 ATATTTCACATTGACCATTCGGCTTTACCACAT
1 ATATTTCACATAGACCATTCGGCTTTACCACAT
40221749 GTATGCATGT
Statistics
Matches: 117, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
48 41 0.35
49 6 0.05
50 70 0.60
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.37
Consensus pattern (50 bp):
ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:40221681 original size:98 final size:98
Alignment explanation
Indices: 40221565--40221748 Score: 350
Period size: 98 Copynumber: 1.9 Consensus size: 98
40221555 GCACATCGCC
40221565 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
40221630 GACCATTCGGTTTTACCACATATGCATATCTCA
66 GACCATTCGGCTTTACCACATATGCATATCTCA
*
40221663 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
40221728 GACCATTCGGCTTTACCACAT
66 GACCATTCGGCTTTACCACAT
40221749 GTATGCATGT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 84 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:40221801 original size:47 final size:47
Alignment explanation
Indices: 40221721--40221914 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
40221711 TATATATATT
* * * * *
40221721 TCACATTGACCATTCGGCTTTACCACATGTATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
40221768 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
40221815 TCACACTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
40221862 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
40221909 TCACAT
1 TCACAT
40221915 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:40230675 original size:50 final size:50
Alignment explanation
Indices: 40230495--40230732 Score: 266
Period size: 49 Copynumber: 4.8 Consensus size: 50
40230485 TAACCAAAGC
* * * **
40230495 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAAT
*
40230544 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAT
1 TATCTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAAT
* * *
40230593 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAAT
* * * * *
40230643 CATTTGATACACGTAGTAGCCTGCACATAGTACTACACATGTGATCAC-AGT
1 TATCTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-C-CTAAT
* * * * *
40230694 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACATAGTACTACACA
40230733 TGCGACCTCA
Statistics
Matches: 161, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.01
49 84 0.52
50 42 0.26
51 33 0.20
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAAT
Found at i:40230740 original size:101 final size:99
Alignment explanation
Indices: 40230495--40230740 Score: 316
Period size: 99 Copynumber: 2.5 Consensus size: 99
40230485 TAACCAAAGC
* * * ** *
40230495 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACC-AATTATCTGGTACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACGTA
*
40230559 GTAGCCTGCACTTAGTACTACACACGTGACTAAT
66 GTAGCCTGCACATAGTACTACACACGTGACTAAT
* * * * *
40230593 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACGTA
*
40230658 GTAGCCTGCACATAGTACTACACATGTGA-TCACAGT
66 GTAGCCTGCACATAGTACTACACACGTGACT-A-A-T
* *
40230694 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
40230741 CACAATAGAT
Statistics
Matches: 125, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
98 40 0.32
99 42 0.34
100 1 0.01
101 42 0.34
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACGTA
GTAGCCTGCACATAGTACTACACACGTGACTAAT
Found at i:40232439 original size:15 final size:15
Alignment explanation
Indices: 40232391--40232456 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
40232381 TAAAGATAAC
*
40232391 AAGAAA-ACCGAATA
1 AAGAAACACAGAATA
40232405 AAGAAATC-CA-AGATA
1 AAGAAA-CACAGA-ATA
*
40232420 GAGAAACACAGAATA
1 AAGAAACACAGAATA
* *
40232435 AAGAAACCCAGAGTA
1 AAGAAACACAGAATA
40232450 AAGAAAC
1 AAGAAAC
40232457 CCAAGATACG
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 8 0.19
15 33 0.79
16 1 0.02
ACGTcount: A:0.61, C:0.15, G:0.17, T:0.08
Consensus pattern (15 bp):
AAGAAACACAGAATA
Found at i:40232455 original size:30 final size:30
Alignment explanation
Indices: 40232391--40232456 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
40232381 TAAAGATAAC
* *
40232391 AAGAAA-ACCGAATAAAGAAATCCAAGATA
1 AAGAAACACAGAATAAAGAAACCCAAGATA
*
40232420 GAGAAACACAGAATAAAGAAACCC-AGAGTA
1 AAGAAACACAGAATAAAGAAACCCAAGA-TA
40232450 AAGAAAC
1 AAGAAAC
40232457 CCAAGATACG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.61, C:0.15, G:0.17, T:0.08
Consensus pattern (30 bp):
AAGAAACACAGAATAAAGAAACCCAAGATA
Found at i:40232457 original size:15 final size:15
Alignment explanation
Indices: 40232403--40232459 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
40232393 GAAAACCGAA
*
40232403 TAAAGAAATCCA-AG
1 TAAAGAAACCCAGAG
* * *
40232417 ATAGAGAAACACAGAA
1 -TAAAGAAACCCAGAG
40232433 TAAAGAAACCCAGAG
1 TAAAGAAACCCAGAG
40232448 TAAAGAAACCCA
1 TAAAGAAACCCA
40232460 AGATACGATA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 33 0.97
16 1 0.03
ACGTcount: A:0.58, C:0.18, G:0.16, T:0.09
Consensus pattern (15 bp):
TAAAGAAACCCAGAG
Found at i:40235627 original size:50 final size:49
Alignment explanation
Indices: 40235412--40235684 Score: 359
Period size: 49 Copynumber: 5.5 Consensus size: 49
40235402 CTGGTATGCA
* * * *
40235412 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACAC-
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
40235460 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
40235509 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** ** *
40235558 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * * *
40235608 TAGTAGCCTGCACTTAGTACGACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
40235659 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
40235685 TGCGACCTCA
Statistics
Matches: 199, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
48 43 0.22
49 80 0.40
50 42 0.21
51 33 0.17
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:40235634 original size:99 final size:98
Alignment explanation
Indices: 40235412--40235684 Score: 363
Period size: 97 Copynumber: 2.8 Consensus size: 98
40235402 CTGGTATGCA
* * * *
40235412 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTA-TCTGGTACACTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTCGGGTACACTAGTAGCCTGCACTTA
** *
40235476 GTACTACACACGTGACAAATTATCCGGTACACG
66 GTACTACACACGTGACAAACCATCCGATACACG
40235509 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTC-GGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTCGGGTACAC-TAGTAGCCTGCACTT
* **
40235573 AGTACTACACACGTGACCTAACCATTTGATACACG
65 AGTACTACACACGTGA-CAAACCATCCGATACACG
* * *
40235608 TAGTAGCCTGCACTTAGTACGACACACGTGATCACAGTT-TTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATTCGGGTACAC-TAGTAGCCTGCAC
40235672 TTAGTACTACACA
63 TTAGTACTACACA
40235685 TGCGACCTCA
Statistics
Matches: 157, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
97 42 0.27
98 33 0.21
99 42 0.27
100 4 0.03
101 36 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTCGGGTACACTAGTAGCCTGCACTTA
GTACTACACACGTGACAAACCATCCGATACACG
Found at i:40235692 original size:101 final size:97
Alignment explanation
Indices: 40235412--40235684 Score: 359
Period size: 99 Copynumber: 2.8 Consensus size: 97
40235402 CTGGTATGCA
* * * *
40235412 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACTAGTAGCCTGCACTTAG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTTTC-GGTACACTAGTAGCCTGCACTTAG
* ** *
40235477 TACTACACACGTGA-CAAATTATCCGGTACACG
65 TACTACACACGTGACCTAACCATCCGATACACG
40235509 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATT-TTCGGTACAC-TAGTAGCCTGCACTTA
**
40235574 GTACTACACACGTGACCTAACCATTTGATACACG
64 GTACTACACACGTGACCTAACCATCCGATACACG
* * *
40235608 TAGTAGCCTGCACTTAGTACGACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTTTC-GGTACAC-TAGTAGCCTGCACT
40235673 TAGTACTACACA
62 TAGTACTACACA
40235685 TGCGACCTCA
Statistics
Matches: 156, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
97 41 0.26
98 33 0.21
99 42 0.27
100 4 0.03
101 36 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (97 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTTTCGGTACACTAGTAGCCTGCACTTAGT
ACTACACACGTGACCTAACCATCCGATACACG
Found at i:40243544 original size:23 final size:23
Alignment explanation
Indices: 40243495--40243555 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
40243485 TCCCATGTAT
* * *
40243495 CCTTGATTTCCTCCTAGTGGTTT
1 CCTTGATTTCCTCTTAGTAGTTC
*
40243518 CCTTGATTTCCTCTTGGTAGTTC
1 CCTTGATTTCCTCTTAGTAGTTC
* *
40243541 CCTTGGTTGCCTCTT
1 CCTTGATTTCCTCTT
40243556 CTCCCAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.07, C:0.28, G:0.18, T:0.48
Consensus pattern (23 bp):
CCTTGATTTCCTCTTAGTAGTTC
Found at i:40245117 original size:29 final size:29
Alignment explanation
Indices: 40245074--40245269 Score: 218
Period size: 29 Copynumber: 6.8 Consensus size: 29
40245064 AATGTGCTAA
* *
40245074 CGATGGTCGTAACCATCCCTTTTCGTATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
40245103 CGATGGTTGTCACCATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
** * * *
40245132 TAATTGTTGTCACCATCCTTTTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
* *
40245162 -GATGGCCGTCACCATCCCTTTTCATAGT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* *
40245190 CGATAGTCGAT-ACTATCCCTTTTCATATT
1 CGATGGTCG-TCACCATCCCTTTTCATATT
* *
40245219 CGATGGTCATCACCATCCCTTTTCGTAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
40245249 -GATGGTCGTCACCATCCCTTT
1 CGATGGTCGTCACCATCCCTTT
40245270 CCGTAGCCTG
Statistics
Matches: 140, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
28 2 0.01
29 133 0.95
30 5 0.04
ACGTcount: A:0.18, C:0.28, G:0.15, T:0.39
Consensus pattern (29 bp):
CGATGGTCGTCACCATCCCTTTTCATATT
Found at i:40245232 original size:87 final size:87
Alignment explanation
Indices: 40245075--40245313 Score: 293
Period size: 87 Copynumber: 2.7 Consensus size: 87
40245065 ATGTGCTAAC
* * * * ** *
40245075 GATGGTCGTAACCATCCCTTTTCGTATTCGATGGTTG-TCACCATCCCTTTTCATATTTAATTGT
1 GATGGTCGTCACCATCCCTTTTCGTAGTCGATAGTTGAT-ACTATCCCTTTTCATATTCGATGGT
** *
40245139 TGTCACCATCCTTTTTCATAGTT
65 CATCACCATCCCTTTTCATAGTT
* * *
40245162 GATGGCCGTCACCATCCCTTTTCATAGTCGATAGTCGATACTATCCCTTTTCATATTCGATGGTC
1 GATGGTCGTCACCATCCCTTTTCGTAGTCGATAGTTGATACTATCCCTTTTCATATTCGATGGTC
*
40245227 ATCACCATCCCTTTTCGTAGTT
66 ATCACCATCCCTTTTCATAGTT
* * *
40245249 GATGGTCGTCACCATCCCTTTCCGTAGCCTG-TAGTTGAAACTATCCCTTTTCATATTCGATGGT
1 GATGGTCGTCACCATCCCTTTTCGTAGTC-GATAGTTGATACTATCCCTTTTCATATTCGATGGT
40245313 C
65 C
40245314 GTCTGTAACA
Statistics
Matches: 130, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
87 128 0.98
88 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (87 bp):
GATGGTCGTCACCATCCCTTTTCGTAGTCGATAGTTGATACTATCCCTTTTCATATTCGATGGTC
ATCACCATCCCTTTTCATAGTT
Found at i:40246119 original size:37 final size:37
Alignment explanation
Indices: 40246069--40246147 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
40246059 TTATTACGAA
* * *
40246069 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
40246106 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
40246143 GTCTT
1 GTCTT
40246148 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:40246445 original size:49 final size:49
Alignment explanation
Indices: 40246266--40246726 Score: 677
Period size: 49 Copynumber: 9.6 Consensus size: 49
40246256 CCCTTCGGGA
* * * * ** *
40246266 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGACCGCTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
40246313 CCTGTCAC--ATATATACACTTTAACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40246360 CTTATCAC--ATATATCCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40246407 CTTATCACATATGTATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40246456 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40246503 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40246552 CTTATCACGTATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40246601 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40246650 CTTATCACATGTATATACACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40246699 CTTATCACATGTATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
40246727 ATGGGTTTAA
Statistics
Matches: 379, Mismatches: 29, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 129 0.34
49 249 0.66
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.