Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 129 of 311
Found at i:43524728 original size:17 final size:16
Alignment explanation
Indices: 43524708--43524775 Score: 57
Period size: 17 Copynumber: 4.0 Consensus size: 16
43524698 CATTACAAAA
43524708 TTCATTTCATTTGCATT
1 TTCATTTCATTT-CATT
* *
43524725 TTCATTACAAATTACA-T
1 TTCATTTC--ATTTCATT
43524742 TTCATTTCATATTCATT
1 TTCATTTCAT-TTCATT
*
43524759 TAACATTTCATTTCATT
1 T-TCATTTCATTTCATT
43524776 ATTTTTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
15 2 0.05
16 3 0.07
17 23 0.56
18 10 0.24
19 3 0.07
ACGTcount: A:0.28, C:0.18, G:0.01, T:0.53
Consensus pattern (16 bp):
TTCATTTCATTTCATT
Found at i:43524732 original size:29 final size:28
Alignment explanation
Indices: 43524684--43524775 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 28
43524674 TAAACTGTCG
* *
43524684 TTTCATTCCATAATCATTACAAAATTCA
1 TTTCATTTCATATTCATTACAAAATTCA
*
43524712 TTTCATTTGCATTTTCATTAC-AAATTACA
1 TTTCATTT-CATATTCATTACAAAATT-CA
* *
43524741 TTTCATTTCATATTCATTTA-ACATTTCA
1 TTTCATTTCATATTCA-TTACAAAATTCA
43524769 TTTCATT
1 TTTCATT
43524776 ATTTTTTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
28 28 0.52
29 26 0.48
ACGTcount: A:0.32, C:0.18, G:0.01, T:0.49
Consensus pattern (28 bp):
TTTCATTTCATATTCATTACAAAATTCA
Found at i:43524758 original size:11 final size:10
Alignment explanation
Indices: 43524708--43524775 Score: 55
Period size: 12 Copynumber: 6.1 Consensus size: 10
43524698 CATTACAAAA
43524708 TTCATTTCAT
1 TTCATTTCAT
43524718 TTGCATTTTCAT
1 TT-CA-TTTCAT
* *
43524730 TACAAATTACAT
1 TTC--ATTTCAT
43524742 TTCATTTCAT
1 TTCATTTCAT
43524752 ATTCATTTAACAT
1 -TTCATTT--CAT
43524765 TTCATTTCAT
1 TTCATTTCAT
43524775 T
1 T
43524776 ATTTTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
10 12 0.26
11 10 0.21
12 21 0.45
13 4 0.09
ACGTcount: A:0.28, C:0.18, G:0.01, T:0.53
Consensus pattern (10 bp):
TTCATTTCAT
Found at i:43524913 original size:57 final size:55
Alignment explanation
Indices: 43524826--43524942 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 55
43524816 TTTTTTTTCA
* * **
43524826 TATTAATCACAAGTAGTCTCATTTCAATTTTTTTTTCATTTCATTTCATATTTTTAT
1 TATTAATCACAAGTAGTCTCATTACAATTTTATTTAAATTT-ATTTCATA-TTTTAT
* *
43524883 TATTAATTACAAGTAGTCTCAATTAC-ATTTTATTTAAATTTTTTTCATATTTTAT
1 TATTAATCACAAGTAGTCTC-ATTACAATTTTATTTAAATTTATTTCATATTTTAT
43524938 T-TTAA
1 TATTAA
43524943 ATTTTTCTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
54 4 0.08
55 7 0.13
56 7 0.13
57 31 0.58
58 4 0.08
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.56
Consensus pattern (55 bp):
TATTAATCACAAGTAGTCTCATTACAATTTTATTTAAATTTATTTCATATTTTAT
Found at i:43524937 original size:22 final size:22
Alignment explanation
Indices: 43524909--43524956 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
43524899 TCTCAATTAC
*
43524909 ATTTTA-TTTAAATTTTTTTCA
1 ATTTTATTTTAAATTTTTCTCA
43524930 TATTTTATTTTAAATTTTTCTCA
1 -ATTTTATTTTAAATTTTTCTCA
43524953 ATTT
1 ATTT
43524957 AAATATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTATTTTAAATTTTTCTCA
Found at i:43525190 original size:7 final size:6
Alignment explanation
Indices: 43525168--43525242 Score: 52
Period size: 5 Copynumber: 12.5 Consensus size: 6
43525158 ATTTTTCTTC
* *
43525168 TTTC-A TTTCAA TTTCAA TATTCAA TTTTC-A TTTCTAA ATTC-A TTTCAT
1 TTTCAA TTTCAA TTTCAA T-TTCAA -TTTCAA TTTC-AA TTTCAA TTTCAA
43525216 TTTC-A TTTCTAA TTTC-A TTTCATA TTT
1 TTTCAA TTTC-AA TTTCAA TTTCA-A TTT
43525243 TATTTAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
5 21 0.38
6 13 0.23
7 21 0.38
8 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (6 bp):
TTTCAA
Found at i:43525211 original size:12 final size:12
Alignment explanation
Indices: 43525168--43525236 Score: 72
Period size: 12 Copynumber: 5.8 Consensus size: 12
43525158 ATTTTTCTTC
43525168 TTTCATTTC-AA
1 TTTCATTTCTAA
43525179 TTTCAATATTC-AA
1 TTTC-AT-TTCTAA
43525192 TTTTCATTTCTAA
1 -TTTCATTTCTAA
* *
43525205 ATTCATTTC-AT
1 TTTCATTTCTAA
43525216 TTTCATTTCTAA
1 TTTCATTTCTAA
43525228 TTTCATTTC
1 TTTCATTTC
43525237 ATATTTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
11 13 0.27
12 23 0.47
13 9 0.18
14 4 0.08
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTCATTTCTAA
Found at i:43525221 original size:23 final size:23
Alignment explanation
Indices: 43525168--43525247 Score: 99
Period size: 23 Copynumber: 3.3 Consensus size: 23
43525158 ATTTTTCTTC
43525168 TTTCATTTC-AATTTCAATATTCAAT
1 TTTCATTTCTAATTTC-AT-TTC-AT
*
43525193 TTTCATTTCTAAATTCATTTCAT
1 TTTCATTTCTAATTTCATTTCAT
43525216 TTTCATTTCTAATTTCATTTCAT
1 TTTCATTTCTAATTTCATTTCAT
*
43525239 ATTTTATTT
1 -TTTCATTT
43525248 AATTAAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.48
24 10 0.20
25 11 0.22
26 5 0.10
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTCATTTCTAATTTCATTTCAT
Found at i:43525242 original size:12 final size:12
Alignment explanation
Indices: 43525168--43525247 Score: 62
Period size: 12 Copynumber: 6.7 Consensus size: 12
43525158 ATTTTTCTTC
43525168 TTTCATTTCA-A
1 TTTCATTTCATA
43525179 TTTCAATATTCA-A
1 TTTC-AT-TTCATA
43525192 TTTTCATTTC-TAA
1 -TTTCATTTCAT-A
*
43525205 ATTCATTTCAT-
1 TTTCATTTCATA
43525216 TTTCATTTC-TAA
1 TTTCATTTCAT-A
43525228 TTTCATTTCATA
1 TTTCATTTCATA
*
43525240 TTTTATTT
1 TTTCATTT
43525248 AATTAAATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
10 1 0.02
11 12 0.21
12 30 0.53
13 10 0.18
14 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTCATTTCATA
Found at i:43525288 original size:21 final size:22
Alignment explanation
Indices: 43525250--43525294 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
43525240 TTTTATTTAA
* * *
43525250 TTAAATTTGTTT-TTTTTTCAT
1 TTAAATTTATTTCATTTTCCAT
43525271 TTAAATTTATTTCATTTTCCAT
1 TTAAATTTATTTCATTTTCCAT
43525293 TT
1 TT
43525295 TATTTTAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (22 bp):
TTAAATTTATTTCATTTTCCAT
Found at i:43525288 original size:23 final size:23
Alignment explanation
Indices: 43525192--43525288 Score: 58
Period size: 21 Copynumber: 4.1 Consensus size: 23
43525182 CAATATTCAA
*
43525192 TTTTCATTTCTAAATTCATTTCA--
1 TTTTCA-TT-TAAATTTATTTCATT
*
43525215 TTTTCATTTCTAATTTCATTTCATATT
1 TTTTCATTT-AAATTT-ATTTC--ATT
* * *
43525242 TTATTTAATTAAATTTGTTT--TT
1 TT-TTCATTTAAATTTATTTCATT
43525264 TTTTCATTTAAATTTATTTCATT
1 TTTTCATTTAAATTTATTTCATT
43525287 TT
1 TT
43525289 CCATTTTATT
Statistics
Matches: 56, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
21 15 0.27
22 10 0.18
23 15 0.27
25 1 0.02
26 3 0.05
27 7 0.12
28 5 0.09
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.64
Consensus pattern (23 bp):
TTTTCATTTAAATTTATTTCATT
Found at i:43525296 original size:23 final size:22
Alignment explanation
Indices: 43525191--43525296 Score: 81
Period size: 23 Copynumber: 4.5 Consensus size: 22
43525181 TCAATATTCA
*
43525191 ATTTTCATTTCTAAATTCATTTC
1 ATTTTCATTT-TAAATTTATTTC
43525214 ATTTTCATTTCT-AATTTCATTTC
1 ATTTTCATTT-TAAATTT-ATTTC
* * *
43525237 ATATTTTATTTAATTAAATTTGTTTT
1 AT-TTTCA-TT--TTAAATTTATTTC
*
43525263 TTTTTCA-TTTAAATTTATTTC
1 ATTTTCATTTTAAATTTATTTC
43525284 ATTTTCCATTTTA
1 ATTTT-CATTTTA
43525297 TTTTAAGTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
21 15 0.23
22 6 0.09
23 24 0.36
24 4 0.06
25 6 0.09
26 5 0.08
27 6 0.09
ACGTcount: A:0.25, C:0.11, G:0.01, T:0.62
Consensus pattern (22 bp):
ATTTTCATTTTAAATTTATTTC
Found at i:43525353 original size:15 final size:15
Alignment explanation
Indices: 43525216--43525354 Score: 65
Period size: 15 Copynumber: 9.1 Consensus size: 15
43525206 TTCATTTCAT
43525216 TTTCATTTCTAATTTCA
1 TTTCATTT-TAATTT-A
*
43525233 TTTCATATTTTATTTAA
1 TTTCAT-TTTAATTT-A
** * *
43525250 TTAAATTTGT-TTTTT
1 TTTCATTT-TAATTTA
*
43525265 TTTCATTTAAATTTA
1 TTTCATTTTAATTTA
*
43525280 TTTCATTTTCCA--T-
1 TTTCATTTT-AATTTA
43525293 TTT-ATTTTAAGTTT-
1 TTTCATTTTAA-TTTA
* *
43525307 TTTCATATTAATTTT
1 TTTCATTTTAATTTA
*
43525322 TGTCTCATTGTAATTTA
1 T-T-TCATTTTAATTTA
43525339 TTTCATTTTAATTTA
1 TTTCATTTTAATTTA
43525354 T
1 T
43525355 ACTTTATTTT
Statistics
Matches: 92, Mismatches: 19, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
11 1 0.01
12 5 0.05
13 3 0.03
14 8 0.09
15 37 0.40
16 8 0.09
17 28 0.30
18 2 0.02
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTCATTTTAATTTA
Found at i:43525407 original size:29 final size:30
Alignment explanation
Indices: 43525349--43525432 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 30
43525339 TTTCATTTTA
* * *
43525349 ATTT-ATACTTTATTTTCATTGCATATTTC
1 ATTTCATATTTTATTTTCATTTCATAATTC
*
43525378 ATTTCATATTTTAGTTTCATTTCA-AATTC
1 ATTTCATATTTTATTTTCATTTCATAATTC
* *
43525407 ACTTCATATTTTATTTTCGTTTCATA
1 ATTTCATATTTTATTTTCATTTCATA
43525433 TTTTCACTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
29 29 0.63
30 17 0.37
ACGTcount: A:0.25, C:0.14, G:0.04, T:0.57
Consensus pattern (30 bp):
ATTTCATATTTTATTTTCATTTCATAATTC
Found at i:43525445 original size:29 final size:29
Alignment explanation
Indices: 43525338--43525445 Score: 96
Period size: 29 Copynumber: 3.7 Consensus size: 29
43525328 ATTGTAATTT
* * *
43525338 ATTTCAT-TTTAATTTATACTTTATTTTC
1 ATTTCATATTTCACTTATATTTTATTTTC
* * *
43525366 ATTGCATATTTCATTTCATATTTTAGTTTC
1 ATTTCATATTTCACTT-ATATTTTATTTTC
*
43525396 ATTTCA-AATTCACTTCATATTTTATTTTC
1 ATTTCATATTTCACTT-ATATTTTATTTTC
*
43525425 GTTTCATATTTTCACTT-TATT
1 ATTTCATA-TTTCACTTATATT
43525446 CACTTATTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
28 6 0.09
29 36 0.55
30 17 0.26
31 7 0.11
ACGTcount: A:0.24, C:0.14, G:0.03, T:0.59
Consensus pattern (29 bp):
ATTTCATATTTCACTTATATTTTATTTTC
Found at i:43526106 original size:4 final size:4
Alignment explanation
Indices: 43526092--43526123 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
43526082 ACTAATAAAG
*
43526092 CAAA AAAA CAAA CAAA CAAA CAAA CAAA CAAA
1 CAAA CAAA CAAA CAAA CAAA CAAA CAAA CAAA
43526124 ACTCAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (4 bp):
CAAA
Found at i:43527149 original size:26 final size:26
Alignment explanation
Indices: 43527115--43527193 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 26
43527105 AAATGAATTA
* *
43527115 AAATAATATAAAAAATATTTAAAAGT
1 AAATGATATAAAAAACATTTAAAAGT
* **
43527141 AAATGATAT-AACAAGGTTTAAAA-T
1 AAATGATATAAAAAACATTTAAAAGT
43527165 AAATGATA-AATAAAACCATTT-AAAGT
1 AAATGATATAA-AAAA-CATTTAAAAGT
43527191 AAA
1 AAA
43527194 AAACAAAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
24 10 0.24
25 17 0.40
26 15 0.36
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAATGATATAAAAAACATTTAAAAGT
Found at i:43527328 original size:26 final size:25
Alignment explanation
Indices: 43527299--43527421 Score: 89
Period size: 26 Copynumber: 5.0 Consensus size: 25
43527289 TTTATAGAGC
*
43527299 AATTTAAAGTAAATAATATATAAAA
1 AATTTAAAATAAATAATATATAAAA
*
43527324 TAATTTAAAA-ATAATAATACA-AAACA
1 -AATTTAAAATA-AATAATATATAAA-A
*
43527350 AA-TTAAAAT-AAT-ATGATA-AAAC
1 AATTTAAAATAAATAAT-ATATAAAA
* * *
43527372 TATTTAAAACAAATACTATATCAAAA
1 AATTTAAAATAAATAATATAT-AAAA
*
43527398 AAATTAAAATAAATAATA-ATAAAA
1 AATTTAAAATAAATAATATATAAAA
43527422 CTGTTCAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
22 3 0.04
23 14 0.18
24 16 0.21
25 9 0.12
26 34 0.45
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (25 bp):
AATTTAAAATAAATAATATATAAAA
Found at i:43527334 original size:11 final size:12
Alignment explanation
Indices: 43527309--43527370 Score: 58
Period size: 11 Copynumber: 5.2 Consensus size: 12
43527299 AATTTAAAGT
43527309 AAATAATATATA
1 AAATAATATATA
*
43527321 AAATAATTTA-A
1 AAATAATATATA
*
43527332 AAATAATAATACA
1 AAATAAT-ATATA
*
43527345 AAACAA-AT-TA
1 AAATAATATATA
43527355 AAATAATATGATA
1 AAATAATAT-ATA
43527368 AAA
1 AAA
43527371 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
10 6 0.15
11 12 0.30
12 11 0.28
13 11 0.28
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (12 bp):
AAATAATATATA
Found at i:43527385 original size:27 final size:26
Alignment explanation
Indices: 43527309--43527423 Score: 77
Period size: 23 Copynumber: 4.7 Consensus size: 26
43527299 AATTTAAAGT
*
43527309 AAATAATATATAAAA-TAATT-TAA-
1 AAATAATATATAAAACTAATTAAAAC
* *
43527332 AAATAATAATACAAAACAAATT---A-
1 AAATAAT-ATATAAAACTAATTAAAAC
*
43527355 AAATAATATGATAAAACTATTTAAAAC
1 AAATAATAT-ATAAAACTAATTAAAAC
* * *
43527382 AAATACTATATCAAAA-AAATTAAAAT
1 AAATAATATAT-AAAACTAATTAAAAC
43527408 AAATAATA-ATAAAACT
1 AAATAATATATAAAACT
43527424 GTTCAAAATA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
22 2 0.03
23 24 0.33
24 11 0.15
25 6 0.08
26 17 0.24
27 12 0.17
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (26 bp):
AAATAATATATAAAACTAATTAAAAC
Found at i:43527439 original size:51 final size:50
Alignment explanation
Indices: 43527343--43527441 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 50
43527333 AATAATAATA
* *
43527343 CAAAACAAATTAAAATAATATGATAAAACTATTTAAAACAAATACTATAT
1 CAAAACAAATTAAAATAATATAATAAAACTATTCAAAACAAATACTATAT
* * *
43527393 CAAAA-AAATTAAAATAAATAATAATAAAACTGTTCAAAATATATACTAT
1 CAAAACAAATTAAAAT-AAT-ATAATAAAACTATTCAAAACAAATACTAT
43527442 GAAAGATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 10 0.24
50 8 0.19
51 24 0.57
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (50 bp):
CAAAACAAATTAAAATAATATAATAAAACTATTCAAAACAAATACTATAT
Found at i:43527492 original size:50 final size:48
Alignment explanation
Indices: 43527438--43527581 Score: 157
Period size: 50 Copynumber: 3.0 Consensus size: 48
43527428 AAAATATATA
* *
43527438 CTATGAAAGATTTATAACAAATAAAATAAATAAGTTTAATAATAAATCAC
1 CTATGAAAGATTTATAA-AAATAAAATAAACAAGTTTAAT-ATAAATAAC
* *
43527488 CTATGAAAAGATCTA-AAATAATAAAATAAACAAGTTTAATATAAATAAT
1 CTATG-AAAGATTTATAAA-AATAAAATAAACAAGTTTAATATAAATAAC
* * * * *
43527537 ATATGAGATATTT-TAAAAATAAAATAAACAGGCTTAATATAAATA
1 CTATGAAAGATTTATAAAAATAAAATAAACAAGTTTAATATAAATA
43527582 GTATCTGAGA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
47 26 0.32
48 8 0.10
49 12 0.15
50 27 0.33
51 8 0.10
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (48 bp):
CTATGAAAGATTTATAAAAATAAAATAAACAAGTTTAATATAAATAAC
Found at i:43527561 original size:47 final size:47
Alignment explanation
Indices: 43527429--43527610 Score: 168
Period size: 47 Copynumber: 3.7 Consensus size: 47
43527419 AAACTGTTCA
*
43527429 AAATATATACTATGAAAGATTTATAACAAATAAAATAAATAAGTTTAATAAT
1 AAATA-ATA-TATGAAAGATTTA-AA-AAATAAAATAAACAAGTTTAAT-AT
* ** *
43527481 AAATCACCTATGAAAAGATCTAAAATAATAAAATAAACAAGTTTAATAT
1 AAATAATATATG-AAAGATTTAAAA-AATAAAATAAACAAGTTTAATAT
* * * * *
43527530 AAATAATATATGAGATATTTTAAAAATAAAATAAACAGGCTTAATAT
1 AAATAATATATGAAAGATTTAAAAAATAAAATAAACAAGTTTAATAT
* * * *
43527577 AAATAGTATCTGAGATATTTAAAAAAT-AAATAAA
1 AAATAATATATGAAAGATTTAAAAAATAAAATAAA
43527611 ATAAATGATA
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
46 7 0.06
47 45 0.41
48 8 0.07
49 12 0.11
50 26 0.23
51 9 0.08
52 4 0.04
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (47 bp):
AAATAATATATGAAAGATTTAAAAAATAAAATAAACAAGTTTAATAT
Found at i:43530549 original size:2 final size:2
Alignment explanation
Indices: 43530544--43530572 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43530534 AAAAATAAAA
43530544 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
43530573 TTCGTAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:43536139 original size:11 final size:11
Alignment explanation
Indices: 43536125--43536149 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43536115 TTAAATAACA
43536125 TTTAAGTTATT
1 TTTAAGTTATT
43536136 TTTAAGTTATT
1 TTTAAGTTATT
43536147 TTT
1 TTT
43536150 TTTTACTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTAAGTTATT
Found at i:43541147 original size:25 final size:25
Alignment explanation
Indices: 43541119--43541166 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
43541109 TATGTAATTT
43541119 ATAATACATACAAATTA-AATATATA
1 ATAATACATA-AAATTATAATATATA
* *
43541144 ATAATATATAATATTATAATATA
1 ATAATACATAAAATTATAATATA
43541167 AACATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAATACATAAAATTATAATATATA
Found at i:43543782 original size:18 final size:19
Alignment explanation
Indices: 43543756--43543795 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
43543746 CAATCAGGGC
* *
43543756 ATTATGGACTTGA-ATTTG
1 ATTAGGGACTTCAGATTTG
43543774 ATTAGGGACTTCAGATTTG
1 ATTAGGGACTTCAGATTTG
43543793 ATT
1 ATT
43543796 GCCAGTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (19 bp):
ATTAGGGACTTCAGATTTG
Found at i:43546415 original size:20 final size:21
Alignment explanation
Indices: 43546365--43546425 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
43546355 AAGGAGATTT
*
43546365 TAAAATTAAAATCTAA-AAA-
1 TAAAATTAAAATATAAGAAAC
43546384 TAAAATTAAAATA-AAGTAAAC
1 TAAAATTAAAATATAAG-AAAC
43546405 TAAAA-TAAAATATAAGAAAC
1 TAAAATTAAAATATAAGAAAC
43546425 T
1 T
43546426 CAATGAGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 2 0.05
19 12 0.32
20 15 0.41
21 8 0.22
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAAATTAAAATATAAGAAAC
Found at i:43550439 original size:48 final size:48
Alignment explanation
Indices: 43550321--43550429 Score: 146
Period size: 48 Copynumber: 2.3 Consensus size: 48
43550311 CTGTAATGGT
* * * * *
43550321 AACAGTCTCAGTCATGGTACACAAAGTACTTCATCGGATCGAATCCGG
1 AACAGTCACAGTCATGGTACACTAAGTACCTCATCGGAACGAATCCGA
* * *
43550369 AACAGTCCCAGTCACGGTACACTAAGTACCTCATTGGAACGAATCCGA
1 AACAGTCACAGTCATGGTACACTAAGTACCTCATCGGAACGAATCCGA
43550417 AACAGTCACAGTC
1 AACAGTCACAGTC
43550430 TGGCGACACT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (48 bp):
AACAGTCACAGTCATGGTACACTAAGTACCTCATCGGAACGAATCCGA
Found at i:43550726 original size:3 final size:3
Alignment explanation
Indices: 43550718--43550744 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
43550708 ATTCAATACC
43550718 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
43550745 CTTACCATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:43551494 original size:11 final size:11
Alignment explanation
Indices: 43551469--43551510 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 11
43551459 TGTTTTATAA
43551469 TAATAATAA--
1 TAATAATAACT
43551478 TAATAATAACT
1 TAATAATAACT
43551489 TAATAATATACT
1 TAATAATA-ACT
43551501 TATATAATAA
1 TA-ATAATAA
43551511 GTAAATATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.31
11 8 0.28
12 6 0.21
13 6 0.21
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAATAACT
Found at i:43556003 original size:55 final size:55
Alignment explanation
Indices: 43555944--43556051 Score: 121
Period size: 55 Copynumber: 2.0 Consensus size: 55
43555934 GCGGCTTGGG
*
43555944 ACACGCCCGTGTCCTAAACCCGTGTGC-AACACTGACTTTTAA-ACACGGCCATGAC
1 ACACGCCCGTGTCCTAAACCCGTGTACTAA-ACTGAC-TTTAAGACACGGCCATGAC
** ** **
43555999 ACACGTTCGTGTGGTCTACCCGTGTACTAAACTGACTTTAAGACACGGCCATG
1 ACACGCCCGTGTCCTAAACCCGTGTACTAAACTGACTTTAAGACACGGCCATG
43556052 GCAACCAGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
54 5 0.11
55 37 0.84
56 2 0.05
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (55 bp):
ACACGCCCGTGTCCTAAACCCGTGTACTAAACTGACTTTAAGACACGGCCATGAC
Found at i:43559232 original size:30 final size:30
Alignment explanation
Indices: 43559198--43559258 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43559188 TCCTTAACTC
43559198 AAACTTTGGAAAAATTACAATTTTACCCCT
1 AAACTTTGGAAAAATTACAATTTTACCCCT
* * * * *
43559228 AAACTTTTGAATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTACCCCT
43559258 A
1 A
43559259 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTACCCCT
Found at i:43560239 original size:48 final size:48
Alignment explanation
Indices: 43560178--43560271 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
43560168 TCGTAATGGT
*** *
43560178 AACAGTCTCAGTCATGGTACACAAAGTACCTCATCGGAATGAATCCGG
1 AACAGTCTCAGTCACAATACACAAAGTACCTCATCGGAACGAATCCGG
43560226 AACAGTCAT-AGTCACAATACACAAAGTACCTCATCGGAACGAATCC
1 AACAGTC-TCAGTCACAATACACAAAGTACCTCATCGGAACGAATCC
43560272 AAAATAGTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 40 0.98
49 1 0.02
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (48 bp):
AACAGTCTCAGTCACAATACACAAAGTACCTCATCGGAACGAATCCGG
Found at i:43560281 original size:48 final size:48
Alignment explanation
Indices: 43560195--43560286 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
43560185 TCAGTCATGG
* ** *
43560195 TACACAAAGTACCTCATCGGAATGAATCCGGAACAGTCATAGTCACAA
1 TACACAAAGTACCTCATCGGAACGAATCCAAAACAGTCACAGTCACAA
*
43560243 TACACAAAGTACCTCATCGGAACGAATCCAAAATAGTCACAGTC
1 TACACAAAGTACCTCATCGGAACGAATCCAAAACAGTCACAGTC
43560287 TGGCGACACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.18
Consensus pattern (48 bp):
TACACAAAGTACCTCATCGGAACGAATCCAAAACAGTCACAGTCACAA
Found at i:43580662 original size:25 final size:25
Alignment explanation
Indices: 43580634--43580727 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 25
43580624 GTTACCGATT
43580634 TCAGCTCGTGA-GAGCTTACTAATT-C
1 TCAGCTCGT-ATGAGCTTACT-ATTAC
* *
43580659 TCAGCTCGTATTAGCTTACTGTTAC
1 TCAGCTCGTATGAGCTTACTATTAC
*
43580684 TCAGCTCGTATGAGCTTATCGATTA-
1 TCAGCTCGTATGAGCTTA-CTATTAC
* *
43580709 -CAGCTCGTAAGAGCATACT
1 TCAGCTCGTATGAGCTTACT
43580728 GATTTAGAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 18 0.31
25 35 0.60
26 4 0.07
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
TCAGCTCGTATGAGCTTACTATTAC
Found at i:43585689 original size:47 final size:48
Alignment explanation
Indices: 43585618--43585741 Score: 128
Period size: 49 Copynumber: 2.6 Consensus size: 48
43585608 AGATGCCGAC
* *
43585618 GCCATGTCCTAGATATAGTCTTACACTGGCTAGCACATC-A-A-AGTCGAT
1 GCCATGTCCCAGACA-AGTCTTACACTGGCT--CACATCTATAGAGTCGAT
** * *
43585666 GCCATGTCCCAGACAAGTCTTACACCCGCTCTCATCTATAGGTGTCGAT
1 GCCATGTCCCAGACAAGTCTTACACTGGCTCACATCTATA-GAGTCGAT
*
43585715 GCCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGACAAGTCTTACACTG
43585742 AAACACAACA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 5 0.08
46 1 0.02
47 14 0.22
48 13 0.21
49 30 0.48
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCATGTCCCAGACAAGTCTTACACTGGCTCACATCTATAGAGTCGAT
Found at i:43586485 original size:20 final size:19
Alignment explanation
Indices: 43586449--43586498 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
43586439 TATAGCAACT
*
43586449 CACATTTTCAATTATTTCA
1 CACATTTACAATTATTTCA
*
43586468 CACATTTACAACTTATTTTA
1 CACATTTACAA-TTATTTCA
43586488 CA-ACTTTACAA
1 CACA-TTTACAA
43586499 AATAGCCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (19 bp):
CACATTTACAATTATTTCA
Found at i:43588002 original size:64 final size:63
Alignment explanation
Indices: 43587890--43588056 Score: 160
Period size: 64 Copynumber: 2.6 Consensus size: 63
43587880 GCTAGGAAAG
* * * * * *
43587890 TAAACACAGAATAGATAATCTACTGGTATAGT-AACACAAAACAAAGAAAGTCCATTG-A-GACA
1 TAAACACAGAATAGATAGTCCATTGGGACAATAAACACAAAACAAAGAAAGT---TTGCAGGACA
43587952 A
63 A
* *
43587953 TAAACACATAATAGATAGTCCATTGGGACAATAAACACAGAACAAAGAAAGTTTGCTAGGACAA
1 TAAACACAGAATAGATAGTCCATTGGGACAATAAACACAAAACAAAGAAAGTTTGC-AGGACAA
* ** **
43588017 TAAACATAGAATAGATAGTCTGTTGGGACGGTAAACACAA
1 TAAACACAGAATAGATAGTCCATTGGGACAATAAACACAA
43588057 TAAAGAGATA
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
61 3 0.04
63 26 0.31
64 56 0.66
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (63 bp):
TAAACACAGAATAGATAGTCCATTGGGACAATAAACACAAAACAAAGAAAGTTTGCAGGACAA
Found at i:43588169 original size:28 final size:28
Alignment explanation
Indices: 43588137--43588198 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
43588127 TAAAATCCAC
*
43588137 TGGGATAGTAAACACGAGGTAAGTCTGT
1 TGGGATAGTAAACACGAGGTAAGTCTGA
* * *
43588165 TGGGACAGTAAACATGAGGTAAGTTTGA
1 TGGGATAGTAAACACGAGGTAAGTCTGA
43588193 TGGGAT
1 TGGGAT
43588199 GCAAAGAACG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.34, T:0.26
Consensus pattern (28 bp):
TGGGATAGTAAACACGAGGTAAGTCTGA
Found at i:43592069 original size:21 final size:21
Alignment explanation
Indices: 43592044--43592112 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
43592034 TATAATGATT
43592044 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
***
43592065 ATTATTACAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
43592085 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
43592105 ATTATTAT
1 ATTATTAT
43592113 TATTAGCATT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 3 0.09
21 17 0.49
22 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:43592125 original size:15 final size:14
Alignment explanation
Indices: 43592099--43592129 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
43592089 TATGGTTTTA
43592099 TATTAGATTATTAT
1 TATTAGATTATTAT
43592113 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
43592128 TA
1 TA
43592130 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:43593515 original size:21 final size:23
Alignment explanation
Indices: 43593473--43593515 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
43593463 CAATATTCCG
*
43593473 GGTGTGTTTAGGTTGGATATTCT
1 GGTGTGTTTAGGATGGATATTCT
43593496 GGTGTGTTT-GGATGGA-ATTC
1 GGTGTGTTTAGGATGGATATTC
43593516 GCGTATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.14, C:0.05, G:0.37, T:0.44
Consensus pattern (23 bp):
GGTGTGTTTAGGATGGATATTCT
Found at i:43596565 original size:34 final size:33
Alignment explanation
Indices: 43596508--43596571 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
43596498 TATCAGTTAG
*
43596508 GGCCTTAGCCCTTCCAGTAACAATACCAGTGTA
1 GGCCTTAGCCCTTCCAGTAACAATAACAGTGTA
43596541 GGCCTTAGCCCAATT-CAGTAACAATAACAGT
1 GGCCTTAGCCC--TTCCAGTAACAATAACAGT
43596572 ACAGAATGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 11 0.39
34 15 0.54
35 2 0.07
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (33 bp):
GGCCTTAGCCCTTCCAGTAACAATAACAGTGTA
Found at i:43599159 original size:44 final size:45
Alignment explanation
Indices: 43599064--43599178 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 45
43599054 ACAGGACAGA
* *
43599064 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGACTTTAGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGACATTAGAG
* * * *
43599110 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGACATTAGAG
* **
43599154 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
43599179 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 33 0.56
46 26 0.44
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGACATTAGAG
Found at i:43610388 original size:20 final size:20
Alignment explanation
Indices: 43610363--43610400 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43610353 GTTACATATA
43610363 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
43610383 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
43610401 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:43611610 original size:30 final size:30
Alignment explanation
Indices: 43611575--43611634 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
43611565 TATTTTATTA
*
43611575 TTAATTTTGTTATTATTTTAAAGGTATTTT
1 TTAATTTTATTATTATTTTAAAGGTATTTT
*
43611605 TTAATTTTATTATTATTTTAGAGGTATTTT
1 TTAATTTTATTATTATTTTAAAGGTATTTT
43611635 CTTATTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGTATTTT
Found at i:43611769 original size:15 final size:16
Alignment explanation
Indices: 43611745--43611779 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
43611735 TTTTTGCTGT
*
43611745 ATTATATATATTTAAAA
1 ATTATATA-ATATAAAA
43611762 ATTATATAATATAAAA
1 ATTATATAATATAAAA
43611778 AT
1 AT
43611780 AAATACGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTATATAATATAAAA
Found at i:43619894 original size:14 final size:14
Alignment explanation
Indices: 43619858--43619886 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43619848 ATATTATATA
43619858 TATAATTTTTTAAC
1 TATAATTTTTTAAC
43619872 TATAATTTTTTAAC
1 TATAATTTTTTAAC
43619886 T
1 T
43619887 TTAGTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TATAATTTTTTAAC
Found at i:43625574 original size:31 final size:31
Alignment explanation
Indices: 43625506--43625579 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
43625496 ATTTAGTGCG
* * * *
43625506 ATTATACACATAAAAATTTGATTGTGGTTCA
1 ATTATATACATTAAAATTTAATTGTGATTCA
* * *
43625537 AATATATACATTAAATTTTAATTTTGATTCA
1 ATTATATACATTAAAATTTAATTGTGATTCA
43625568 ATTATATACATT
1 ATTATATACATT
43625580 TGAAGACATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.45
Consensus pattern (31 bp):
ATTATATACATTAAAATTTAATTGTGATTCA
Found at i:43629508 original size:15 final size:15
Alignment explanation
Indices: 43629490--43629541 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
43629480 TGTAAAAGCT
43629490 AATATTATGAATAAG
1 AATATTATGAATAAG
*
43629505 AATAATTCTGTAA-AAGG
1 AAT-ATTATG-AATAA-G
43629522 TAATATTATGAATAAG
1 -AATATTATGAATAAG
43629538 AATA
1 AATA
43629542 ATGCTTCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 7 0.23
16 10 0.33
17 10 0.33
18 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.13, T:0.33
Consensus pattern (15 bp):
AATATTATGAATAAG
Found at i:43629520 original size:33 final size:33
Alignment explanation
Indices: 43629478--43629543 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
43629468 CAATGCTATC
43629478 TCTGTAAAAGCTAATATTATGAATAAGAATAAT
1 TCTGTAAAAGCTAATATTATGAATAAGAATAAT
*
43629511 TCTGTAAAAGGTAATATTATGAATAAGAATAAT
1 TCTGTAAAAGCTAATATTATGAATAAGAATAAT
43629544 GCTTCTTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (33 bp):
TCTGTAAAAGCTAATATTATGAATAAGAATAAT
Found at i:43631912 original size:44 final size:44
Alignment explanation
Indices: 43631852--43631942 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
43631842 CAAATAGGTA
43631852 TTTTTGGATGAAATTGAATGAATAGGTGATTAAATGAGTTAATT
1 TTTTTGGATGAAATTGAATGAATAGGTGATTAAATGAGTTAATT
43631896 TTTTTGGATGAAATTGAATGAATAGGTGATTAAATGAGTTAATT
1 TTTTTGGATGAAATTGAATGAATAGGTGATTAAATGAGTTAATT
43631940 TTT
1 TTT
43631943 AATGAATATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (44 bp):
TTTTTGGATGAAATTGAATGAATAGGTGATTAAATGAGTTAATT
Found at i:43632366 original size:43 final size:43
Alignment explanation
Indices: 43632222--43632369 Score: 149
Period size: 43 Copynumber: 3.4 Consensus size: 43
43632212 GGTTACCGAG
* *
43632222 ATGTGATTATATGTAAGACCATGTCTGGGACATTGGCATTG-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* *
43632264 ATTGTGATTATATGTAAAACCATGTCTGGGACATTGGCATC-ATT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGA-T
* * * * * *
43632308 AAT-CGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
*
43632351 ATGTGATAACATGTAAGAC
1 ATGTGATTACATGTAAGAC
43632370 TATATCTGAG
Statistics
Matches: 86, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 3 0.03
43 79 0.92
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:43659002 original size:25 final size:25
Alignment explanation
Indices: 43658974--43659023 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
43658964 GATTTTCTTC
* **
43658974 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAAATTTATCGAATTATT
43658999 TAAATTTTAAATTTATCGAATTATT
1 TAAATTTTAAATTTATCGAATTATT
43659024 AATAGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
TAAATTTTAAATTTATCGAATTATT
Found at i:43662386 original size:46 final size:46
Alignment explanation
Indices: 43662319--43662586 Score: 246
Period size: 46 Copynumber: 5.8 Consensus size: 46
43662309 TGTAACCCGC
*
43662319 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
43662365 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * * * *
43662415 --TTCA-CGAACTTGGACTCAACTCAACGAGTTCAGACGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
43662458 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
43662508 -C-TCA-CGAACTCGGACTCAACTTAACGAGTTCAGTCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
43662551 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
43662587 ATGCCCAAAT
Statistics
Matches: 174, Mismatches: 30, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
42 6 0.03
43 5 0.03
44 3 0.02
45 4 0.02
46 86 0.49
47 51 0.29
48 5 0.03
49 3 0.02
50 5 0.03
51 6 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:43662440 original size:93 final size:93
Alignment explanation
Indices: 43662327--43662591 Score: 449
Period size: 93 Copynumber: 2.8 Consensus size: 93
43662317 GCCCATAAGT
* * *
43662327 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
43662392 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
43662420 GAACTTGGACTCAACTCAACGAGTTCAGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43662485 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
43662513 GAACTCGGACTCAACTTAACGAGTTCAGTCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43662578 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43662592 CAAATATCCG
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 161 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43662441 original size:47 final size:46
Alignment explanation
Indices: 43662373--43662538 Score: 192
Period size: 47 Copynumber: 3.6 Consensus size: 46
43662363 ATCCATAAGT
*
43662373 GAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCAC
* * * * * * * *
43662420 GAACTTGGACTCAACTCAACGAGTTCAGACG-TTCGTATCCA-TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-TACATTCA-C
43662466 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TCAC
*
43662513 GAACTCGGACTCAACTTAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
43662539 AGTCGTTCGC
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.02
46 34 0.35
47 58 0.60
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTCAC
Found at i:43665076 original size:6 final size:6
Alignment explanation
Indices: 43665046--43665238 Score: 110
Period size: 6 Copynumber: 31.3 Consensus size: 6
43665036 AAGAAACATT
* * *
43665046 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCA-A
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
43665093 GTGACAAA ATCAAA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
43665144 ATCAGT ATCAAGTA A-CAAA ATCAGA ATCAGA ACCAGA ATCAGA ATTAGGTA
1 ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* **
43665195 A-CAGA ATAAGA ATCATT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
43665239 GTCAATGCAA
Statistics
Matches: 144, Mismatches: 26, Indels: 34
0.71 0.13 0.17
Matches are distributed among these distances:
5 11 0.08
6 113 0.78
7 12 0.08
8 8 0.06
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:43665113 original size:31 final size:31
Alignment explanation
Indices: 43665075--43665184 Score: 123
Period size: 31 Copynumber: 3.5 Consensus size: 31
43665065 TGAGAATTAG
*
43665075 AATCAGAATCAGAATCAAGTGACAAAATCAA
1 AATCAGAATCAGAATCAAGTAACAAAATCAA
* * ***
43665106 AATCAGAATCAGAATCAGAATTAGGTAA-CAA
1 AATCAGAATCAGAATCA-AGTAACAAAATCAA
* *
43665137 AATCAGAATCAGTATCAAGTAACAAAATCAG
1 AATCAGAATCAGAATCAAGTAACAAAATCAA
*
43665168 AATCAGAACCAGAATCA
1 AATCAGAATCAGAATCA
43665185 GAATTAGGTA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
30 5 0.08
31 53 0.84
32 5 0.08
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.17
Consensus pattern (31 bp):
AATCAGAATCAGAATCAAGTAACAAAATCAA
Found at i:43665114 original size:37 final size:37
Alignment explanation
Indices: 43665073--43665153 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
43665063 AATGAGAATT
*
43665073 AGAATCAGAATCAGAATCAAGTGACAAAATCAAAATC
1 AGAATCAGAATCAGAATCAAGTAACAAAATCAAAATC
* * *
43665110 AGAATCAGAATCAGAATTAGGTAACAAAATCAGAATC
1 AGAATCAGAATCAGAATCAAGTAACAAAATCAAAATC
*
43665147 AGTATCA
1 AGAATCA
43665154 AGTAACAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAAGTAACAAAATCAAAATC
Found at i:43665142 original size:19 final size:19
Alignment explanation
Indices: 43665118--43665207 Score: 58
Period size: 19 Copynumber: 4.5 Consensus size: 19
43665108 TCAGAATCAG
43665118 AATCAGAATTAGGTAACAA
1 AATCAGAATTAGGTAACAA
*
43665137 AATCAGAATCAGTATCAAGTAACAA
1 AATCAG-A--A-T-T-AGGTAACAA
* *
43665162 AATCAGAATCA-G-AACCAG
1 AATCAGAATTAGGTAA-CAA
*
43665180 AATCAGAATTAGGTAACAG
1 AATCAGAATTAGGTAACAA
*
43665199 AATAAGAAT
1 AATCAGAAT
43665208 CATTATCAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
17 2 0.04
18 13 0.23
19 19 0.33
20 3 0.05
21 1 0.02
22 2 0.04
23 1 0.02
24 2 0.04
25 14 0.25
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (19 bp):
AATCAGAATTAGGTAACAA
Found at i:43665146 original size:25 final size:25
Alignment explanation
Indices: 43665112--43665175 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
43665102 TCAAAATCAG
* *
43665112 AATCAGAATCAGAATTAGGTAACAA
1 AATCAGAATCAGAATCAAGTAACAA
*
43665137 AATCAGAATCAGTATCAAGTAACAA
1 AATCAGAATCAGAATCAAGTAACAA
43665162 AATCAGAATCAGAA
1 AATCAGAATCAGAA
43665176 CCAGAATCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGAATCAAGTAACAA
Found at i:43665154 original size:62 final size:62
Alignment explanation
Indices: 43665075--43665238 Score: 247
Period size: 62 Copynumber: 2.6 Consensus size: 62
43665065 TGAGAATTAG
* * *
43665075 AATCAGAATCAGAATCAAGTGACAAAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAA
1 AATCAGAATCAGTATCAAGTAACAAAATCAGAATCAGAATCAGAATCAGAATTAGGTAACAA
* *
43665137 AATCAGAATCAGTATCAAGTAACAAAATCAGAATCAGAACCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGTATCAAGTAACAAAATCAGAATCAGAATCAGAATCAGAATTAGGTAACAA
* * * *
43665199 AATAAGAATCATTATCAGGTAACAGAATCAGAATCAGAAT
1 AATCAGAATCAGTATCAAGTAACAAAATCAGAATCAGAAT
43665239 GTCAATGCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 92 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (62 bp):
AATCAGAATCAGTATCAAGTAACAAAATCAGAATCAGAATCAGAATCAGAATTAGGTAACAA
Found at i:43665206 original size:25 final size:25
Alignment explanation
Indices: 43665178--43665238 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
43665168 AATCAGAACC
*
43665178 AGAATCAGAATTAGGTAACAGAATA
1 AGAATCAGAATCAGGTAACAGAATA
** *
43665203 AGAATCATTATCAGGTAACAGAATC
1 AGAATCAGAATCAGGTAACAGAATA
43665228 AGAATCAGAAT
1 AGAATCAGAAT
43665239 GTCAATGCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATA
Found at i:43665405 original size:27 final size:26
Alignment explanation
Indices: 43665357--43665416 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
43665347 GCGAGGCTGC
*
43665357 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
43665384 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
43665410 CAGATAT
1 CAGATAT
43665417 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:43665744 original size:27 final size:27
Alignment explanation
Indices: 43665688--43665908 Score: 241
Period size: 27 Copynumber: 8.3 Consensus size: 27
43665678 GGGGTAAAAT
* * * *
43665688 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
43665714 AGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43665741 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43665768 GGTATTTCTACCCTA-AAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43665794 GGTAATTATACCCTACAGGGGTAGTTT-
1 GGTAATTCTACCCTACAGGGGTA-TTTC
* * * * *
43665821 AGTTATTATACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43665848 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43665875 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
43665902 GGTAATT
1 GGTAATT
43665909 TTATAAATTG
Statistics
Matches: 166, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
26 40 0.24
27 123 0.74
28 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:43665812 original size:80 final size:81
Alignment explanation
Indices: 43665692--43665908 Score: 271
Period size: 80 Copynumber: 2.7 Consensus size: 81
43665682 TAAAATGGTA
* * * * * *
43665692 ATTT-TACCCCACAA-GGTATCTCAGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTATACCCT
43665755 ACAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* *
43665771 ATTTCTACCCTA-AAGGGTATTTCGGTAATTATACCCTACAGGGGTAGTTT-AGTTATTATACCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTA-TTTCAGTAATTATACCC
* * *
43665834 TATAGGGGTATTTTGGT
65 TACAAGGGTATTTCGGT
* * *
43665851 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
43665909 TTATAAATTG
Statistics
Matches: 117, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
79 6 0.05
80 72 0.62
81 39 0.33
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTATACCCT
ACAAGGGTATTTCGGT
Found at i:43665976 original size:27 final size:26
Alignment explanation
Indices: 43665944--43666394 Score: 427
Period size: 27 Copynumber: 16.7 Consensus size: 26
43665934 TTCTGTAAAT
* *
43665944 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAA-A
* *** **
43665971 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACA-AA
** * * *
43665998 TGAGGGTATTTTAGTAAGTTCACAAA
1 CAAGGGTATTTTGGTAATTTTACAAA
* *
43666024 TCAGGGGTATTTTGGTAATTTTAGAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* *
43666051 CTAGGGGTATTTTGATAATTTTACAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
*
43666078 CTAGGGGTATTTTGGTAATTTTACAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
* * *
43666105 CTAGGGGTATTTTGGTGATTTTATAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
*
43666132 CCAAGGGTATTTTAGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* *
43666159 CTAGGGGTATTTTGGTAATTTGGTA-AAC
1 C-AAGGGTATTTTGGTAATTT--TACAAA
43666187 CAAGGGTATTTTGGTAATTTTACAAA
1 CAAGGGTATTTTGGTAATTTTACAAA
* * *
43666213 CTAGGGGTATTTTGGTGATTTTATAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
*
43666240 CCAAGGGTATTTTAGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* **
43666267 CCAGGGGTATTTTGGTAATTTTGTAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
43666294 CCAAGGGTATTTTGGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* *
43666321 CTAAGGGTATTTTGGTGATTTTATAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
*
43666348 CCAAGGGTATTTTAGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
*
43666375 CCAGGGGTATTTTGGTAATT
1 -CAAGGGTATTTTGGTAATT
43666395 CGGTAAACTA
Statistics
Matches: 357, Mismatches: 55, Indels: 24
0.82 0.13 0.06
Matches are distributed among these distances:
25 2 0.01
26 6 0.02
27 341 0.96
28 6 0.02
29 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (26 bp):
CAAGGGTATTTTGGTAATTTTACAAA
Found at i:43666402 original size:27 final size:27
Alignment explanation
Indices: 43666001--43666394 Score: 500
Period size: 27 Copynumber: 14.6 Consensus size: 27
43665991 TACAGGTTGA
* * * *
43666001 GGGTATTTTAGTAAGTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
43666028 GGGTATTTTGGTAATTTTAGAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
43666055 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
43666082 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
43666109 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
43666136 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*** *
43666163 GGGTATTTTGGTAATTTGGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
43666190 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
43666217 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
43666244 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
43666271 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
43666298 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
43666325 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
43666352 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
43666379 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
43666395 CGGTAAACTA
Statistics
Matches: 315, Mismatches: 52, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 315 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:43666402 original size:54 final size:54
Alignment explanation
Indices: 43666001--43666394 Score: 581
Period size: 54 Copynumber: 7.3 Consensus size: 54
43665991 TACAGGTTGA
* * * * * * *
43666001 GGGTATTTTAGTAAGTTCACAAATCAGGGGTATTTTGGTAATTTTAGAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* * * *
43666055 GGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* *
43666109 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
**
43666163 GGGTATTTTGGTAATTTGGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* * *
43666217 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* *
43666271 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* * *
43666325 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
43666379 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
43666395 CGGTAAACTA
Statistics
Matches: 307, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 307 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
Found at i:43667653 original size:10 final size:10
Alignment explanation
Indices: 43667615--43667655 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
43667605 TATTAACATA
*
43667615 ATTAATTTTA
1 ATTAATTTTG
*
43667625 ATTAATTTTT
1 ATTAATTTTG
43667635 ATTAATTTTG
1 ATTAATTTTG
*
43667645 ATTATTTTTG
1 ATTAATTTTG
43667655 A
1 A
43667656 CAGATTTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (10 bp):
ATTAATTTTG
Found at i:43672134 original size:7 final size:7
Alignment explanation
Indices: 43672122--43672161 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
43672112 ACATTTCTAT
43672122 TCATCCC
1 TCATCCC
43672129 TCATCCC
1 TCATCCC
*
43672136 TCATCAC
1 TCATCCC
43672143 TCATCCC
1 TCATCCC
43672150 TCATCCC
1 TCATCCC
43672157 TCATC
1 TCATC
43672162 ATTCATCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.17, C:0.53, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Found at i:43672146 original size:21 final size:21
Alignment explanation
Indices: 43672122--43672168 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
43672112 ACATTTCTAT
43672122 TCATCCCTCATCCCTCATCAC
1 TCATCCCTCATCCCTCATCAC
*
43672143 TCATCCCTCATCCCTCATCAT
1 TCATCCCTCATCCCTCATCAC
43672164 TCATC
1 TCATC
43672169 ATTCTCTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.49, G:0.00, T:0.32
Consensus pattern (21 bp):
TCATCCCTCATCCCTCATCAC
Found at i:43673880 original size:50 final size:50
Alignment explanation
Indices: 43673756--43673940 Score: 223
Period size: 50 Copynumber: 3.7 Consensus size: 50
43673746 GGTTATGTGT
* * * * *
43673756 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGC-CTCAATATA-CA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATGTATGA
*
43673805 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAGCGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
* * *
43673854 GAGCCAATGTAAGACCATGTTTGGGACATAGCATCGGCACCGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
* ** *
43673904 GAGCTAGTGTAAGACCATGTCCAGGACATGGGATCGG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
43673941 TATTTTACCC
Statistics
Matches: 116, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
48 40 0.34
49 1 0.01
50 75 0.65
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.21
Consensus pattern (50 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
Found at i:43676078 original size:30 final size:30
Alignment explanation
Indices: 43676020--43676078 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
43676010 TTTACAAGCC
* * *
43676020 TAGGGGCTAATTTGTAATTATGTGAAAGTT
1 TAGGGGCAAAATTGTAATTATGTCAAAGTT
* *
43676050 TAGGGGCAAAATTGTAATTTTTTCAAAGT
1 TAGGGGCAAAATTGTAATTATGTCAAAGT
43676079 ATGATTTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (30 bp):
TAGGGGCAAAATTGTAATTATGTCAAAGTT
Found at i:43676577 original size:48 final size:48
Alignment explanation
Indices: 43676422--43676589 Score: 185
Period size: 48 Copynumber: 3.5 Consensus size: 48
43676412 GGTTATGTGT
* * * * *
43676422 GATCCCATGTAAGACCATGTCTGGGACATGGCATTCGCGTCGTTATGA
1 GATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGA
* * * *
43676470 GATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACACGT
1 GATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGA
* * *
43676518 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATAGATATGA
1 GATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGA
* * *
43676566 GA-CATTGTGTAAGACCATAGCTGG
1 GATC-CTATGTAAGACCATATCTGG
43676590 CCTATCGGCT
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 100 0.99
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (48 bp):
GATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGA
Found at i:43683994 original size:53 final size:53
Alignment explanation
Indices: 43683816--43684019 Score: 160
Period size: 53 Copynumber: 3.8 Consensus size: 53
43683806 AGGGTTTAAG
* * * *
43683816 GATACCAAGTAAGACCATGCCAAGGA-ATGG-CATCGGTAAGTTTTACAAGGCAAA
1 GATACCACGTAAGACCATGCCAA-GACATGGAAAT-GGTAAG-TTCATAAGGCAAA
* * * * * * * * * *
43683870 GAAATCATGTAAGACTATGTCAAGACATGGCATTGATAAACTACAATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGAAATGGT-AAGTTC-ATAAGGCAAA
* * * * *
43683925 GATCCCATGTAAGACCATGCCAAGACATGGCAATGGTGAGTTCATAAGGCAAT
1 GATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCATAAGGCAAA
* *
43683978 GGTACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTT
43684020 TAAAAAGGAA
Statistics
Matches: 117, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
53 47 0.40
54 28 0.24
55 42 0.36
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCATAAGGCAAA
Found at i:43687884 original size:23 final size:23
Alignment explanation
Indices: 43687854--43687900 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
43687844 TGACCCTTCC
43687854 AACCTTTCCTGGGAATTAATTTA
1 AACCTTTCCTGGGAATTAATTTA
43687877 AACCTTTCCTGGGAATTAATTTA
1 AACCTTTCCTGGGAATTAATTTA
43687900 A
1 A
43687901 TGTAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (23 bp):
AACCTTTCCTGGGAATTAATTTA
Found at i:43696562 original size:43 final size:42
Alignment explanation
Indices: 43696505--43696606 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 42
43696495 GAAATCCGAG
* *
43696505 CTTGTTGAGCGGTCCGAGTTCGTGATATGTATGAGAATCCAAA
1 CTTGTTGAGTGGTCCGAGTTCGTGATATATATG-GAATCCAAA
* * * * *
43696548 CTTGTTGAGTGGTCCAAGTTCGTGATATATGTGGCATCCGAG
1 CTTGTTGAGTGGTCCGAGTTCGTGATATATATGGAATCCAAA
*
43696590 CTTGCTGAGTGGTCCGA
1 CTTGTTGAGTGGTCCGA
43696607 ATTCATTATG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 21 0.42
43 29 0.58
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (42 bp):
CTTGTTGAGTGGTCCGAGTTCGTGATATATATGGAATCCAAA
Found at i:43696634 original size:43 final size:43
Alignment explanation
Indices: 43696581--43696662 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
43696571 GATATATGTG
*
43696581 GCATCCGAGCTTGCTGAGTGGTCCGAATTCATTATGGATGCGA
1 GCATCCGAGCTCGCTGAGTGGTCCGAATTCATTATGGATGCGA
* * * *
43696624 GCATCTGAGCTCGTTGAGTGGTCTGAGTTCATTATGGAT
1 GCATCCGAGCTCGCTGAGTGGTCCGAATTCATTATGGAT
43696663 ACGATGCCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (43 bp):
GCATCCGAGCTCGCTGAGTGGTCCGAATTCATTATGGATGCGA
Found at i:43700298 original size:22 final size:23
Alignment explanation
Indices: 43700267--43700312 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
43700257 TTTTAGGTCT
*
43700267 TTAGGAATTT-ATTTCCTTCATAA
1 TTAGGAATTTAATTT-CTGCATAA
43700290 TTAGG-ATTTAATTTCTGCATAA
1 TTAGGAATTTAATTTCTGCATAA
43700312 T
1 T
43700313 AAAACATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (23 bp):
TTAGGAATTTAATTTCTGCATAA
Found at i:43703926 original size:101 final size:102
Alignment explanation
Indices: 43703810--43704023 Score: 268
Period size: 101 Copynumber: 2.1 Consensus size: 102
43703800 TATCCGAATA
* * * * * * * * *
43703810 ACATTTCGATTCCAATGTATAAAACGTGGACTTACTTGTACATATATATCGGAATCACATATCGA
1 ACATATCGATGCCAATGTATAAAACATGGACTTACTCGCACACATATATAGGAATCACACATCAA
*
43703875 TACCATGGTCTTACTCACACATCACATATTA-AAATC
66 TACCATGGTCTTACTCACACATCACATATCAGAAATC
* * *
43703911 ACATATCGATGCCAATGTATTAAACATGGTCTTACTCGCGCACATATATAGGAATCACACATCAA
1 ACATATCGATGCCAATGTATAAAACATGGACTTACTCGCACACATATATAGGAATCACACATCAA
* * *
43703976 TGCCATGGTCTTACTCGCACATCACATATCAGAATTC
66 TACCATGGTCTTACTCACACATCACATATCAGAAATC
*
43704013 ACATGTCGATG
1 ACATATCGATG
43704024 TCTCATATAC
Statistics
Matches: 95, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
101 81 0.85
102 14 0.15
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.29
Consensus pattern (102 bp):
ACATATCGATGCCAATGTATAAAACATGGACTTACTCGCACACATATATAGGAATCACACATCAA
TACCATGGTCTTACTCACACATCACATATCAGAAATC
Found at i:43706171 original size:48 final size:48
Alignment explanation
Indices: 43706112--43706251 Score: 183
Period size: 48 Copynumber: 2.9 Consensus size: 48
43706102 GGGTTATGTG
* * * * ** *
43706112 TGATCCTATGTAAGACCATGTCTGTGACAAGGCATTGACATCGTTATGA
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACA-CA
43706161 -GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACACA
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACACA
* *
43706208 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGA
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
43706252 TGTGAGACAT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.01
48 80 0.99
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACACA
Found at i:43706268 original size:48 final size:46
Alignment explanation
Indices: 43706110--43706340 Score: 182
Period size: 48 Copynumber: 5.0 Consensus size: 46
43706100 TAGGGTTATG
* * * * * * *
43706110 TGTGATCCTATGTAAGACCATGTCTGTGACAAGGCATTGACATCGTTA
1 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG--A
* * * *
43706158 TGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACA
1 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG--A
** *
43706206 CATGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGA
1 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGA
* * * * * * *
43706252 TGTGAGACATCGTGTAAGACCATAGCTGGGCTATTAGC-TTTG-AT--T
1 TGTGA-AC-CCATGTAAGACCATATCTGGGATA-TGGCATTGGCATCGA
43706297 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
43706341 TTACTATGTT
Statistics
Matches: 149, Mismatches: 28, Indels: 15
0.78 0.15 0.08
Matches are distributed among these distances:
42 3 0.02
43 23 0.15
44 4 0.03
45 5 0.03
46 4 0.03
47 3 0.02
48 104 0.70
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (46 bp):
TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGA
Found at i:43706281 original size:96 final size:91
Alignment explanation
Indices: 43706112--43706340 Score: 219
Period size: 96 Copynumber: 2.5 Consensus size: 91
43706102 GGGTTATGTG
* * * * * * *
43706112 TGATCCTATGTAAGACCATGTCTGTGACAAGGCATTGACATCGTTATGAGATCCCATGTAAGACC
1 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCATGTAAGACC
*
43706177 ATGTCTGGGACATGGCATTGGCATCGACACA
66 ATGTCTGGG-C-T---ATTAGCATCGACACA
* * *
43706208 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATGTGAGA-CATCGTGTAAGAC
1 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATC-CCATGTAAGAC
* * ****
43706272 CATAG-CTGGGCTATTAGCTTTGATTTG
65 CAT-GTCTGGGCTATTAGCATCGACACA
*
43706299 TGAACCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
43706341 TTACTATGTT
Statistics
Matches: 113, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
91 49 0.43
94 1 0.01
95 2 0.02
96 60 0.53
97 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (91 bp):
TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCATGTAAGACC
ATGTCTGGGCTATTAGCATCGACACA
Found at i:43708200 original size:40 final size:40
Alignment explanation
Indices: 43708154--43708378 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
43708144 CTTGCACAAG
* * * *
43708154 GCCTTCGGGTCTTAGCCCAGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
43708194 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
43708234 GCCTTCGAGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* **
43708274 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCAGGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
43708314 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
43708355 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
43708379 CATTCGAATA
Statistics
Matches: 154, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.81
41 28 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:43708267 original size:80 final size:78
Alignment explanation
Indices: 43708118--43708378 Score: 274
Period size: 80 Copynumber: 3.3 Consensus size: 78
43708108 CTCAAGTAAT
* * * * * * *
43708118 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCAGATGTGGTC
1 CTTCGGGACTTAGCCCGGATATAACAACTAGCACAATGCCTTC-GGTCTTAGCCCGGATATAGTC
*
43708182 ACTAGCATAAATGC
65 ACTAGCACAAATGC
* * *
43708196 CTTCGGGACTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGAGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAA-CAACTAGCAC-AATGCCTTCG-GTCTTAGCCCGGATATAG
*
43708260 TCGCTAGCACAAATGC
63 TCACTAGCACAAATGC
* * * * * *
43708276 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCAGGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAACAACTAGCA-CAATGCCTTCGG-TCTTAGCCCGGATATAGT
*
43708341 CACCTAGCACAAAAGC
64 CA-CTAGCACAAATGC
43708357 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
43708379 CATTCGAATA
Statistics
Matches: 152, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
78 12 0.08
79 19 0.12
80 88 0.58
81 33 0.22
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGATATAACAACTAGCACAATGCCTTCGGTCTTAGCCCGGATATAGTCA
CTAGCACAAATGC
Found at i:43712105 original size:44 final size:42
Alignment explanation
Indices: 43712037--43712149 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 42
43712027 TTCCGATATG
** * * *
43712037 TGATTTCGTGTAAGACCACATCTGGGACTTTGGCATTG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
*
43712078 TGAGATTTACGTGTAAGACAATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
*
43712123 TGATTTCGTGTAAGACCCTGTCTGGGA
1 TGATTTCGTGTAAGACCATGTCTGGGA
43712150 TAGTGACATC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.02
42 19 0.32
43 10 0.17
44 27 0.45
45 3 0.05
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:43712145 original size:42 final size:41
Alignment explanation
Indices: 43712037--43712164 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 41
43712027 TTCCGATATG
* * * *
43712037 TGATTTCGTGTAAGACCAC-ATCTGGGACTTTGGCATTGATT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATTGGCATCGATA
**
43712078 TGAGATTTACGTGTAAGACAATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCCTGTCTGGGACATTGGCATCG-ATA
* * *
43712123 TGATTTCGTGTAAGACCCTGTCTGGGATAGTGACATCGATA
1 TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATA
43712164 T
1 T
43712165 TTGATAACAT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
41 5 0.07
42 27 0.38
43 10 0.14
44 26 0.37
45 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATA
Found at i:43719676 original size:43 final size:43
Alignment explanation
Indices: 43719524--43719677 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
43719514 GATTTTGTGG
*
43719524 AAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTAAGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTAAGTGT
* * * **
43719568 AAGACCATGTCTGGGACATTGGCATCG-TATATGATTTCGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAAGTGT
*
43719610 ATGACC-C-TGCTTGGGACAG-TGGCATCGATATTTGA-TAAGATGT
1 AAGACCACGT-C-TGGGAC-GTTGGCATCGATATTTGATTAAG-TGT
*
43719653 AAGACCACATCTGGGACGTTGGCAT
1 AAGACCACGTCTGGGACGTTGGCAT
43719678 TGTACGAGTT
Statistics
Matches: 88, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 28 0.32
43 29 0.33
44 28 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
AAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAAGTGT
Found at i:43722063 original size:50 final size:48
Alignment explanation
Indices: 43721951--43722181 Score: 237
Period size: 50 Copynumber: 4.7 Consensus size: 48
43721941 CTGGTACGCA
* * * *
43721951 TAGTAGCTTGTACTTAGTACCACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTAT-CGATACACG
* **
43722000 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATC-GATACACG
* * * *
43722050 TAGTAGCCTGCACTTAGTAATACACATGTGATCGAAGTTATCGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCGA-TACACG
* * * * *
43722101 TAGTAGCCTGCTCTTAGTACTACACATGCGACCAATAATCGGTACGCG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCGATACACG
* * *
43722149 TAGTAGCCTGAACTTAGTACTACATAGGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
43722182 TCACAATAGA
Statistics
Matches: 151, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
48 33 0.22
49 35 0.23
50 47 0.31
51 36 0.24
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCGATACACG
Found at i:43722151 original size:99 final size:99
Alignment explanation
Indices: 43721939--43722181 Score: 276
Period size: 99 Copynumber: 2.5 Consensus size: 99
43721929 AGCCAAAGCT
* * * * *
43721939 ATCTGGTACGCATAGTAGCTTGTACTTAGTACCACACATGTGACCAATTATCCGGTACACGTAGT
1 ATCTGGTACGCGTAGTAGCCTGAACTTAGTACTACACATGTGACCAATTATCCGGTACACATAGT
* *
43722004 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACCTAACA
* * * * * *
43722038 ATCTGATACACGTAGTAGCCTGCACTTAGTAATACACATGTGATCGAAGTTAT-CGAGTACGCAT
1 ATCTGGTACGCGTAGTAGCCTGAACTTAGTACTACACATGTGA-CCAA-TTATCCG-GTACACAT
* * *
43722102 AGTAGCCTGCTCTTAGTACTACACATGCGACC-AATA
63 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* *
43722138 ATC-GGTACGCGTAGTAGCCTGAACTTAGTACTACATAGGTGACC
1 ATCTGGTACGCGTAGTAGCCTGAACTTAGTACTACACATGTGACC
43722182 TCACAATAGA
Statistics
Matches: 119, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
98 1 0.01
99 69 0.58
100 10 0.08
101 39 0.33
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (99 bp):
ATCTGGTACGCGTAGTAGCCTGAACTTAGTACTACACATGTGACCAATTATCCGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:43727589 original size:51 final size:51
Alignment explanation
Indices: 43727449--43727648 Score: 183
Period size: 50 Copynumber: 4.0 Consensus size: 51
43727439 CTTGTAGCCA
* * *
43727449 AAGTTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCT
1 AAGTTATCTGGTACACATAGTAGACTGCACTTAGTACTACACACGTGACCG
** * ** *
43727500 AA-CCATCTGATACATGTAGTA-ACCTGCACTTAGTACTACACACGTGATCG
1 AAGTTATCTGGTACACATAGTAGA-CTGCACTTAGTACTACACACGTGACCG
* * * *
43727550 AAGTTATCGGGTACGCATAGTAGACTGCACTTAGTACTACACATGCGACC-
1 AAGTTATCTGGTACACATAGTAGACTGCACTTAGTACTACACACGTGACCG
* * * * * * *
43727600 AA-TAACCCGGTACACGTAGTAGCCTGAACTTAGTACTACACATGTGACC
1 AAGTTATCTGGTACACATAGTAGACTGCACTTAGTACTACACACGTGACC
43727649 TCACAATAGA
Statistics
Matches: 119, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
49 39 0.33
50 42 0.35
51 37 0.31
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (51 bp):
AAGTTATCTGGTACACATAGTAGACTGCACTTAGTACTACACACGTGACCG
Found at i:43727631 original size:49 final size:49
Alignment explanation
Indices: 43727458--43727648 Score: 163
Period size: 49 Copynumber: 3.8 Consensus size: 49
43727448 AAAGTTATCT
43727458 GGTACACATAGTAGCCT-ACACTTAGTACTACACACGTGACC--TAACCATC
1 GGTACACATAGTAGCCTGA-ACTTAGTACTACACACGTGACCAATAACC--C
* ** * * * * * *
43727507 TGATACATGTAGTAACCTGCACTTAGTACTACACACGTGATCGAAGTTATCG
1 -GGTACACATAGTAGCCTGAACTTAGTACTACACACGTGA-CCAA-TAACCC
* * * * *
43727559 GGTACGCATAGTAGACTGCACTTAGTACTACACATGCGACCAATAACCC
1 GGTACACATAGTAGCCTGAACTTAGTACTACACACGTGACCAATAACCC
* *
43727608 GGTACACGTAGTAGCCTGAACTTAGTACTACACATGTGACC
1 GGTACACATAGTAGCCTGAACTTAGTACTACACACGTGACC
43727649 TCACAATAGA
Statistics
Matches: 110, Mismatches: 26, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
49 39 0.35
50 36 0.33
51 32 0.29
54 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGAACTTAGTACTACACACGTGACCAATAACCC
Found at i:43737421 original size:49 final size:49
Alignment explanation
Indices: 43737361--43737458 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
43737351 TAAAAGAATA
43737361 ACATTAGTGAAAGTATTATGGCATCGACACGAGGTTGAAGAAGCTATGT
1 ACATTAGTGAAAGTATTATGGCATCGACACGAGGTTGAAGAAGCTATGT
43737410 ACATTAGTGAAAGTATTATGGCATCGACACGAGGTTGAAGAAGCTATGT
1 ACATTAGTGAAAGTATTATGGCATCGACACGAGGTTGAAGAAGCTATGT
43737459 GGGAACCTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.27
Consensus pattern (49 bp):
ACATTAGTGAAAGTATTATGGCATCGACACGAGGTTGAAGAAGCTATGT
Found at i:43738763 original size:46 final size:47
Alignment explanation
Indices: 43738637--43738765 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
43738627 GTACGAATAA
* * *
43738637 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
* *
43738684 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT-ATGGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCA-GAGAGAAGT
*
43738731 TACCTTGA-TTAGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
43738766 TATCAATTGA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
46 27 0.36
47 48 0.64
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:43745555 original size:29 final size:29
Alignment explanation
Indices: 43745513--43745602 Score: 162
Period size: 29 Copynumber: 3.1 Consensus size: 29
43745503 GTGAAGAAGT
*
43745513 TAGCTTCGGTGAATTGATCTATTCAGAGA
1 TAGCTTCGGTGAATCGATCTATTCAGAGA
*
43745542 TAGCTTCGGTGAATCGATCTATTCAAAGA
1 TAGCTTCGGTGAATCGATCTATTCAGAGA
43745571 TAGCTTCGGTGAATCGATCTATTCAGAGA
1 TAGCTTCGGTGAATCGATCTATTCAGAGA
43745600 TAG
1 TAG
43745603 TTAAAGGAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (29 bp):
TAGCTTCGGTGAATCGATCTATTCAGAGA
Found at i:43758634 original size:41 final size:42
Alignment explanation
Indices: 43758543--43758634 Score: 105
Period size: 44 Copynumber: 2.2 Consensus size: 42
43758533 TATTCAGCCA
**
43758543 AAGCTATATCGATATCACACACTTAGTGCTATCACATTGAACCG
1 AAGCTATATCGATATCACACACTTAGTGC--TCACATAAAACCG
* * *
43758587 AAGCTATATCGGTATCGCACACTTAGTGC-CACATAAAATCG
1 AAGCTATATCGATATCACACACTTAGTGCTCACATAAAACCG
*
43758628 ACGCTAT
1 AAGCTAT
43758635 TTCAATTCGC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 15 0.36
44 27 0.64
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (42 bp):
AAGCTATATCGATATCACACACTTAGTGCTCACATAAAACCG
Found at i:43759465 original size:15 final size:15
Alignment explanation
Indices: 43759445--43759475 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43759435 GCCATTAAGA
43759445 TGAATGAATCAAATT
1 TGAATGAATCAAATT
43759460 TGAATGAATCAAATT
1 TGAATGAATCAAATT
43759475 T
1 T
43759476 TGTCTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (15 bp):
TGAATGAATCAAATT
Found at i:43767154 original size:21 final size:21
Alignment explanation
Indices: 43767116--43767155 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43767106 TACAACACGG
*
43767116 GTGTGTCCTATGATCATACGA
1 GTGTGTCCTATGACCATACGA
43767137 GTGTGTCCCT-TGACCATAC
1 GTGTGT-CCTATGACCATAC
43767156 AGGCGTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (21 bp):
GTGTGTCCTATGACCATACGA
Found at i:43770639 original size:47 final size:47
Alignment explanation
Indices: 43770573--43770997 Score: 710
Period size: 47 Copynumber: 9.1 Consensus size: 47
43770563 GAAATGATAG
43770573 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
43770620 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
43770667 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
43770714 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43770761 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
43770808 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43770854 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43770901 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
43770947 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43770994 TAAG
1 TAAG
43770998 TCCCGAAGGG
Statistics
Matches: 359, Mismatches: 17, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
46 85 0.24
47 274 0.76
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:43771171 original size:36 final size:37
Alignment explanation
Indices: 43771116--43771193 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
43771106 CCGAGCTCTA
* *
43771116 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43771152 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43771189 AAGAC
1 AAGAC
43771194 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43773093 original size:43 final size:43
Alignment explanation
Indices: 43773046--43773191 Score: 292
Period size: 43 Copynumber: 3.4 Consensus size: 43
43773036 TTGGTTTTCA
43773046 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43773089 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43773132 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43773175 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
43773192 TTGAAATGCA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:43773208 original size:29 final size:29
Alignment explanation
Indices: 43773173--43773246 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
43773163 GTTGTGAGAT
* *
43773173 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
43773202 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43773231 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43773247 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43773679 original size:40 final size:40
Alignment explanation
Indices: 43773556--43773712 Score: 131
Period size: 40 Copynumber: 3.9 Consensus size: 40
43773546 TCGAATGATG
* *
43773556 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCT-AGTGACTATA
** * * * *
43773596 TCCGAACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCTAGTGACTATA
*
43773636 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATA
* * * * *
43773676 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGAC
43773713 GTGTATTCGG
Statistics
Matches: 93, Mismatches: 19, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 1 0.01
40 72 0.77
41 20 0.22
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACTATA
Found at i:43774685 original size:40 final size:39
Alignment explanation
Indices: 43774630--43774723 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 39
43774620 CAAATATGAT
*
43774630 GGCTAAGTCCCGAAGGCATTTGTACGAGTTATTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
* *
43774669 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC
1 -GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
*
43774709 GGCTAAATCCCGAAG
1 GGCTAAGTCCCGAAG
43774724 ATACTTGGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.28
40 36 0.72
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
Found at i:43776925 original size:15 final size:15
Alignment explanation
Indices: 43776905--43776934 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43776895 CACCTTGAGT
43776905 ACATTTCATCATATA
1 ACATTTCATCATATA
43776920 ACATTTCATCATATA
1 ACATTTCATCATATA
43776935 CATATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (15 bp):
ACATTTCATCATATA
Found at i:43778427 original size:7 final size:7
Alignment explanation
Indices: 43778415--43778447 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
43778405 TATACGTGCG
43778415 TAATTAA
1 TAATTAA
43778422 TAATTAA
1 TAATTAA
43778429 TAATTAA
1 TAATTAA
*
43778436 TAA-AAA
1 TAATTAA
43778442 TAATTA
1 TAATTA
43778448 TGTTATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TAATTAA
Found at i:43779684 original size:55 final size:53
Alignment explanation
Indices: 43779605--43779843 Score: 202
Period size: 55 Copynumber: 4.5 Consensus size: 53
43779595 TTAAGGATAC
* * * * *
43779605 CATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAAT
1 CATGTAAGACCATGTCAAGACATGG-CATTGATAA-GTTTCTAAGGCAAGAATAT
* * *
43779660 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAA-AGGTCT
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTT--TCTAAGGCAAGA-ATAT
* * * * *
43779715 CATGTAAGACCATGTCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTC-TAAGGCAAGAATAT
* * * *
43779768 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---AAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTAAGGCAAGAATAT
* * *
43779817 CACGTAAGACCATGACAAGTCATGGCA
1 CATGTAAGACCATGTCAAGACATGGCA
43779844 ATGGTAAGGT
Statistics
Matches: 156, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 32 0.21
52 3 0.02
53 44 0.28
54 12 0.08
55 65 0.42
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTAAGGCAAGAATAT
Found at i:43779803 original size:108 final size:110
Alignment explanation
Indices: 43779605--43779804 Score: 280
Period size: 108 Copynumber: 1.8 Consensus size: 110
43779595 TTAAGGATAC
*
43779605 CATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAACCATGTAAGAC
*
43779670 CATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCT
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
* * * * * * *
43779715 CATGTAAGACCATGTCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTC-TAAGGCAAGAAAACCATGTAAGA
*
43779777 CCATGTCAAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
43779805 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 5 0.06
110 24 0.30
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGAAACTGATAAGGTTTCTAAGGCAAGAAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
Found at i:43779955 original size:23 final size:24
Alignment explanation
Indices: 43779925--43779972 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
43779915 AAGGTAAGGT
*
43779925 AAGGTAAGACGAGTT-ATACTAAA
1 AAGGTAAGACAAGTTCATACTAAA
*
43779948 AAGGTAAGACAAGTTCATGCTAAA
1 AAGGTAAGACAAGTTCATACTAAA
43779972 A
1 A
43779973 GAGCAAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATACTAAA
Found at i:43780069 original size:16 final size:16
Alignment explanation
Indices: 43780048--43780078 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43780038 ATAAATTTGA
43780048 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
43780064 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
43780079 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:43785813 original size:46 final size:46
Alignment explanation
Indices: 43785757--43785932 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43785747 TGGTTGAGCA
43785757 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
43785803 TTCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
43785848 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
43785896 CCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43785933 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43785913 original size:93 final size:93
Alignment explanation
Indices: 43785754--43785924 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
43785744 GGATGGTTGA
* **
43785754 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
43785819 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43785847 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43785912 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43785925 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43788564 original size:46 final size:46
Alignment explanation
Indices: 43788460--43788633 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
43788450 AGATTTGTGT
* * * * *
43788460 GCCAGTGTAAGACCATGTATGGGACATGGCATC-GGCATTGAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGATGAGA
*
43788508 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAG-ATGAGA
* * * **
43788554 GCCAGTGTAAGACATGTTTGGGACATGCATCTGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGA
* * *
43788600 GCCAATGTCAGACATGTCTGGGACATGCGTCAGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC
43788634 ATGGTTACAA
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 2 0.02
46 75 0.71
47 18 0.17
48 11 0.10
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGA
Found at i:43793676 original size:40 final size:40
Alignment explanation
Indices: 43793586--43793777 Score: 178
Period size: 40 Copynumber: 4.8 Consensus size: 40
43793576 TTGAATGATG
* * * *
43793586 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGA-T-ACTAAA
* *
43793626 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGATACTAAA
* * *
43793666 TCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTAAA
* *
43793706 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGA-TACTA-AA
* * *
43793747 -CCGGGCTATGTCCCGAAGGTATTTGAACGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAG
43793778 GAGCTATATC
Statistics
Matches: 126, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.01
40 113 0.90
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTAAA
Found at i:43793723 original size:80 final size:81
Alignment explanation
Indices: 43793587--43793771 Score: 209
Period size: 80 Copynumber: 2.3 Consensus size: 81
43793577 TGAATGATGT
*
43793587 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
43793651 GTACGAGA-TACTA-ATT
66 GTACGA-ATTACTATA-A
* * * * **
43793667 CTGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
43793730 TGTGCGAATTACTATAA
65 TGTACGAATTACTATAA
* *
43793747 CCGGGCTATGTCCCGAAGGTATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43793772 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
79 2 0.02
80 79 0.89
81 8 0.09
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAATTACTATAA
Found at i:43795202 original size:46 final size:46
Alignment explanation
Indices: 43795150--43795325 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
43795140 TGGTTGAGCA
*
43795150 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAACG
* * * ** ** * * *
43795196 TTCGAACTCGTTGAGTTGAGTCTGAGTTCGCGAGAT-GTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TTATGGTTGCGA-ACG
* *
43795243 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAACG
* *
43795289 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43795326 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 71 0.69
47 32 0.31
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAACG
Found at i:43795306 original size:93 final size:93
Alignment explanation
Indices: 43795147--43795317 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
43795137 GGATGGTTGA
* * **
43795147 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
43795212 TGAGTCTGAGTTCGCGAGATGTAACTAG
66 TGAGTCCGAGTTCGCGAGATGTAACTAG
* *
43795240 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43795305 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43795318 ACTTATGGGC
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:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGCGAGATGTAACTAG
Done.