Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 8 of 143
Found at i:2434290 original size:42 final size:42
Alignment explanation
Indices: 2434193--2434357 Score: 140
Period size: 42 Copynumber: 3.9 Consensus size: 42
2434183 CACCATACGG
* * * * *
2434193 CCACTCTTCACCCCCATCAGTACACTCACTATCACCACCCGT
1 CCACACTTCACCCTCATCAGTAGACTCACCACCACCACCCGT
* * *
2434235 CCACTCCTCACCCTCATCAGTGGACTCACCACCACCACCCGT
1 CCACACTTCACCCTCATCAGTAGACTCACCACCACCACCCGT
* * * * *
2434277 CCACACTTCACCCTCAAT-AGTGGACACACAACCA-TATCCCAT
1 CCACACTTCACCCTC-ATCAGTAGACTCACCACCACCA-CCCGT
*
2434319 CAACA-TCTCACCCTCA-CTAGTAGACTCACCACCACCACC
1 CCACACT-TCACCCTCATC-AGTAGACTCACCACCACCACC
2434358 ACCTGTCCAC
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 3 0.03
42 94 0.94
43 3 0.03
ACGTcount: A:0.27, C:0.48, G:0.07, T:0.18
Consensus pattern (42 bp):
CCACACTTCACCCTCATCAGTAGACTCACCACCACCACCCGT
Found at i:2434512 original size:45 final size:45
Alignment explanation
Indices: 2434453--2434552 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
2434443 CCAATGCACA
* * * * * * *
2434453 CACCAGCACCATCCGTCTACTTCTCACCCTCACCAGTGGATTCAT
1 CACCACCACTATCCGTCCACTCCACACCCTCACCAGTGGACTCAC
*
2434498 CACCACCACTATCCGTCCACTCCACACCCTCACTAGTGGACTCAC
1 CACCACCACTATCCGTCCACTCCACACCCTCACCAGTGGACTCAC
2434543 CACCACCACT
1 CACCACCACT
2434553 CGTCCACTCC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.24, C:0.47, G:0.09, T:0.20
Consensus pattern (45 bp):
CACCACCACTATCCGTCCACTCCACACCCTCACCAGTGGACTCAC
Found at i:2434610 original size:84 final size:82
Alignment explanation
Indices: 2434499--2434652 Score: 197
Period size: 84 Copynumber: 1.9 Consensus size: 82
2434489 TGGATTCATC
* *
2434499 ACCACCACTATCCGTCCACTCCACACCCTC-ACTAGTGG-ACTCACCACCACCA-CTCGTCCACT
1 ACCAACACTATCCGTCCACACCACACCC-CAACTAG-GGCACTCACCACCACCATC-CGTCCAC-
2434561 CCCCACACCCATCAGAGCGCTT
62 CCCCA-ACCCATCAGAGCGCTT
* * *
2434583 ACCAACACTTTCCGTCCACACCCCACCCCAACTAGGGCACTCACCATCACCATCCGTCCACCCCC
1 ACCAACACTATCCGTCCACACCACACCCCAACTAGGGCACTCACCACCACCATCCGTCCACCCCC
2434648 AACCC
66 AACCC
2434653 CTACAAGTGC
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
82 4 0.06
83 8 0.13
84 49 0.79
85 1 0.02
ACGTcount: A:0.25, C:0.52, G:0.08, T:0.15
Consensus pattern (82 bp):
ACCAACACTATCCGTCCACACCACACCCCAACTAGGGCACTCACCACCACCATCCGTCCACCCCC
AACCCATCAGAGCGCTT
Found at i:2434639 original size:42 final size:42
Alignment explanation
Indices: 2434497--2434672 Score: 137
Period size: 42 Copynumber: 4.2 Consensus size: 42
2434487 AGTGGATTCA
* *
2434497 TCACCACCACTATCCGTCCACTCCACACCCTC-ACTAGTGG-AC
1 TCACCACCACCATCCGTCCACTCCCCACCC-CAACTAG-GGCAC
* * *
2434539 TCACCACCACCA-CTCGTCCACTCCCCACACCCATC-AGAGCGC
1 TCACCACCACCATC-CGTCCACTCCCCAC-CCCAACTAGGGCAC
* * ** *
2434581 TTACCAACACTTTCCGTCCACACCCCACCCCAACTAGGGCAC
1 TCACCACCACCATCCGTCCACTCCCCACCCCAACTAGGGCAC
* * * *
2434623 TCACCATCACCATCCGTCCAC-CCCCAACCCCTACAAGTGCAC
1 TCACCACCACCATCCGTCCACTCCCC-ACCCCAACTAGGGCAC
*
2434665 TCTCCACC
1 TCACCACC
2434673 CGCACCAATA
Statistics
Matches: 105, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
41 11 0.10
42 90 0.86
43 4 0.04
ACGTcount: A:0.24, C:0.51, G:0.09, T:0.16
Consensus pattern (42 bp):
TCACCACCACCATCCGTCCACTCCCCACCCCAACTAGGGCAC
Found at i:2435066 original size:42 final size:42
Alignment explanation
Indices: 2434766--2435328 Score: 255
Period size: 42 Copynumber: 13.4 Consensus size: 42
2434756 CTCAATCAAC
* * * * * *
2434766 GCACTCTCCACCACTACTCGTCCACCCCTCACACTCACCAGT
1 GCACTCACAACCACCACCCGTCCACTCCTCACCCTCACCAGT
* * * * * * *
2434808 GGACTCACCACAACCACCCGTCCACTCATCACCAAT-ACTAGA
1 GCACTCACAACCACCACCCGTCCACTCCTCACC-CTCACCAGT
* * ** * *
2434850 GCACTCAGAACCGCCAATCGTCCACTCCTCACCAC-GACTAGAT
1 GCACTCACAACCACCACCCGTCCACTCCTCACC-CTCACCAG-T
* * * * * * *
2434893 -CATTCACCACCACCACTCGTCCATTCTTCACCCCCACCAGA
1 GCACTCACAACCACCACCCGTCCACTCCTCACCCTCACCAGT
* * * * * * * * * **
2434934 GCATTTACCACCACTACCCGTCCAATCTTCATCCACACAAAA
1 GCACTCACAACCACCACCCGTCCACTCCTCACCCTCACCAGT
** **
2434976 GCACTCACAACCACCACTTGTCCACTCCTCACCC-CAACCAAA
1 GCACTCACAACCACCACCCGTCCACTCCTCACCCTC-ACCAGT
** * * *
2435018 ATACTCAGAACCACCACCCGTCCAATCCTCACCCTCACTAGT
1 GCACTCACAACCACCACCCGTCCACTCCTCACCCTCACCAGT
* * * * * *
2435060 TCACTCACAACCACCACCAGCCCACTCTTTAACCTCACCAGT
1 GCACTCACAACCACCACCCGTCCACTCCTCACCCTCACCAGT
*
2435102 GCACTTACAACCACCACCCGTCCACTCCTCACCC-CAACTACAGT
1 GCACTCACAACCACCACCCGTCCACTCCTCACCCTC-AC--CAGT
* * * * ** * **
2435146 --ATTCACCACCGCCATCCGAT-CACTTTTCACTCTCACCAAA
1 GCACTCACAACCACCACCCG-TCCACTCCTCACCCTCACCAGT
* * * ** *
2435186 GCACTCAGAAACACCACCTGTCCACAGCTCAACCC-AACCAGT
1 GCACTCACAACCACCACCCGTCCACTCCTC-ACCCTCACCAGT
* * * * * *
2435228 GCGCTCACAACCACCACCCGTCCAGTTCTCACCCCCACTAGA
1 GCACTCACAACCACCACCCGTCCACTCCTCACCCTCACCAGT
* * * *
2435270 GCACTCAGAACCACCTCCCGTCGACTCCTCACCC-CAAGCAGT
1 GCACTCACAACCACCACCCGTCCACTCCTCACCCTC-ACCAGT
*
2435312 ACACTCACAACCACCAC
1 GCACTCACAACCACCAC
2435329 ATGTCTACTC
Statistics
Matches: 382, Mismatches: 121, Indels: 36
0.71 0.22 0.07
Matches are distributed among these distances:
40 2 0.01
41 9 0.02
42 360 0.94
43 7 0.02
44 4 0.01
ACGTcount: A:0.28, C:0.47, G:0.08, T:0.17
Consensus pattern (42 bp):
GCACTCACAACCACCACCCGTCCACTCCTCACCCTCACCAGT
Found at i:2435387 original size:42 final size:42
Alignment explanation
Indices: 2435335--2436042 Score: 206
Period size: 42 Copynumber: 16.9 Consensus size: 42
2435325 CCACATGTCT
*
2435335 ACTCAACACCACCACAT-GTCCTCTCCTCACCCCCACCAATGC
1 ACTCAACACCACCAC-TCGTCCACTCCTCACCCCCACCAATGC
* * ** *
2435377 ACTCAACACCACCACTCGTCCACTCTTCATCCATACCAGTGC
1 ACTCAACACCACCACTCGTCCACTCCTCACCCCCACCAATGC
* * *
2435419 ACTCAACACCATCACTCGTTCACTCCCCACCCCCACCCCCACCAGTGC
1 ACTCAACACCACCACTCGTCCACTCCTCACCCCCA---CCA--A-TGC
* * * * ** * *
2435467 ACTCACCACCACCACCCGCCCACTCCCCACCATCACTATTGC
1 ACTCAACACCACCACTCGTCCACTCCTCACCCCCACCAATGC
* * *
2435509 ACTC-ACA--A-C-C-CATCCACTCCTCACCCCAACCAGA-AC
1 ACTCAACACCACCACTCGTCCACTCCTCACCCCCACCA-ATGC
* * *
2435545 ACTC-ACAATCACCACCCGTCCACTCCTCACCCCAACCAGA-GC
1 ACTCAAC-ACCACCACTCGTCCACTCCTCACCCCCACCA-ATGC
* * * * * * * *
2435587 ACTCAGA-ACAACCACTTGTCCACTCCACATCCTCGCTAGTGC
1 ACTCA-ACACCACCACTCGTCCACTCCTCACCCCCACCAATGC
* * * * * * * *
2435629 ACTC-ACAACCACTACCTAGT-GATTCCTCACCTCCATCAGTAC
1 ACTCAAC-ACCACCA-CTCGTCCACTCCTCACCCCCACCAATGC
* * **
2435671 ACTC-ACAACAACTA-TCAGTCCACTCCTCAAGCCCACCAGA-GC
1 ACTCAAC-ACCACCACTC-GTCCACTCCTCACCCCCACCA-ATGC
* * *
2435713 ACTCAAAACCATCAC-CTGTCCACTCGC-CACCCCAACCAGA-GC
1 ACTCAACACCACCACTC-GTCCACTC-CTCACCCCCACCA-ATGC
* * * *
2435755 ACTCAAAACCACCAACT-GTCCACT-TTACACCCCTACCAGTGC
1 ACTCAACACCACC-ACTCGTCCACTCCT-CACCCCCACCAATGC
* * * *
2435797 ACTC-ACAACCACTAC-CTGGCCACTCTTCACCCTCACC-A-GC
1 ACTCAAC-ACCACCACTC-GTCCACTCCTCACCCCCACCAATGC
* * * *
2435837 ACATTC-ACAACCACCACCCGTGCACTCTTCACCTCCACCAGA-GC
1 AC--TCAAC-ACCACCACTCGTCCACTCCTCACCCCCACCA-ATGC
* * * ** *
2435881 ACTTAGA-ACTACCACTCGTCCATTTATCACCCCCACCAGA-GT
1 ACTCA-ACACCACCACTCGTCCACTCCTCACCCCCACCA-ATGC
** * * *
2435923 ACTCAGA-AAAACCACTCGTCCATTCCTCACCTCCACGAGA-GC
1 ACTCA-ACACCACCACTCGTCCACTCCTCACCCCCACCA-ATGC
* * *
2435965 ACTCAGA-ACCACCA-TCCGTCCACTCTTCACCCCCACTAGTGC
1 ACTCA-ACACCACCACT-CGTCCACTCCTCACCCCCACCAATGC
* *
2436007 ACTC-ACAACCACCACTCGCCCACTCCTTACCCCCAC
1 ACTCAAC-ACCACCACTCGTCCACTCCTCACCCCCAC
2436043 TACCCGTCTA
Statistics
Matches: 500, Mismatches: 119, Indels: 94
0.70 0.17 0.13
Matches are distributed among these distances:
36 22 0.04
37 2 0.00
38 1 0.00
39 2 0.00
40 8 0.02
41 10 0.02
42 400 0.80
43 12 0.02
44 7 0.01
45 5 0.01
48 31 0.06
ACGTcount: A:0.28, C:0.48, G:0.08, T:0.17
Consensus pattern (42 bp):
ACTCAACACCACCACTCGTCCACTCCTCACCCCCACCAATGC
Found at i:2435442 original size:21 final size:21
Alignment explanation
Indices: 2435376--2435443 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
2435366 CCCACCAATG
*
2435376 CACTCAACACCACCACTCGTC
1 CACTCAACACCATCACTCGTC
** *
2435397 CACTCTTCATCCAT-AC-CAGTG
1 CACTCAACA-CCATCACTC-GTC
*
2435418 CACTCAACACCATCACTCGTT
1 CACTCAACACCATCACTCGTC
2435439 CACTC
1 CACTC
2435444 CCCACCCCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
20 5 0.14
21 27 0.75
22 4 0.11
ACGTcount: A:0.26, C:0.46, G:0.06, T:0.22
Consensus pattern (21 bp):
CACTCAACACCATCACTCGTC
Found at i:2435547 original size:21 final size:21
Alignment explanation
Indices: 2435523--2435590 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
2435513 ACAACCCATC
2435523 CACTCCTCACCCCAACCAGAA
1 CACTCCTCACCCCAACCAGAA
* **
2435544 CACTCACAATCA--CC-ACCCGTC
1 CACTC-C--TCACCCCAACCAGAA
*
2435565 CACTCCTCACCCCAACCAGAG
1 CACTCCTCACCCCAACCAGAA
2435586 CACTC
1 CACTC
2435591 AGAACAACCA
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 3 0.09
20 3 0.09
21 23 0.66
22 3 0.09
24 3 0.09
ACGTcount: A:0.29, C:0.53, G:0.06, T:0.12
Consensus pattern (21 bp):
CACTCCTCACCCCAACCAGAA
Found at i:2435847 original size:168 final size:168
Alignment explanation
Indices: 2435521--2435953 Score: 396
Period size: 168 Copynumber: 2.6 Consensus size: 168
2435511 TCACAACCCA
* *
2435521 TCCACTCCTCACCCCAACCAGAACACTCACAATCACCACCCGTCCACTCCTCACCCCAACCAGAG
1 TCCACTCCTCACCCCAACCAGAACACTCAAAACCACCACCCGTCCACTCCTCACCCCAACCAGAG
* * **
2435586 CACTCAGAACAACCACTTGTCCACTCCACATCCTCGCTAGTGCACTCACAACCACTACCTAGTGA
66 CACTCAAAACAACCACTTGTCCACTCCACACCCTCGCTAGTGCACTCACAACCACTACCTAGCCA
* * *
2435651 TTCCTCACCTCCATCAGTACACTCACAACAACTATCAG
131 CTCCTCACCTCCACCAGCACACTCACAACAACTATCAG
* * * *
2435689 TCCACTCCTCAAGCCC-ACCAGAGCACTCAAAACCATCACCTGTCCACTCGC-CACCCCAACCAG
1 TCCACTCCTC-ACCCCAACCAGAACACTCAAAACCACCACCCGTCCACTC-CTCACCCCAACCAG
* **
2435752 AGCACTCAAAACCACCAAC-TGTCCACTTTACACCCCTAC-C-AGTGCACTCACAACCACTACCT
64 AGCACTCAAAACAACC-ACTTGTCCACTCCACA-CCCT-CGCTAGTGCACTCACAACCACTACCT
* * * * * * *
2435814 GGCCACTCTTCACC-CTCACCAGCACATTCACAACCACCACCCG
126 AGCCACTCCTCACCTC-CACCAGCACACTCACAACAACTATCAG
* * * * * * * * ** *
2435857 TGCACTCTTCACCTCC-ACCAGAGCACTTAGAACTACCACTCGTCCATTTATCACCCCCACCAGA
1 TCCACTCCTCACC-CCAACCAGAACACTCAAAACCACCACCCGTCCACTCCTCACCCCAACCAGA
* * * *
2435921 GTACTCAGAAA-AACCACTCGTCCATTCCTCACC
65 GCACTCA-AAACAACCACTTGTCCACTCCACACC
2435954 TCCACGAGAG
Statistics
Matches: 212, Mismatches: 43, Indels: 21
0.77 0.16 0.08
Matches are distributed among these distances:
167 7 0.03
168 190 0.90
169 14 0.07
170 1 0.00
ACGTcount: A:0.29, C:0.45, G:0.08, T:0.18
Consensus pattern (168 bp):
TCCACTCCTCACCCCAACCAGAACACTCAAAACCACCACCCGTCCACTCCTCACCCCAACCAGAG
CACTCAAAACAACCACTTGTCCACTCCACACCCTCGCTAGTGCACTCACAACCACTACCTAGCCA
CTCCTCACCTCCACCAGCACACTCACAACAACTATCAG
Found at i:2436044 original size:42 final size:42
Alignment explanation
Indices: 2435452--2436042 Score: 359
Period size: 42 Copynumber: 14.2 Consensus size: 42
2435442 TCCCCACCCC
* * * * *
2435452 CACCCCCACCAGTGCACTCACCACCACCACCCGCCCACTCCC
1 CACCCCCACCAGAGCACTCACAACCACCACTCGTCCACTCCT
** * **
2435494 CACCATCACTATTGCACTCACAA-C-CCA----TCCACTCCT
1 CACCCCCACCAGAGCACTCACAACCACCACTCGTCCACTCCT
* * * *
2435530 CACCCCAACCAGAACACTCACAATCACCACCCGTCCACTCCT
1 CACCCCCACCAGAGCACTCACAACCACCACTCGTCCACTCCT
* * * * *
2435572 CACCCCAACCAGAGCACTCAGAACAACCACTTGTCCACTCCA
1 CACCCCCACCAGAGCACTCACAACCACCACTCGTCCACTCCT
* * * * * * * * *
2435614 CATCCTCGCTAGTGCACTCACAACCACTACCTAGT-GATTCCT
1 CACCCCCACCAGAGCACTCACAACCACCA-CTCGTCCACTCCT
* * * *
2435656 CACCTCCATCAGTA-CACTCACAACAACTA-TCAGTCCACTCCT
1 CACCCCCACCAG-AGCACTCACAACCACCACTC-GTCCACTCCT
** * *
2435698 CAAGCCCACCAGAGCACTCAAAACCATCAC-CTGTCCACTCGC-
1 CACCCCCACCAGAGCACTCACAACCACCACTC-GTCCACTC-CT
* * *
2435740 CACCCCAACCAGAGCACTCAAAACCACCAACT-GTCCACT-TT
1 CACCCCCACCAGAGCACTCACAACCACC-ACTCGTCCACTCCT
* * * * *
2435781 ACACCCCTACCAGTGCACTCACAACCACTAC-CTGGCCACTCTT
1 -CACCCCCACCAGAGCACTCACAACCACCACTC-GTCCACTCCT
* * * * *
2435824 CACCCTCACCAGCA-CATTCACAACCACCACCCGTGCACTCTT
1 CACCCCCACCAG-AGCACTCACAACCACCACTCGTCCACTCCT
* * * * * **
2435866 CACCTCCACCAGAGCACTTAGAACTACCACTCGTCCATTTAT
1 CACCCCCACCAGAGCACTCACAACCACCACTCGTCCACTCCT
* * ** *
2435908 CACCCCCACCAGAGTACTCAGAAAAACCACTCGTCCATTCCT
1 CACCCCCACCAGAGCACTCACAACCACCACTCGTCCACTCCT
* * * *
2435950 CACCTCCACGAGAGCACTCAGAACCACCA-TCCGTCCACTCTT
1 CACCCCCACCAGAGCACTCACAACCACCACT-CGTCCACTCCT
* * *
2435992 CACCCCCACTAGTGCACTCACAACCACCACTCGCCCACTCCT
1 CACCCCCACCAGAGCACTCACAACCACCACTCGTCCACTCCT
*
2436034 TACCCCCAC
1 CACCCCCAC
2436043 TACCCGTCTA
Statistics
Matches: 421, Mismatches: 103, Indels: 50
0.73 0.18 0.09
Matches are distributed among these distances:
36 23 0.05
37 1 0.00
38 3 0.01
40 4 0.01
41 8 0.02
42 371 0.88
43 11 0.03
ACGTcount: A:0.28, C:0.47, G:0.08, T:0.17
Consensus pattern (42 bp):
CACCCCCACCAGAGCACTCACAACCACCACTCGTCCACTCCT
Found at i:2436146 original size:42 final size:40
Alignment explanation
Indices: 2436091--2436252 Score: 128
Period size: 42 Copynumber: 3.9 Consensus size: 40
2436081 CCACACTTCA
* *
2436091 TCCACTCCACACCCCAATCAGAGCACTCAGAACCACTACTCG
1 TCCACTCCTCACCCC-A-CAGAGCACTCAAAACCACTACTCG
* * *
2436133 TCCATTCCTCACCCTCACAAGAGCACTCAAAACAACCACTCG
1 TCCACTCCTCACCC-CAC-AGAGCACTCAAAACCACTACTCG
* * * *
2436175 TCCATTCTTTACCTCCACAAGAGCATTCAAAACCA-TCACTCG
1 TCCACTCCTCACC-CCAC-AGAGCACTCAAAACCACT-ACTCG
* * *
2436217 TCCACTCTTCACCTCAACCAGAGCACTCACAACCAC
1 TCCACTCCTCACC-CCA-CAGAGCACTCAAAACCAC
2436253 CACTAAACTA
Statistics
Matches: 99, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 95 0.96
43 3 0.03
ACGTcount: A:0.31, C:0.43, G:0.07, T:0.19
Consensus pattern (40 bp):
TCCACTCCTCACCCCACAGAGCACTCAAAACCACTACTCG
Found at i:2436394 original size:126 final size:125
Alignment explanation
Indices: 2436091--2436409 Score: 288
Period size: 126 Copynumber: 2.5 Consensus size: 125
2436081 CCACACTTCA
** * * * * *
2436091 TCCACTCCACACCCCAATCAGAGCACTCAGAACCACTACTCGTCCATTCCTCACCCTCACAAGAG
1 TCCACTCTTCACCTCAACCAGAGCACTCAGAACCACCAC-CTTCCATTCCTCACCCCCACAAGAG
* * * * * * *
2436156 CACTCAAAACAACCACTCGTCCATTCTTTACCTCCACAAGAGCATTCAAAACCATCACTCG
65 CACTCAAAACAACAACCCGTCCACTCTTCAACTCCACAAGAGCACTCAAAACCACCACTCG
* * * * *
2436217 TCCACTCTTCACCTCAACCAGAGCACTCACAACCACCA-CTAAACTACTCCTCACCCCCACCAAT
1 TCCACTCTTCACCTCAACCAGAGCACTCAGAACCACCACCT--TCCATTCCTCACCCCCA-CAAG
* * *
2436281 A-CACTCACTAAC-ACAACCCGTCCACTCTTCAACTCTACCAGAGCACTCAAAACCACCAC-CTG
63 AGCACTCA-AAACAACAACCCGTCCACTCTTCAACTCCACAAGAGCACTCAAAACCACCACTC-G
* * * * *
2436343 TACTA-TCTTCACCTCTACCAGAACACTCAGAACCACCAACCTTCCATTCCTCACCCCAACTAGA
1 T-CCACTCTTCACCTCAACCAGAGCACTCAGAACCACC-ACCTTCCATTCCTCACCCCCACAAGA
2436407 GCA
64 GCA
2436410 TTCAGAACCA
Statistics
Matches: 152, Mismatches: 32, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
124 1 0.01
125 4 0.03
126 135 0.89
127 10 0.07
128 2 0.01
ACGTcount: A:0.32, C:0.43, G:0.06, T:0.18
Consensus pattern (125 bp):
TCCACTCTTCACCTCAACCAGAGCACTCAGAACCACCACCTTCCATTCCTCACCCCCACAAGAGC
ACTCAAAACAACAACCCGTCCACTCTTCAACTCCACAAGAGCACTCAAAACCACCACTCG
Found at i:2436397 original size:42 final size:42
Alignment explanation
Indices: 2436315--2436455 Score: 135
Period size: 42 Copynumber: 3.4 Consensus size: 42
2436305 CTCTTCAACT
* * * *
2436315 CTACCAGAGCACTCAAAACCACC-ACCTGTAC-TATCTTCACCT
1 CTACCAGAGCACTCAGAACCACCAACCT-TCCAT-TCCTCACCC
*
2436357 CTACCAGAACACTCAGAACCACCAACCTTCCATTCCTCACCC
1 CTACCAGAGCACTCAGAACCACCAACCTTCCATTCCTCACCC
* * * * *
2436399 CAACTAGAGCATTCAGAACCATCACACC-TCCACTCCTCACCC
1 CTACCAGAGCACTCAGAACCACCA-ACCTTCCATTCCTCACCC
*
2436441 CTACCAGTGCACTCA
1 CTACCAGAGCACTCA
2436456 CCTCCACCAC
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 73 0.90
43 8 0.10
ACGTcount: A:0.30, C:0.44, G:0.07, T:0.18
Consensus pattern (42 bp):
CTACCAGAGCACTCAGAACCACCAACCTTCCATTCCTCACCC
Found at i:2436502 original size:21 final size:21
Alignment explanation
Indices: 2436478--2436523 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2436468 ATCCGCTTTT
*
2436478 CACCCCCACCAGTACACTCAC
1 CACCACCACCAGTACACTCAC
* * *
2436499 CACCACCACCCGTCCACTCCC
1 CACCACCACCAGTACACTCAC
2436520 CACC
1 CACC
2436524 TCCTCTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.63, G:0.04, T:0.09
Consensus pattern (21 bp):
CACCACCACCAGTACACTCAC
Found at i:2436537 original size:21 final size:20
Alignment explanation
Indices: 2436511--2436607 Score: 70
Period size: 21 Copynumber: 4.7 Consensus size: 20
2436501 CCACCACCCG
* *
2436511 TCCACTCCCCACCTCCTCTTA
1 TCCACTCACCACCACCT-TTA
*
2436532 TTCACTCACCACCACCATTTA
1 TCCACTCACCACCACC-TTTA
*
2436553 TCCACTCTCCACC-CCTTTCA
1 TCCACTCACCACCACCTTT-A
* * *
2436573 GTTCACTTACCACCACCTCTCA
1 -TCCACTCACCACCACCT-TTA
*
2436595 TCCACTCCCCACC
1 TCCACTCACCACC
2436608 CTCTCCAGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
19 3 0.05
20 3 0.05
21 47 0.80
22 5 0.08
23 1 0.02
ACGTcount: A:0.20, C:0.53, G:0.01, T:0.27
Consensus pattern (20 bp):
TCCACTCACCACCACCTTTA
Found at i:2436740 original size:24 final size:23
Alignment explanation
Indices: 2436708--2436785 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 23
2436698 AGTTCATTCA
2436708 CCACCCCCACCACCCGTACACTCC
1 CCACCCCCACCACCCGT-CACTCC
2436732 CCACCCCCACCA---GTTCA-T--
1 CCACCCCCACCACCCG-TCACTCC
*
2436750 CCACCACCACCACCCGTCTACTCC
1 CCACCCCCACCACCCGTC-ACTCC
2436774 CCACCCCCACCA
1 CCACCCCCACCA
2436786 ATGTACTCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
18 11 0.25
20 3 0.07
21 5 0.11
22 2 0.05
24 23 0.52
ACGTcount: A:0.22, C:0.64, G:0.04, T:0.10
Consensus pattern (23 bp):
CCACCCCCACCACCCGTCACTCC
Found at i:2436792 original size:21 final size:20
Alignment explanation
Indices: 2436727--2436907 Score: 73
Period size: 21 Copynumber: 8.7 Consensus size: 20
2436717 CCACCCGTAC
2436727 ACTCCCCACCCCCACCA-GT
1 ACTCCCCACCCCCACCATGT
* * * *
2436746 TCATCCACCACCACCACCCGTCT
1 AC-TCC-CCACCCCCA-CCATGT
2436769 ACTCCCCACCCCCACCAATGT
1 ACTCCCCACCCCCACC-ATGT
* *
2436790 ACTCACCACCACCACC-TGT
1 ACTCCCCACCCCCACCATGT
***
2436809 CCACTTTTCACCCCCACCAGTGT
1 --ACTCCCCACCCCCACCA-TGT
* * *
2436832 ACTCACCACCACCACC-CGTT
1 ACTCCCCACCCCCACCATG-T
* * *
2436852 CACTCTCCACCCCTACCAATGC
1 -ACTCCCCACCCCCACC-ATGT
* *
2436874 ACTCTCCACCACCACC-TGT
1 ACTCCCCACCCCCACCATGT
2436893 CCACTCCCCACCCCC
1 --ACTCCCCACCCCC
2436908 TCCGATTCAC
Statistics
Matches: 118, Mismatches: 29, Indels: 28
0.67 0.17 0.16
Matches are distributed among these distances:
19 7 0.06
20 6 0.05
21 94 0.80
22 5 0.04
23 6 0.05
ACGTcount: A:0.22, C:0.57, G:0.05, T:0.17
Consensus pattern (20 bp):
ACTCCCCACCCCCACCATGT
Found at i:2436796 original size:18 final size:18
Alignment explanation
Indices: 2436775--2436845 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
2436765 GTCTACTCCC
*
2436775 CACCCCCACCAATGTACT
1 CACCACCACCAATGTACT
*
2436793 CACCACCACCACCTGTCCACTTTT
1 CACCACCACCA-ATGT--AC---T
* *
2436817 CACCCCCACCAGTGTACT
1 CACCACCACCAATGTACT
2436835 CACCACCACCA
1 CACCACCACCA
2436846 CCCGTTCACT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
18 21 0.50
19 3 0.07
21 4 0.10
23 3 0.07
24 11 0.26
ACGTcount: A:0.25, C:0.52, G:0.06, T:0.17
Consensus pattern (18 bp):
CACCACCACCAATGTACT
Found at i:2436918 original size:21 final size:20
Alignment explanation
Indices: 2436850--2437135 Score: 125
Period size: 21 Copynumber: 13.3 Consensus size: 20
2436840 CCACCACCCG
2436850 TTCACTCTCCA-CCCCTACCAA
1 TTCACTCTCCACCCCCT-CC-A
* * *
2436871 TGCACTCTCCACCACCACC-
1 TTCACTCTCCACCCCCTCCA
*
2436890 TGTCCACTCCCCACCCCCTCCGA
1 T-T-CACTCTCCACCCCCTCC-A
* *
2436913 TTCACTCACCACCACCACCACCA
1 TTCACTCTCCA-C-CC-CCTCCA
*
2436936 CTAGTCCACTCTCAACCCCCTCCA
1 -T--T-CACTCTCCACCCCCTCCA
*
2436960 GTTCACTCACCACCACCAC-CCA
1 -TTCACTCTCCACC-CC-CTCCA
* *
2436982 TCCATTCTCCACCCCCTCCA
1 TTCACTCTCCACCCCCTCCA
* *
2437002 GTTCACTCACCACCACCAC-CCG
1 -TTCACTCTCCACC-CC-CTCCA
*
2437024 TCCACTCTCCACCCCCTCCA
1 TTCACTCTCCACCCCCTCCA
* * *
2437044 GTTCACTCACCA-CCACTACCCG
1 -TTCACTCTCCACCCCCT--CCA
* *
2437066 TCCACTCTCCACCCCCTTCAA
1 TTCACTCTCCACCCCC-TCCA
* *
2437087 TTCACTCACCACCACCACT-CG
1 TTCACTCTCCACC-CC-CTCCA
2437108 TTCACTCTCCACCCCCTCCA
1 TTCACTCTCCACCCCCTCCA
2437128 GTTCACTC
1 -TTCACTC
2437136 ACCCCCACCA
Statistics
Matches: 197, Mismatches: 40, Indels: 56
0.67 0.14 0.19
Matches are distributed among these distances:
19 5 0.03
20 16 0.08
21 123 0.62
22 23 0.12
23 8 0.04
24 11 0.06
25 2 0.01
26 2 0.01
27 7 0.04
ACGTcount: A:0.21, C:0.56, G:0.04, T:0.20
Consensus pattern (20 bp):
TTCACTCTCCACCCCCTCCA
Found at i:2437152 original size:21 final size:21
Alignment explanation
Indices: 2436925--2437188 Score: 136
Period size: 21 Copynumber: 12.6 Consensus size: 21
2436915 CACTCACCAC
* *
2436925 CACCACCACCACTAGTCCACT
1 CACCACCACCACTCGTTCACT
* *
2436946 CTCAACC-CC-CTCCAGTTCACT
1 CACCACCACCACT-C-GTTCACT
* * * *
2436967 CACCACCACCACCCATCCATT
1 CACCACCACCACTCGTTCACT
*
2436988 CTCCACC-CC-CTCCAGTTCACT
1 CACCACCACCACT-C-GTTCACT
* *
2437009 CACCACCACCACCCGTCCACT
1 CACCACCACCACTCGTTCACT
*
2437030 CTCCACC-CC-CTCCAGTTCACT
1 CACCACCACCACT-C-GTTCACT
* * *
2437051 CACCACCACTACCCGTCCACT
1 CACCACCACCACTCGTTCACT
* *
2437072 CTCCACC-CC-CTTCAATTCACT
1 CACCACCACCAC-TC-GTTCACT
2437093 CACCACCACCACTCGTTCACT
1 CACCACCACCACTCGTTCACT
*
2437114 CTCCACC-CC-CTCCAGTTCACT
1 CACCACCACCACT-C-GTTCACT
*
2437135 CACCCCCACCACTCGTTCACT
1 CACCACCACCACTCGTTCACT
* * * *
2437156 CTCTACCCCCAC-CAGTGCACT
1 CACCACCACCACTC-GTTCACT
*
2437177 TACCACCACCAC
1 CACCACCACCAC
2437189 CCATCCATTT
Statistics
Matches: 178, Mismatches: 44, Indels: 42
0.67 0.17 0.16
Matches are distributed among these distances:
19 7 0.04
20 14 0.08
21 136 0.76
22 15 0.08
23 6 0.03
ACGTcount: A:0.21, C:0.56, G:0.04, T:0.19
Consensus pattern (21 bp):
CACCACCACCACTCGTTCACT
Found at i:2437163 original size:24 final size:23
Alignment explanation
Indices: 2437091--2437169 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 23
2437081 CTTCAATTCA
*
2437091 CTCACCACCACCACTCGTTCACT
1 CTCACCCCCACCACTCGTTCACT
*
2437114 CTCCACCCCCTCCA---GTTCA--
1 CT-CACCCCCACCACTCGTTCACT
2437133 CTCACCCCCACCACTCGTTCACT
1 CTCACCCCCACCACTCGTTCACT
2437156 CTCTACCCCCACCA
1 CTC-ACCCCCACCA
2437170 GTGCACTTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
18 10 0.22
19 2 0.04
21 10 0.22
23 5 0.11
24 19 0.41
ACGTcount: A:0.19, C:0.57, G:0.04, T:0.20
Consensus pattern (23 bp):
CTCACCCCCACCACTCGTTCACT
Found at i:2437206 original size:42 final size:42
Alignment explanation
Indices: 2436438--2437195 Score: 711
Period size: 42 Copynumber: 17.8 Consensus size: 42
2436428 CCACTCCTCA
* * * * * * *
2436438 CCCCTACCAGTGCACTCACCTCCACCACTCATCCGCTTTTCAC
1 CCCCT-CCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
* * *
2436481 CCCCACCAGTACACTCACCACCACCACCCGTCCACTCCCCAC
1 CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
* * ****
2436523 CTCCTCTTA-TTCACTCACCACCACCATTTATCCACTCTCCAC
1 CCCCTC-CAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
* * * * * * *
2436565 CCCTTTCAGTTCACTTACCACCACCTCTCATCCACTCCCCAC
1 CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
* * * * * * *
2436607 CCTCTCCAGTTTACTCACCACCATCACTCATCCATTCTTCAC
1 CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
* *
2436649 CCCCTCCAGTTCATTCACCACAACCACCCGTCCACTC-CCAAC
1 CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCC-AC
* * * *
2436691 CCTCTCCAGTTCATTCACCACCCCCACCACCCGTACACTCCCCAC
1 CCCCTCCAGTTCACTCACCA---CCACCACCCGTCCACTCTCCAC
* * *
2436736 CCCCACCAGTTCA-TCCACCACCACCACCCGTCTACTCCCCAC
1 CCCCTCCAGTTCACT-CACCACCACCACCCGTCCACTCTCCAC
* * * * *
2436778 CCCCACCAATGT-ACTCACCACCACCACCTGTCCACTTTTCAC
1 CCCCTCCAGT-TCACTCACCACCACCACCCGTCCACTCTCCAC
* *
2436820 CCCCACCAGTGT-ACTCACCACCACCACCCGTTCACTCTCCA-
1 CCCCTCCAGT-TCACTCACCACCACCACCCGTCCACTCTCCAC
* * * * *
2436861 CCCCTACCAATGCACTCTCCACCACCACCTGTCCACTCCCCAC
1 CCCCT-CCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
*
2436904 CCCCTCC-GATTCACTCACCACCACCACCACCACTAGTCCACTCTCAAC
1 CCCCTCCAG-TTCACT---CACCACCACCACC-C--GTCCACTCTCCAC
* *
2436952 CCCCTCCAGTTCACTCACCACCACCACCCATCCATTCTCCAC
1 CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
2436994 CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
1 CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
*
2437036 CCCCTCCAGTTCACTCACCACCACTACCCGTCCACTCTCCAC
1 CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
* * * *
2437078 CCCCTTCAATTCACTCACCACCACCACTCGTTCACTCTCCAC
1 CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
* * * *
2437120 CCCCTCCAGTTCACTCACCCCCACCACTCGTTCACTCTCTAC
1 CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
* * * *
2437162 CCCCACCAGTGCACTTACCACCACCACCCATCCA
1 CCCCTCCAGTTCACTCACCACCACCACCCGTCCA
2437196 TTTTTCACCC
Statistics
Matches: 595, Mismatches: 99, Indels: 43
0.81 0.13 0.06
Matches are distributed among these distances:
41 6 0.01
42 490 0.82
43 12 0.02
44 2 0.00
45 58 0.10
46 2 0.00
48 24 0.04
49 1 0.00
ACGTcount: A:0.21, C:0.55, G:0.04, T:0.20
Consensus pattern (42 bp):
CCCCTCCAGTTCACTCACCACCACCACCCGTCCACTCTCCAC
Found at i:2437281 original size:21 final size:22
Alignment explanation
Indices: 2437231--2437291 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
2437221 ACACCTTCAC
2437231 CAGTGCACTCACCACCACCACT
1 CAGTGCACTCACCACCACCACT
* *
2437253 C-GTCCACTTACCACC-CCTA-T
1 CAGTGCACTCACCACCACC-ACT
2437273 CAGTGCACTC-CCTACCACC
1 CAGTGCACTCACC-ACCACC
2437292 GTCCATCCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
20 6 0.19
21 22 0.71
22 3 0.10
ACGTcount: A:0.23, C:0.51, G:0.08, T:0.18
Consensus pattern (22 bp):
CAGTGCACTCACCACCACCACT
Found at i:2437282 original size:63 final size:63
Alignment explanation
Indices: 2437165--2437283 Score: 148
Period size: 63 Copynumber: 1.9 Consensus size: 63
2437155 TCTCTACCCC
* * ** *
2437165 CACCAGTGCACTTACCACCACCACCCATCCATTTTTCACCCCAACCCGTCCACTCCACACCTT
1 CACCAGTGCACTCACCACCACCACCCATCCACTTACCACCCCAACCAGTCCACTCCACACCTT
* * * * *
2437228 CACCAGTGCACTCACCACCACCACTCGTCCACTTACCACCCCTATCAGTGCACTCC
1 CACCAGTGCACTCACCACCACCACCCATCCACTTACCACCCCAACCAGTCCACTCC
2437284 CTACCACCGT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 46 1.00
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (63 bp):
CACCAGTGCACTCACCACCACCACCCATCCACTTACCACCCCAACCAGTCCACTCCACACCTT
Found at i:2437331 original size:105 final size:105
Alignment explanation
Indices: 2437125--2437324 Score: 233
Period size: 105 Copynumber: 1.9 Consensus size: 105
2437115 TCCACCCCCT
* * * *
2437125 CCAGTTCACTCACCCCCACCACTCGTTCACTCTCTACCCCCACCAGTGCACTTACCACCACCACC
1 CCAGTGCACTCACCACCACCACTCGTCCACTCTCCACCCCCACCAGTGCACTTACCACCACCACC
* ** * *
2437190 CATCCATTTTTCACCCCAACCCGTCCACTCCACACCTTCA
66 CATCCACTCCTCACCCCAACCAGTACACTCCACACCTTCA
* * * *
2437230 CCAGTGCACTCACCACCACCACTCGTCCACT-TACCACCCCTATCAGTGCAC-TCCCTACCACCG
1 CCAGTGCACTCACCACCACCACTCGTCCACTCT-CCACCCCCACCAGTGCACTTACC-ACCACCA
* *
2437293 TCCATCCACTCCTCACCCCCACCAGTACACTC
64 CCCATCCACTCCTCACCCCAACCAGTACACTC
2437325 ATCACCTCTA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
104 4 0.05
105 74 0.95
ACGTcount: A:0.22, C:0.53, G:0.06, T:0.20
Consensus pattern (105 bp):
CCAGTGCACTCACCACCACCACTCGTCCACTCTCCACCCCCACCAGTGCACTTACCACCACCACC
CATCCACTCCTCACCCCAACCAGTACACTCCACACCTTCA
Found at i:2437582 original size:24 final size:25
Alignment explanation
Indices: 2437527--2437583 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
2437517 CATCAAGTTT
*
2437527 CTACCACCATCAGTACAATCTCGAC
1 CTACCACCATCAGTACAATCCCGAC
*
2437552 CT-TCACC-TCCAGTACAATCCCGA-
1 CTACCACCAT-CAGTACAATCCCGAC
2437575 CTACCACCA
1 CTACCACCA
2437584 ACTCTATCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
23 3 0.12
24 21 0.81
25 2 0.08
ACGTcount: A:0.30, C:0.44, G:0.07, T:0.19
Consensus pattern (25 bp):
CTACCACCATCAGTACAATCCCGAC
Found at i:2437647 original size:60 final size:60
Alignment explanation
Indices: 2437554--2437717 Score: 208
Period size: 60 Copynumber: 2.7 Consensus size: 60
2437544 ATCTCGACCT
* *
2437554 TCACCTCCAGTACAATCCCGA-CTACCACCAACTCTATCACCTCCACAC-GTCAGGTCTCTA
1 TCACCACCAGTACAATCCCGACCT-CCTCCAACTCTATCACCTCCAC-CTGTCAGGTCTCTA
* ***
2437614 TCACCACCTGTACAATCCCGACCTCCTCCAACTCTATCACCAAAACCTGTCAGGTCTCTA
1 TCACCACCAGTACAATCCCGACCTCCTCCAACTCTATCACCTCCACCTGTCAGGTCTCTA
* *
2437674 TCACCACCAGTACAATCCCAACCTTCAT-CAACTCTATCACCTCC
1 TCACCACCAGTACAATCCCGACC-TCCTCCAACTCTATCACCTCC
2437718 TCTTATTTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
59 1 0.01
60 83 0.93
61 5 0.06
ACGTcount: A:0.27, C:0.43, G:0.07, T:0.23
Consensus pattern (60 bp):
TCACCACCAGTACAATCCCGACCTCCTCCAACTCTATCACCTCCACCTGTCAGGTCTCTA
Found at i:2440996 original size:21 final size:22
Alignment explanation
Indices: 2440967--2441026 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
2440957 AATAGTGAAG
*
2440967 AGTTTTACCGATACAAGTGA-T
1 AGTTCTACCGATACAAGTGACT
*
2440988 AGTTCTACCGATATAAGTGACT
1 AGTTCTACCGATACAAGTGACT
*
2441010 -CTTCTACCGATACAAGT
1 AGTTCTACCGATACAAGT
2441027 TTTACCTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (22 bp):
AGTTCTACCGATACAAGTGACT
Found at i:2445566 original size:28 final size:28
Alignment explanation
Indices: 2445526--2445580 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
2445516 GATATCTGAT
2445526 TTACTCCCTGTTGACCCAAAGGTCATGC
1 TTACTCCCTGTTGACCCAAAGGTCATGC
2445554 TTACTCCCTGTTGACCCAAAGGTCATG
1 TTACTCCCTGTTGACCCAAAGGTCATG
2445581 ATGCTCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (28 bp):
TTACTCCCTGTTGACCCAAAGGTCATGC
Found at i:2449259 original size:23 final size:23
Alignment explanation
Indices: 2449186--2449357 Score: 163
Period size: 23 Copynumber: 7.5 Consensus size: 23
2449176 TATACGGAAC
* *
2449186 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
2449208 -AACAGAGAGCACA-TAAGCGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
2449229 GGGCAACAGAGAGCACACACAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
* *
2449255 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
2449278 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
2449301 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
2449324 AATCAGAGAGCACGA-GACGTGCT
1 AAACAGAGAGCAC-ACAAAGTGCT
2449347 AAACAGAGAGC
1 AAACAGAGAGC
2449358 GTGCTAGTGT
Statistics
Matches: 126, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
21 16 0.13
23 91 0.72
24 1 0.01
25 13 0.10
26 5 0.04
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.11
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:2449285 original size:46 final size:46
Alignment explanation
Indices: 2449235--2449357 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
2449225 CGCTGGGCAA
*
2449235 CAGAGAGCACACACAGTGCTAAACAGAGAGTACACAAAGTACTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
* * *
2449281 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
*
2449327 CAGAGAGCACGAGAC-GTGCTAAACAGAGAGC
1 CAGAGAGCAC-ACACAGTGCTAAACAGAGAGC
2449358 GTGCTAGTGT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 67 0.97
47 2 0.03
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (46 bp):
CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
Found at i:2449308 original size:69 final size:66
Alignment explanation
Indices: 2449186--2449333 Score: 190
Period size: 69 Copynumber: 2.2 Consensus size: 66
2449176 TATACGGAAC
* *
2449186 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGCGCTGGGCAACAGAGAGCACACACAG
1 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGCGCT--G-AACAGAGAGCACACAAAG
2449251 TGCT
63 TGCT
*
2449255 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AATCAGAGAGCACACAAA
1 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGCGCTGAA-CAGAGAGCACACAAA
2449319 GTGCT
62 GTGCT
*
2449324 AATCAGAGAG
1 AAACAGAGAG
2449334 CACGAGACGT
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
68 2 0.03
69 41 0.58
70 11 0.15
71 11 0.15
72 6 0.08
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (66 bp):
AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGCGCTGAACAGAGAGCACACAAAGTGC
T
Found at i:2456619 original size:23 final size:23
Alignment explanation
Indices: 2456546--2456717 Score: 154
Period size: 23 Copynumber: 7.5 Consensus size: 23
2456536 TATACGGAAC
* *
2456546 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
2456568 -AACAGAGAGCACA-TAAGCGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
2456589 GGGCAACAGAGAGCACACACAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
* * *
2456615 AAACAGAGAGTACACAAAATACT
1 AAACAGAGAGCACACAAAGTGCT
*
2456638 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
2456661 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
2456684 AATCAGAGAGCACGA-GACGTGCT
1 AAACAGAGAGCAC-ACAAAGTGCT
2456707 AAACAGAGAGC
1 AAACAGAGAGC
2456718 GCGCTAGTGT
Statistics
Matches: 124, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
21 16 0.13
23 89 0.72
24 1 0.01
25 13 0.10
26 5 0.04
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:2456645 original size:46 final size:46
Alignment explanation
Indices: 2456595--2456717 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 46
2456585 CGCTGGGCAA
*
2456595 CAGAGAGCACACACAGTGCTAAACAGAGAGTACACAAAATACTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAATACTAAT
* * * *
2456641 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAATACTAAT
*
2456687 CAGAGAGCACGAGAC-GTGCTAAACAGAGAGC
1 CAGAGAGCAC-ACACAGTGCTAAACAGAGAGC
2456718 GCGCTAGTGT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 66 0.97
47 2 0.03
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (46 bp):
CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAATACTAAT
Found at i:2456668 original size:69 final size:66
Alignment explanation
Indices: 2456546--2456693 Score: 181
Period size: 69 Copynumber: 2.2 Consensus size: 66
2456536 TATACGGAAC
* * *
2456546 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGCGCTGGGCAACAGAGAGCACACACAG
1 AAACAGAGAGTACCAAAATACTAACAGAGAGCACAAAAGCGCT--G-AACAGAGAGCACACAAAG
2456611 TGCT
63 TGCT
*
2456615 AAACAGAGAGTACACAAAATACTAATCAGAGAGCACACAAAGTGCT-AATCAGAGAGCACACAAA
1 AAACAGAGAGTAC-CAAAATACTAA-CAGAGAGCACA-AAAGCGCTGAA-CAGAGAGCACACAAA
2456679 GTGCT
62 GTGCT
*
2456684 AATCAGAGAG
1 AAACAGAGAG
2456694 CACGAGACGT
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
68 2 0.03
69 41 0.59
70 10 0.14
71 11 0.16
72 6 0.09
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (66 bp):
AAACAGAGAGTACCAAAATACTAACAGAGAGCACAAAAGCGCTGAACAGAGAGCACACAAAGTGC
T
Found at i:2464591 original size:77 final size:77
Alignment explanation
Indices: 2464502--2465050 Score: 819
Period size: 77 Copynumber: 7.0 Consensus size: 77
2464492 TAAAAACTAA
*
2464502 ATCATTAATTTTAGATATAGTATAAGGACCAAAATATAATTTAACCTATTGTAAACTAAAGATAG
1 ATCATGAATTTTAGATATAGTATAAGGACCAAAATATAATTTAACCTATTGTAAACTAAAGATAG
2464567 AAAATACAAGTT
66 AAAATACAAGTT
* * *
2464579 ATCATGAATTTTAGGTATAGTATAAGGACCAAAATATAATATAACCTATAGTAAACTAAAGATAG
1 ATCATGAATTTTAGATATAGTATAAGGACCAAAATATAATTTAACCTATTGTAAACTAAAGATAG
2464644 AAAATACAAGTT
66 AAAATACAAGTT
* * *
2464656 ACCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
1 ATCATGAATTTTAGATATAGTATAAGGACCAAAATATAATTTAACCTATTGTAAACTAAAGATAG
2464721 AAAATACAAGTT
66 AAAATACAAGTT
* * * * * *
2464733 ATCAAGAATTTTAGATATAGTAGAAGGACCAAAATATAATATAACCTATAGTAAACTAAAGCTAT
1 ATCATGAATTTTAGATATAGTATAAGGACCAAAATATAATTTAACCTATTGTAAACTAAAGATAG
2464798 AAAATACAAGTTAATT
66 AAAATACAAG----TT
* *
2464814 ATCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
1 ATCATGAATTTTAGATATAGTATAAGGACCAAAATATAATTTAACCTATTGTAAACTAAAGATAG
2464879 AAAATACAAGTT
66 AAAATACAAGTT
* * * * * *
2464891 ATCAAGAATTTTAGATATAGTAGAAGGACCAAAATATAATATAACCTATAGTAAACTAAAGCTAT
1 ATCATGAATTTTAGATATAGTATAAGGACCAAAATATAATTTAACCTATTGTAAACTAAAGATAG
2464956 AAAATACAAGTTAATT
66 AAAATACAAG----TT
* *
2464972 ATCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
1 ATCATGAATTTTAGATATAGTATAAGGACCAAAATATAATTTAACCTATTGTAAACTAAAGATAG
2465037 AAAATACAAGTT
66 AAAATACAAGTT
2465049 AT
1 AT
2465051 ATTTGGCAAA
Statistics
Matches: 421, Mismatches: 43, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
77 283 0.67
81 138 0.33
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (77 bp):
ATCATGAATTTTAGATATAGTATAAGGACCAAAATATAATTTAACCTATTGTAAACTAAAGATAG
AAAATACAAGTT
Found at i:2464890 original size:158 final size:158
Alignment explanation
Indices: 2464502--2465050 Score: 989
Period size: 158 Copynumber: 3.5 Consensus size: 158
2464492 TAAAAACTAA
* * *
2464502 ATCATTAATTTTAGATATAGTATAAGGACCAAAATATAATTTAACCTATTGTAAACTAAAGATAG
1 ATCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
* * *
2464567 AAAATACAAGTTATCATGAATTTTAGGTATAGTATAAGGACCAAAATATAATATAACCTATAGTA
66 AAAATACAAGTTATCAAGAATTTTAGATATAGTAGAAGGACCAAAATATAATATAACCTATAGTA
* *
2464632 AACTAAAGATAGAAAATACAAG----TT
131 AACTAAAGCTATAAAATACAAGTTAATT
*
2464656 ACCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
1 ATCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
2464721 AAAATACAAGTTATCAAGAATTTTAGATATAGTAGAAGGACCAAAATATAATATAACCTATAGTA
66 AAAATACAAGTTATCAAGAATTTTAGATATAGTAGAAGGACCAAAATATAATATAACCTATAGTA
2464786 AACTAAAGCTATAAAATACAAGTTAATT
131 AACTAAAGCTATAAAATACAAGTTAATT
2464814 ATCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
1 ATCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
2464879 AAAATACAAGTTATCAAGAATTTTAGATATAGTAGAAGGACCAAAATATAATATAACCTATAGTA
66 AAAATACAAGTTATCAAGAATTTTAGATATAGTAGAAGGACCAAAATATAATATAACCTATAGTA
2464944 AACTAAAGCTATAAAATACAAGTTAATT
131 AACTAAAGCTATAAAATACAAGTTAATT
2464972 ATCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
1 ATCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
2465037 AAAATACAAGTTAT
66 AAAATACAAGTTAT
2465051 ATTTGGCAAA
Statistics
Matches: 381, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
154 143 0.38
158 238 0.62
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (158 bp):
ATCATGAATTTTAGATAAAGTATAAGGACCAAAATATAATTTGACCTATTGTAAACTAAAGATAG
AAAATACAAGTTATCAAGAATTTTAGATATAGTAGAAGGACCAAAATATAATATAACCTATAGTA
AACTAAAGCTATAAAATACAAGTTAATT
Found at i:2466674 original size:42 final size:41
Alignment explanation
Indices: 2466610--2466778 Score: 142
Period size: 42 Copynumber: 4.0 Consensus size: 41
2466600 CAATCTCCAC
* *
2466610 CCAC-ACCAATGCATCCAACACCACCACATGTCCACTCCCCA
1 CCACTACCAATGCATTCACCACCACCAC-TGTCCACTCCCCA
* *
2466651 CCACTACCAATGTATTCACCACCACCACTTGTCCACTCTCCA
1 CCACTACCAATGCATTCACCACCACCAC-TGTCCACTCCCCA
* ** * *
2466693 CCCCTACCTGTGCACTCACCACCACCACTCGTCCACTCCTCA
1 CCACTACCAATGCATTCACCACCACCACT-GTCCACTCCCCA
* * * * * * * *
2466735 CCCCCACTAGTGCACTCACCACCACTATCCGCCCACTCCCCA
1 CCACTACCAATGCATTCACCACCACCA-CTGTCCACTCCCCA
2466777 CC
1 CC
2466779 CTCAATAGTC
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
41 5 0.05
42 100 0.94
43 1 0.01
ACGTcount: A:0.24, C:0.53, G:0.06, T:0.17
Consensus pattern (41 bp):
CCACTACCAATGCATTCACCACCACCACTGTCCACTCCCCA
Found at i:2466693 original size:21 final size:21
Alignment explanation
Indices: 2466666--2466759 Score: 93
Period size: 21 Copynumber: 4.5 Consensus size: 21
2466656 ACCAATGTAT
2466666 TCACCACCACCACTTGTCCAC
1 TCACCACCACCACTTGTCCAC
* * *
2466687 TCTCCACC-CCTACCTGTGCAC
1 TCACCACCACC-ACTTGTCCAC
*
2466708 TCACCACCACCACTCGTCCAC
1 TCACCACCACCACTTGTCCAC
* * *
2466729 TC-CTCACCCCCACTAGTGCAC
1 TCAC-CACCACCACTTGTCCAC
2466750 TCACCACCAC
1 TCACCACCAC
2466760 TATCCGCCCA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
20 3 0.05
21 52 0.90
22 3 0.05
ACGTcount: A:0.21, C:0.54, G:0.06, T:0.18
Consensus pattern (21 bp):
TCACCACCACCACTTGTCCAC
Found at i:2466754 original size:84 final size:82
Alignment explanation
Indices: 2466666--2467233 Score: 394
Period size: 84 Copynumber: 6.8 Consensus size: 82
2466656 ACCAATGTAT
** *
2466666 TCACCACCACCACTTGTCCACTCTCCACCCCTACCTGTGCACTCACCACCACCACTCGTCCACTC
1 TCACCACCACCACCCGTCCACTCTCCACCCC-ACCAGTG-ACTCACCACCACCACTCGTCCACTC
* *
2466731 CTCACCCCCACTAGTGCAC
64 CTCACCCTCACTAGTGGAC
* * * * ** * *
2466750 TCACCACCACTATCCGCCCACTCCCCACCCTCAATAGTCCACTCACCAACACCA-TCCGTCCACT
1 TCACCACCACCACCCGTCCACTCTCCACCC-CACCAGT-GACTCACCACCACCACT-CGTCCAC-
* * *
2466814 TGC-CACCC-CAATCA--GAAC
62 TCCTCACCCTCACT-AGTGGAC
* * ** * * *
2466832 ATACACCATCAACACCCGTCCACTCCTTAACCTCACCAGTTGACTCACCACCACTACCCGTCCAC
1 -T-CACCACCACCACCCGTCCACT-CTCCACCCCACCAG-TGACTCACCACCACCACTCGTCCAC
* * *
2466897 TCCACACCCTCGCAAGTGGAC
62 TCCTCACCCTCACTAGTGGAC
* * * * * * * *
2466918 TCACCACCACCAACTGTTCACTCTTCACCCTCAACAATGGACTCACCACCACCACCCGTACACT-
1 TCACCACCACCACCCGTCCACTCTCCACCC-CACCAGT-GACTCACCACCACCACTCGTCCACTC
* *
2466982 CTACACCCTCACCAGTAGAC
64 CT-CACCCTCACTAGTGGAC
* * * * *
2467002 TCACTACCATCACCCGTACACTCTACACCCTCACCAGTGGACTCACCACCATCACTCGTCCACTC
1 TCACCACCACCACCCGTCCACTCTCCACCC-CACCAGT-GACTCACCACCACCACTCGTCCACTC
* *
2467067 CTCACCCACACAAGTGGAC
64 CTCACCCTCACTAGTGGAC
* * * * * *
2467086 TCAACACCACCACTCGTTCACTC-CACACCCACACAAGTAGACTCACCACCATCACTCGACCACT
1 TCACCACCACCACCCGTCCACTCTC-CACCC-CACCAGT-GACTCACCACCACCACTCGTCCACT
*
2467150 CATCACCCTCACTAGTGGAC
63 CCTCACCCTCACTAGTGGAC
** * * * *
2467170 TCACCACCATTACCCATCCACTCTCCAACCCCACCAGAGCACTCACCACCATCACTTGTCCACT
1 TCACCACCACCACCCGTCCACTCTCC-ACCCCACCAGTG-ACTCACCACCACCACTCGTCCACT
2467234 TTCCAGCCCC
Statistics
Matches: 376, Mismatches: 86, Indels: 44
0.74 0.17 0.09
Matches are distributed among these distances:
82 3 0.01
83 16 0.04
84 337 0.90
85 17 0.05
86 3 0.01
ACGTcount: A:0.26, C:0.48, G:0.08, T:0.18
Consensus pattern (82 bp):
TCACCACCACCACCCGTCCACTCTCCACCCCACCAGTGACTCACCACCACCACTCGTCCACTCCT
CACCCTCACTAGTGGAC
Found at i:2466779 original size:42 final size:42
Alignment explanation
Indices: 2466628--2467274 Score: 228
Period size: 42 Copynumber: 15.5 Consensus size: 42
2466618 ATGCATCCAA
* * * * * *
2466628 CACCACCA-CAT--GTCCACTCCCCACCACTACCAATGTATT
1 CACCACCACCATCCGTCCACTCCCCACCCCCACTAGTGCACT
* * *
2466667 CACCACCACCA-CTTGTCCACTCTCCACCCCTACCT-GTGCACT
1 CACCACCACCATC-CGTCCACTCCCCACCCCCA-CTAGTGCACT
*
2466709 CACCACCACCA-CTCGTCCACTCCTCACCCCCACTAGTGCACT
1 CACCACCACCATC-CGTCCACTCCCCACCCCCACTAGTGCACT
* * * * *
2466751 CACCACCACTATCCGCCCACTCCCCACCCTCAATAGTCCACT
1 CACCACCACCATCCGTCCACTCCCCACCCCCACTAGTGCACT
* ** * **
2466793 CACCAACACCATCCGTCCACTTGCCA-CCCCAATCAGAACA-T
1 CACCACCACCATCCGTCCACTCCCCACCCCCACT-AGTGCACT
* * * ** * * *
2466834 ACACCATCAACACCCGTCCACTCCTTAACCTCACCAGTTG-ACT
1 -CACCACCACCATCCGTCCACTCCCCACCCCCACTAG-TGCACT
* * * * * * *
2466877 CACCACCACTACCCGTCCACTCCACACCCTCGCAAGTGGACT
1 CACCACCACCATCCGTCCACTCCCCACCCCCACTAGTGCACT
* * * ** * * *
2466919 CACCACCACCAACTGTTCACTCTTCACCCTCAAC-AATGGACT
1 CACCACCACCATCCGTCCACTCCCCACCC-CCACTAGTGCACT
* * ** * *
2466961 CACCACCACCACCCGTACACTCTACACCCTCACCAGTAG-ACT
1 CACCACCACCATCCGTCCACTCCCCACCCCCACTAGT-GCACT
* * * * ** * * *
2467003 CACTACCATCACCCGTACACTCTACACCCTCACCAGTGGACT
1 CACCACCACCATCCGTCCACTCCCCACCCCCACTAGTGCACT
* * * * *
2467045 CACCACCATCA-CTCGTCCACTCCTCACCCACACAAGTGGACT
1 CACCACCACCATC-CGTCCACTCCCCACCCCCACTAGTGCACT
* * * * *
2467087 CAACACCACCA-CTCGTTCACTCCACACCCACACAAGTAG-ACT
1 CACCACCACCATC-CGTCCACTCCCCACCCCCACTAGT-GCACT
* * ** * *
2467129 CACCACCATCA-CTCGACCACTCATCACCCTCACTAGTGGACT
1 CACCACCACCATC-CGTCCACTCCCCACCCCCACTAGTGCACT
** * * * * * *
2467171 CACCACCATTACCCATCCACTCTCCAACCCCACCAGAGCACT
1 CACCACCACCATCCGTCCACTCCCCACCCCCACTAGTGCACT
* * ** * * **
2467213 CACCACCATCA-CTTGTCCACTTTCCAGCCCCACCAAAGCACT
1 CACCACCACCATC-CGTCCACTCCCCACCCCCACTAGTGCACT
* *
2467255 CACCACCATCACCCGTCCAC
1 CACCACCACCATCCGTCCAC
2467275 ACATTACCTT
Statistics
Matches: 487, Mismatches: 98, Indels: 43
0.78 0.16 0.07
Matches are distributed among these distances:
39 8 0.02
40 2 0.00
41 17 0.03
42 448 0.92
43 12 0.02
ACGTcount: A:0.27, C:0.49, G:0.07, T:0.17
Consensus pattern (42 bp):
CACCACCACCATCCGTCCACTCCCCACCCCCACTAGTGCACT
Found at i:2466920 original size:126 final size:125
Alignment explanation
Indices: 2466706--2467175 Score: 309
Period size: 126 Copynumber: 3.7 Consensus size: 125
2466696 CTACCTGTGC
* * * * * * * *
2466706 ACTCACCACCACCACTCGTCCACTCCTCACCCCCACTAG-TGCACTCACCACCACTATCCGCCCA
1 ACTCACCACCAACACCCGTCCACTCCTTAACCTCACCAGTTG-ACTCACCACCACTACCCGTCCA
* * ** *
2466770 CTCCCCACCCTCAATAGTCCACTCACCAACACCATCCGTCCACT-TGCCACCC-CAATC-A-GA
65 CTCCACACCCTCCA-AGTGGACTCACCAACACCAACCGTCCACTCT-CCACCCTCAA-CAATGA
*
2466830 ACATACACCATCAACACCCGTCCACTCCTTAACCTCACCAGTTGACTCACCACCACTACCCGTCC
1 AC-T-CACCACCAACACCCGTCCACTCCTTAACCTCACCAGTTGACTCACCACCACTACCCGTCC
* * * * *
2466895 ACTCCACACCCTCGCAAGTGGACTCACCACCACCAACTGTTCACTCTTCACCCTCAACAATGG
64 ACTCCACACCCTC-CAAGTGGACTCACCAACACCAACCGTCCACTCTCCACCCTCAACAATGA
* * * * *
2466958 ACTCACCACCACCACCCGTACACT-C-TACACCCTCACCAGTAGACTCACTACCA-TCACCCGTA
1 ACTCACCACCAACACCCGTCCACTCCTTA-A-CCTCACCAGTTGACTCACCACCACT-ACCCGTC
* * * * *
2467020 CACTCTACACCCTCACCAGTGGACTCACCACCATC-ACTCGTCCACTC-CTCACCCAC-ACAAGT
63 CACTCCACACCCTC-CAAGTGGACTCACCAACACCAAC-CGTCCACTCTC-CACCCTCAACAA-T
*
2467082 GG
124 GA
* * * * ** * * * * * *
2467084 ACTCAACACCACCACTCGTTCACTCCACACCCACACAAGTAGACTCACCACCA-TCACTCGACCA
1 ACTCACCACCAACACCCGTCCACTCCTTAACCTCACCAGTTGACTCACCACCACT-ACCCGTCCA
*
2467148 CT-CATCACCCTCACTAGTGGACTCACCA
65 CTCCA-CACCCTC-CAAGTGGACTCACCA
2467176 CCATTACCCA
Statistics
Matches: 283, Mismatches: 46, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
124 4 0.01
125 11 0.04
126 254 0.90
127 10 0.04
128 4 0.01
ACGTcount: A:0.27, C:0.48, G:0.08, T:0.17
Consensus pattern (125 bp):
ACTCACCACCAACACCCGTCCACTCCTTAACCTCACCAGTTGACTCACCACCACTACCCGTCCAC
TCCACACCCTCCAAGTGGACTCACCAACACCAACCGTCCACTCTCCACCCTCAACAATGA
Found at i:2466982 original size:21 final size:21
Alignment explanation
Indices: 2466958--2467024 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
2466948 TCAACAATGG
2466958 ACTCACCACCACCACCCGTAC
1 ACTCACCACCACCACCCGTAC
* *
2466979 ACTCTA-CACC-CTCACCAGTAG
1 ACTC-ACCACCAC-CACCCGTAC
* *
2467000 ACTCACTACCATCACCCGTAC
1 ACTCACCACCACCACCCGTAC
2467021 ACTC
1 ACTC
2467025 TACACCCTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.06
21 33 0.92
22 1 0.03
ACGTcount: A:0.28, C:0.49, G:0.06, T:0.16
Consensus pattern (21 bp):
ACTCACCACCACCACCCGTAC
Found at i:2467035 original size:21 final size:21
Alignment explanation
Indices: 2466970--2467036 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
2466960 TCACCACCAC
2466970 CACCCGTACACTCTACACCCT
1 CACCCGTACACTCTACACCCT
* * *
2466991 CACCAGTAGACTC-ACTACCAT
1 CACCCGTACACTCTAC-ACCCT
2467012 CACCCGTACACTCTACACCCT
1 CACCCGTACACTCTACACCCT
2467033 CACC
1 CACC
2467037 AGTGGACTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 34 0.89
22 2 0.05
ACGTcount: A:0.27, C:0.49, G:0.06, T:0.18
Consensus pattern (21 bp):
CACCCGTACACTCTACACCCT
Found at i:2467045 original size:21 final size:21
Alignment explanation
Indices: 2466970--2467045 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
2466960 TCACCACCAC
* *
2466970 CACCCGTACACTCTACACCCT
1 CACCAGTAGACTCTACACCCT
*
2466991 CACCAGTAGACTC-ACTACCAT
1 CACCAGTAGACTCTAC-ACCCT
* *
2467012 CACCCGTACACTCTACACCCT
1 CACCAGTAGACTCTACACCCT
*
2467033 CACCAGTGGACTC
1 CACCAGTAGACTC
2467046 ACCACCATCA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 2 0.05
21 40 0.91
22 2 0.05
ACGTcount: A:0.26, C:0.46, G:0.09, T:0.18
Consensus pattern (21 bp):
CACCAGTAGACTCTACACCCT
Found at i:2467190 original size:126 final size:125
Alignment explanation
Indices: 2466873--2467325 Score: 404
Period size: 126 Copynumber: 3.6 Consensus size: 125
2466863 CTCACCAGTT
* * * * ** *
2466873 GACTCACCACCA-CTACCCGTCCACTCCA-CACCCTCGCAAGTGGACTCACCACCACCAACTGTT
1 GACTCACCACCATC-ACCCGACCACT-CATCACCCTCACAAGTGGACTCACCACCATCACCCATC
* * * * *
2466936 CACTCTTCACCCTCAACAA-TGGACTCACCACCACCACCCGTACACTCTACACCCTCACCAGTA
64 CACTCCTCACCC-C-ACAAGTGGACTCACCACCACCACTCGTACACTCCACACCCACACAAGTA
* * * *
2466999 GACTCACTACCATCACCCGTA-CACTC-TACACCCTCACCAGTGGACTCACCACCATCACTCGTC
1 GACTCACCACCATCACCCG-ACCACTCAT-CACCCTCACAAGTGGACTCACCACCATCACCCATC
* *
2467062 CACTCCTCACCCACACAAGTGGACTCAACACCACCACTCGTTCACTCCACACCCACACAAGTA
64 CACTCCTCACCC-CACAAGTGGACTCACCACCACCACTCGTACACTCCACACCCACACAAGTA
* * *
2467125 GACTCACCACCATCACTCGACCACTCATCACCCTCACTAGTGGACTCACCACCATTACCCATCCA
1 GACTCACCACCATCACCCGACCACTCATCACCCTCACAAGTGGACTCACCACCATCACCCATCCA
* * * * * *
2467190 CT-CTCCAACCCCACCAGAGCACTCACCACCATCACTTGTCCACTTTCCAGC-CCCAC-CAA--A
66 CTCCT-C-ACCCCACAAGTGGACTCACCACCACCACTCGTACAC--TCCA-CACCCACACAAGTA
* * * * * * *
2467250 GCACTCACCACCATCACCCGTCCACACATTACCTTCAAAAGTGGGCTCACCACAATCACCCATCC
1 G-ACTCACCACCATCACCCGACCACTCATCACCCTCACAAGTGGACTCACCACCATCACCCATCC
*
2467315 ATTCCTCACCC
65 ACTCCTCACCC
2467326 TTACCAGAGC
Statistics
Matches: 272, Mismatches: 41, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
125 14 0.05
126 237 0.87
127 11 0.04
128 9 0.03
129 1 0.00
ACGTcount: A:0.28, C:0.47, G:0.08, T:0.17
Consensus pattern (125 bp):
GACTCACCACCATCACCCGACCACTCATCACCCTCACAAGTGGACTCACCACCATCACCCATCCA
CTCCTCACCCCACAAGTGGACTCACCACCACCACTCGTACACTCCACACCCACACAAGTA
Found at i:2467551 original size:21 final size:21
Alignment explanation
Indices: 2467527--2467672 Score: 57
Period size: 21 Copynumber: 7.0 Consensus size: 21
2467517 AGTGACTACA
*
2467527 CCACCACCACCCGTCCACTCT
1 CCACCACCACCAGTCCACTCT
* * * * *
2467548 CCACC-CCTACTAATGCAGTCA
1 CCACCACC-ACCAGTCCACTCT
* *
2467569 CCACCACTACCTGTCCACTCT
1 CCACCACCACCAGTCCACTCT
* ** *
2467590 TCACC-CTCACCAGTGGACTCA
1 CCACCAC-CACCAGTCCACTCT
*
2467611 CCACCATCACTC-GTCCACTCT
1 CCACCACCAC-CAGTCCACTCT
* * * *
2467632 CCACCCCCACTA-ACGCACTCA
1 CCACCACCACCAGTC-CACTCT
* *
2467653 CCACCACTACCTGTCCACTC
1 CCACCACCACCAGTCCACTC
2467673 CTCACCCTCA
Statistics
Matches: 83, Mismatches: 34, Indels: 16
0.62 0.26 0.12
Matches are distributed among these distances:
20 4 0.05
21 76 0.92
22 3 0.04
ACGTcount: A:0.23, C:0.52, G:0.07, T:0.18
Consensus pattern (21 bp):
CCACCACCACCAGTCCACTCT
Found at i:2467734 original size:21 final size:20
Alignment explanation
Indices: 2467710--2467777 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
2467700 ACCACCCATC
2467710 CACTCCACACCCTCACCAGTG
1 CACTCCACA-CCTCACCAGTG
* *
2467731 CACT-CACAAC-CACCACTTGG
1 CACTCCACACCTCACCA-GT-G
*
2467751 CCACTCCACATCATCACCAGTG
1 -CACTCCACA-CCTCACCAGTG
2467773 CACTC
1 CACTC
2467778 ACAACTACCA
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 5 0.14
21 13 0.36
22 5 0.14
23 1 0.03
24 5 0.14
ACGTcount: A:0.26, C:0.49, G:0.09, T:0.16
Consensus pattern (20 bp):
CACTCCACACCTCACCAGTG
Found at i:2467789 original size:21 final size:20
Alignment explanation
Indices: 2467723--2467789 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
2467713 TCCACACCCT
2467723 CACCAGTGCACTCACAACCAC
1 CACCAGTGCACTCACAA-CAC
** * *
2467744 CACTTG-GCCACTCCACATCAT
1 CACCAGTG-CACT-CACAACAC
2467765 CACCAGTGCACTCACAACTAC
1 CACCAGTGCACTCACAAC-AC
2467786 CACC
1 CACC
2467790 CGTCCACTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
20 6 0.18
21 23 0.68
22 5 0.15
ACGTcount: A:0.30, C:0.46, G:0.09, T:0.15
Consensus pattern (20 bp):
CACCAGTGCACTCACAACAC
Found at i:2468049 original size:21 final size:21
Alignment explanation
Indices: 2468025--2468173 Score: 65
Period size: 21 Copynumber: 7.1 Consensus size: 21
2468015 CCCGCCAATG
2468025 CACTCACAACCACCACCAGAC
1 CACTCACAACCACCACCAGAC
*
2468046 CACTCATC-ACCAACACCAGTA-
1 CACTCA-CAACCACCACCAG-AC
* * * * *
2468067 CATTCACCATCACCACCTGTC
1 CACTCACAACCACCACCAGAC
* * *
2468088 CACTCTTC-ACC-CCTACTAGAG
1 CACTC-ACAACCACC-ACCAGAC
* *
2468109 CACTCACAACCACCACTAGTC
1 CACTCACAACCACCACCAGAC
* * * * *
2468130 TACTCCCCACCCCCACCA-ATG
1 CACTCACAACCACCACCAGA-C
*
2468151 CACTCACAACCACTACCAGAC
1 CACTCACAACCACCACCAGAC
2468172 CA
1 CA
2468174 TTCCTCACCA
Statistics
Matches: 89, Mismatches: 29, Indels: 20
0.64 0.21 0.14
Matches are distributed among these distances:
20 4 0.04
21 79 0.89
22 6 0.07
ACGTcount: A:0.32, C:0.48, G:0.05, T:0.15
Consensus pattern (21 bp):
CACTCACAACCACCACCAGAC
Found at i:2468343 original size:21 final size:22
Alignment explanation
Indices: 2468313--2468460 Score: 64
Period size: 21 Copynumber: 7.0 Consensus size: 22
2468303 CTCACCCTCA
*
2468313 TCAGTGCACTCACAACCACCAC
1 TCAGTACACTCACAACCACCAC
*
2468335 TCA-TCCACTC-CTTAACCA-CA-
1 TCAGTACACTCAC--AACCACCAC
2468355 TCAGTACACTCACAACCACCAC
1 TCAGTACACTCACAACCACCAC
* * *
2468377 -CTGTCCACTCATC-ACCCCCAC
1 TCAGTACACTCA-CAACCACCAC
*
2468398 -CAGTGCACTCA-ACACCACCA-
1 TCAGTACACTCACA-ACCACCAC
* * * * *
2468418 TCCGTCCACTCCCCACCCCCAC
1 TCAGTACACTCACAACCACCAC
* * *
2468440 -CCGTGCACTCACCACCACCAC
1 TCAGTACACTCACAACCACCAC
2468461 CCGTCCATTT
Statistics
Matches: 98, Mismatches: 16, Indels: 25
0.71 0.12 0.18
Matches are distributed among these distances:
20 9 0.09
21 79 0.81
22 10 0.10
ACGTcount: A:0.27, C:0.52, G:0.06, T:0.15
Consensus pattern (22 bp):
TCAGTACACTCACAACCACCAC
Found at i:2468461 original size:21 final size:21
Alignment explanation
Indices: 2468361--2469395 Score: 624
Period size: 21 Copynumber: 49.4 Consensus size: 21
2468351 CACATCAGTA
* * *
2468361 CACTCACAACCACCACCTGTC
1 CACTCACCACCACCACCCGTG
* * *
2468382 CACTCATCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTG
* * *
2468403 CACTCAACACCACCATCCGTC
1 CACTCACCACCACCACCCGTG
* *
2468424 CACTCCCCACCCCCACCCGTG
1 CACTCACCACCACCACCCGTG
*
2468445 CACTCACCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* * * *
2468466 CATTTC-TCACC-CC-CTCATG
1 CA-CTCACCACCACCACCCGTG
* * * *
2468485 CATTCACCATCACCGCTCGTG
1 CACTCACCACCACCACCCGTG
*
2468506 CACTCACCACCATCACCCGTG
1 CACTCACCACCACCACCCGTG
* *
2468527 CACTCACTACCACCACCAGTG
1 CACTCACCACCACCACCCGTG
* * *
2468548 CACTTACCATCACAACCACTCGTA
1 CACTCACCA-C-C-ACCACCCGTG
* ** *
2468572 CACTC-CTCACCCCCACTTGAG
1 CACTCAC-CACCACCACCCGTG
* *** *
2468593 CATTCGTTACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* ** *
2468614 CACTC-CTTACCTTCACCCGTC
1 CACTCAC-CACCACCACCCGTG
* * * * *
2468635 CACTCTCAACCACTACCCATC
1 CACTCACCACCACCACCCGTG
* *
2468656 CACTCACCACTACCACCCAT-
1 CACTCACCACCACCACCCGTG
* * ** * *
2468676 CTACTCTCCACCCCCGTCAGTA
1 C-ACTCACCACCACCACCCGTG
*
2468698 CACTCACCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* * * * * *
2468719 CAATCCCCACCTCCGCCAGCG
1 CACTCACCACCACCACCCGTG
*
2468740 CACTCACCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* *
2468761 CACTCTCCACCACCACCAGT-
1 CACTCACCACCACCACCCGTG
* * *
2468781 CTACTCTCCACCCCCACCAGTG
1 C-ACTCACCACCACCACCCGTG
* *
2468803 CACTCTCCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
*
2468824 CACTCTCCACC-CC-CCCAGTG
1 CACTCACCACCACCACCC-GTG
* *
2468844 CACTCTCCACCACCA-CCGTC
1 CACTCACCACCACCACCCGTG
* * *
2468864 CACTCTCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTG
* * *
2468885 CACTCTCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTG
* * *
2468906 TACTCTCCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* * *
2468927 CACTCCCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTG
*
2468948 CACTCACCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* * *
2468969 CACTCCCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTG
* *
2468990 CACTCACCACCACCACTCGTC
1 CACTCACCACCACCACCCGTG
* * *
2469011 CACTCTCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTG
* *
2469032 CACTCTCCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* * *
2469053 CACTCCCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTG
* *
2469074 TACTCACCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* * *
2469095 CACTCCCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTG
* *
2469116 TACTCACCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* *
2469137 CACTCTCCACC-CCACCAGTG
1 CACTCACCACCACCACCCGTG
*
2469157 CACTCACCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* * *
2469178 CACTCTCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTG
*
2469199 CACTCACCACCACCACCCGTC
1 CACTCACCACCACCACCCGTG
* * **
2469220 CACTCTCCACCCCCACCAATG
1 CACTCACCACCACCACCCGTG
*
2469241 CACTCACCACCACC-CCCGTC
1 CACTCACCACCACCACCCGTG
* * * * *
2469261 CACTCCCCACCTCTATCAGTG
1 CACTCACCACCACCACCCGTG
* * * *
2469282 TACTCACCATCC-CCATCCTTC
1 CACTCACCA-CCACCACCCGTG
* * *
2469303 CACTC-CTTACCCCCACCAGTG
1 CACTCAC-CACCACCACCCGTG
* * * *
2469324 CACTCAGCTCCACTACCCGTA
1 CACTCACCACCACCACCCGTG
* **
2469345 CACTCTCCATCC-CCACCAATG
1 CACTCACCA-CCACCACCCGTG
* *
2469366 CACTCACCACCAGCACCCGTC
1 CACTCACCACCACCACCCGTG
*
2469387 CATTCACCA
1 CACTCACCA
2469396 ACTCCAACCA
Statistics
Matches: 772, Mismatches: 215, Indels: 54
0.74 0.21 0.05
Matches are distributed among these distances:
18 3 0.00
19 11 0.01
20 73 0.09
21 658 0.85
22 11 0.01
23 3 0.00
24 13 0.02
ACGTcount: A:0.22, C:0.56, G:0.07, T:0.16
Consensus pattern (21 bp):
CACTCACCACCACCACCCGTG
Found at i:2468550 original size:42 final size:42
Alignment explanation
Indices: 2467437--2469388 Score: 1292
Period size: 42 Copynumber: 46.5 Consensus size: 42
2467427 ACCACTCGTC
* * * * * *
2467437 CACTCACAACCACAACCTGTCCATTC-CTCACCCCCACTAGCG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * * **
2467479 CAGTCACCACCACTACCTGTCCACTC-CTCACCCTTACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * *
2467521 -ACTACACCACCACCACCCGTCCACTCTCCACCCCTACTAATG
1 CACT-CACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * * * *
2467563 CAGTCACCACCACTACCTGTCCACTCTTCACCCTCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * * * **
2467605 GACTCACCACCATCACTCGTCCACTCTCCACCCCCACTAACG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * * * *
2467647 CACTCACCACCACTACCTGTCCACTC-CTCACCCTCACAAATAG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGT-G
* *
2467690 -ACTCACCACCACCACCCATCCACTC-CACACCCTCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* ** * * **
2467731 CACTCACAACCACCACTTGGCCACTC-CACATCATCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * * * *
2467773 CACTCACAACTACCACCCGTCCACT-TGTCACCCACACCAGTA
1 CACTCACCACCACCACCCGTCCACTCT-CCACCCCCACCAGTG
* * * * * ** * **
2467815 CATTCACCACCATCACTCGTCCACTCTTCATCTACTCCAGAA
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * ** * * *
2467857 CATTCACAACCACCAATCGTCTACTCAT-TACCCCCACCAATG
1 CACTCACCACCACCACCCGTCCACTC-TCCACCCCCACCAGTG
* * * * **** *
2467899 AACTCACAACCACCACCAGACCACTC-CTCACAAAAATCAGTG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * * * * *
2467941 CATTCACCATCACTACCCGTCCACTCTTCACCCCCACTAGAG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * ** * * *
2467983 CACTCACAACCATCACTAGTCTACTC-CTCACCCCCGCCAATG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * * ** *
2468025 CACTCACAACCACCACCAGACCACTCAT-CACCAACACCAGTA
1 CACTCACCACCACCACCCGTCCACTC-TCCACCCCCACCAGTG
* * * * * * *
2468067 CATTCACCATCACCACCTGTCCACTCTTCACCCCTACTAGAG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* ** * * *
2468109 CACTCACAACCACCACTAGTCTACTCCCCACCCCCACCAATG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * * * * ** *
2468151 CACTCACAACCACTACCAGACCATTC-CTCACCAACACCAGCG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * ** * * ** *
2468193 TATTCACCGTCACCACCAGTCCACTC-CTCACCCCTACTGGAG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * * * * * * *
2468235 CACTCACAACCGCCACTCGTCTATTC-CTCACCTCCACTACTG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * * *
2468277 CATTCACAACCACCACCCGTCCACTC-CTCACCCTCATCAGTG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * * * * * * *
2468319 CACTCACAACCACCACTCATCCACTC-CTTAACCACATCAGTA
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* *
2468361 CACTCACAACCACCACCTGTCCACTCAT-CACCCCCACCAGTG
1 CACTCACCACCACCACCCGTCCACTC-TCCACCCCCACCAGTG
* * * *
2468403 CACTCAACACCACCATCCGTCCACTCCCCACCCCCACCCGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* *
2468445 CACTCACCACCACCACCCGTCCA-TTTCTCACCCCC-TCA-TG
1 CACTCACCACCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * * * * * ** *
2468485 CATTCACCATCACCGCTCGTGCACTCACCACCATCACCCGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * * * *
2468527 CACTCACTACCACCACCAGTGCACT-TACCATCACAACCACTC-GTA
1 CACTCACCACCACCACCCGTCCACTCT-CCA-C-C-CCCAC-CAGTG
* ** ** * * * * *
2468572 CACTC-CTCACCCCCACTTGAGCATTCGT-TACCACCACCCGTC
1 CACTCAC-CACCACCACCCGTCCACTC-TCCACCCCCACCAGTG
* ** * * * *
2468614 CACTC-CTTACCTTCACCCGTCCACTCTCAACCACTACCCA-TC
1 CACTCAC-CACCACCACCCGTCCACTCTCCACCCCCA-CCAGTG
* * * ** *
2468656 CACTCACCACTACCACCCATCTACTCTCCACCCCCGTCAGTA
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * * * *
2468698 CACTCACCACCACCACCCGTCCAATCCCCACCTCCGCCAGCG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
*
2468740 CACTCACCACCACCACCCGTCCACTCTCCACCACCACCAGT-
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * * * * * *
2468781 CTACTCTCCACCCCCACCAGTGCACTCTCCACCACCACCCGTC
1 C-ACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * * *
2468824 CACTCTCCACC-CC-CCCAGTGCACTCTCCACCACCACC-GTC
1 CACTCACCACCACCACCC-GTCCACTCTCCACCCCCACCAGTG
* * * *
2468864 CACTCTCCACCCCCACCAGTGCACTCTCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * *
2468906 TACTCTCCACCACCACCCGTCCACTCCCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
*
2468948 CACTCACCACCACCACCCGTCCACTCCCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
*
2468990 CACTCACCACCACCACTCGTCCACTCTCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* *
2469032 CACTCTCCACCACCACCCGTCCACTCCCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* *
2469074 TACTCACCACCACCACCCGTCCACTCCCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
*
2469116 TACTCACCACCACCACCCGTCCACTCTCCA-CCCCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
2469157 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
*
2469199 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAATG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * * *
2469241 CACTCACCACCACC-CCCGTCCACTCCCCACCTCTATCAGTG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
* * * *
2469282 TACTCACCATCC-CCATCCTTCCACTC-CTTACCCCCACCAGTG
1 CACTCACCA-CCACCACCCGTCCACTCTC-CACCCCCACCAGTG
* * * * * *
2469324 CACTCAGCTCCACTACCCGTACACTCTCCATCCCCACCAATG
1 CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
*
2469366 CACTCACCACCAGCACCCGTCCA
1 CACTCACCACCACCACCCGTCCA
2469389 TTCACCAACT
Statistics
Matches: 1509, Mismatches: 351, Indels: 100
0.77 0.18 0.05
Matches are distributed among these distances:
40 41 0.03
41 135 0.09
42 1291 0.86
43 13 0.01
44 3 0.00
45 24 0.02
46 1 0.00
47 1 0.00
ACGTcount: A:0.24, C:0.52, G:0.07, T:0.17
Consensus pattern (42 bp):
CACTCACCACCACCACCCGTCCACTCTCCACCCCCACCAGTG
Found at i:2469422 original size:45 final size:45
Alignment explanation
Indices: 2469371--2469503 Score: 115
Period size: 42 Copynumber: 3.2 Consensus size: 45
2469361 CAATGCACTC
*
2469371 ACCACCAGCACCCGTCCATTCACCAACTCCAACCATCAAGTCTCT
1 ACCACCAGCACCCATCCATTCACCAACTCCAACCATCAAGTCTCT
* * *
2469416 ACCA-C--CACCAATACAATC-CCAACCTCC-A-C--CAA--CTCT
1 ACCACCAGCACCCATCCATTCACCAA-CTCCAACCATCAAGTCTCT
* * * *
2469452 ATCACCAGTACCCATCCATTCACCAACCCCAACCATCAAGTCTCA
1 ACCACCAGCACCCATCCATTCACCAACTCCAACCATCAAGTCTCT
2469497 ACCACCA
1 ACCACCA
2469504 CCAATACAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 22
0.66 0.12 0.22
Matches are distributed among these distances:
36 7 0.11
37 1 0.02
38 3 0.05
39 12 0.18
40 6 0.09
41 6 0.09
42 13 0.20
43 3 0.05
44 1 0.02
45 13 0.20
ACGTcount: A:0.33, C:0.47, G:0.04, T:0.16
Consensus pattern (45 bp):
ACCACCAGCACCCATCCATTCACCAACTCCAACCATCAAGTCTCT
Found at i:2469472 original size:81 final size:81
Alignment explanation
Indices: 2469373--2469538 Score: 260
Period size: 81 Copynumber: 2.0 Consensus size: 81
2469363 ATGCACTCAC
* * *
2469373 CACCAGCACCCGTCCATTCACCAACTCCAACCATCAAGTCTCTACCACCACCAATACAATCCCAA
1 CACCAGCACCCATCCATTCACCAACCCCAACCATCAAGTCTCAACCACCACCAATACAATCCCAA
2469438 CCTCCACCAACTCTAT
66 CCTCCACCAACTCTAT
* * *
2469454 CACCAGTACCCATCCATTCACCAACCCCAACCATCAAGTCTCAACCACCACCAATACAATCTCGA
1 CACCAGCACCCATCCATTCACCAACCCCAACCATCAAGTCTCAACCACCACCAATACAATCCCAA
**
2469519 CCTTTACCAACTCTAT
66 CCTCCACCAACTCTAT
2469535 CACC
1 CACC
2469539 TCCACCCGTC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.33, C:0.46, G:0.04, T:0.18
Consensus pattern (81 bp):
CACCAGCACCCATCCATTCACCAACCCCAACCATCAAGTCTCAACCACCACCAATACAATCCCAA
CCTCCACCAACTCTAT
Found at i:2469627 original size:120 final size:120
Alignment explanation
Indices: 2469491--2469781 Score: 413
Period size: 120 Copynumber: 2.4 Consensus size: 120
2469481 CAACCATCAA
* * *
2469491 GTCTCAACCACCACCAATACAATCTCGACCTTTACCAACTCTATCACCTCCACCCGTCAAGTCTT
1 GTCTCTACCACCACCAATACAATCTCGACCTTCACCAACTCTATCACCTCCACCCGTCAAGTCTC
* * *
2469556 TACCTCTACCAGAACAATCCCAACCTCCACCAACTCTATCAACTCCA-CCTGTCAG
66 TACCACCACCAGAACAATCCCAACATCCACCAACTCTATCAACTCCAGCC-GTCAG
* * * *
2469611 GTCTCTACCACCACCAATTCAATCTCGACATCCACCAACTCTATCACCTCCACCCGTCAGGTCTC
1 GTCTCTACCACCACCAATACAATCTCGACCTTCACCAACTCTATCACCTCCACCCGTCAAGTCTC
* * * *
2469676 TACCACCACCAGTACAATCCCGACATCCACCAACTCTGTCACCTCCAGCCGTCAG
66 TACCACCACCAGAACAATCCCAACATCCACCAACTCTATCAACTCCAGCCGTCAG
* * *
2469731 GTCTCTATCACCACCAGTACAATCTCGACCTTCATCAACTCTATCACCTCC
1 GTCTCTACCACCACCAATACAATCTCGACCTTCACCAACTCTATCACCTCC
2469782 TCCTGTTTTG
Statistics
Matches: 150, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
120 148 0.99
121 2 0.01
ACGTcount: A:0.27, C:0.43, G:0.07, T:0.22
Consensus pattern (120 bp):
GTCTCTACCACCACCAATACAATCTCGACCTTCACCAACTCTATCACCTCCACCCGTCAAGTCTC
TACCACCACCAGAACAATCCCAACATCCACCAACTCTATCAACTCCAGCCGTCAG
Found at i:2469805 original size:60 final size:60
Alignment explanation
Indices: 2469491--2469781 Score: 375
Period size: 60 Copynumber: 4.8 Consensus size: 60
2469481 CAACCATCAA
* * ** *
2469491 GTCTCAACCACCACCAATACAATCTCGACCTTTACCAACTCTATCACCTCCACCCGTCAA
1 GTCTCTACCACCACCAGTACAATCTCGACCTCCACCAACTCTATCACCTCCACCCGTCAG
* * * * * * * *
2469551 GTCTTTACCTCTACCAGAACAATCCCAACCTCCACCAACTCTATCAACTCCACCTGTCAG
1 GTCTCTACCACCACCAGTACAATCTCGACCTCCACCAACTCTATCACCTCCACCCGTCAG
* * *
2469611 GTCTCTACCACCACCAATTCAATCTCGACATCCACCAACTCTATCACCTCCACCCGTCAG
1 GTCTCTACCACCACCAGTACAATCTCGACCTCCACCAACTCTATCACCTCCACCCGTCAG
* * * *
2469671 GTCTCTACCACCACCAGTACAATCCCGACATCCACCAACTCTGTCACCTCCAGCCGTCAG
1 GTCTCTACCACCACCAGTACAATCTCGACCTCCACCAACTCTATCACCTCCACCCGTCAG
* * *
2469731 GTCTCTATCACCACCAGTACAATCTCGACCTTCATCAACTCTATCACCTCC
1 GTCTCTACCACCACCAGTACAATCTCGACCTCCACCAACTCTATCACCTCC
2469782 TCCTGTTTTG
Statistics
Matches: 196, Mismatches: 35, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 196 1.00
ACGTcount: A:0.27, C:0.43, G:0.07, T:0.22
Consensus pattern (60 bp):
GTCTCTACCACCACCAGTACAATCTCGACCTCCACCAACTCTATCACCTCCACCCGTCAG
Found at i:2471102 original size:235 final size:238
Alignment explanation
Indices: 2470730--2471225 Score: 664
Period size: 235 Copynumber: 2.1 Consensus size: 238
2470720 AAAAATTTAT
* * * * *
2470730 TATTAATATATTATATGATATGATATAGCATCATATAATATGGTAGGATGATTAACTGTCAAATG
1 TATTAATATATTATATGATATGATATAACATCATATAATATAGTAGAAAGACTAACTGTCAAATG
*
2470795 TACAAAAACGCATGGAGACTTAGAGCATATTTCAACTAGTATAATAATAAACAATAATAGTATTA
66 TACAAAAACGCATAGAGACTTAGAGCATATTTCAACTAGTATAATAATAAACAATAATAGTATTA
* *
2470860 TTAAGTAA-TATATAATGTACTACTATTATAGATAACTA-TTATAATATAGATTATAATAAAAGA
131 ATAAGTAACAAT-TAATGTACTACTATTATAGATAACTATTTATAATATAGATTATAATAAAAGA
*
2470923 TATAATATTACATGATAATATAATGTTTAA-T-TATACATAACC
195 TATAATATTACATGATAATATAATGTTTAATTATATACATAAAC
* * * * *
2470965 TATTAGTATATTATATGATATGATATAACATTATTTAATATAGTAGAAAGACTAATTTTCAAATG
1 TATTAATATATTATATGATATGATATAACATCATATAATATAGTAGAAAGACTAACTGTCAAATG
*** *
2471030 TATGGAAA-GTATA-AGAACTTAGAGCATATTTCAACTAGTATAATAATAAACAATAATA-TATA
66 TACAAAAACGCATAGAG-ACTTAGAGCATATTTCAACTAGTATAATAATAAACAATAATAGTAT-
* **
2471092 ATAATAAGTAACAATTAATGTACTACTATTATATATGTCTATTGTTATAATATAGATTATAATAA
129 -TAATAAGTAACAATTAATGTACTACTATTATAGATAACTA-T-TTATAATATAGATTATAATAA
* * *
2471157 AAGATATAATATTACATGGTATTATAATGTTTAATTATATATATAAAC
191 AAGATATAATATTACATGATAATATAATGTTTAATTATATACATAAAC
*
2471205 TATTAATATATGATATGATAT
1 TATTAATATATTATATGATAT
2471226 AATTTTATAT
Statistics
Matches: 226, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
233 5 0.02
234 45 0.20
235 92 0.41
236 2 0.01
238 53 0.23
239 1 0.00
240 28 0.12
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.38
Consensus pattern (238 bp):
TATTAATATATTATATGATATGATATAACATCATATAATATAGTAGAAAGACTAACTGTCAAATG
TACAAAAACGCATAGAGACTTAGAGCATATTTCAACTAGTATAATAATAAACAATAATAGTATTA
ATAAGTAACAATTAATGTACTACTATTATAGATAACTATTTATAATATAGATTATAATAAAAGAT
ATAATATTACATGATAATATAATGTTTAATTATATACATAAAC
Found at i:2482146 original size:21 final size:22
Alignment explanation
Indices: 2482116--2482165 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
2482106 TATTTAAATT
*
2482116 TTTTTCTCAATTTTA-ACTTGAA
1 TTTTTCTCAATTTGACACTTG-A
2482138 TTTTT-TCAATTTGACACTTGA
1 TTTTTCTCAATTTGACACTTGA
2482159 TTTTTCT
1 TTTTTCT
2482166 TTTATGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (22 bp):
TTTTTCTCAATTTGACACTTGA
Found at i:2485436 original size:27 final size:27
Alignment explanation
Indices: 2485398--2485455 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
2485388 GATCCATCGT
*
2485398 TATTGATGTGATTCTGCTTCACACCGC
1 TATTGATGTGATTCTGCTTCACACAGC
2485425 TATTGATGTGATTCTGCTTCACACAGC
1 TATTGATGTGATTCTGCTTCACACAGC
2485452 TATT
1 TATT
2485456 TTCAACAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (27 bp):
TATTGATGTGATTCTGCTTCACACAGC
Found at i:2486440 original size:61 final size:61
Alignment explanation
Indices: 2486375--2486502 Score: 152
Period size: 61 Copynumber: 2.1 Consensus size: 61
2486365 ATCTTAAACT
** * * * *
2486375 TAAAAATA-TAAACAAATTTAGCCCTTAATGTTTACAAACCTTGTCATTTTAGTTCTAGTTC
1 TAAAAATATTAAACAAATTTAGCCCTTAACATTTACAAA-ATTGTCAATTTAGTTCAAATTC
* * *
2486436 TAAAAA-ATTCAATAAATTTAGCCCTTAACATTTACAAAATTTTCAATTTAGTTCAAATTC
1 TAAAAATATTAAACAAATTTAGCCCTTAACATTTACAAAATTGTCAATTTAGTTCAAATTC
2486496 TAAAAAT
1 TAAAAAT
2486503 TTCCGAAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 24 0.43
61 32 0.57
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (61 bp):
TAAAAATATTAAACAAATTTAGCCCTTAACATTTACAAAATTGTCAATTTAGTTCAAATTC
Found at i:2487527 original size:12 final size:13
Alignment explanation
Indices: 2487493--2487531 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
2487483 TTTGTAATGT
*
2487493 TTTATATTATATAA
1 TTTATAATATAT-A
2487507 TTTATAATATATA
1 TTTATAATATATA
2487520 TTTA-AATATATA
1 TTTATAATATATA
2487532 GTAATATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 8 0.33
13 5 0.21
14 11 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTATAATATATA
Found at i:2487590 original size:21 final size:20
Alignment explanation
Indices: 2487566--2487610 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2487556 TAAACATTAA
*
2487566 AAAATTAAGATAATTATAAAT
1 AAAATTAAG-TAATAATAAAT
* *
2487587 AAAATTATGTTATAATAAAT
1 AAAATTAAGTAATAATAAAT
2487607 AAAA
1 AAAA
2487611 ATATATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AAAATTAAGTAATAATAAAT
Found at i:2487619 original size:30 final size:31
Alignment explanation
Indices: 2487585--2487650 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
2487575 ATAATTATAA
* *
2487585 ATAAAATTA-TGTTATAATAAATAAAA-ATAT
1 ATAAAATTACTATT-TAATAAATAAAATAAAT
*
2487615 ATAAAATTACTATTTATTAAATAAAATAAAT
1 ATAAAATTACTATTTAATAAATAAAATAAAT
2487646 ATAAA
1 ATAAA
2487651 TATATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (31 bp):
ATAAAATTACTATTTAATAAATAAAATAAAT
Found at i:2488987 original size:33 final size:33
Alignment explanation
Indices: 2488945--2489010 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
2488935 AAGTTTGCTG
2488945 ATTATGTAATGTTAATGAAATGGTTTTCAGGAC
1 ATTATGTAATGTTAATGAAATGGTTTTCAGGAC
2488978 ATTATGTAATGTTAATGAAATGGTTTTCAGGAC
1 ATTATGTAATGTTAATGAAATGGTTTTCAGGAC
2489011 TTTCGGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.39
Consensus pattern (33 bp):
ATTATGTAATGTTAATGAAATGGTTTTCAGGAC
Found at i:2493570 original size:22 final size:20
Alignment explanation
Indices: 2493531--2493571 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
2493521 AGTTTTTTTT
*
2493531 ATTTTACGTTATAATATTTA
1 ATTTTACGTCATAATATTTA
2493551 ATTTTATCGTCATCAATATTT
1 ATTTTA-CGTCAT-AATATTT
2493572 TTATATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTTACGTCATAATATTTA
Found at i:2494339 original size:18 final size:17
Alignment explanation
Indices: 2494313--2494349 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
2494303 CATTTTAAAA
*
2494313 ATTATAATAATATAAATT
1 ATTAAAATAATA-AAATT
2494331 ATTAAAATAATAAAATT
1 ATTAAAATAATAAAATT
2494348 AT
1 AT
2494350 ACAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAAATAATAAAATT
Found at i:2499551 original size:13 final size:13
Alignment explanation
Indices: 2499533--2499557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2499523 CAGGGTTCGG
2499533 GTTTGAGATTTGA
1 GTTTGAGATTTGA
2499546 GTTTGAGATTTG
1 GTTTGAGATTTG
2499558 GGGTTCAAGA
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:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (13 bp):
GTTTGAGATTTGA
Found at i:2507818 original size:80 final size:80
Alignment explanation
Indices: 2507732--2507881 Score: 300
Period size: 80 Copynumber: 1.9 Consensus size: 80
2507722 ATTAAAGGTC
2507732 TTTTAAGAAACTTTAATATTTTTACTTTAATATTAAAATCAAGAGCTTTCACGGGTGAAAACAAT
1 TTTTAAGAAACTTTAATATTTTTACTTTAATATTAAAATCAAGAGCTTTCACGGGTGAAAACAAT
2507797 CGATTAAGATTTATT
66 CGATTAAGATTTATT
2507812 TTTTAAGAAACTTTAATATTTTTACTTTAATATTAAAATCAAGAGCTTTCACGGGTGAAAACAAT
1 TTTTAAGAAACTTTAATATTTTTACTTTAATATTAAAATCAAGAGCTTTCACGGGTGAAAACAAT
2507877 CGATT
66 CGATT
2507882 TATTTAACCA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (80 bp):
TTTTAAGAAACTTTAATATTTTTACTTTAATATTAAAATCAAGAGCTTTCACGGGTGAAAACAAT
CGATTAAGATTTATT
Found at i:2512071 original size:2 final size:2
Alignment explanation
Indices: 2512066--2512090 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2512056 GAGAGATATA
2512066 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
2512091 AGGGAGATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:2513530 original size:33 final size:33
Alignment explanation
Indices: 2513493--2513559 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
2513483 TCGCATTTGA
2513493 TTCAAGAGATTACTAGACAACTTTGCTGATCAT
1 TTCAAGAGATTACTAGACAACTTTGCTGATCAT
2513526 TTCAAGAGATTACTAGACAACTTTGCTGATCAT
1 TTCAAGAGATTACTAGACAACTTTGCTGATCAT
2513559 T
1 T
2513560 CACATTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (33 bp):
TTCAAGAGATTACTAGACAACTTTGCTGATCAT
Found at i:2516033 original size:5 final size:5
Alignment explanation
Indices: 2516020--2516070 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
2516010 CCTTCTTTCC
* * *
2516020 TCTTC TCTTT TCTTCT CTCTTT TCTTT TC-TT TCCTC TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTT-T -TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
2516071 CCTCTCTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 4 0.10
5 29 0.74
6 2 0.05
7 4 0.10
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (5 bp):
TCTTT
Found at i:2516056 original size:19 final size:19
Alignment explanation
Indices: 2516019--2516080 Score: 101
Period size: 19 Copynumber: 3.4 Consensus size: 19
2516009 TCCTTCTTTC
*
2516019 CTCTTCTCTTTTC-TT-CT
1 CTCTTTTCTTTTCTTTCCT
2516036 CTCTTTTCTTTTCTTTCCT
1 CTCTTTTCTTTTCTTTCCT
2516055 CTCTTTTCTTTTCTTTCCT
1 CTCTTTTCTTTTCTTTCCT
2516074 CTCTTTT
1 CTCTTTT
2516081 ACACCGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
17 12 0.29
18 2 0.05
19 28 0.67
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTCTTTTCTTTCCT
Found at i:2516080 original size:14 final size:16
Alignment explanation
Indices: 2516012--2516069 Score: 68
Period size: 17 Copynumber: 3.7 Consensus size: 16
2516002 AGGACTTTCC
2516012 TTCTTTCCTCTTCTCTT
1 TTCTTT-CTCTTCTCTT
*
2516029 TTCTTCTCTCTTTTCTT
1 TTCTT-TCTCTTCTCTT
2516046 TTCTTTC-C-TCTCTT
1 TTCTTTCTCTTCTCTT
2516060 TTCTTT-TCTT
1 TTCTTTCTCTT
2516070 TCCTCTCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 12 0.33
15 2 0.06
16 2 0.06
17 19 0.53
18 1 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTCTTTCTCTTCTCTT
Found at i:2518060 original size:16 final size:16
Alignment explanation
Indices: 2518039--2518069 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2518029 ATTTTCAAAT
2518039 TATTTAAAACTATTTA
1 TATTTAAAACTATTTA
2518055 TATTTAAAACTATTT
1 TATTTAAAACTATTT
2518070 TTTCAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTAAAACTATTTA
Found at i:2518853 original size:55 final size:57
Alignment explanation
Indices: 2518759--2518866 Score: 134
Period size: 55 Copynumber: 1.9 Consensus size: 57
2518749 CAAATATTTA
*
2518759 TTAAAATTTCACATAAAAATTAATTAATGTTTCGATTATAAT-AGTAAAATTAATTGT
1 TTAAAATTTCACATAAAAATTAATTAATGATTCGATTATAATGA-TAAAATTAATTGT
* * *
2518816 TTAAAA-TTCATA-AAAAATTAATTGATGCATT-GGTTATAATGATAAAATTAA
1 TTAAAATTTCACATAAAAATTAATTAATG-ATTCGATTATAATGATAAAATTAA
2518867 ATATTTATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
55 31 0.69
56 8 0.18
57 6 0.13
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (57 bp):
TTAAAATTTCACATAAAAATTAATTAATGATTCGATTATAATGATAAAATTAATTGT
Found at i:2518992 original size:18 final size:18
Alignment explanation
Indices: 2518928--2518993 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
2518918 TTATTGATTT
*
2518928 ATTATATATAAAAATAAAA
1 ATTATA-ATAATAATAAAA
* *
2518947 A-TACAATTATATATAAAA
1 ATTATAATAATA-ATAAAA
* *
2518965 TTTAT-TTAATAATAAAA
1 ATTATAATAATAATAAAA
2518982 ATTATAATAATA
1 ATTATAATAATA
2518994 TTTTGTAATT
Statistics
Matches: 35, Mismatches: 9, Indels: 7
0.69 0.18 0.14
Matches are distributed among these distances:
17 14 0.40
18 18 0.51
19 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTATAATAATAATAAAA
Found at i:2522681 original size:11 final size:11
Alignment explanation
Indices: 2522665--2522720 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
2522655 ATTATATTAG
2522665 ATTATTTAAAT
1 ATTATTTAAAT
2522676 ATTATTTACAAAT
1 ATTATTT--AAAT
*
2522689 ATCATTATAGTAA-
1 ATTATT-TA--AAT
2522702 ATTATTTAAAT
1 ATTATTTAAAT
2522713 ATTATTTA
1 ATTATTTA
2522721 TTATTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
10 2 0.05
11 15 0.41
12 3 0.08
13 14 0.38
14 3 0.08
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (11 bp):
ATTATTTAAAT
Found at i:2522706 original size:37 final size:37
Alignment explanation
Indices: 2522630--2522720 Score: 127
Period size: 37 Copynumber: 2.6 Consensus size: 37
2522620 TCTTTATATG
* *
2522630 AAATTATTT-AA-A-TATTT-CATATATCATTATATT
1 AAATTATTTAAATATTATTTACAAATATCATTATAGT
*
2522663 AGATTATTTAAATATTATTTACAAATATCATTATAGT
1 AAATTATTTAAATATTATTTACAAATATCATTATAGT
2522700 AAATTATTTAAATATTATTTA
1 AAATTATTTAAATATTATTTA
2522721 TTATTATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 8 0.16
34 2 0.04
35 1 0.02
36 5 0.10
37 34 0.68
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (37 bp):
AAATTATTTAAATATTATTTACAAATATCATTATAGT
Found at i:2527352 original size:30 final size:31
Alignment explanation
Indices: 2527295--2527352 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
2527285 GTACCGAAAT
* *
2527295 AAAACGGAAGTAAACACTCAAATGAAAAGCA
1 AAAACGGAACTAAACAATCAAATGAAAAGCA
2527326 AAAAC-GAACTAAACAATCACAA-GAAAA
1 AAAACGGAACTAAACAATCA-AATGAAAA
2527353 TTAAGCACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.62, C:0.17, G:0.12, T:0.09
Consensus pattern (31 bp):
AAAACGGAACTAAACAATCAAATGAAAAGCA
Found at i:2528022 original size:21 final size:21
Alignment explanation
Indices: 2527998--2528039 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2527988 TGCAATATGA
2527998 ACAGCAGCTGTTGGCAGCTTG
1 ACAGCAGCTGTTGGCAGCTTG
2528019 ACAGCAGCTGTTGGCAGCTTG
1 ACAGCAGCTGTTGGCAGCTTG
2528040 GAAAGTGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (21 bp):
ACAGCAGCTGTTGGCAGCTTG
Found at i:2528813 original size:18 final size:19
Alignment explanation
Indices: 2528792--2528827 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2528782 AATTGAATCG
*
2528792 ATTTTTATAATTT-TTTAT
1 ATTTTAATAATTTATTTAT
2528810 ATTTTAATAATTTATTTA
1 ATTTTAATAATTTATTTA
2528828 ATTGAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAATAATTTATTTAT
Found at i:2537582 original size:16 final size:16
Alignment explanation
Indices: 2537521--2537592 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 16
2537511 CGTTTGGTTC
* *
2537521 GCTGTAATAGAATAAA
1 GCTGTAATGGAATATA
* ** *
2537537 ACTGTAATATAATAGA
1 GCTGTAATGGAATATA
*
2537553 GCTGTAATGTAATATA
1 GCTGTAATGGAATATA
*
2537569 GCTGTACTGGAATATA
1 GCTGTAATGGAATATA
*
2537585 GTTGTAAT
1 GCTGTAAT
2537593 CAATAATTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (16 bp):
GCTGTAATGGAATATA
Found at i:2541759 original size:15 final size:15
Alignment explanation
Indices: 2541734--2541781 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
2541724 ACCCCTACTC
2541734 TTTTTATTTAAATATA
1 TTTTTA-TTAAATATA
2541750 TTTTTATTAAA-ATA
1 TTTTTATTAAATATA
* *
2541764 TTTTAAATTAGATATA
1 TTTT-TATTAAATATA
2541780 TT
1 TT
2541782 ATATTAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 7 0.25
15 10 0.36
16 11 0.39
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TTTTTATTAAATATA
Found at i:2542411 original size:19 final size:19
Alignment explanation
Indices: 2542387--2542426 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2542377 AATTCGCAAC
2542387 ATAATTCAACTATAAATCA
1 ATAATTCAACTATAAATCA
* * *
2542406 ATAATTGAAGTATATATCA
1 ATAATTCAACTATAAATCA
2542425 AT
1 AT
2542427 TATATTTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (19 bp):
ATAATTCAACTATAAATCA
Found at i:2543448 original size:16 final size:16
Alignment explanation
Indices: 2543418--2543456 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
2543408 GTTTATACCT
*
2543418 TTTTCTAATATTTTTTA
1 TTTT-TAATAATTTTTA
2543435 TTTTTAATAATTTTTA
1 TTTTTAATAATTTTTA
2543451 TATTTT
1 T-TTTT
2543457 TTATTTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTAATAATTTTTA
Found at i:2543459 original size:19 final size:17
Alignment explanation
Indices: 2543417--2543459 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
2543407 TGTTTATACC
2543417 TTTTTCTAATATTTTTTA
1 TTTTT-TAATATTTTTTA
2543435 -TTTTTAATAATTTTTATA
1 TTTTTTAAT-ATTTTT-TA
2543453 TTTTTTA
1 TTTTTTA
2543460 TTTTCTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.18
17 10 0.45
18 2 0.09
19 6 0.27
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTTAATATTTTTTA
Found at i:2543470 original size:9 final size:8
Alignment explanation
Indices: 2543425--2543471 Score: 53
Period size: 7 Copynumber: 5.8 Consensus size: 8
2543415 CCTTTTTCTA
2543425 ATATTTTT
1 ATATTTTT
2543433 -TATTTTT
1 ATATTTTT
2543440 AATAATTTTT
1 -AT-ATTTTT
2543450 ATATTTTT
1 ATATTTTT
2543458 -TATTTTCT
1 ATATTTT-T
2543466 ATATTT
1 ATATTT
2543472 AAAAAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
7 13 0.38
8 7 0.21
9 8 0.24
10 6 0.18
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (8 bp):
ATATTTTT
Found at i:2549834 original size:20 final size:20
Alignment explanation
Indices: 2549798--2549835 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2549788 TATATGTTCA
**
2549798 TGAACATGTTCGTTTAATCG
1 TGAACATGTTCAATTAATCG
2549818 TGAACATGTTCAATTAAT
1 TGAACATGTTCAATTAAT
2549836 TGAAATGAAC
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:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (20 bp):
TGAACATGTTCAATTAATCG
Found at i:2550900 original size:15 final size:16
Alignment explanation
Indices: 2550880--2550909 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2550870 TAATAAATTA
2550880 AAAGAAATTA-ATTTG
1 AAAGAAATTACATTTG
2550895 AAAGAAATTACATTT
1 AAAGAAATTACATTT
2550910 TATTTTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.33
Consensus pattern (16 bp):
AAAGAAATTACATTTG
Found at i:2552497 original size:57 final size:57
Alignment explanation
Indices: 2552391--2552510 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
2552381 AAAATTCAAA
* * * **
2552391 ATTTTTGGGTGTTGGCCATCAAATGGCCGACACTCTCTTTTCTCGAAAAAAATTTGC
1 ATTTTTGGATGTTGGCCATCAAATGGCCGACACCCCCTTTTCTAAAAAAAAATTTGC
* *
2552448 ATTTTTTGATGTTGGCCATCAAATGGCCGACACCCCCTATTT-T-AAAAAAAA-TTAC
1 ATTTTTGGATGTTGGCCATCAAATGGCCGACACCCCCT-TTTCTAAAAAAAAATTTGC
2552503 ATTTTTGG
1 ATTTTTGG
2552511 GTGTCGCATG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 10 0.18
56 7 0.13
57 35 0.64
58 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (57 bp):
ATTTTTGGATGTTGGCCATCAAATGGCCGACACCCCCTTTTCTAAAAAAAAATTTGC
Found at i:2552892 original size:24 final size:24
Alignment explanation
Indices: 2552865--2552918 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
2552855 CCCAACGTTG
2552865 ACACCATCGAGGATGAGCCGAAGA
1 ACACCATCGAGGATGAGCCGAAGA
*
2552889 ACACCATCGAGGATGAGCCGACGA
1 ACACCATCGAGGATGAGCCGAAGA
2552913 ACACCA
1 ACACCA
2552919 ATGTAATGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.37, C:0.30, G:0.26, T:0.07
Consensus pattern (24 bp):
ACACCATCGAGGATGAGCCGAAGA
Found at i:2554136 original size:53 final size:51
Alignment explanation
Indices: 2554044--2554145 Score: 159
Period size: 53 Copynumber: 2.0 Consensus size: 51
2554034 ATGTGAATTT
**
2554044 TTTTCTCGAGAAAAAGGGTGTCGACCATTTAATGGCCAACACCAAAAAAAA
1 TTTTCTCGAGAAAAAGGGTGTCGACCATGCAATGGCCAACACCAAAAAAAA
*
2554095 TTTTCTCGAGAAAAGAGGGGTGTCGGCCATGCAATGGCCAACACCAAAAAA
1 TTTTCTCGAGAAAA-A-GGGTGTCGACCATGCAATGGCCAACACCAAAAAA
2554146 TTTTAAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 14 0.30
52 1 0.02
53 31 0.67
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (51 bp):
TTTTCTCGAGAAAAAGGGTGTCGACCATGCAATGGCCAACACCAAAAAAAA
Found at i:2554409 original size:64 final size:63
Alignment explanation
Indices: 2554279--2554447 Score: 193
Period size: 64 Copynumber: 2.6 Consensus size: 63
2554269 AAAAAGGGGC
* *
2554279 ATGGCCGACACCCAAAAAATTTTGAATATTTTATCTCGAG---AAAAGGGGTGTGTCGGCCATGC
1 ATGGCCAACA-CCAAAAAA-TTTGAA-ATTTTTTCTCGAGAAAAAAAGGGGTGTGTCGGCCATGC
2554341 A
63 A
* *
2554342 ATGGCCTACACCAAAAATATTTGAAATTTTTTCTCGAGAAAAAAAGGGAG-GTGTCGGCCATGTA
1 ATGGCCAACACCAAAAA-ATTTGAAATTTTTTCTCGAGAAAAAAAGGG-GTGTGTCGGCCATGCA
* *
2554406 ATGGCCAACACAAAAAAAATTTAAAATTTTTTTCTCGAGAAA
1 ATGGCCAACAC-CAAAAAATTTGAAA-TTTTTTCTCGAGAAA
2554448 TTGAGGGTGT
Statistics
Matches: 93, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
61 12 0.13
62 13 0.14
63 10 0.11
64 37 0.40
65 21 0.23
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (63 bp):
ATGGCCAACACCAAAAAATTTGAAATTTTTTCTCGAGAAAAAAAGGGGTGTGTCGGCCATGCA
Found at i:2554485 original size:62 final size:61
Alignment explanation
Indices: 2554279--2554485 Score: 202
Period size: 62 Copynumber: 3.3 Consensus size: 61
2554269 AAAAAGGGGC
* ** *
2554279 ATGGCCGACACCCAAAAAATTTTGAATATTTTATCTCGAGAAAAGGGGTGTGTCGGCCATGCA
1 ATGGCCAACACCCAAAAAATTTAAAAT-TTTTTTCTCGAGAAAAGGGG-GTGTCGGCCATGCA
* * *
2554342 ATGGCCTACA-CCAAAAATATTTGAAA-TTTTTTCTCGAGAAAAAAAGGGAGGTGTCGGCCATGT
1 ATGGCCAACACCCAAAAA-ATTTAAAATTTTTTTCTCGAG---AAAAGGG-GGTGTCGGCCATGC
2554405 A
61 A
** * * **
2554406 ATGGCCAACACAAAAAAAATTTAAAATTTTTTTCTCGAGAAATTGAGGGTGTCGGTTATGCA
1 ATGGCCAACACCCAAAAAATTTAAAATTTTTTTCTCGAGAAA-AGGGGGTGTCGGCCATGCA
*
2554468 ATGGTCAACACCCAAAAA
1 ATGGCCAACACCCAAAAA
2554486 TGCATTTTTT
Statistics
Matches: 119, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
61 11 0.09
62 37 0.31
63 17 0.14
64 36 0.30
65 18 0.15
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (61 bp):
ATGGCCAACACCCAAAAAATTTAAAATTTTTTTCTCGAGAAAAGGGGGTGTCGGCCATGCA
Found at i:2558392 original size:20 final size:21
Alignment explanation
Indices: 2558369--2558407 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2558359 AAAAGCATAA
*
2558369 AGAAACAAAGA-AAAAAAATT
1 AGAAAAAAAGAGAAAAAAATT
2558389 AGAAAAAAAGAGAAAAAAA
1 AGAAAAAAAGAGAAAAAAA
2558408 AACTTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (21 bp):
AGAAAAAAAGAGAAAAAAATT
Found at i:2560423 original size:14 final size:14
Alignment explanation
Indices: 2560406--2560432 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2560396 CTCGATTCGT
2560406 TTAATTCGAATAAC
1 TTAATTCGAATAAC
2560420 TTAATTCGAATAA
1 TTAATTCGAATAA
2560433 TTCAAAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (14 bp):
TTAATTCGAATAAC
Found at i:2565630 original size:25 final size:25
Alignment explanation
Indices: 2565577--2565622 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2565567 ATTGGATCCA
2565577 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
*
2565602 AATTAAA-TCTAAACA-ATAATT
1 AATTAAATTCTAAAAAGATAATT
2565623 CTCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:2566976 original size:83 final size:83
Alignment explanation
Indices: 2566879--2567046 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 83
2566869 TTAAACAAAA
2566879 TATATTTTCTTTCTAGAAAATTTAGTATTTATTAGTATAATATATTTATCATTTATTAGCATTAT
1 TATATTTTCTTTCTAGAAAATTTAGTATTTATTAGTATAATATATTTATCATTTATTAGCATTAT
2566944 TTATTTGACCTACGAATT
66 TTATTTGACCTACGAATT
*
2566962 TATATTTTCTTTCTAGAAAATTTAGTATTTATTAGTATAATATATTTATCATTTATTAGTATTAT
1 TATATTTTCTTTCTAGAAAATTTAGTATTTATTAGTATAATATATTTATCATTTATTAGCATTAT
2567027 TTATTTGACCTACGAATT
66 TTATTTGACCTACGAATT
2567045 TA
1 TA
2567047 GTCTATAAAT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (83 bp):
TATATTTTCTTTCTAGAAAATTTAGTATTTATTAGTATAATATATTTATCATTTATTAGCATTAT
TTATTTGACCTACGAATT
Found at i:2569440 original size:41 final size:41
Alignment explanation
Indices: 2569395--2569482 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 41
2569385 ATAACTATAA
*
2569395 AATATTTA-ATATTTATGTAAAACACAAGATCTAAACAAAAC
1 AATATTTATATATTTATGTAAAA-AAAAGATCTAAACAAAAC
* * *
2569436 AATATATATATATTTATGTAAAAAAAATATCTGAACAAAAC
1 AATATTTATATATTTATGTAAAAAAAAGATCTAAACAAAAC
2569477 AATATT
1 AATATT
2569483 CAAATAAGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
41 27 0.66
42 14 0.34
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.32
Consensus pattern (41 bp):
AATATTTATATATTTATGTAAAAAAAAGATCTAAACAAAAC
Found at i:2574173 original size:23 final size:23
Alignment explanation
Indices: 2574101--2574173 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
2574091 TACAATTTTC
* * *
2574101 AAATAAAATTAAAAAC-GATAATG
1 AAATAACATTAAAAACAG-CAACG
*
2574124 AAACAACATTAAAAACAGCAACG
1 AAATAACATTAAAAACAGCAACG
**
2574147 AAATAACATTAAAAATGGCAACG
1 AAATAACATTAAAAACAGCAACG
2574170 AAAT
1 AAAT
2574174 GATAGTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 41 0.98
24 1 0.02
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.16
Consensus pattern (23 bp):
AAATAACATTAAAAACAGCAACG
Found at i:2574182 original size:23 final size:23
Alignment explanation
Indices: 2574123--2574184 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
2574113 AAACGATAAT
* * **
2574123 GAAACAACATTAAAAACAGCAAC
1 GAAATAACAGTAAAAATGGCAAC
*
2574146 GAAATAACATTAAAAATGGCAAC
1 GAAATAACAGTAAAAATGGCAAC
* *
2574169 GAAATGATAGTAAAAA
1 GAAATAACAGTAAAAA
2574185 CGAATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.15
Consensus pattern (23 bp):
GAAATAACAGTAAAAATGGCAAC
Found at i:2576953 original size:6 final size:6
Alignment explanation
Indices: 2576942--2576967 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2576932 CAACTACACT
2576942 GGTTGG GGTTGG GGTTGG GGTTGG GG
1 GGTTGG GGTTGG GGTTGG GGTTGG GG
2576968 CTCCTCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (6 bp):
GGTTGG
Found at i:2579752 original size:6 final size:6
Alignment explanation
Indices: 2579743--2579777 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
2579733 CTACACTGGC
2579743 TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGGGG
1 TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGGGG
2579778 CTCCTCTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (6 bp):
TGGGGT
Found at i:2586695 original size:19 final size:19
Alignment explanation
Indices: 2586656--2586702 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
2586646 ATTATAAAAT
** *
2586656 AATTCAAAATATTTTTTAA
1 AATTCAAAATATTAATAAA
2586675 AATTCAAAATATTAATAAA
1 AATTCAAAATATTAATAAA
2586694 AATTTCAAA
1 AA-TTCAAA
2586703 TTTTATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATATTAATAAA
Found at i:2586728 original size:25 final size:24
Alignment explanation
Indices: 2586686--2586742 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
2586676 ATTCAAAATA
* *
2586686 TTAATAAAAATTTCAAATTTTATAT
1 TTAAAAAAAATTTCAAA-TATATAT
2586711 TTAAAAAAAA-TTCTAAATATATAT
1 TTAAAAAAAATTTC-AAATATATAT
*
2586735 ATAAAAAA
1 TTAAAAAA
2586743 GTTAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAAAAAAATTTCAAATATATAT
Found at i:2586748 original size:21 final size:22
Alignment explanation
Indices: 2586706--2586757 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2586696 TTTCAAATTT
* *
2586706 TATATTTAAAAAAAATTCTAAA
1 TATATATAAAAAAAAGTCTAAA
*
2586728 TATATATATAAAAAAGT-TAAA
1 TATATATAAAAAAAAGTCTAAA
2586749 T-T-TATAAAA
1 TATATATAAAA
2586758 TTTTCTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.23
20 1 0.04
21 5 0.19
22 14 0.54
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
TATATATAAAAAAAAGTCTAAA
Found at i:2589841 original size:18 final size:17
Alignment explanation
Indices: 2589815--2589848 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2589805 ATTCTAAAAT
2589815 TTAAAATTATAATAATAA
1 TTAAAATTATAA-AATAA
*
2589833 TTAATATTATAAAATA
1 TTAAAATTATAAAATA
2589849 TTTTTATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAATTATAAAATAA
Found at i:2590157 original size:3 final size:3
Alignment explanation
Indices: 2590151--2590211 Score: 104
Period size: 3 Copynumber: 19.7 Consensus size: 3
2590141 GATTTCTTGA
2590151 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCAT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT
2590197 TCT TCAT TCT TCT TC
1 TCT TC-T TCT TCT TC
2590212 CTTTTTGTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 50 0.89
4 6 0.11
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:2590270 original size:9 final size:9
Alignment explanation
Indices: 2590256--2590283 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2590246 GGAGCCTGCA
2590256 CTTCAAAGC
1 CTTCAAAGC
2590265 CTTCAAAGC
1 CTTCAAAGC
2590274 CTTCAAAGC
1 CTTCAAAGC
2590283 C
1 C
2590284 AAACCCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.11, T:0.21
Consensus pattern (9 bp):
CTTCAAAGC
Found at i:2599149 original size:20 final size:20
Alignment explanation
Indices: 2599124--2599161 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2599114 CTTAATGGAC
*
2599124 CTACAAAATGCGAATGATGT
1 CTACAAAATACGAATGATGT
2599144 CTACAAAATACGAATGAT
1 CTACAAAATACGAATGAT
2599162 TGGTACTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (20 bp):
CTACAAAATACGAATGATGT
Found at i:2602746 original size:2 final size:2
Alignment explanation
Indices: 2602739--2602768 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2602729 TAAGGAAGAA
*
2602739 AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2602769 GGAGGGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2602750 original size:10 final size:10
Alignment explanation
Indices: 2602735--2602767 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
2602725 TTTATAAGGA
2602735 AGAAAGAGAG
1 AGAAAGAGAG
2602745 AGAAAGAGAG
1 AGAAAGAGAG
*
2602755 AGAGAGAGAG
1 AGAAAGAGAG
2602765 AGA
1 AGA
2602768 GGGAGGGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (10 bp):
AGAAAGAGAG
Found at i:2617790 original size:6 final size:6
Alignment explanation
Indices: 2617781--2617809 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2617771 AAATGGAAAT
2617781 GAAAGA GAAAGA GAAAGA GAAAGA GAAAG
1 GAAAGA GAAAGA GAAAGA GAAAGA GAAAG
2617810 TGCAGGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (6 bp):
GAAAGA
Found at i:2619845 original size:22 final size:22
Alignment explanation
Indices: 2619805--2619847 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2619795 CTCTAAACAT
*
2619805 AGTTAATAATGTTAACTATTTC
1 AGTTAATAATATTAACTATTTC
2619827 AGTTAA-AATATTAACCTATTT
1 AGTTAATAATATTAA-CTATTT
2619848 TTTCCCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
AGTTAATAATATTAACTATTTC
Found at i:2620300 original size:41 final size:40
Alignment explanation
Indices: 2620095--2620486 Score: 204
Period size: 41 Copynumber: 9.3 Consensus size: 40
2620085 AGCTGCATTT
* * **
2620095 TTAGCGGCGTTTGGACAC-AAAGCGCCGCAAAAGGTAAAG-CA
1 TTAGCGGCGCTT--ACACAAAAGCGCCGCTAAAGGT-CGGTCA
* * * * ***
2620136 TTAGCGGCGCTTTTC-CTAATGCGCCGCAAAAGGTAAATCA
1 TTAGCGGCGC-TTACACAAAAGCGCCGCTAAAGGTCGGTCA
*
2620176 TTAGCGGCGCTTACAC-AAAGCGCCGCTAAAGGTCGGGTCT
1 TTAGCGGCGCTTACACAAAAGCGCCGCTAAAGGTC-GGTCA
* * * * *
2620216 TTAGCGACTCTTTACCCACAAGCGCCGCTAAAGGTCGACTCA
1 TTAGCGGCGC-TTACACAAAAGCGCCGCTAAAGGTCG-GTCA
* * *
2620258 TTAGCGGCGCTTAGACAAAAGCGCCACTAAATGTCAGGTCATTA
1 TTAGCGGCGCTTACACAAAAGCGCCGCTAAAGGTC-GGTC---A
* *
2620302 GCGGCTGGATAGCGGCGCTTATC-CAGAAGCGCCGCTAATGGTCTGGTCA
1 -----T---TAGCGGCGCTTA-CACAAAAGCGCCGCTAAAGGTC-GGTCA
* *
2620351 TTAGCGGCGCTT-CACCAAAAGCGCCGCTAAAAGTGGAGTCA
1 TTAGCGGCGCTTACA-CAAAAGCGCCGCTAAAGGTCG-GTCA
* * *
2620392 TTAGCGGCGCTTACCCATAAA-CGCCGCTAAAGGTTGTATCA
1 TTAGCGGCGCTTACACA-AAAGCGCCGCTAAAGGTCG-GTCA
* * * * *
2620433 TTAGCGACGCTTATATAGAAAGCGCCGGTAAAGGTCAGGTTA
1 TTAGCGGCGCTTACACA-AAAGCGCCGCTAAAGGTC-GGTCA
2620475 TTAGCGGCGCTT
1 TTAGCGGCGCTT
2620487 TTCTAATAAG
Statistics
Matches: 273, Mismatches: 50, Indels: 55
0.72 0.13 0.15
Matches are distributed among these distances:
39 22 0.08
40 41 0.15
41 114 0.42
42 59 0.22
43 1 0.00
44 2 0.01
49 2 0.01
52 32 0.12
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGCTTACACAAAAGCGCCGCTAAAGGTCGGTCA
Found at i:2620350 original size:52 final size:52
Alignment explanation
Indices: 2620259--2620358 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
2620249 GTCGACTCAT
2620259 TAGCGGCGCTTAGACAAAAGCGCCACTAAATGTCAGGTCATTAGCGGCTGGA
1 TAGCGGCGCTTAGACAAAAGCGCCACTAAATGTCAGGTCATTAGCGGCTGGA
** * * *
2620311 TAGCGGCGCTTATCCAGAAGCGCCGCT-AATGGTCTGGTCATTAGCGGC
1 TAGCGGCGCTTAGACAAAAGCGCCACTAAAT-GTCAGGTCATTAGCGGC
2620359 GCTTCACCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 3 0.07
52 39 0.93
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.21
Consensus pattern (52 bp):
TAGCGGCGCTTAGACAAAAGCGCCACTAAATGTCAGGTCATTAGCGGCTGGA
Found at i:2620422 original size:134 final size:134
Alignment explanation
Indices: 2620177--2620422 Score: 327
Period size: 134 Copynumber: 1.8 Consensus size: 134
2620167 GGTAAATCAT
* * * *
2620177 TAGCGGCGCTTACACAAAGCGCCGCTAAAGGTCGGGTCTTTAGCGACTCTTTACCCACAAGCGCC
1 TAGCGGCGCTTACACAAAGCGCCGCTAAAGGTCGGGTCATTAGCGACGCTTCACCCAAAAGCGCC
* *
2620242 GCTAAAGGTCGACTCATTAGCGGCGCTTAGACAAAAGCGCCACTAAATGTCAGGTCATTAGCGGC
66 GCTAAAAGTCGACTCATTAGCGGCGCTTACACAAAAGCGCCACTAAATGTCAGGTCATTAGCGGC
2620307 TGGA
131 TGGA
* * *
2620311 TAGCGGCGCTTATC-CAGAAGCGCCGCTAATGGTCTGGTCATTAGCGGCGCTTCA-CCAAAAGCG
1 TAGCGGCGCTTA-CACA-AAGCGCCGCTAAAGGTCGGGTCATTAGCGACGCTTCACCCAAAAGCG
* * * *
2620374 CCGCTAAAAGTGGAGTCATTAGCGGCGCTTACCCATAAA-CGCCGCTAAA
64 CCGCTAAAAGTCGACTCATTAGCGGCGCTTACACA-AAAGCGCCACTAAA
2620423 GGTTGTATCA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
134 61 0.64
135 35 0.36
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (134 bp):
TAGCGGCGCTTACACAAAGCGCCGCTAAAGGTCGGGTCATTAGCGACGCTTCACCCAAAAGCGCC
GCTAAAAGTCGACTCATTAGCGGCGCTTACACAAAAGCGCCACTAAATGTCAGGTCATTAGCGGC
TGGA
Found at i:2620744 original size:44 final size:43
Alignment explanation
Indices: 2620688--2620806 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 43
2620678 TTCCCTCAGT
* * **
2620688 CCGTTGCCTCTTCACCTGCAAAACCCACTTCTGTTTGCCTCACC
1 CCGTTCCCTCTTCACCT-CAAAACCCACTTCTCTTCCCCTCACC
* *
2620732 CCGTTCCCTCTTCACCCTCAAAACCGACTTCTCTTCCCCTCACT
1 CCGTTCCCTCTTCA-CCTCAAAACCCACTTCTCTTCCCCTCACC
** * * *
2620776 CCGTTCGGTCTTCACCCCAGAACCCGCTTCT
1 CCGTTCCCTCTTCACCTCAAAACCCACTTCT
2620807 TCAGTCGATC
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
43 13 0.21
44 46 0.74
45 3 0.05
ACGTcount: A:0.15, C:0.46, G:0.10, T:0.29
Consensus pattern (43 bp):
CCGTTCCCTCTTCACCTCAAAACCCACTTCTCTTCCCCTCACC
Found at i:2622728 original size:20 final size:22
Alignment explanation
Indices: 2622689--2622729 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
2622679 TTTTAATAAA
*
2622689 AAATATAAAATTATTAAATATT
1 AAATATAAAATTAATAAATATT
2622711 AAAT-TAAAA-TAATAAATAT
1 AAATATAAAATTAATAAATAT
2622730 ATGTTCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATATAAAATTAATAAATATT
Done.