Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 36 of 125
Found at i:10497308 original size:40 final size:40
Alignment explanation
Indices: 10497223--10497309 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
10497213 GGGGAACTAG
* * * *
10497223 AGTGCATTCAGGGGCACGAATGTACAATCAGGGGCACCGA
1 AGTGCATACAGGGGCACGAATGTACAAACAGGAGCACCAA
*
10497263 AGTGCATACAGGGGCATCGAA-GTGCAAACAGGAGCA-CAA
1 AGTGCATACAGGGGCA-CGAATGTACAAACAGGAGCACCAA
10497302 ATGTGCAT
1 A-GTGCAT
10497310 TCTAGAGCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.08
40 33 0.82
41 4 0.10
ACGTcount: A:0.33, C:0.21, G:0.31, T:0.15
Consensus pattern (40 bp):
AGTGCATACAGGGGCACGAATGTACAAACAGGAGCACCAA
Found at i:10499727 original size:22 final size:23
Alignment explanation
Indices: 10499702--10499746 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
10499692 TTTCGAACAT
*
10499702 CAACACTACATATTCA-TATCAC
1 CAACACAACATATTCACTATCAC
*
10499724 CAACACAATATATTCACTATCAC
1 CAACACAACATATTCACTATCAC
10499747 ATGGCGTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (23 bp):
CAACACAACATATTCACTATCAC
Found at i:10500807 original size:27 final size:27
Alignment explanation
Indices: 10500777--10500838 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
10500767 ATTGGGAGAG
10500777 TATGGGGAAATGAAAGGATGACACAAA
1 TATGGGGAAATGAAAGGATGACACAAA
10500804 TATGGGGAAATGAAAGGATGACACAAA
1 TATGGGGAAATGAAAGGATGACACAAA
10500831 TATGGGGA
1 TATGGGGA
10500839 GGAGAATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.32, T:0.16
Consensus pattern (27 bp):
TATGGGGAAATGAAAGGATGACACAAA
Found at i:10501371 original size:29 final size:29
Alignment explanation
Indices: 10501316--10501394 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
10501306 TGGGATATTA
* * *
10501316 CACAAGGTA-TCACATATAATAGTTTCTGC
1 CACAAGG-ACTCACATATAACAGGTTCTAC
*
10501345 CACAATGACTCACATATAACAGGTTCTAC
1 CACAAGGACTCACATATAACAGGTTCTAC
* * *
10501374 CATAAGGGCTCACTTATAACA
1 CACAAGGACTCACATATAACA
10501395 AAACAACAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 1 0.02
29 40 0.98
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (29 bp):
CACAAGGACTCACATATAACAGGTTCTAC
Found at i:10501468 original size:28 final size:28
Alignment explanation
Indices: 10501427--10501480 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
10501417 CATGTAACAG
* *
10501427 AACAGCCACAAAGGCTTTCACATATCAA
1 AACAACCACAAAGGCTTCCACATATCAA
*
10501455 AACAACCATAAAGGCTTCCACATATC
1 AACAACCACAAAGGCTTCCACATATC
10501481 GGTAACTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.43, C:0.30, G:0.09, T:0.19
Consensus pattern (28 bp):
AACAACCACAAAGGCTTCCACATATCAA
Found at i:10509036 original size:20 final size:22
Alignment explanation
Indices: 10509006--10509045 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10508996 AAAATGGGGT
10509006 TTTTTTCAAGGATT-GGGAGAC
1 TTTTTTCAAGGATTAGGGAGAC
10509027 TTTTTT-AAGGATTAGGGAG
1 TTTTTTCAAGGATTAGGGAG
10509046 GAACACCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.05, G:0.30, T:0.40
Consensus pattern (22 bp):
TTTTTTCAAGGATTAGGGAGAC
Found at i:10526631 original size:21 final size:21
Alignment explanation
Indices: 10526607--10526659 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
10526597 CTTGGAAAAG
*
10526607 TTCTACCGATACAAGT-GTAAC
1 TTCTACCGATACAAGTCAT-AC
*
10526628 TTCTACCGA-ACAAGTCATGC
1 TTCTACCGATACAAGTCATAC
10526648 TTCTACCGATAC
1 TTCTACCGATAC
10526660 TAAAAACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGTCATAC
Found at i:10527436 original size:52 final size:52
Alignment explanation
Indices: 10527371--10527609 Score: 343
Period size: 52 Copynumber: 4.6 Consensus size: 52
10527361 GTTTCATTTA
** * * * *
10527371 TTACTCATTATGACACATAGTCATCGGACCACTTAATCCGTAGAGGAATCAT
1 TTACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* ** *
10527423 ATACTCACGATGACACATAGTCATCGGACCTCATAATTAGTGAAGGATTCAT
1 TTACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
10527475 TTACTCACAATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 TTACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
10527527 TTACTCACGATGACACATAGTTATTGGACCTGATAATCCGTAAAGGATTCAT
1 TTACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
10527579 TTACTCACGATGACACATAGTCATTGGACCT
1 TTACTCACGATGACACATAGTCATCGGACCT
10527610 TTTTTTTCAT
Statistics
Matches: 167, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 167 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (52 bp):
TTACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:10531773 original size:46 final size:46
Alignment explanation
Indices: 10531720--10531813 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
10531710 CAGAAAACTC
*
10531720 TAGAGAGCTAGGAAGTCTTACCCTCCAACTTCTACCAATATAGGCA
1 TAGAGAGCTAGGAAGTCTTACCCTCCAACTTCTACCAATACAGGCA
10531766 TAGAGAGCTAGGAAGTCTTACCCTCCAACTTCTACCAATACAGGCA
1 TAGAGAGCTAGGAAGTCTTACCCTCCAACTTCTACCAATACAGGCA
10531812 TA
1 TA
10531814 CACAGAACTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (46 bp):
TAGAGAGCTAGGAAGTCTTACCCTCCAACTTCTACCAATACAGGCA
Found at i:10532541 original size:52 final size:52
Alignment explanation
Indices: 10532473--10532659 Score: 268
Period size: 52 Copynumber: 3.6 Consensus size: 52
10532463 GTTTCATTTA
* * * *
10532473 TTACTGACGATGACACATAGTCATCGGACCTCTTGATCTGTAAAGGCA-TCAT
1 TTACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG-ATTCAT
*
10532525 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 TTACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
10532577 TTACTCACGATGACACATAGTCATCGGACTTCATAATCCATACATGATTCAT
1 TTACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
10532629 TTACTCACAATGACACATAGTCATCGGACCT
1 TTACTCACGATGACACATAGTCATCGGACCT
10532660 TTTTCATTTA
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
51 1 0.01
52 121 0.99
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (52 bp):
TTACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:10538499 original size:46 final size:45
Alignment explanation
Indices: 10538446--10538537 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 45
10538436 GGTAGAAGTA
* * * * * *
10538446 TGTGGCAGTTTATTTGTGATTTTGGTTGCTTGTCCACGATTTTGAT
1 TGTGGCAGTATATCTATGATTTTGGTGGCTTCTCCAC-AATTTGAT
10538492 TGTGGCAGTATATCTATGATTTTGGTGGCTTCTCCACAATTTGAT
1 TGTGGCAGTATATCTATGATTTTGGTGGCTTCTCCACAATTTGAT
10538537 T
1 T
10538538 ATGTTTCAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 8 0.20
46 32 0.80
ACGTcount: A:0.16, C:0.13, G:0.24, T:0.47
Consensus pattern (45 bp):
TGTGGCAGTATATCTATGATTTTGGTGGCTTCTCCACAATTTGAT
Found at i:10539452 original size:23 final size:23
Alignment explanation
Indices: 10539426--10539488 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
10539416 TCTCTGTGAT
10539426 GCCTTTGTGGCGTATTTCGTATA
1 GCCTTTGTGGCGTATTTCGTATA
* *
10539449 GCCTTTGTGGCATATTTTGTATA
1 GCCTTTGTGGCGTATTTCGTATA
* *
10539472 GCCTTTATGGCGGATTT
1 GCCTTTGTGGCGTATTT
10539489 GATGAAGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.44
Consensus pattern (23 bp):
GCCTTTGTGGCGTATTTCGTATA
Found at i:10542768 original size:12 final size:12
Alignment explanation
Indices: 10542751--10542800 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
10542741 CAGGTTCTGT
10542751 TTCTTCTTTCTC
1 TTCTTCTTTCTC
10542763 TTCTTCCTTTC-C
1 TTCTT-CTTTCTC
*
10542775 TTCTTCTTTTTC
1 TTCTTCTTTCTC
* *
10542787 TTCATCCTTCTC
1 TTCTTCTTTCTC
10542799 TT
1 TT
10542801 GATCACCTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 4 0.12
12 23 0.72
13 5 0.16
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTCTTTCTC
Found at i:10562223 original size:20 final size:20
Alignment explanation
Indices: 10562185--10562309 Score: 78
Period size: 20 Copynumber: 6.3 Consensus size: 20
10562175 GTGCACTCAG
* ** *
10562185 GGGCACCAGAGTGGGAACAG
1 GGGCATCAGAGTGCAAACAA
* *
10562205 GGGCATCGGAGTGCAAACAT
1 GGGCATCAGAGTGCAAACAA
* *
10562225 GGGCA-CAAATGTACAAAC-A
1 GGGCATCAGA-GTGCAAACAA
*
10562244 GGACAT-AGATGTGCAAACAA
1 GGGCATCAGA-GTGCAAACAA
* *
10562264 GGGCA-CTAGAGTGTAAACAG
1 GGGCATC-AGAGTGCAAACAA
* *
10562284 GGGCACCGGAGTGCAAACAA
1 GGGCATCAGAGTGCAAACAA
10562304 GGGCAT
1 GGGCAT
10562310 GAATCTGCAT
Statistics
Matches: 80, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
19 16 0.20
20 60 0.75
21 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.34, T:0.11
Consensus pattern (20 bp):
GGGCATCAGAGTGCAAACAA
Found at i:10593317 original size:23 final size:22
Alignment explanation
Indices: 10593284--10593334 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
10593274 CTTTATTTGA
10593284 TAAAATA-TTTTGATATAACAAAT
1 TAAAATATTTTTGA-AT-ACAAAT
* *
10593307 TAAAATGTTTTTGAATACAAGT
1 TAAAATATTTTTGAATACAAAT
10593329 TAAAAT
1 TAAAAT
10593335 TGACAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (22 bp):
TAAAATATTTTTGAATACAAAT
Found at i:10593331 original size:22 final size:24
Alignment explanation
Indices: 10593291--10593334 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
10593281 TGATAAAATA
10593291 TTTTGATATAACAAATTAAAATGT
1 TTTTGATATAACAAATTAAAATGT
*
10593315 TTTTGA-AT-ACAAGTTAAAAT
1 TTTTGATATAACAAATTAAAAT
10593335 TGACAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAATGT
Found at i:10602230 original size:10 final size:10
Alignment explanation
Indices: 10602206--10602236 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
10602196 TTATTTATTT
10602206 ATTTTCATGC
1 ATTTTCATGC
10602216 A-TTTCATGC
1 ATTTTCATGC
10602225 ATTTTCATGC
1 ATTTTCATGC
10602235 AT
1 AT
10602237 CTTAGTCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (10 bp):
ATTTTCATGC
Found at i:10622200 original size:21 final size:21
Alignment explanation
Indices: 10622176--10622224 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10622166 GACTTTTATT
*
10622176 AGTAGAGGAGTCAATTGTATC
1 AGTAGAAGAGTCAATTGTATC
** *
10622197 AGTAGAATTGTCACTTGTATC
1 AGTAGAAGAGTCAATTGTATC
10622218 AGTAGAA
1 AGTAGAA
10622225 ATCTGCATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (21 bp):
AGTAGAAGAGTCAATTGTATC
Found at i:10625674 original size:14 final size:14
Alignment explanation
Indices: 10625637--10625691 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
10625627 TTCATCTCAC
*
10625637 ACCATTTATTGTTT
1 ACCATTTATTTTTT
*
10625651 ACCATGTATTTTTCT
1 ACCATTTATTTTT-T
10625666 A-CATTTATTTTTT
1 ACCATTTATTTTTT
*
10625679 AAGCATTTATTTT
1 -ACCATTTATTTT
10625692 CCCATACCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 1 0.03
14 22 0.63
15 12 0.34
ACGTcount: A:0.24, C:0.13, G:0.05, T:0.58
Consensus pattern (14 bp):
ACCATTTATTTTTT
Found at i:10629819 original size:17 final size:18
Alignment explanation
Indices: 10629793--10629827 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10629783 TCAATTTTGT
*
10629793 AAAGACTGAATTTAGATA
1 AAAGACTGAATTAAGATA
10629811 AAAGA-TGAATTAAGATA
1 AAAGACTGAATTAAGATA
10629828 GTTATGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.54, C:0.03, G:0.17, T:0.26
Consensus pattern (18 bp):
AAAGACTGAATTAAGATA
Found at i:10635085 original size:58 final size:56
Alignment explanation
Indices: 10635022--10635140 Score: 134
Period size: 58 Copynumber: 2.1 Consensus size: 56
10635012 ATAGAAATGG
*
10635022 TGAAATGGAGA-AATAA-GAAACATTTAGGAAATGATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAT-GAGATAA-AAGGAAACATTT-GGAAATGAATATGGTTTTCT-CAAAATGAAAA
* * * *
10635080 TGAAATTAGATAAAATGGAATCATTTGGAAATGAATGTGGTTTTCTCAAAATGGAAA
1 TGAAATGAGATAAAA-GGAAACATTTGGAAATGAATATGGTTTTCTCAAAATGAAAA
10635137 TGAA
1 TGAA
10635141 TTCATTTACA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
57 19 0.36
58 26 0.49
59 8 0.15
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (56 bp):
TGAAATGAGATAAAAGGAAACATTTGGAAATGAATATGGTTTTCTCAAAATGAAAA
Found at i:10639269 original size:17 final size:16
Alignment explanation
Indices: 10639247--10639279 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
10639237 AATTAGAAAT
10639247 TAAATAACTAAAATAAA
1 TAAATAA-TAAAATAAA
10639264 TAAATAATAAAATAAA
1 TAAATAATAAAATAAA
10639280 CAAAAGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATAATAAAATAAA
Found at i:10642729 original size:42 final size:42
Alignment explanation
Indices: 10642682--10642765 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
10642672 AAAATATCAT
*
10642682 TTAGTCTAGAAATCAAGTGTACTTCCATATAAACATGAAATA
1 TTAGTCTAGAAATCAAGTGTACTTCCATACAAACATGAAATA
*
10642724 TTAGTCTATAAATCAAGTGTACTTCCATACAAACATGAAATA
1 TTAGTCTAGAAATCAAGTGTACTTCCATACAAACATGAAATA
10642766 AACATTAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (42 bp):
TTAGTCTAGAAATCAAGTGTACTTCCATACAAACATGAAATA
Found at i:10644182 original size:17 final size:19
Alignment explanation
Indices: 10644160--10644196 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
10644150 ATGGTGCTTC
10644160 TTCTTCC-TTCT-CTTTTT
1 TTCTTCCTTTCTGCTTTTT
10644177 TTCTTCCTTTCTGCTTTTT
1 TTCTTCCTTTCTGCTTTTT
10644196 T
1 T
10644197 ATATAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (19 bp):
TTCTTCCTTTCTGCTTTTT
Found at i:10650464 original size:15 final size:16
Alignment explanation
Indices: 10650433--10650465 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10650423 AAATATTAAG
*
10650433 ATGATTATATGTTTTT
1 ATGATTATATGTGTTT
10650449 ATGATT-TATGTGTTT
1 ATGATTATATGTGTTT
10650464 AT
1 AT
10650466 TAATTGACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (16 bp):
ATGATTATATGTGTTT
Found at i:10660967 original size:46 final size:46
Alignment explanation
Indices: 10660873--10660992 Score: 188
Period size: 46 Copynumber: 2.6 Consensus size: 46
10660863 GATAAAAGAG
* *
10660873 AAACAAATCCCTGAAATTGTGGAAGAC-AATGCCTATAATTTAGCC
1 AAACAAATCCTTGAAATTGTGGAAGACAAATGCCTACAATTTAGCC
* *
10660918 AAACAAATCCTTGAAATTGTGGAAGACAAATGCCTACACTTTAGTC
1 AAACAAATCCTTGAAATTGTGGAAGACAAATGCCTACAATTTAGCC
*
10660964 AAACAAATCTTTGAAATTGTGGAAGACAA
1 AAACAAATCCTTGAAATTGTGGAAGACAA
10660993 CTTGACTTGA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 26 0.38
46 43 0.62
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (46 bp):
AAACAAATCCTTGAAATTGTGGAAGACAAATGCCTACAATTTAGCC
Found at i:10661609 original size:17 final size:18
Alignment explanation
Indices: 10661577--10661610 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10661567 CCTTTGTTTT
*
10661577 CTTTTGCTCTTCCAATTA
1 CTTTTGATCTTCCAATTA
10661595 CTTTTGATC-TCCAATT
1 CTTTTGATCTTCCAATT
10661611 CCTAATTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.26, G:0.06, T:0.50
Consensus pattern (18 bp):
CTTTTGATCTTCCAATTA
Found at i:10662610 original size:36 final size:36
Alignment explanation
Indices: 10662570--10662787 Score: 294
Period size: 36 Copynumber: 6.1 Consensus size: 36
10662560 CTGTTGTGAA
* *
10662570 AGTAAATATGTGGGCATGTTATTAATGCCATGAGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
* * *
10662606 AGTAAATATGTGGGTATGTTATTCCTGCCATGTGGC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
* *
10662642 AGTAAATGTGT-GGTATGTTATTCTTGCCATGAGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
* **
10662677 AGTAAATATGTGGGTTTGTTATTCATGCCATCTGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
* * *
10662713 AGTAAATATGTGGGTATGCTATTTATGCCATGAGAT
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
* *
10662749 AATAAATATGTGGGTGTGTTATTCATGCCATGAGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
10662785 AGT
1 AGT
10662788 GAGTATAATG
Statistics
Matches: 155, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
35 31 0.20
36 124 0.80
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.35
Consensus pattern (36 bp):
AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
Found at i:10662761 original size:107 final size:108
Alignment explanation
Indices: 10662570--10662787 Score: 294
Period size: 107 Copynumber: 2.0 Consensus size: 108
10662560 CTGTTGTGAA
* * *
10662570 AGTAAATATGTGGGCATGTTATTAATGCCATGAGACAGTAAATATGTGGGTATGTTATTCCTGCC
1 AGTAAATATGTGGGCATGTTATTAATGCCATCAGACAGTAAATATGTGGGTATGCTATTCATGCC
* * * * *
10662635 ATGTGGCAGTAAATGTGT-GGTATGTTATTCTTGCCATGAGAC
66 ATGAGACAATAAATATGTGGGTATGTTATTCATGCCATGAGAC
** * * *
10662677 AGTAAATATGTGGGTTTGTTATTCATGCCATCTGACAGTAAATATGTGGGTATGCTATTTATGCC
1 AGTAAATATGTGGGCATGTTATTAATGCCATCAGACAGTAAATATGTGGGTATGCTATTCATGCC
* *
10662742 ATGAGATAATAAATATGTGGGTGTGTTATTCATGCCATGAGAC
66 ATGAGACAATAAATATGTGGGTATGTTATTCATGCCATGAGAC
10662785 AGT
1 AGT
10662788 GAGTATAATG
Statistics
Matches: 95, Mismatches: 15, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
107 70 0.74
108 25 0.26
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.35
Consensus pattern (108 bp):
AGTAAATATGTGGGCATGTTATTAATGCCATCAGACAGTAAATATGTGGGTATGCTATTCATGCC
ATGAGACAATAAATATGTGGGTATGTTATTCATGCCATGAGAC
Found at i:10663533 original size:23 final size:23
Alignment explanation
Indices: 10663191--10663527 Score: 487
Period size: 23 Copynumber: 14.7 Consensus size: 23
10663181 GTGTTAAATA
* *
10663191 TTAATGTGATTTAAGCTTAAATG
1 TTAATGTGATTTATGCTTAAAAG
* * *
10663214 TTAATATGATTTATAC-TAATAAA
1 TTAATGTGATTTATGCTTAA-AAG
*
10663237 TTAATGTGATTTATGCTTAAATG
1 TTAATGTGATTTATGCTTAAAAG
*
10663260 TTAATATGATTTATGCTTAAAAG
1 TTAATGTGATTTATGCTTAAAAG
* *
10663283 TTAATGTGATTTATACTTAAATG
1 TTAATGTGATTTATGCTTAAAAG
* * * *
10663306 TTAATATTATTTATGGTTAAAAC
1 TTAATGTGATTTATGCTTAAAAG
*
10663329 TTAATGTGATTTATGCTTAAATG
1 TTAATGTGATTTATGCTTAAAAG
*
10663352 TTATTGTGATTTATGCTTAAAAG
1 TTAATGTGATTTATGCTTAAAAG
10663375 TTAATGTGATTTATGCTTAAAAG
1 TTAATGTGATTTATGCTTAAAAG
10663398 TTAATGTGATTTATGCTTAAAAG
1 TTAATGTGATTTATGCTTAAAAG
* *
10663421 TTAATATGATTTATGCTTAAATG
1 TTAATGTGATTTATGCTTAAAAG
*
10663444 TTAAAGTGATTTATGCTTAAAAG
1 TTAATGTGATTTATGCTTAAAAG
10663467 TTAATGTGATTTATGCTTAAAAG
1 TTAATGTGATTTATGCTTAAAAG
*
10663490 TTAATGTGATTTGTGCTTAAAAG
1 TTAATGTGATTTATGCTTAAAAG
10663513 TTAATGTGATTTATG
1 TTAATGTGATTTATG
10663528 TGTAAATGGA
Statistics
Matches: 276, Mismatches: 36, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
22 3 0.01
23 270 0.98
24 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.45
Consensus pattern (23 bp):
TTAATGTGATTTATGCTTAAAAG
Found at i:10671105 original size:18 final size:18
Alignment explanation
Indices: 10671060--10671107 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
10671050 AGGAGGAAGA
*
10671060 TGAAGAGGAAGAAGAAAG
1 TGAAGAGGAGGAAGAAAG
*
10671078 TGAATAGGAGGAAGAAAG
1 TGAAGAGGAGGAAGAAAG
10671096 TGAAGAGGAGGA
1 TGAAGAGGAGGA
10671108 GGATGAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.42, T:0.08
Consensus pattern (18 bp):
TGAAGAGGAGGAAGAAAG
Found at i:10681294 original size:3 final size:3
Alignment explanation
Indices: 10681286--10681314 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10681276 TGTATGGGTT
10681286 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
10681315 ACGTTCCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:10690441 original size:20 final size:21
Alignment explanation
Indices: 10690404--10690442 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10690394 AAACTGAGCA
*
10690404 TCACTGAGTTAGAAAATGCAG
1 TCACTAAGTTAGAAAATGCAG
10690425 TCACTAAGTTA-AAAATGC
1 TCACTAAGTTAGAAAATGC
10690443 TAAAAATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (21 bp):
TCACTAAGTTAGAAAATGCAG
Found at i:10693776 original size:17 final size:17
Alignment explanation
Indices: 10693756--10693798 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
10693746 TCACATTCCC
*
10693756 ATTGTCATTACATTTTA
1 ATTGTCATTACATTTGA
* * *
10693773 ATTGTCACTGCATTTGC
1 ATTGTCATTACATTTGA
10693790 ATTGTCATT
1 ATTGTCATT
10693799 GTTATTTTCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.49
Consensus pattern (17 bp):
ATTGTCATTACATTTGA
Found at i:10698849 original size:780 final size:780
Alignment explanation
Indices: 10697349--10698926 Score: 3120
Period size: 780 Copynumber: 2.0 Consensus size: 780
10697339 TAAAGTAATT
10697349 GTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTTAATCTTGCTAAAATCTATTCCGTT
1 GTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTTAATCTTGCTAAAATCTATTCCGTT
10697414 CATATACTTTGCATACTTAGGATAATTTGCATTAGGGATCTTTGCATTTAGTTTAATATATTTAA
66 CATATACTTTGCATACTTAGGATAATTTGCATTAGGGATCTTTGCATTTAGTTTAATATATTTAA
10697479 TTTTAATCATCACTTCTTAATCATATTGTGTTTCTAATTTTACCAAGTTGTTAATATGATTTTAC
131 TTTTAATCATCACTTCTTAATCATATTGTGTTTCTAATTTTACCAAGTTGTTAATATGATTTTAC
10697544 AATTAAGTGATTTAACACAAATACAATCCCTGTGGAGACGATAACTCGATACTTACTTATTACTT
196 AATTAAGTGATTTAACACAAATACAATCCCTGTGGAGACGATAACTCGATACTTACTTATTACTT
10697609 GATTACGACTGTGTACACTTGCACAAACCTATGCGTTACAAGTTTTTGACACCGTTACCGGGGAT
261 GATTACGACTGTGTACACTTGCACAAACCTATGCGTTACAAGTTTTTGACACCGTTACCGGGGAT
10697674 TGTTAACTGTTGCCATAGTCATTTTTGTGAAATTATTTATTTTCAATTTGGTTTTTATTTCTAAC
326 TGTTAACTGTTGCCATAGTCATTTTTGTGAAATTATTTATTTTCAATTTGGTTTTTATTTCTAAC
10697739 ATTACTAACTTATTCTTTTTAATTTTGTGATTTCTTTTCAGGTGTTTATTAGCATAGATCGGATT
391 ATTACTAACTTATTCTTTTTAATTTTGTGATTTCTTTTCAGGTGTTTATTAGCATAGATCGGATT
10697804 ATCGATTTACTCCCTGTATACCCTGAAATTGAGCAAACTTTCAGACAAAGAAGACGTGAACGAAC
456 ATCGATTTACTCCCTGTATACCCTGAAATTGAGCAAACTTTCAGACAAAGAAGACGTGAACGAAC
10697869 AGCTCAAAGACAAGTCGAGATGGACCTTGGAAATCAGAGACCAAGGTAATGAAGCCGATTGTGTG
521 AGCTCAAAGACAAGTCGAGATGGACCTTGGAAATCAGAGACCAAGGTAATGAAGCCGATTGTGTG
10697934 CGAAATCCCATCCTCATTACCGATGATAGGGATCGATGCATCATACAATATGCTGCGCCACTTTT
586 CGAAATCCCATCCTCATTACCGATGATAGGGATCGATGCATCATACAATATGCTGCGCCACTTTT
10697999 CAATGAGTTAAATCCAGGAATTAGAAGGCTAGATATTGAGGCAACACAATTTGAATTGAAACTAG
651 CAATGAGTTAAATCCAGGAATTAGAAGGCTAGATATTGAGGCAACACAATTTGAATTGAAACTAG
10698064 TAATGTTTGAAAAGCTACAAACGGTGGGCCAATTTACTGGTATGCCTACGAAAGATCCACATCTC
716 TAATGTTTGAAAAGCTACAAACGGTGGGCCAATTTACTGGTATGCCTACGAAAGATCCACATCTC
10698129 GTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTTAATCTTGCTAAAATCTATTCCGTT
1 GTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTTAATCTTGCTAAAATCTATTCCGTT
10698194 CATATACTTTGCATACTTAGGATAATTTGCATTAGGGATCTTTGCATTTAGTTTAATATATTTAA
66 CATATACTTTGCATACTTAGGATAATTTGCATTAGGGATCTTTGCATTTAGTTTAATATATTTAA
10698259 TTTTAATCATCACTTCTTAATCATATTGTGTTTCTAATTTTACCAAGTTGTTAATATGATTTTAC
131 TTTTAATCATCACTTCTTAATCATATTGTGTTTCTAATTTTACCAAGTTGTTAATATGATTTTAC
10698324 AATTAAGTGATTTAACACAAATACAATCCCTGTGGAGACGATAACTCGATACTTACTTATTACTT
196 AATTAAGTGATTTAACACAAATACAATCCCTGTGGAGACGATAACTCGATACTTACTTATTACTT
10698389 GATTACGACTGTGTACACTTGCACAAACCTATGCGTTACAAGTTTTTGACACCGTTACCGGGGAT
261 GATTACGACTGTGTACACTTGCACAAACCTATGCGTTACAAGTTTTTGACACCGTTACCGGGGAT
10698454 TGTTAACTGTTGCCATAGTCATTTTTGTGAAATTATTTATTTTCAATTTGGTTTTTATTTCTAAC
326 TGTTAACTGTTGCCATAGTCATTTTTGTGAAATTATTTATTTTCAATTTGGTTTTTATTTCTAAC
10698519 ATTACTAACTTATTCTTTTTAATTTTGTGATTTCTTTTCAGGTGTTTATTAGCATAGATCGGATT
391 ATTACTAACTTATTCTTTTTAATTTTGTGATTTCTTTTCAGGTGTTTATTAGCATAGATCGGATT
10698584 ATCGATTTACTCCCTGTATACCCTGAAATTGAGCAAACTTTCAGACAAAGAAGACGTGAACGAAC
456 ATCGATTTACTCCCTGTATACCCTGAAATTGAGCAAACTTTCAGACAAAGAAGACGTGAACGAAC
10698649 AGCTCAAAGACAAGTCGAGATGGACCTTGGAAATCAGAGACCAAGGTAATGAAGCCGATTGTGTG
521 AGCTCAAAGACAAGTCGAGATGGACCTTGGAAATCAGAGACCAAGGTAATGAAGCCGATTGTGTG
10698714 CGAAATCCCATCCTCATTACCGATGATAGGGATCGATGCATCATACAATATGCTGCGCCACTTTT
586 CGAAATCCCATCCTCATTACCGATGATAGGGATCGATGCATCATACAATATGCTGCGCCACTTTT
10698779 CAATGAGTTAAATCCAGGAATTAGAAGGCTAGATATTGAGGCAACACAATTTGAATTGAAACTAG
651 CAATGAGTTAAATCCAGGAATTAGAAGGCTAGATATTGAGGCAACACAATTTGAATTGAAACTAG
10698844 TAATGTTTGAAAAGCTACAAACGGTGGGCCAATTTACTGGTATGCCTACGAAAGATCCACATCTC
716 TAATGTTTGAAAAGCTACAAACGGTGGGCCAATTTACTGGTATGCCTACGAAAGATCCACATCTC
** *
10698909 CACCTTAGATTATTTATG
1 GTCC-TAGTTTATTTATG
10698927 GAGGTGAGTG
Statistics
Matches: 794, Mismatches: 3, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
780 782 0.98
781 12 0.02
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (780 bp):
GTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTTAATCTTGCTAAAATCTATTCCGTT
CATATACTTTGCATACTTAGGATAATTTGCATTAGGGATCTTTGCATTTAGTTTAATATATTTAA
TTTTAATCATCACTTCTTAATCATATTGTGTTTCTAATTTTACCAAGTTGTTAATATGATTTTAC
AATTAAGTGATTTAACACAAATACAATCCCTGTGGAGACGATAACTCGATACTTACTTATTACTT
GATTACGACTGTGTACACTTGCACAAACCTATGCGTTACAAGTTTTTGACACCGTTACCGGGGAT
TGTTAACTGTTGCCATAGTCATTTTTGTGAAATTATTTATTTTCAATTTGGTTTTTATTTCTAAC
ATTACTAACTTATTCTTTTTAATTTTGTGATTTCTTTTCAGGTGTTTATTAGCATAGATCGGATT
ATCGATTTACTCCCTGTATACCCTGAAATTGAGCAAACTTTCAGACAAAGAAGACGTGAACGAAC
AGCTCAAAGACAAGTCGAGATGGACCTTGGAAATCAGAGACCAAGGTAATGAAGCCGATTGTGTG
CGAAATCCCATCCTCATTACCGATGATAGGGATCGATGCATCATACAATATGCTGCGCCACTTTT
CAATGAGTTAAATCCAGGAATTAGAAGGCTAGATATTGAGGCAACACAATTTGAATTGAAACTAG
TAATGTTTGAAAAGCTACAAACGGTGGGCCAATTTACTGGTATGCCTACGAAAGATCCACATCTC
Found at i:10713418 original size:6 final size:6
Alignment explanation
Indices: 10713407--10713457 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
10713397 AATGATGCTC
10713407 AGAAAA AGAAAA AGAAAA AGAAAA AG-AAA AG-AAA AGAAAA A-AAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
10713452 A-AAAA A
1 AGAAAA A
10713458 ATTAAAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
5 20 0.45
6 24 0.55
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:10720315 original size:14 final size:14
Alignment explanation
Indices: 10720296--10720325 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10720286 TTCTAACCAA
10720296 AACCATGTCGAAGC
1 AACCATGTCGAAGC
*
10720310 AACCATTTCGAAGC
1 AACCATGTCGAAGC
10720324 AA
1 AA
10720326 AAAGATGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.17
Consensus pattern (14 bp):
AACCATGTCGAAGC
Found at i:10726466 original size:17 final size:17
Alignment explanation
Indices: 10726427--10726468 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
10726417 ATAGCATTCT
10726427 TGCA-TTTTATTGTGCC
1 TGCATTTTTATTGTGCC
*
10726443 TGTATTTTTATTGT-CAC
1 TGCATTTTTATTGTGC-C
10726460 TGCATTTTT
1 TGCATTTTT
10726469 TTGGTATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (17 bp):
TGCATTTTTATTGTGCC
Found at i:10727087 original size:18 final size:17
Alignment explanation
Indices: 10727055--10727090 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10727045 CTTGAATGAC
*
10727055 AAAAATGAAAAAAAAAG
1 AAAAAAGAAAAAAAAAG
10727072 AAAAAAGAAAAGAAAAAG
1 AAAAAAGAAAA-AAAAAG
10727090 A
1 A
10727091 GAATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAAG
Found at i:10742151 original size:21 final size:23
Alignment explanation
Indices: 10742126--10742167 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
10742116 AATAGACTAC
10742126 TAGTAG-GATAAAAG-AATAATA
1 TAGTAGTGATAAAAGCAATAATA
10742147 TAGTAGTGATAAAAGCAATAA
1 TAGTAGTGATAAAAGCAATAA
10742168 AATAAATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.55, C:0.02, G:0.19, T:0.24
Consensus pattern (23 bp):
TAGTAGTGATAAAAGCAATAATA
Found at i:10742286 original size:22 final size:21
Alignment explanation
Indices: 10742249--10742308 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
10742239 TAAGCAGTAT
* * *
10742249 AATAATAAAAACAAAACAAAC
1 AATAATAATAATAAAAAAAAC
*
10742270 AAGTAATAATAATAAAAAAAAT
1 AA-TAATAATAATAAAAAAAAC
10742292 AATAA-ATATAATAAAAA
1 AATAATA-ATAATAAAAA
10742309 GAAATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 15 0.45
22 17 0.52
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (21 bp):
AATAATAATAATAAAAAAAAC
Found at i:10752490 original size:21 final size:23
Alignment explanation
Indices: 10752448--10752492 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
10752438 TAATGCAAGA
*
10752448 ACATGTATGACAAAACACAAAAC
1 ACATATATGACAAAACACAAAAC
*
10752471 ACATATAT-ACAAAA-ATAAAAC
1 ACATATATGACAAAACACAAAAC
10752492 A
1 A
10752493 AAACAAAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 6 0.30
23 7 0.35
ACGTcount: A:0.62, C:0.18, G:0.04, T:0.16
Consensus pattern (23 bp):
ACATATATGACAAAACACAAAAC
Found at i:10754259 original size:21 final size:22
Alignment explanation
Indices: 10754235--10754279 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
10754225 TCTTTGTAAT
*
10754235 TTAGG-TTTAATTATTTTTTTC
1 TTAGGTTTTAATTATTTTGTTC
*
10754256 TTAGGTTTTAGTTATTTTGTTC
1 TTAGGTTTTAATTATTTTGTTC
10754278 TT
1 TT
10754280 TTCTTGTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.16, C:0.04, G:0.13, T:0.67
Consensus pattern (22 bp):
TTAGGTTTTAATTATTTTGTTC
Found at i:10772636 original size:31 final size:31
Alignment explanation
Indices: 10772566--10772638 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
10772556 TCATCCCGAG
*
10772566 TTGCTCGAAAATAATGACTCGCTACCCTAGA
1 TTGCTCGACAATAATGACTCGCTACCCTAGA
10772597 TTGCTCGACAATAATGACTCGCTA-CCTCAGA
1 TTGCTCGACAATAATGACTCGCTACCCT-AGA
10772628 TTGCTCGACAA
1 TTGCTCGACAA
10772639 CGATAACTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 3 0.08
31 37 0.93
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (31 bp):
TTGCTCGACAATAATGACTCGCTACCCTAGA
Found at i:10773595 original size:25 final size:25
Alignment explanation
Indices: 10773564--10773611 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
10773554 GATGCGGCAA
10773564 CGGCACGATGGTGGTACATCATCGG
1 CGGCACGATGGTGGTACATCATCGG
10773589 CGGCACGATGGTGGTACATCATC
1 CGGCACGATGGTGGTACATCATC
10773612 ACAGTGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.33, T:0.21
Consensus pattern (25 bp):
CGGCACGATGGTGGTACATCATCGG
Found at i:10776084 original size:17 final size:18
Alignment explanation
Indices: 10776054--10776090 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
10776044 TCTACTCGTC
10776054 TTTTTCTTCTTTTTG-AA
1 TTTTTCTTCTTTTTGCAA
10776071 TTTTTCTT-TATTTTGCAA
1 TTTTTCTTCT-TTTTGCAA
10776089 TT
1 TT
10776091 CTGGCTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 13 0.72
18 4 0.22
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTTCTTCTTTTTGCAA
Found at i:10782793 original size:15 final size:15
Alignment explanation
Indices: 10782750--10782787 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
10782740 TGTGAAGGAT
*
10782750 ATTAATCTAAAGT--
1 ATTAATCTAAACTAA
10782763 ATTAATCTAAACTAA
1 ATTAATCTAAACTAA
10782778 ATTAATCTAA
1 ATTAATCTAA
10782788 TTTAAAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
15 10 0.45
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.37
Consensus pattern (15 bp):
ATTAATCTAAACTAA
Found at i:10789640 original size:50 final size:50
Alignment explanation
Indices: 10789581--10789721 Score: 219
Period size: 50 Copynumber: 2.8 Consensus size: 50
10789571 AAGACTTGAA
10789581 GGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCTTAAAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCTTAAAAGATGTGAT
* * *
10789631 GGGAAAGGTTAAGGCCGCAACGGCAAACCCAGTACCTTAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCTTAAAAGATGTGAT
* ** *
10789681 AGGAAAGGTTGAGGCCGCAACGGTGAACTCGGTACCTTAAA
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCTTAAA
10789722 TACATGACGG
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.33, C:0.20, G:0.31, T:0.16
Consensus pattern (50 bp):
GGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCTTAAAAGATGTGAT
Found at i:10790020 original size:39 final size:39
Alignment explanation
Indices: 10789971--10790465 Score: 299
Period size: 39 Copynumber: 12.7 Consensus size: 39
10789961 GAAGATTCCA
* * *
10789971 ATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATTCG
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* ** *
10790010 ATCTTTTACCCCGAGCCTGGGGTAGATTGTAACCATTCG
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* * *
10790049 ATCTTTTACCCCGAGCTTGGGGTAGATTACAGCCATCCG
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* * * * **
10790088 ATCTTTTACCTCGAGCATGGGACAGATTGCGGCCATCCG
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* * * * * * *
10790127 ATCTTTTACCCCGAGCTTGGGGAAGATCACCATCAACCA
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* * * * *
10790166 ATCTCTTACCCCAAGCCTGGGGCAGATTGCAGCCATTCG
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* * ** * * * * *
10790205 ATCTTTTGCCTCGAGTTTGGGGCAGATCACCATCAGCCA
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* * * * *
10790244 ATCTCTTACCCAGAGCTTGGGGCAGATTGCAACCATCCA
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* * * *** * *
10790283 ATCTTTTACCCCGAGCCTAGGGTAGATCACCGTCAGCCA
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* * * * * *
10790322 ATCTCTTACCCTGCG-ATAGGGGTAGATTACAGCCATCCG
1 ATCTTTTACCCCGAGCCT-GGGGCAGATTACAACCATCCG
* * * * * * * * *
10790361 ATCTTTTAGCCTGAGCTTGGGGCTGATCACCATCAGCCA
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* * * * * *
10790400 ATCTCTTACCTCGAGCCTAGGGCAGATTGCAACCATTCA
1 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
* * * *
10790439 ATCTTTAACCCTGAGCTTAGGGCAGAT
1 ATCTTTTACCCCGAGCCTGGGGCAGAT
10790466 CATTGTCATC
Statistics
Matches: 342, Mismatches: 112, Indels: 4
0.75 0.24 0.01
Matches are distributed among these distances:
38 1 0.00
39 340 0.99
40 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (39 bp):
ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATCCG
Found at i:10790062 original size:78 final size:78
Alignment explanation
Indices: 10789971--10790510 Score: 436
Period size: 78 Copynumber: 6.9 Consensus size: 78
10789961 GAAGATTCCA
* * * * * * *
10789971 ATCTCTTACCCCGAGCCTGGGGTAGATTACAACCATTCGATCTTTTACCCCGAGCCTGGGGTAGA
1 ATCTTTTACCCCGAGCTTGGGGTAGATCACAACCATCCAATCTCTTACCCCGAGCCTGGGGCAGA
* *
10790036 TTGTAACCATTCG
66 TTGCAACCATCCG
* * * * * * *
10790049 ATCTTTTACCCCGAGCTTGGGGTAGATTACAGCCATCCGATCTTTTACCTCGAGCATGGGACAGA
1 ATCTTTTACCCCGAGCTTGGGGTAGATCACAACCATCCAATCTCTTACCCCGAGCCTGGGGCAGA
**
10790114 TTGCGGCCATCCG
66 TTGCAACCATCCG
* * * * *
10790127 ATCTTTTACCCCGAGCTTGGGGAAGATCACCATCAACCAATCTCTTACCCCAAGCCTGGGGCAGA
1 ATCTTTTACCCCGAGCTTGGGGTAGATCACAACCATCCAATCTCTTACCCCGAGCCTGGGGCAGA
* *
10790192 TTGCAGCCATTCG
66 TTGCAACCATCCG
* * * * * * * * *
10790205 ATCTTTTGCCTCGAGTTTGGGGCAGATCACCATCAGCCAATCTCTTACCCAGAGCTTGGGGCAGA
1 ATCTTTTACCCCGAGCTTGGGGTAGATCACAACCATCCAATCTCTTACCCCGAGCCTGGGGCAGA
*
10790270 TTGCAACCATCCA
66 TTGCAACCATCCG
* * *** * * * * *
10790283 ATCTTTTACCCCGAGCCTAGGGTAGATCACCGTCAGCCAATCTCTTACCCTGCG-ATAGGGGTAG
1 ATCTTTTACCCCGAGCTTGGGGTAGATCACAACCATCCAATCTCTTACCCCGAGCCT-GGGGCAG
* *
10790347 ATTACAGCCATCCG
65 ATTGCAACCATCCG
* * * * * * *
10790361 ATCTTTTAGCCTGAGCTTGGGGCT-GATCACCATCAGCCAATCTCTTACCTCGAGCCTAGGGCAG
1 ATCTTTTACCCCGAGCTTGGGG-TAGATCACAACCATCCAATCTCTTACCCCGAGCCTGGGGCAG
* *
10790425 ATTGCAACCATTCA
65 ATTGCAACCATCCG
* * * * **** * * * *
10790439 ATCTTTAACCCTGAGCTTAGGGCAGATCATTGTCATCCAATCTCTTACCCCGCGACAGGGGCTGA
1 ATCTTTTACCCCGAGCTTGGGGTAGATCACAACCATCCAATCTCTTACCCCGAGCCTGGGGCAGA
10790504 TTGCAAC
66 TTGCAAC
10790511 TATTCAATCT
Statistics
Matches: 378, Mismatches: 80, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
77 1 0.00
78 375 0.99
79 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (78 bp):
ATCTTTTACCCCGAGCTTGGGGTAGATCACAACCATCCAATCTCTTACCCCGAGCCTGGGGCAGA
TTGCAACCATCCG
Found at i:10790270 original size:156 final size:155
Alignment explanation
Indices: 10790010--10790489 Score: 536
Period size: 156 Copynumber: 3.1 Consensus size: 155
10790000 CAACCATTCG
* * * * * *
10790010 ATCTTTTACCCCGAGCCTGGGGTAGATTGTAACCATTCGATCTTTTACCCCGAGCTTGGGGTAGA
1 ATCTCTTACCCC-AGCCTGGGGTAGATTGCAGCCATTCGATCTTTTGCCTCGAGCTTGGGGCAGA
* * * * * * ** *
10790075 TTA-CAGCCATCCGATCTTTTACCTCGAGCATGGGACAGATTGCGGCCATCCGATCTTTTACCCC
65 TCACCA-TCAGCCAATCTCTTACCTCGAGCATGGGGCAGATTGCAACCATCCAATCTTTTACCCC
* *
10790139 GAGCTTGGGGAAGATCACCATCAACCA
129 GAGCTTAGGGAAGATCACCGTCAACCA
* *
10790166 ATCTCTTACCCCAAGCCTGGGGCAGATTGCAGCCATTCGATCTTTTGCCTCGAGTTTGGGGCAGA
1 ATCTCTTACCCC-AGCCTGGGGTAGATTGCAGCCATTCGATCTTTTGCCTCGAGCTTGGGGCAGA
*
10790231 TCACCATCAGCCAATCTCTTACC-CAGAGCTTGGGGCAGATTGCAACCATCCAATCTTTTACCCC
65 TCACCATCAGCCAATCTCTTACCTC-GAGCATGGGGCAGATTGCAACCATCCAATCTTTTACCCC
* * *
10790295 GAGCCTAGGGTAGATCACCGTCAGCCA
129 GAGCTTAGGGAAGATCACCGTCAACCA
* * * * *
10790322 ATCTCTTA-CCCTGCGATAGGGGTAGATTACAGCCATCCGATCTTTTAGCCT-GAGCTTGGGGCT
1 ATCTCTTACCCCAGC-CT-GGGGTAGATTGCAGCCATTCGATCTTTT-GCCTCGAGCTTGGGGCA
* * * *
10790385 GATCACCATCAGCCAATCTCTTACCTCGAGCCTAGGGCAGATTGCAACCATTCAATCTTTAACCC
63 GATCACCATCAGCCAATCTCTTACCTCGAGCATGGGGCAGATTGCAACCATCCAATCTTTTACCC
* * ** *
10790450 TGAGCTTAGGGCAGATCATTGTCATCCA
128 CGAGCTTAGGGAAGATCACCGTCAACCA
10790478 ATCTCTTACCCC
1 ATCTCTTACCCC
10790490 GCGACAGGGG
Statistics
Matches: 276, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
154 2 0.01
155 5 0.02
156 259 0.94
157 10 0.04
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (155 bp):
ATCTCTTACCCCAGCCTGGGGTAGATTGCAGCCATTCGATCTTTTGCCTCGAGCTTGGGGCAGAT
CACCATCAGCCAATCTCTTACCTCGAGCATGGGGCAGATTGCAACCATCCAATCTTTTACCCCGA
GCTTAGGGAAGATCACCGTCAACCA
Found at i:10795323 original size:16 final size:17
Alignment explanation
Indices: 10795302--10795333 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10795292 AGTTAGCATT
10795302 CTTGCA-TTTTATTGTG
1 CTTGCATTTTTATTGTG
10795318 CTTGCATTTTTATTGT
1 CTTGCATTTTTATTGT
10795334 CACTGCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (17 bp):
CTTGCATTTTTATTGTG
Found at i:10809901 original size:21 final size:19
Alignment explanation
Indices: 10809857--10809901 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
10809847 TCAGTACTTA
10809857 GTTTAGTTGCATACATTTC
1 GTTTAGTTGCATACATTTC
* *
10809876 ATTTAGTTGTCATTACATTTT
1 GTTTAGTTG-CA-TACATTTC
10809897 GTTTA
1 GTTTA
10809902 TCTTTGCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 8 0.38
20 2 0.10
21 11 0.52
ACGTcount: A:0.22, C:0.11, G:0.13, T:0.53
Consensus pattern (19 bp):
GTTTAGTTGCATACATTTC
Found at i:10817478 original size:19 final size:19
Alignment explanation
Indices: 10817454--10817492 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10817444 AGGGTTTTCT
10817454 CAAAAAAGTCAACGGTCAA
1 CAAAAAAGTCAACGGTCAA
* *
10817473 CAAAAAAGTTAATGGTCAA
1 CAAAAAAGTCAACGGTCAA
10817492 C
1 C
10817493 GGTTCGGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.15
Consensus pattern (19 bp):
CAAAAAAGTCAACGGTCAA
Found at i:10817634 original size:20 final size:20
Alignment explanation
Indices: 10817597--10817634 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10817587 TTAGGCCGAT
*
10817597 TCGGGTTGGGCTTGGGTTAA
1 TCGGGTTGGGCTTAGGTTAA
10817617 TCGGGTTTGGG-TTAGGTT
1 TCGGG-TTGGGCTTAGGTT
10817635 TGTACAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.08, C:0.08, G:0.45, T:0.39
Consensus pattern (20 bp):
TCGGGTTGGGCTTAGGTTAA
Found at i:10829482 original size:59 final size:59
Alignment explanation
Indices: 10829389--10829506 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
10829379 TACTAATAGC
* *
10829389 AAATAATGTGTTAAGTTAAAACACAGCAGTGAAATTCATGCACTGTAACATCCCACCCA
1 AAATAATGTGTTAAGTTAAAACACAGCAGCGAAATCCATGCACTGTAACATCCCACCCA
10829448 AAATAATGTGTTAAGTTAAAACACAGCAGCGAAATCCATGCACTGTAACATCCCACCCA
1 AAATAATGTGTTAAGTTAAAACACAGCAGCGAAATCCATGCACTGTAACATCCCACCCA
10829507 CAAAGCATTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.22
Consensus pattern (59 bp):
AAATAATGTGTTAAGTTAAAACACAGCAGCGAAATCCATGCACTGTAACATCCCACCCA
Found at i:10832728 original size:55 final size:55
Alignment explanation
Indices: 10832637--10832740 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 55
10832627 TGAAAATTTG
* *
10832637 AAGGCAAATCGATCACATAACCATTACAGGTGTATTTGGACACCACAGAAATCTA
1 AAGGCAAATCGATCACATAACCATTAAAGGTATATTTGGACACCACAGAAATCTA
* *
10832692 AAGGTAAATCGATCAGATAACCATTAAAGGTATATTTGGACACCACAGA
1 AAGGCAAATCGATCACATAACCATTAAAGGTATATTTGGACACCACAGA
10832741 GTAATTGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.22
Consensus pattern (55 bp):
AAGGCAAATCGATCACATAACCATTAAAGGTATATTTGGACACCACAGAAATCTA
Found at i:10836711 original size:29 final size:29
Alignment explanation
Indices: 10836669--10836766 Score: 126
Period size: 30 Copynumber: 3.3 Consensus size: 29
10836659 AAAGTTTTAG
*
10836669 AAAATTTTAGAGGTTTAA-TAATAATTTTCA
1 AAAATTTGA-AGGTTTAATTAA-AATTTTCA
10836699 AAAATTTGAAGGTTTAATTAAAATTTTCAA
1 AAAATTTGAAGGTTTAATTAAAATTTTC-A
* * *
10836729 AAAATTTAAAGATATAATTAAAATTTTCA
1 AAAATTTGAAGGTTTAATTAAAATTTTCA
10836758 AAAATTTGA
1 AAAATTTGA
10836767 GATAATCTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.39
30 37 0.61
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (29 bp):
AAAATTTGAAGGTTTAATTAAAATTTTCA
Found at i:10837197 original size:24 final size:23
Alignment explanation
Indices: 10837145--10837232 Score: 74
Period size: 24 Copynumber: 3.8 Consensus size: 23
10837135 TTAATAATAA
*
10837145 ATTTTAACAATAATTATT-TTAA-
1 ATTTTAAAAATAA-TATTATTAAT
*
10837167 ATTTTAAATATAATATTATTAAT
1 ATTTTAAAAATAATATTATTAAT
*
10837190 ATTATTAAAAAT-ATTTATATTAAT
1 ATT-TTAAAAATAATAT-TATTAAT
* *
10837214 ATTGTAATAATAAATATTA
1 ATTTTAAAAAT-AATATTA
10837233 CAATTTATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
21 4 0.08
22 15 0.28
23 12 0.23
24 19 0.36
25 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (23 bp):
ATTTTAAAAATAATATTATTAAT
Found at i:10837263 original size:14 final size:14
Alignment explanation
Indices: 10837240--10837269 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10837230 TTACAATTTA
10837240 TAAATATTTTATAG
1 TAAATATTTTATAG
*
10837254 TAAATGTTTTATAG
1 TAAATATTTTATAG
10837268 TA
1 TA
10837270 TAAAATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
TAAATATTTTATAG
Found at i:10839503 original size:17 final size:18
Alignment explanation
Indices: 10839469--10839507 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
10839459 TCTTACTTTG
*
10839469 TTGTCATTGCATTTTCAT
1 TTGTCACTGCATTTTCAT
10839487 TTGTCACTGCA-TTTCAT
1 TTGTCACTGCATTTTCAT
10839504 TTGT
1 TTGT
10839508 TAGTACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.15, C:0.18, G:0.13, T:0.54
Consensus pattern (18 bp):
TTGTCACTGCATTTTCAT
Found at i:10840120 original size:10 final size:10
Alignment explanation
Indices: 10840107--10840147 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
10840097 AATTCACAAA
10840107 AAGAAAGAAG
1 AAGAAAGAAG
10840117 AAGAAAGAAG
1 AAGAAAGAAG
*
10840127 AAGAAAAGAGAA
1 AAG-AAAGA-AG
10840139 AAGAAAGAA
1 AAGAAAGAA
10840148 ATATATTGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 14 0.50
11 10 0.36
12 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAG
Found at i:10851827 original size:18 final size:18
Alignment explanation
Indices: 10851803--10851844 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
10851793 ATCCTGATCA
10851803 AATGCAAGT-ACATAGCTAG
1 AATGCAA-TCACA-AGCTAG
10851822 -ATGCAATCACAAGCTAG
1 AATGCAATCACAAGCTAG
10851839 AATGCA
1 AATGCA
10851845 GCCACAACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (18 bp):
AATGCAATCACAAGCTAG
Found at i:10883653 original size:24 final size:24
Alignment explanation
Indices: 10883622--10883669 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
10883612 AAAGAAAAGA
10883622 AAGATTAAACCCAAATCAAAGTGG
1 AAGATTAAACCCAAATCAAAGTGG
10883646 AAGATTAAACCCAAATCAAAGTGG
1 AAGATTAAACCCAAATCAAAGTGG
10883670 CTGTCACCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (24 bp):
AAGATTAAACCCAAATCAAAGTGG
Found at i:10889616 original size:565 final size:565
Alignment explanation
Indices: 10888547--10889676 Score: 2134
Period size: 565 Copynumber: 2.0 Consensus size: 565
10888537 TGGAAAGAAA
*
10888547 AGGAAGGTGAGAGAAGGAGAAATAAGGGGGTGAGATGGAATAGGATGTTAAAGGGAAGAATAAGG
1 AGGAAGGTGAGAGAAGGAGAAATAAGGGGGTGAGATGAAATAGGATGTTAAAGGGAAGAATAAGG
10888612 AACAATACAATGTGCCAAACTATTTTCGTGTTTGTAACCCTTTTGTGATTGACTATTCTTGAAAT
66 AACAATACAATGTGCCAAACTATTTTCGTGTTTGTAACCCTTTTGTGATTGACTATTCTTGAAAT
10888677 TCATACCTATCCTAAGCCTTAACATGTTACAAGCCGAAAAACCCTATGAGACTTAAACCACTCTA
131 TCATACCTATCCTAAGCCTTAACATGTTACAAGCCGAAAAACCCTATGAGACTTAAACCACTCTA
10888742 AGCATGAGTAGATTAATCGCCTTAGAACGTACTCTCGTTCGACATAGATTTTGGCTTTCTGCAAC
196 AGCATGAGTAGATTAATCGCCTTAGAACGTACTCTCGTTCGACATAGATTTTGGCTTTCTGCAAC
10888807 TATACAGGTTAGGTTGTAAATATAGTGTGTTACAATGGAAAACTTGGTAGTGTTCCGAGGATTGT
261 TATACAGGTTAGGTTGTAAATATAGTGTGTTACAATGGAAAACTTGGTAGTGTTCCGAGGATTGT
* *
10888872 ACCCAAAGGAGGCGTATAACGATAGTAAATAAAATGCCTGCAAGTAATAAAATTAATTAGTATTT
326 ACCCAAAGGAGGCGTATAACGATAGTAAATAAAATGCCTGCAAGGAATAAAATTAATTAGTACTT
10888937 ATTTTAGTGTTTATAGTATGAAGAGAAATCAAAGAGTTTATTGTAGAGAGCATGAAGTAAAAGAT
391 ATTTTAGTGTTTATAGTATGAAGAGAAATCAAAGAGTTTATTGTAGAGAGCATGAAGTAAAAGAT
* * *
10889002 TAGATAAACTAGAAAATAAAAGAAAATTTTTGAGATGTAGAAAATCTTATAAACGTCTTTGGGGA
456 AAGATAAACTAGAAAATAAAAGAAAAATTTTGAGATGTAGAAAATCTTATAAACATCTTTGGGGA
*
10889067 GATTAGGTTATTTCTGTATGATTTATTCAATTGTTGGGTTTTGGG
521 GATTAGGTTATTTCTGTATGATTTATTCAATTATTGGGTTTTGGG
*
10889112 AGGAAGGTGAGAGAAGGAGAAATAAGGGGGTGAGATGAAATAGGATGTTAAGGGGAAGAATAAGG
1 AGGAAGGTGAGAGAAGGAGAAATAAGGGGGTGAGATGAAATAGGATGTTAAAGGGAAGAATAAGG
10889177 AACAATACAATGTGCCAAACTATTTTCGTGTTTGTAACCCTTTTGTGATTGACTATTCTTGAAAT
66 AACAATACAATGTGCCAAACTATTTTCGTGTTTGTAACCCTTTTGTGATTGACTATTCTTGAAAT
10889242 TCATACCTATCCTAAGCCTTAACATGTTACAAGCCGAAAAACCCTATGAGACTTAAACCACTCTA
131 TCATACCTATCCTAAGCCTTAACATGTTACAAGCCGAAAAACCCTATGAGACTTAAACCACTCTA
* ** *
10889307 AGCATGAGTAGATTAATCGCCTTAGAATGTACTCTCGTTCGATGTAGATTTTGGCTTTTTGCAAC
196 AGCATGAGTAGATTAATCGCCTTAGAACGTACTCTCGTTCGACATAGATTTTGGCTTTCTGCAAC
10889372 TATACAGGTTAGGTTGTAAATATAGTGTGTTACAATGGAAAACTTGGTAGTGTTCCGAGGATTGT
261 TATACAGGTTAGGTTGTAAATATAGTGTGTTACAATGGAAAACTTGGTAGTGTTCCGAGGATTGT
10889437 ACCCAAAGGAGGCGTATAACGATAGTAAATAAAATGCCTGCAAGGAATAAAATTAATTAGTACTT
326 ACCCAAAGGAGGCGTATAACGATAGTAAATAAAATGCCTGCAAGGAATAAAATTAATTAGTACTT
*
10889502 ATTTTAGTGTTTATAGTATGAAGAGAAATTAAAGAGTTTATTGTAGAGAGCATGAAGTAAAAGAT
391 ATTTTAGTGTTTATAGTATGAAGAGAAATCAAAGAGTTTATTGTAGAGAGCATGAAGTAAAAGAT
10889567 AAGATAAACTAGAAAATAAAAGAAAAATTTTGAGATGTAGAAAATCTTATAAACATCTTTGGGGA
456 AAGATAAACTAGAAAATAAAAGAAAAATTTTGAGATGTAGAAAATCTTATAAACATCTTTGGGGA
*
10889632 GATTAGGTTATTTCTGTATGATTTCTTCAATTATTGGGTTTTGGG
521 GATTAGGTTATTTCTGTATGATTTATTCAATTATTGGGTTTTGGG
10889677 GATTTTCCTC
Statistics
Matches: 551, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
565 551 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (565 bp):
AGGAAGGTGAGAGAAGGAGAAATAAGGGGGTGAGATGAAATAGGATGTTAAAGGGAAGAATAAGG
AACAATACAATGTGCCAAACTATTTTCGTGTTTGTAACCCTTTTGTGATTGACTATTCTTGAAAT
TCATACCTATCCTAAGCCTTAACATGTTACAAGCCGAAAAACCCTATGAGACTTAAACCACTCTA
AGCATGAGTAGATTAATCGCCTTAGAACGTACTCTCGTTCGACATAGATTTTGGCTTTCTGCAAC
TATACAGGTTAGGTTGTAAATATAGTGTGTTACAATGGAAAACTTGGTAGTGTTCCGAGGATTGT
ACCCAAAGGAGGCGTATAACGATAGTAAATAAAATGCCTGCAAGGAATAAAATTAATTAGTACTT
ATTTTAGTGTTTATAGTATGAAGAGAAATCAAAGAGTTTATTGTAGAGAGCATGAAGTAAAAGAT
AAGATAAACTAGAAAATAAAAGAAAAATTTTGAGATGTAGAAAATCTTATAAACATCTTTGGGGA
GATTAGGTTATTTCTGTATGATTTATTCAATTATTGGGTTTTGGG
Found at i:10890150 original size:13 final size:13
Alignment explanation
Indices: 10890132--10890166 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
10890122 TCTTGTTTTG
10890132 AAACTAAAAATAA
1 AAACTAAAAATAA
*
10890145 AAACTAAAACTAA
1 AAACTAAAAATAA
10890158 AAACTAAAA
1 AAACTAAAA
10890167 TCTCATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (13 bp):
AAACTAAAAATAA
Found at i:10890152 original size:7 final size:7
Alignment explanation
Indices: 10890132--10890166 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
10890122 TCTTGTTTTG
10890132 AAACTAA
1 AAACTAA
10890139 AAA-TAA
1 AAACTAA
10890145 AAACT-A
1 AAACTAA
10890151 AAACTAA
1 AAACTAA
10890158 AAACTAA
1 AAACTAA
10890165 AA
1 AA
10890167 TCTCATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACTAA
Found at i:10897143 original size:53 final size:53
Alignment explanation
Indices: 10897079--10897374 Score: 409
Period size: 53 Copynumber: 5.6 Consensus size: 53
10897069 TACACATGTG
* * * **
10897079 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCATTATAGGATTTGT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTGATAGGATTCAT
* * * * *
10897132 GTAACTCACGATGACACAGAGTTATCGGACCCTTAATCCATAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTGATAGGATTCAT
* *
10897185 ATAACTCATGATGACAC--AGTCATCAGACCTTTAA-CCGTGATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTGATAGGATTCAT
*
10897235 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTGATAGAATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTGATAGGATTCAT
* *
10897288 ATAACTCATGATGACACAAAGTCATCGGACCTTTAATCCGTGATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTGATAGGATTCAT
* * *
10897341 ATAACTCACGATGACATAGAGTTACCGGACCTTT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTT
10897375 TTCCATTTAC
Statistics
Matches: 215, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
50 30 0.14
51 14 0.07
52 16 0.07
53 155 0.72
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (53 bp):
ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTGATAGGATTCAT
Found at i:10897244 original size:103 final size:104
Alignment explanation
Indices: 10897079--10897371 Score: 408
Period size: 103 Copynumber: 2.8 Consensus size: 104
10897069 TACACATGTG
* * * * ** *
10897079 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCATTATAGGATTTGTGTAACTCACGAT
1 ATAACTCATGATGAC--ACAGTCATCGGACCTTTAATCCGTGATAGGATTCATATAACTCACGAT
*
10897144 GACACAGAGTTATCGGACCCTTAATCCATAATAGGATTCAT
64 GACACAGAGTTATCGGACCCTTAATCCATAATAGAATTCAT
*
10897185 ATAACTCATGATGACACAGTCATCAGACCTTTAA-CCGTGATAGGATTCATATAACTCACGATGA
1 ATAACTCATGATGACACAGTCATCGGACCTTTAATCCGTGATAGGATTCATATAACTCACGATGA
* * * *
10897249 CACAGAGTCATCGGACCTTTAATCCGTGATAGAATTCAT
66 CACAGAGTTATCGGACCCTTAATCCATAATAGAATTCAT
10897288 ATAACTCATGATGACACAAAGTCATCGGACCTTTAATCCGTGATAGGATTCATATAACTCACGAT
1 ATAACTCATGATGACAC--AGTCATCGGACCTTTAATCCGTGATAGGATTCATATAACTCACGAT
* *
10897353 GACATAGAGTTACCGGACC
64 GACACAGAGTTATCGGACC
10897372 TTTTTCCATT
Statistics
Matches: 167, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
103 76 0.46
104 17 0.10
105 16 0.10
106 58 0.35
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (104 bp):
ATAACTCATGATGACACAGTCATCGGACCTTTAATCCGTGATAGGATTCATATAACTCACGATGA
CACAGAGTTATCGGACCCTTAATCCATAATAGAATTCAT
Found at i:10909805 original size:22 final size:22
Alignment explanation
Indices: 10909761--10909805 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
10909751 TTCAAAGGAC
*
10909761 AAGAAGAGAGTGCAAAGATAAG
1 AAGAAGAGAGTGCAAAGAGAAG
10909783 AAGAAGA-AGTGCAAAGAGGAAG
1 AAGAAGAGAGTGCAAAGA-GAAG
10909805 A
1 A
10909806 CGAGTGCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.56, C:0.04, G:0.33, T:0.07
Consensus pattern (22 bp):
AAGAAGAGAGTGCAAAGAGAAG
Found at i:10909948 original size:17 final size:18
Alignment explanation
Indices: 10909914--10909952 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
10909904 TCTTATTTAG
*
10909914 TTGTCATTGCAGTTTCAT
1 TTGTCACTGCAGTTTCAT
10909932 TTGTCACTGCA-TTTCAT
1 TTGTCACTGCAGTTTCAT
10909949 TTGT
1 TTGT
10909953 TAGTAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (18 bp):
TTGTCACTGCAGTTTCAT
Found at i:10916775 original size:29 final size:29
Alignment explanation
Indices: 10916743--10917131 Score: 258
Period size: 30 Copynumber: 13.3 Consensus size: 29
10916733 AGTTTCGGAG
* *
10916743 AGTTCAGGGTTAAAATATAATTTTGGAAA
1 AGTTTAGGGTTAAAATGTAATTTTGGAAA
* * *
10916772 AGTTTAGGGGTAAAAATGTAACTTTGGGAA
1 AGTTTA-GGGTTAAAATGTAATTTTGGAAA
* * *
10916802 AGTTT-GGGTCAAAATGTGATTTTGGAGA
1 AGTTTAGGGTTAAAATGTAATTTTGGAAA
* * * * * *
10916830 AGTTTGGGGTCAAAATATGATTTCGGGAA
1 AGTTTAGGGTTAAAATGTAATTTTGGAAA
* * * * * *
10916859 GGTTTGGTGGTCAAAATGTGATTTTAGAGA
1 AGTTTAG-GGTTAAAATGTAATTTTGGAAA
* *
10916889 AGTTTGAGGCTGAAAATACG-AA-TTTGGAAA
1 AGTTT-AGGGTTAAAAT--GTAATTTTGGAAA
* *
10916919 AGTTTGAGGGTTAAAATGTGATTTTAGAAA
1 AGTTT-AGGGTTAAAATGTAATTTTGGAAA
* *
10916949 AGTTTTAGGGTTAAAATGTGATTTTAG-AA
1 AG-TTTAGGGTTAAAATGTAATTTTGGAAA
*
10916978 AGTTT-GAGGTTAAAATGTAAGTTTGGAAA
1 AGTTTAG-GGTTAAAATGTAATTTTGGAAA
*
10917007 AGTTTAGGGGTGAAAATGTAATTTTGG--A
1 AGTTTA-GGGTTAAAATGTAATTTTGGAAA
* * *
10917035 AGATTAGGGTGAAAATGCAATTTT-GAAGA
1 AGTTTAGGGTTAAAATGTAATTTTGGAA-A
* *
10917064 ATTTTAGGGTTAAAATGTAATTTT-AAATA
1 AGTTTAGGGTTAAAATGTAATTTTGGAA-A
* * * *
10917093 AGTTCAAGGGTCAAAATATGATTCTTGG-AA
1 AGTT-TAGGGTTAAAATGTAATT-TTGGAAA
10917123 AGTTTAGGG
1 AGTTTAGGG
10917132 ACCTACTGAG
Statistics
Matches: 290, Mismatches: 51, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.00
27 18 0.06
28 49 0.17
29 73 0.25
30 139 0.48
31 9 0.03
32 1 0.00
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AGTTTAGGGTTAAAATGTAATTTTGGAAA
Found at i:10916889 original size:59 final size:58
Alignment explanation
Indices: 10916748--10917023 Score: 193
Period size: 58 Copynumber: 4.7 Consensus size: 58
10916738 CGGAGAGTTC
* * * * * * * * *
10916748 AGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGTAAAAATGTAACTTTGGGAAAGTTT-
1 AGGGTCAAAATGTGATTTTAGAGAAGTTT-GGGGTCAAAATATGA-TTTGGAAAAGTTTG
* * *
10916807 -GGGTCAAAATGTGATTTTGGAGAAGTTTGGGGTCAAAATATGATTTCGGGAAGGTTTG
1 AGGGTCAAAATGTGATTTTAGAGAAGTTTGGGGTCAAAATATGATTT-GGAAAAGTTTG
* * *
10916865 -GTGGTCAAAATGTGATTTTAGAGAAGTTTGAGGCTGAAAATACGAATTTGGAAAAGTTTG
1 AG-GGTCAAAATGTGATTTTAGAGAAGTTTG-GGGTCAAAATATG-ATTTGGAAAAGTTTG
* * * * * *
10916925 AGGGTTAAAATGTGATTTTAGAAAAGTTTTAGGGTTAAAATGTGATTT-TAGAAAGTTTG
1 AGGGTCAAAATGTGATTTTAGAGAAG-TTTGGGGTCAAAATATGATTTGGA-AAAGTTTG
* * * * * *
10916984 A-GGTTAAAATGTAAGTTTGGAAAAGTTTAGGGGTGAAAAT
1 AGGGTCAAAATGTGATTTTAGAGAAGTTT-GGGGTCAAAAT
10917024 GTAATTTTGG
Statistics
Matches: 181, Mismatches: 27, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
56 3 0.02
57 24 0.13
58 56 0.31
59 40 0.22
60 50 0.28
61 8 0.04
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.34
Consensus pattern (58 bp):
AGGGTCAAAATGTGATTTTAGAGAAGTTTGGGGTCAAAATATGATTTGGAAAAGTTTG
Found at i:10919546 original size:24 final size:24
Alignment explanation
Indices: 10919519--10919581 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
10919509 TTCATAATAA
10919519 CGTAAACGTATATAAACTGACAAG
1 CGTAAACGTATATAAACTGACAAG
* * *
10919543 CGTAAACGTATTTAACCTGATAAG
1 CGTAAACGTATATAAACTGACAAG
*
10919567 CGTAAAAGTA-ATAAA
1 CGTAAACGTATATAAA
10919582 AAAATTTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (24 bp):
CGTAAACGTATATAAACTGACAAG
Found at i:10920147 original size:71 final size:71
Alignment explanation
Indices: 10920031--10920192 Score: 216
Period size: 71 Copynumber: 2.3 Consensus size: 71
10920021 GATTTTTTAA
* * * *
10920031 ACTGACTTAAGTTGTTTCGGAACAACTCAACAAAGTATCTGTAGAAGTACAGGGGATAAGGGACC
1 ACTGACTTGAGTTGTTTCGGAACAACTCAACAAAGTATCGGTAGAAATACAAGGGATAAGGGACC
*
10920096 TTGGCT
66 TAGGCT
* * * * * *
10920102 ACTGACTTGAGTTGTTTTGGAACAACTCAACAGAGTATCGGTAGAAATATAATGGATGAGGGATC
1 ACTGACTTGAGTTGTTTCGGAACAACTCAACAAAGTATCGGTAGAAATACAAGGGATAAGGGACC
10920167 TAGGCT
66 TAGGCT
*
10920173 ACTAACTTGAGTTGTTTCGG
1 ACTGACTTGAGTTGTTTCGG
10920193 TAGTACTAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 78 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (71 bp):
ACTGACTTGAGTTGTTTCGGAACAACTCAACAAAGTATCGGTAGAAATACAAGGGATAAGGGACC
TAGGCT
Found at i:10924181 original size:2 final size:2
Alignment explanation
Indices: 10924174--10924212 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
10924164 ACATATTAAA
10924174 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10924213 GTAGAGGACT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:10924334 original size:175 final size:176
Alignment explanation
Indices: 10924034--10924371 Score: 642
Period size: 175 Copynumber: 1.9 Consensus size: 176
10924024 GTGCTTAATT
*
10924034 TATGTAGAGGGACTAAATTGTATATGAGGTATAGTGCGGTTATAAAAGGGCTATAGTTTAAAAAA
1 TATGTAGAGGGACTAAATTGTATATGAGATATAGTGCGGTTATAAAAGGGCTATAGTTTAAAAAA
10924099 TTTAAAGGGGCCAATGTGACAATTTAACCACTAAAATTCATTTGATAGCTGATTAGCATATGTAT
66 TTTAAAGGGGCCAATGTGACAATTTAACCACTAAAATTCATTTGATAGCTGATTAGCATATGTAT
10924164 ACATATTAAAATATATATATATATATATATATATATATATATATTA
131 ACATATTAAAATATATATATATATATATATATATATATATATATTA
10924210 TATGTAGA-GGACTAAATTGTATATGAGATATAGTGCGGTTATAAAAGGGCTATAGTTTAAAAAA
1 TATGTAGAGGGACTAAATTGTATATGAGATATAGTGCGGTTATAAAAGGGCTATAGTTTAAAAAA
*
10924274 TTTAAAGGGGCTAATGTGACAATTTAACCACTAAAATTCATTTGATAGCTGATTAGCATATGTAT
66 TTTAAAGGGGCCAATGTGACAATTTAACCACTAAAATTCATTTGATAGCTGATTAGCATATGTAT
*
10924339 ACATATTAATATATATATATATATATATATATA
131 ACATATTAAAATATATATATATATATATATATA
10924372 CTTATCTATT
Statistics
Matches: 159, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
175 151 0.95
176 8 0.05
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (176 bp):
TATGTAGAGGGACTAAATTGTATATGAGATATAGTGCGGTTATAAAAGGGCTATAGTTTAAAAAA
TTTAAAGGGGCCAATGTGACAATTTAACCACTAAAATTCATTTGATAGCTGATTAGCATATGTAT
ACATATTAAAATATATATATATATATATATATATATATATATATTA
Found at i:10924354 original size:2 final size:2
Alignment explanation
Indices: 10924347--10924371 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10924337 ATACATATTA
10924347 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10924372 CTTATCTATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10927517 original size:20 final size:20
Alignment explanation
Indices: 10927492--10927719 Score: 145
Period size: 20 Copynumber: 11.4 Consensus size: 20
10927482 TACACTACGG
*
10927492 TGCCCCTATTTGTACTTCGA
1 TGCCCCTATTTGCACTTCGA
* * *
10927512 TGCCCCTGTTTGCACTTTGG
1 TGCCCCTATTTGCACTTCGA
* * *
10927532 TTCCCCTATTTGCACTACGG
1 TGCCCCTATTTGCACTTCGA
* * *
10927552 TGCCCTTATTTGCGCTTTGGA
1 TGCCCCTATTTGCAC-TTCGA
* * * *
10927573 -GCCCTTGTTTGTACTACGA
1 TGCCCCTATTTGCACTTCGA
* * ** *
10927592 TTCCCCTGTTAACACTTCGG
1 TGCCCCTATTTGCACTTCGA
* * *
10927612 TGTCCTTAATTGCACTTCGA
1 TGCCCCTATTTGCACTTCGA
* *
10927632 TACCCCTATTTGCACTACGA
1 TGCCCCTATTTGCACTTCGA
* *
10927652 TGCCCCTATTTTCACTTCAA
1 TGCCCCTATTTGCACTTCGA
* * *
10927672 TGCCCCTGTTTGCACTACGG
1 TGCCCCTATTTGCACTTCGA
* *
10927692 TGCCCCTGTTTGCA-TTACGG
1 TGCCCCTATTTGCACTT-CGA
10927712 TGCCCCTA
1 TGCCCCTA
10927720 AAATCATAAT
Statistics
Matches: 155, Mismatches: 50, Indels: 6
0.73 0.24 0.03
Matches are distributed among these distances:
19 4 0.03
20 149 0.96
21 2 0.01
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (20 bp):
TGCCCCTATTTGCACTTCGA
Found at i:10927716 original size:40 final size:40
Alignment explanation
Indices: 10927478--10927718 Score: 187
Period size: 40 Copynumber: 6.0 Consensus size: 40
10927468 TAGATCAGAA
* *
10927478 TGTTTACACTACGGTGCCCCTATTTGTACTTCGATGCCCC
1 TGTTTGCACTACGGTGCCCCTATTTGCACTTCGATGCCCC
** * * * *
10927518 TGTTTGCACTTTGGTTCCCCTATTTGCACTACGGTGCCCT
1 TGTTTGCACTACGGTGCCCCTATTTGCACTTCGATGCCCC
* * ** * * * * * *
10927558 TATTTGCGCTTTGGAGCCCTTGTTTGTACTACGATTCCCC
1 TGTTTGCACTACGGTGCCCCTATTTGCACTTCGATGCCCC
** * * * * *
10927598 TGTTAACACTTCGGTGTCCTTAATTGCACTTCGATACCCC
1 TGTTTGCACTACGGTGCCCCTATTTGCACTTCGATGCCCC
* * * *
10927638 TATTTGCACTACGATGCCCCTATTTTCACTTCAATGCCCC
1 TGTTTGCACTACGGTGCCCCTATTTGCACTTCGATGCCCC
* *
10927678 TGTTTGCACTACGGTGCCCCTGTTTGCA-TTACGGTGCCCC
1 TGTTTGCACTACGGTGCCCCTATTTGCACTT-CGATGCCCC
10927718 T
1 T
10927719 AAAATCATAA
Statistics
Matches: 153, Mismatches: 47, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
39 2 0.01
40 151 0.99
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.37
Consensus pattern (40 bp):
TGTTTGCACTACGGTGCCCCTATTTGCACTTCGATGCCCC
Found at i:10931964 original size:22 final size:25
Alignment explanation
Indices: 10931925--10931977 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
10931915 ATGAATATAA
* *
10931925 ATAATTAAATGAAGACAAT-CAAAT
1 ATAATTAAATGAACACAATAAAAAT
10931949 ATAATT-AAT-AACACAATAAAAAT
1 ATAATTAAATGAACACAATAAAAAT
10931972 ATAATT
1 ATAATT
10931978 GAAGTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 7 0.27
23 13 0.50
24 6 0.23
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.28
Consensus pattern (25 bp):
ATAATTAAATGAACACAATAAAAAT
Found at i:10932390 original size:23 final size:23
Alignment explanation
Indices: 10932361--10932413 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
10932351 AATGGCATGA
*
10932361 AAATAAATAAC-AACAAGATAAAT
1 AAATAAA-AACAAACAAAATAAAT
10932384 AAATAAAAACAAACAAAAT-AA-
1 AAATAAAAACAAACAAAATAAAT
10932405 AAATAAAAA
1 AAATAAAAA
10932414 TTAAATGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.32
22 5 0.18
23 14 0.50
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.13
Consensus pattern (23 bp):
AAATAAAAACAAACAAAATAAAT
Found at i:10932402 original size:19 final size:19
Alignment explanation
Indices: 10932360--10932405 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
10932350 AAATGGCATG
*
10932360 AAAATAAATAACAACAAGA
1 AAAATAAATAAAAACAAGA
*
10932379 TAAATAAATAAAAACAA-A
1 AAAATAAATAAAAACAAGA
10932397 CAAAATAAA
1 -AAAATAAA
10932406 AATAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.76, C:0.09, G:0.02, T:0.13
Consensus pattern (19 bp):
AAAATAAATAAAAACAAGA
Found at i:10933338 original size:46 final size:46
Alignment explanation
Indices: 10933250--10933368 Score: 134
Period size: 45 Copynumber: 2.6 Consensus size: 46
10933240 TAATGATTAG
* * * * * *
10933250 GACCATAGTTGAAAGACAATGTGACA-CTATTCTGAAACTAAAATAA
1 GACCATAGTTGAAAGACACTATGGCATCAAGTCGGAAACTAAAA-AA
*
10933296 TACCATAGTTGAAAGACACTATGGCATCAAGTCGGAAA-TAAAAAA
1 GACCATAGTTGAAAGACACTATGGCATCAAGTCGGAAACTAAAAAA
* *
10933341 GACCATGGTTGAAAGACACCATGGCATC
1 GACCATAGTTGAAAGACACTATGGCATC
10933369 CTTCAACCAT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
45 27 0.44
46 27 0.44
47 8 0.13
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (46 bp):
GACCATAGTTGAAAGACACTATGGCATCAAGTCGGAAACTAAAAAA
Found at i:10935437 original size:20 final size:20
Alignment explanation
Indices: 10935412--10935621 Score: 154
Period size: 20 Copynumber: 10.5 Consensus size: 20
10935402 TAGATCAGTA
*
10935412 TGTTTGCACTACGATGCCTC
1 TGTTTGCACTACGATGCCCC
*
10935432 TGTTTGCACTTC-AGTGCCCC
1 TGTTTGCACTACGA-TGCCCC
* * * **
10935452 TGATTGCACTTCGGTATCCC
1 TGTTTGCACTACGATGCCCC
10935472 TGTTTGCACTACGATGCCCC
1 TGTTTGCACTACGATGCCCC
* * *
10935492 TATTTGCACTTC-AGTGCCTC
1 TGTTTGCACTACGA-TGCCCC
* *
10935512 TGTTTGCACTACGGTGTCCC
1 TGTTTGCACTACGATGCCCC
** * * *
10935532 AATTTTCACTTCGGTGCCCC
1 TGTTTGCACTACGATGCCCC
* *
10935552 TGTTTACACTACGGTGCCCC
1 TGTTTGCACTACGATGCCCC
* * * *
10935572 TGTGTGCACTATGGTGCTCC
1 TGTTTGCACTACGATGCCCC
* *
10935592 TGTTTGCACTACGGTTCCCC
1 TGTTTGCACTACGATGCCCC
*
10935612 TATTTGCACT
1 TGTTTGCACT
10935622 TTGGTTCCCT
Statistics
Matches: 149, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
19 2 0.01
20 147 0.99
ACGTcount: A:0.13, C:0.31, G:0.20, T:0.35
Consensus pattern (20 bp):
TGTTTGCACTACGATGCCCC
Found at i:10935459 original size:40 final size:40
Alignment explanation
Indices: 10935414--10935622 Score: 171
Period size: 40 Copynumber: 5.2 Consensus size: 40
10935404 GATCAGTATG
* *
10935414 TTTGCACTACGATGCCTCTGTTTGCACTTC-AGTGCCCCTGA
1 TTTGCACTTCGATGCCTCTGTTTGCACTACGA-TGCCCCT-A
10935455 -TTGCACTTCGGTAT-CC-CTGTTTGCACTACGATGCCCCTA
1 TTTGCACTTC-G-ATGCCTCTGTTTGCACTACGATGCCCCTA
* * *
10935494 TTTGCACTTC-AGTGCCTCTGTTTGCACTACGGTGTCCCAA
1 TTTGCACTTCGA-TGCCTCTGTTTGCACTACGATGCCCCTA
* * * * * *
10935534 TTTTCACTTCGGTGCCCCTGTTTACACTACGGTGCCCCTG
1 TTTGCACTTCGATGCCTCTGTTTGCACTACGATGCCCCTA
* * * *
10935574 TGTGCACTAT-GGTG-CTCCTGTTTGCACTACGGTTCCCCTA
1 TTTGCACT-TCGATGCCT-CTGTTTGCACTACGATGCCCCTA
10935614 TTTGCACTT
1 TTTGCACTT
10935623 TGGTTCCCTT
Statistics
Matches: 139, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 5 0.04
40 125 0.90
41 5 0.04
42 2 0.01
ACGTcount: A:0.13, C:0.32, G:0.20, T:0.35
Consensus pattern (40 bp):
TTTGCACTTCGATGCCTCTGTTTGCACTACGATGCCCCTA
Found at i:10935505 original size:60 final size:58
Alignment explanation
Indices: 10935412--10935622 Score: 208
Period size: 60 Copynumber: 3.5 Consensus size: 58
10935402 TAGATCAGTA
* *
10935412 TGTTTGCACTACGATGCCTCTGTTTGCACTTCAGTGCCCCTGATTGCACTTCGGTATCCC
1 TGTTTGCACTACGATGCCCCTATTTGCACTTCAGTGCCCCTG-TTGCACTTCGGT-TCCC
* *
10935472 TGTTTGCACTACGATGCCCCTATTTGCACTTCAGTGCCTCTGTTTGCACTACGGTGTCCC
1 TGTTTGCACTACGATGCCCCTATTTGCACTTCAGTGCCCCTG-TTGCACTTCGGT-TCCC
** * * * * * * * *
10935532 AATTTTCACTTCGGTGCCCCTGTTTACACTACGGTGCCCCTGTGTGCACTAT-GGTGCTCC
1 TGTTTGCACTACGATGCCCCTATTTGCACTTCAGTGCCCCTGT-TGCACT-TCGGTTC-CC
* *
10935592 TGTTTGCACTACGGTTCCCCTATTTGCACTT
1 TGTTTGCACTACGATGCCCCTATTTGCACTT
10935623 TGGTTCCCTT
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
59 2 0.02
60 120 0.98
ACGTcount: A:0.13, C:0.31, G:0.20, T:0.36
Consensus pattern (58 bp):
TGTTTGCACTACGATGCCCCTATTTGCACTTCAGTGCCCCTGTTGCACTTCGGTTCCC
Found at i:10938083 original size:13 final size:13
Alignment explanation
Indices: 10938067--10938093 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10938057 TGAGTCCGTA
10938067 AATATTATTATTT
1 AATATTATTATTT
10938080 AATATTATTATTT
1 AATATTATTATTT
10938093 A
1 A
10938094 CAGAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATATTATTATTT
Found at i:10943358 original size:24 final size:24
Alignment explanation
Indices: 10943331--10943628 Score: 303
Period size: 24 Copynumber: 12.4 Consensus size: 24
10943321 TTCATAATAA
10943331 CGTAAACGTATATAAGCTGACGAG
1 CGTAAACGTATATAAGCTGACGAG
*
10943355 CGTAAATGTATATAAGCTGACGAG
1 CGTAAACGTATATAAGCTGACGAG
* * *
10943379 AGTAAACGTAAATAAGCTAACGAG
1 CGTAAACGTATATAAGCTGACGAG
* * *
10943403 CGTAAGCGTATATAAGTTGACAAG
1 CGTAAACGTATATAAGCTGACGAG
* * *
10943427 TGTAAAC--ATGTGCAGTCTGACGAG
1 CGTAAACGTATAT-AAG-CTGACGAG
* * *
10943451 AGTAAACGTATATAAGCTAATGAG
1 CGTAAACGTATATAAGCTGACGAG
* **
10943475 CGTAAACGTGTGCAAGCTGACGAG
1 CGTAAACGTATATAAGCTGACGAG
* * *
10943499 CATAAATGTATATAAGCTGATGAG
1 CGTAAACGTATATAAGCTGACGAG
* * *
10943523 TGTAAACGTGTATAAGCTAACGAG
1 CGTAAACGTATATAAGCTGACGAG
10943547 CGTAAACGTATATAAGCTGACGAG
1 CGTAAACGTATATAAGCTGACGAG
* ** *
10943571 CGTAAACGTGTGCAAGCTAACGAG
1 CGTAAACGTATATAAGCTGACGAG
* * *
10943595 CGTAAATGTGTATAAGTTGACGAG
1 CGTAAACGTATATAAGCTGACGAG
10943619 CGTAAACGTA
1 CGTAAACGTA
10943629 ATGAAATTAT
Statistics
Matches: 216, Mismatches: 54, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
22 3 0.01
23 2 0.01
24 206 0.95
25 2 0.01
26 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.23
Consensus pattern (24 bp):
CGTAAACGTATATAAGCTGACGAG
Found at i:10943498 original size:96 final size:96
Alignment explanation
Indices: 10943344--10943625 Score: 350
Period size: 96 Copynumber: 2.9 Consensus size: 96
10943334 AAACGTATAT
* * **** *
10943344 AAGCTGACGAGCGTAAATGTATATAAGCTGACGAGAGTAAACGTAAATAAGCTAACGAGCGTAAG
1 AAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTAACGAGCGTAAA
* *
10943409 CGTATATAAGTTGACAAGTGTAAACATGT-G
66 TGTATATAAGTTGACGAGTGTAAACATGTAG
* * * * * *
10943439 CAGTCTGACGAGAGTAAACGTATATAAGCTAATGAGCGTAAACGTGTGCAAGCTGACGAGCATAA
1 AAG-CTGACGAGCGTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTAACGAGCGTAA
* * * *
10943504 ATGTATATAAGCTGATGAGTGTAAACGTGTAT
65 ATGTATATAAGTTGACGAGTGTAAACATGTAG
*
10943536 AAGCTAACGAGCGTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTAACGAGCGTAAA
1 AAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTAACGAGCGTAAA
* *
10943601 TGTGTATAAGTTGACGAGCGTAAAC
66 TGTATATAAGTTGACGAGTGTAAAC
10943626 GTAATGAAAT
Statistics
Matches: 155, Mismatches: 30, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
95 2 0.01
96 151 0.97
97 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (96 bp):
AAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTAACGAGCGTAAA
TGTATATAAGTTGACGAGTGTAAACATGTAG
Found at i:10944225 original size:71 final size:71
Alignment explanation
Indices: 10944081--10944239 Score: 187
Period size: 71 Copynumber: 2.2 Consensus size: 71
10944071 TGATTTTTTA
* *
10944081 TACTGACTTGAGTTGTTTCAAAACAACTCAACAAAGTATCTCTAGAAGTACAGGGGATAAGGGAC
1 TACTGACTTGAGTTGTTTCAAAACAACTCAACAAAGTATCGCTAGAAGTACAAGGGATAAGGGAC
10944146 CTTGGC
66 CTTGGC
*** * * * * *
10944152 TACTGACTTGAGTTGTTTTGGAACAACTCAACAGAGTATCGGTAGAAGTATAATGGAT-GGGCGA
1 TACTGACTTGAGTTGTTTCAAAACAACTCAACAAAGTATCGCTAGAAGTACAAGGGATAAGG-GA
*
10944216 TC-TGAGC
65 CCTTG-GC
10944223 TACTGACTTGAGTTGTT
1 TACTGACTTGAGTTGTT
10944240 CCGGTAGTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
70 4 0.05
71 71 0.95
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (71 bp):
TACTGACTTGAGTTGTTTCAAAACAACTCAACAAAGTATCGCTAGAAGTACAAGGGATAAGGGAC
CTTGGC
Found at i:10945791 original size:36 final size:36
Alignment explanation
Indices: 10945740--10945832 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
10945730 TGATATCTGA
10945740 TTTACTCCCTGTTGACCCAAAGCTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGCTCATGATGCTCAT
* *
10945776 TTTACTCCCTATTGACCCAAAGGTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGCTCATGATGCTCAT
10945812 TTTACTCCCTGTTGACCCAAA
1 TTTACTCCCTGTTGACCCAAA
10945833 AGTCATGCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (36 bp):
TTTACTCCCTGTTGACCCAAAGCTCATGATGCTCAT
Found at i:10951847 original size:28 final size:28
Alignment explanation
Indices: 10951810--10951864 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
10951800 GCTTGGGTCA
*
10951810 TTTGTAATTTGG-GTATTTGGGTTTAATT
1 TTTGTAATTTGGACTA-TTGGGTTTAATT
10951838 TTTGTAATTTGGACTATTGGGTTTAAT
1 TTTGTAATTTGGACTATTGGGTTTAAT
10951865 GGACCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.55
Consensus pattern (28 bp):
TTTGTAATTTGGACTATTGGGTTTAATT
Found at i:10955383 original size:14 final size:14
Alignment explanation
Indices: 10955364--10955414 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
10955354 TTTTTGATGT
10955364 TATAAAATTTAACA
1 TATAAAATTTAACA
*
10955378 TAT-AAATTATGACA
1 TATAAAATT-TAACA
10955392 TATAAGCTAATTTAACA
1 TATAA---AATTTAACA
10955409 TATAAA
1 TATAAA
10955415 TTATGACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 5 0.17
14 11 0.37
15 1 0.03
17 9 0.30
18 4 0.13
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (14 bp):
TATAAAATTTAACA
Found at i:10955425 original size:14 final size:14
Alignment explanation
Indices: 10955375--10955425 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
10955365 ATAAAATTTA
10955375 ACATATAAATTATG
1 ACATATAAATTATG
*
10955389 ACATATAAGCTAATT-TA
1 ACATAT-A---AATTATG
10955406 ACATATAAATTATG
1 ACATATAAATTATG
10955420 ACATAT
1 ACATAT
10955426 TATGATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 4 0.13
14 13 0.43
15 1 0.03
16 1 0.03
17 7 0.23
18 4 0.13
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (14 bp):
ACATATAAATTATG
Found at i:10955481 original size:32 final size:31
Alignment explanation
Indices: 10955445--10955553 Score: 93
Period size: 30 Copynumber: 3.6 Consensus size: 31
10955435 TACTAATTCA
10955445 TATTTTAATAATAATTATATTAAATTATATAT
1 TATTTTAATAA-AATTATATTAAATTATATAT
* * * *
10955477 TATTTT-ATTAAATTGTATTTAATAATA-AT
1 TATTTTAATAAAATTATATTAAATTATATAT
* * *
10955506 TATGTTAA-AATA-TA-ATTAAATTATTTAT
1 TATTTTAATAAAATTATATTAAATTATATAT
* *
10955534 TATTTTTATTAAATTATATT
1 TATTTTAATAAAATTATATT
10955554 TAATAATAAT
Statistics
Matches: 57, Mismatches: 15, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
27 8 0.14
28 9 0.16
29 11 0.19
30 17 0.30
31 6 0.11
32 6 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (31 bp):
TATTTTAATAAAATTATATTAAATTATATAT
Found at i:10955572 original size:58 final size:57
Alignment explanation
Indices: 10955463--10955579 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 57
10955453 TAATAATTAT
* *
10955463 ATTAAATTATATATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATA
1 ATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATA
* *
10955520 ATTAAATTATTTATTATTTTTATTAAATTATATTTAATAATAATCT-TATTAAAATTTA
1 ATTAAATTATATATTA-TTTTATTAAATTATATTTAATAATAAT-TATATTAAAATATA
10955578 AT
1 AT
10955580 ATCAATAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
57 15 0.28
58 38 0.70
59 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (57 bp):
ATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATA
Found at i:10959071 original size:13 final size:13
Alignment explanation
Indices: 10959055--10959119 Score: 60
Period size: 13 Copynumber: 5.0 Consensus size: 13
10959045 AGTTTAGCAT
* *
10959055 TGCTTTTTAGAAG
1 TGCTTTTAAAAAG
10959068 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
*
10959081 TGCTTTGGAAAAA-
1 TGCTTT-TAAAAAG
*
10959094 TGATTTTAAAAAG
1 TGCTTTTAAAAAG
* *
10959107 TACTTTTGAAAAG
1 TGCTTTTAAAAAG
10959120 CTTGGTATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 5 0.12
13 32 0.76
14 5 0.12
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.38
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:10965604 original size:17 final size:18
Alignment explanation
Indices: 10965584--10965621 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10965574 TAAAACAAGT
10965584 AAAATGCAGA-GACAA-TA
1 AAAATGCA-ATGACAATTA
10965601 AAAATGCAATGACAATTA
1 AAAATGCAATGACAATTA
10965619 AAA
1 AAA
10965622 GAAATGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 13 0.68
18 5 0.26
ACGTcount: A:0.61, C:0.11, G:0.13, T:0.16
Consensus pattern (18 bp):
AAAATGCAATGACAATTA
Found at i:10966064 original size:21 final size:21
Alignment explanation
Indices: 10966015--10966066 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
10966005 GGGTAATACT
* *
10966015 TTCTTCTTCTTCCTTCTCCTG
1 TTCTTTTTCTTCCTTCTCCTC
* * *
10966036 TTCCTTTTCTTCTTTCTCTTC
1 TTCTTTTTCTTCCTTCTCCTC
10966057 TTCTTTTTCT
1 TTCTTTTTCT
10966067 CATTCATCTC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (21 bp):
TTCTTTTTCTTCCTTCTCCTC
Found at i:10978444 original size:31 final size:32
Alignment explanation
Indices: 10978381--10978446 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
10978371 CCCTTCCACT
* * *
10978381 TTTATACAATTTCATGGATGTTTCGTCTTTTC
1 TTTATAAAATTTCATGGATGTTTCATCCTTTC
* *
10978413 TTTATAAAATTTC-TTGTTGTTTCATCCTTTC
1 TTTATAAAATTTCATGGATGTTTCATCCTTTC
10978444 TTT
1 TTT
10978447 TGGTAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.58
Consensus pattern (32 bp):
TTTATAAAATTTCATGGATGTTTCATCCTTTC
Found at i:10997918 original size:17 final size:17
Alignment explanation
Indices: 10997898--10997939 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
10997888 CTTTTTCCTC
10997898 TTCTTTTTTTCTC-AATT
1 TTCTTTTTTT-TCAAATT
10997915 TTCTTTTTTTTCAAATT
1 TTCTTTTTTTTCAAATT
10997932 TTCTTTTT
1 TTCTTTTT
10997940 GACTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (17 bp):
TTCTTTTTTTTCAAATT
Found at i:10997950 original size:17 final size:16
Alignment explanation
Indices: 10997930--10997966 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
10997920 TTTTTTCAAA
10997930 TTTTCTTTTTGACTTTT
1 TTTTCTTTTT-ACTTTT
*
10997947 TTTTCTTTTTTCTTTT
1 TTTTCTTTTTACTTTT
10997963 TTTT
1 TTTT
10997967 AAACAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTCTTTTTACTTTT
Found at i:10998912 original size:17 final size:17
Alignment explanation
Indices: 10998892--10998924 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10998882 ATTGAATAAT
*
10998892 TAAAATAAAATTAAAAA
1 TAAAATAAAATGAAAAA
10998909 TAAAATAAAATGAAAA
1 TAAAATAAAATGAAAA
10998925 TGAATTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAATAAAATGAAAAA
Found at i:10998961 original size:11 final size:11
Alignment explanation
Indices: 10998947--10998972 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10998937 TTTTTTTGAA
10998947 TTTTTCAATTT
1 TTTTTCAATTT
10998958 TTTTTCAATTT
1 TTTTTCAATTT
10998969 TTTT
1 TTTT
10998973 ATTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTCAATTT
Found at i:10998961 original size:19 final size:19
Alignment explanation
Indices: 10998937--10998981 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
10998927 AATTTACTAA
*
10998937 TTTTTTTGAATTTTTCAAT
1 TTTTTTTCAATTTTTCAAT
**
10998956 TTTTTTTCAATTTTTTTAT
1 TTTTTTTCAATTTTTCAAT
10998975 TTTTTTT
1 TTTTTTT
10998982 AAAAATAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTTCAATTTTTCAAT
Found at i:11002215 original size:25 final size:23
Alignment explanation
Indices: 11002187--11002232 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
11002177 GCTGGATTCA
11002187 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
11002212 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
11002233 TCCTAATTGG
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:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:11002703 original size:12 final size:13
Alignment explanation
Indices: 11002678--11002702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11002668 TCCAAAATAC
11002678 AAAAATAAGTTTT
1 AAAAATAAGTTTT
11002691 AAAAATAAGTTT
1 AAAAATAAGTTT
11002703 AGACTCGAGA
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AAAAATAAGTTTT
Found at i:11020007 original size:52 final size:51
Alignment explanation
Indices: 11019901--11020137 Score: 262
Period size: 52 Copynumber: 4.5 Consensus size: 51
11019891 TACAAAAAGA
* *
11019901 TCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTTCAGATTAAAGG
1 TCCGATGACTCTGTGTCATCGTGAG-TATATGAATCCTA-TACAGATTAGAGG
*
11019954 TCCGATGACTCTGTGTCATCGTGAGTATATGAATCCTATACGGATTATGAGG
1 TCCGATGACTCTGTGTCATCGTGAGTATATGAATCCTATACAGATTA-GAGG
* * * * * *
11020006 TCCGATGATTATGTGTCATTGTAAGTATATGAATCCTTTACGGATTATGAGG
1 TCCGATGACTCTGTGTCATCGTGAGTATATGAATCCTATACAGATTA-GAGG
* * * * *
11020058 TCCGATAACTATGTGTCGTCGTGAGTAAAT-AATTCCCAATACAGATTA-ATGG
1 TCCGATGACTCTGTGTCATCGTGAGTATATGAA-T-CCTATACAGATTAGA-GG
*
11020110 TCTGATGACTCTGTGTCATCGTGAGTAT
1 TCCGATGACTCTGTGTCATCGTGAGTAT
11020138 CAAAAAATGC
Statistics
Matches: 158, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
51 10 0.06
52 113 0.72
53 35 0.22
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (51 bp):
TCCGATGACTCTGTGTCATCGTGAGTATATGAATCCTATACAGATTAGAGG
Found at i:11027002 original size:52 final size:51
Alignment explanation
Indices: 11026804--11027027 Score: 209
Period size: 52 Copynumber: 4.3 Consensus size: 51
11026794 GATTACTCTA
* ** * * * *
11026804 TGTCATCATGAGTTATATGAATCCTATTTTGGATTAAAGGTCTGATGACTCTG
1 TGTCATCGTGAG-TATATGAATCCTA-TACGGATTGATGGTCCGATGACTATG
* * * *
11026857 TGTCATCGTGAGTATATGAATCCTATACAGATT-ATGAGGCCCAATGATTATG
1 TGTCATCGTGAGTATATGAATCCTATACGGATTGAT--GGTCCGATGACTATG
*
11026909 TGTCATCGTGAGTATATGAATCCTTTACGGATTTTGA-GGTCCGATGACTATG
1 TGTCATCGTGAGTATATGAATCCTATACGGA--TTGATGGTCCGATGACTATG
* * * * *
11026961 TGTCGTCGTGAGTATATGATTCCCAATACGGATTGATGGTCCGATGACTCTA
1 TGTCATCGTGAGTATATGAAT-CCTATACGGATTGATGGTCCGATGACTATG
*
11027013 TGTCATCATGAGTAT
1 TGTCATCGTGAGTAT
11027028 CAAAAAATGC
Statistics
Matches: 141, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
50 1 0.01
51 9 0.06
52 109 0.77
53 19 0.13
54 2 0.01
55 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (51 bp):
TGTCATCGTGAGTATATGAATCCTATACGGATTGATGGTCCGATGACTATG
Found at i:11027017 original size:104 final size:103
Alignment explanation
Indices: 11026791--11027027 Score: 262
Period size: 104 Copynumber: 2.3 Consensus size: 103
11026781 TGCAAAAAGA
* ** * *
11026791 TCCGATTACTCTATGTCATCATGAGTTATATGAATCCTATTTTGGATTAAAGGTCTGATGACTCT
1 TCCGATGACTCTATGTCATCATGAG-TATATGAATCCTATTACGGATTAAAGGTCCGATGACTAT
*
11026856 GTGTCATCGTGAGTATATGAATCCTATACAGATTATGAGG
65 GTGTCATCGTGAGTATATGAATCCAATACAGATTAT-AGG
* * * * * * **
11026896 CCCAATGATTATGTGTCATCGTGAGTATATGAATCCT-TTACGGATTTTGAGGTCCGATGACTAT
1 TCCGATGACTCTATGTCATCATGAGTATATGAATCCTATTACGGA-TTAAAGGTCCGATGACTAT
* * *
11026960 GTGTCGTCGTGAGTATATGATTCCCAATACGGATTGAT-GG
65 GTGTCATCGTGAGTATATGAAT-CCAATACAGATT-ATAGG
11027000 TCCGATGACTCTATGTCATCATGAGTAT
1 TCCGATGACTCTATGTCATCATGAGTAT
11027028 CAAAAAATGC
Statistics
Matches: 106, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
103 5 0.05
104 71 0.67
105 28 0.26
106 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (103 bp):
TCCGATGACTCTATGTCATCATGAGTATATGAATCCTATTACGGATTAAAGGTCCGATGACTATG
TGTCATCGTGAGTATATGAATCCAATACAGATTATAGG
Found at i:11027755 original size:21 final size:21
Alignment explanation
Indices: 11027731--11027770 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11027721 CAGTGGAAGA
*
11027731 GTCACTTGTATCGGTAGAACT
1 GTCACTTGTATCGATAGAACT
11027752 GTCACTTGTATCGATAGAA
1 GTCACTTGTATCGATAGAA
11027771 GTCTACACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (21 bp):
GTCACTTGTATCGATAGAACT
Found at i:11027989 original size:30 final size:30
Alignment explanation
Indices: 11027949--11028015 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
11027939 GTAAGATTAA
11027949 ATGAGATGATTTTAAAGATAAATAGTGATAG
1 ATGA-ATGATTTTAAAGATAAATAGTGATAG
11027980 ATGAATGATTTTAAAGATAAATAGTGATAG
1 ATGAATGATTTTAAAGATAAATAGTGATAG
11028010 ATGAAT
1 ATGAAT
11028016 AGAGTGACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (30 bp):
ATGAATGATTTTAAAGATAAATAGTGATAG
Found at i:11031640 original size:27 final size:27
Alignment explanation
Indices: 11031610--11031664 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
11031600 GCTTCACATA
*
11031610 TTCATTAGTAATCCTTTTAAACAATCT
1 TTCACTAGTAATCCTTTTAAACAATCT
11031637 TTCACTAGTAATCCTTTTAAACAATCT
1 TTCACTAGTAATCCTTTTAAACAATCT
11031664 T
1 T
11031665 ATGTTGTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.44
Consensus pattern (27 bp):
TTCACTAGTAATCCTTTTAAACAATCT
Found at i:11031757 original size:42 final size:43
Alignment explanation
Indices: 11031673--11031865 Score: 171
Period size: 42 Copynumber: 4.5 Consensus size: 43
11031663 TTATGTTGTA
* * * * *
11031673 CTGAGTCATAAGTCTTCCTTTTTAAACATAATCTCACGCTCATT
1 CTGAGTCATGAGTCTTCC-ATTTAATCATATTCTCATGCTCATT
*
11031717 CTGAGTCATGAGTCTTCC-TTTAATCATATTCTCATTCTCA-T
1 CTGAGTCATGAGTCTTCCATTTAATCATATTCTCATGCTCATT
* * **
11031758 CTCGAGACATGAGTCTTCC-TTTAAT-ATATCCTTGTGCTCATT
1 CT-GAGTCATGAGTCTTCCATTTAATCATATTCTCATGCTCATT
* * * * *
11031800 -TAGAGTCACGAGTCTTCCATTCATTCAAATTCTCATGCTCAAT
1 CT-GAGTCATGAGTCTTCCATTTAATCATATTCTCATGCTCATT
* *
11031843 CCGAGACATGAGTCTTCCATTTA
1 CTGAGTCATGAGTCTTCCATTTA
11031866 TACATCAAGT
Statistics
Matches: 120, Mismatches: 24, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
41 29 0.24
42 44 0.37
43 30 0.25
44 17 0.14
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (43 bp):
CTGAGTCATGAGTCTTCCATTTAATCATATTCTCATGCTCATT
Found at i:11031781 original size:84 final size:86
Alignment explanation
Indices: 11031683--11031870 Score: 199
Period size: 84 Copynumber: 2.2 Consensus size: 86
11031673 CTGAGTCATA
* * *
11031683 AGTCTTCCTTTTTAAACATAAT-CTCACGCTCATTCT-GAGTCATGAGTCTTCC-TTTAATCATA
1 AGTCTTCC-TTTTAAACAT-ATCCTCACGCTCATT-TAGAGTCACGAGTCTTCCATTCAATCAAA
*
11031745 TTCTCATTCTC-ATCTCGAGACATG
63 TTCTCATGCTCAATC-CGAGACATG
* *** *
11031769 AGTCTTCC-TTT-AATATATCCTTGTGCTCATTTAGAGTCACGAGTCTTCCATTCATTCAAATTC
1 AGTCTTCCTTTTAAACATATCCTCACGCTCATTTAGAGTCACGAGTCTTCCATTCAATCAAATTC
11031832 TCATGCTCAATCCGAGACATG
66 TCATGCTCAATCCGAGACATG
* *
11031853 AGTCTTCCATTTATACAT
1 AGTCTTCCTTTTAAACAT
11031871 CAAGTGTCTC
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
82 3 0.04
83 28 0.33
84 37 0.44
85 6 0.07
86 11 0.13
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (86 bp):
AGTCTTCCTTTTAAACATATCCTCACGCTCATTTAGAGTCACGAGTCTTCCATTCAATCAAATTC
TCATGCTCAATCCGAGACATG
Found at i:11036153 original size:26 final size:26
Alignment explanation
Indices: 11036124--11036188 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
11036114 TTCCTGTAGC
*
11036124 GACAATTCTGGGCAT-GCTCTTGCAGT
1 GACAATTCTGGGCATCG-TCATGCAGT
**
11036150 GACAATTCTGTACATCGTCATGCAGT
1 GACAATTCTGGGCATCGTCATGCAGT
*
11036176 GACAATTTTGGGC
1 GACAATTCTGGGC
11036189 GCAATTCTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (26 bp):
GACAATTCTGGGCATCGTCATGCAGT
Found at i:11041053 original size:21 final size:21
Alignment explanation
Indices: 11041041--11041159 Score: 148
Period size: 21 Copynumber: 5.7 Consensus size: 21
11041031 GGGGTACCGA
*
11041041 AGTGCAATTCAGGGGCACCGG
1 AGTGCAATTCAGGGGCACTGG
* **
11041062 AGTGCAATTTAGGGGCACCAG
1 AGTGCAATTCAGGGGCACTGG
* **
11041083 AGTGTAATTCAAAGGCACTGG
1 AGTGCAATTCAGGGGCACTGG
*
11041104 AGTGCAATTCAAGGGCACTGG
1 AGTGCAATTCAGGGGCACTGG
* *
11041125 AGTGCAATTCAAGGGAACTGG
1 AGTGCAATTCAGGGGCACTGG
11041146 AGTGCAATTCAGGG
1 AGTGCAATTCAGGG
11041160 TTCAATCTTG
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 86 1.00
ACGTcount: A:0.29, C:0.18, G:0.34, T:0.19
Consensus pattern (21 bp):
AGTGCAATTCAGGGGCACTGG
Found at i:11047077 original size:28 final size:28
Alignment explanation
Indices: 11047008--11047119 Score: 72
Period size: 28 Copynumber: 3.9 Consensus size: 28
11046998 ATTTTCTATG
* * *
11047008 ATTTTCAAACTTTTAAATAATTTTTATAT
1 ATTTTC-AATTTTTAAATAACTTTAATAT
*
11047037 ATTTTGAATTTTTAAATAACTTTAATA-
1 ATTTTCAATTTTTAAATAACTTTAATAT
*
11047064 ATTTTCTATATTTTTTAA-AA-TTTAA-AT
1 ATTTTC-A-ATTTTTAAATAACTTTAATAT
*
11047091 GTTTTAATCAATTTTTAAAATAA-TTTAAT
1 -ATTT--TCAATTTTT-AAATAACTTTAAT
11047120 TAATTTTGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
26 1 0.02
27 10 0.15
28 30 0.45
29 16 0.24
30 9 0.14
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (28 bp):
ATTTTCAATTTTTAAATAACTTTAATAT
Found at i:11047117 original size:21 final size:20
Alignment explanation
Indices: 11047093--11047135 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
11047083 ATTTAAATGT
*
11047093 TTTAATCAATTTTTAAAATAA
1 TTTAATCAATTTTGAAAA-AA
*
11047114 TTTAATTAATTTTGAAAAAA
1 TTTAATCAATTTTGAAAAAA
11047134 TT
1 TT
11047136 ATTCATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTAATCAATTTTGAAAAAA
Done.