Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 45 of 175
Found at i:12964348 original size:22 final size:21
Alignment explanation
Indices: 12964318--12964372 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
12964308 AAAGGTAATT
* *
12964318 TTATCATTTTAATAGATTATAA
1 TTATAATTTTAAAAGATTA-AA
12964340 TTATAATTTTTAAAAGATTAAA
1 TTATAA-TTTTAAAAGATTAAA
*
12964362 TTAAAATTTTA
1 TTATAATTTTA
12964373 TATAAAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.17
22 12 0.41
23 12 0.41
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (21 bp):
TTATAATTTTAAAAGATTAAA
Found at i:12964357 original size:23 final size:22
Alignment explanation
Indices: 12964324--12964371 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
12964314 AATTTTATCA
* *
12964324 TTTTAATAGATTATAATTATAAT
1 TTTTAAAAGATTA-AATTAAAAT
12964347 TTTTAAAAGATTAAATTAAAAT
1 TTTTAAAAGATTAAATTAAAAT
12964369 TTT
1 TTT
12964372 ATATAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
TTTTAAAAGATTAAATTAAAAT
Found at i:12964885 original size:16 final size:16
Alignment explanation
Indices: 12964860--12964897 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
12964850 TTGAATTACT
* *
12964860 ATTACGCCTCTATTTC
1 ATTACACCTCTATTCC
12964876 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
12964892 ATTACA
1 ATTACA
12964898 GCAAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:12967767 original size:11 final size:11
Alignment explanation
Indices: 12967751--12967793 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
12967741 GTAGATTCAA
12967751 AAAAAAAATCG
1 AAAAAAAATCG
12967762 AAAAAAAAAATCG
1 --AAAAAAAATCG
* *
12967775 AAATAAAATTG
1 AAAAAAAATCG
12967786 AAAAAAAA
1 AAAAAAAA
12967794 AATTTGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 16 0.59
13 11 0.41
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:12967768 original size:14 final size:13
Alignment explanation
Indices: 12967749--12967809 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
12967739 TTGTAGATTC
12967749 AAAAAAAAAATCG
1 AAAAAAAAAATCG
12967762 AAAAAAAAAATCG
1 AAAAAAAAAATCG
* *
12967775 --AAATAAAATTG
1 AAAAAAAAAATCG
*
12967786 AAAAAAAAAATTTG
1 AAAAAAAAAA-TCG
12967800 AAAAAAAAAA
1 AAAAAAAAAA
12967810 ATTGCATACG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
11 9 0.21
13 20 0.48
14 13 0.31
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAAAAAAAATCG
Found at i:12967806 original size:24 final size:23
Alignment explanation
Indices: 12967752--12967806 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
12967742 TAGATTCAAA
12967752 AAAAAAATCGAAAAAAAAAATCG
1 AAAAAAATCGAAAAAAAAAATCG
* *
12967775 AAATAAAATTGAAAAAAAAAATTTG
1 AAA-AAAATCGAAAAAAAAAA-TCG
12967800 AAAAAAA
1 AAAAAAA
12967807 AAAATTGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.11
24 20 0.71
25 5 0.18
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.15
Consensus pattern (23 bp):
AAAAAAATCGAAAAAAAAAATCG
Found at i:12970091 original size:17 final size:18
Alignment explanation
Indices: 12970052--12970093 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
12970042 AAGAAGAAAA
12970052 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
12970069 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
12970086 TCAAAAGA
1 ACAAAAGA
12970094 AAAGAAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:12979179 original size:12 final size:13
Alignment explanation
Indices: 12979155--12979183 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12979145 GGACTATAAC
12979155 TATTGCATTTATT
1 TATTGCATTTATT
12979168 TATTGC-TTTATT
1 TATTGCATTTATT
12979180 TATT
1 TATT
12979184 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:12989748 original size:15 final size:15
Alignment explanation
Indices: 12989728--12989756 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12989718 TGTTATATGC
12989728 AATAACCCGGATGAT
1 AATAACCCGGATGAT
12989743 AATAACCCGGATGA
1 AATAACCCGGATGA
12989757 CATTTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (15 bp):
AATAACCCGGATGAT
Found at i:12991610 original size:7 final size:7
Alignment explanation
Indices: 12991598--12991624 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12991588 CAAAATAGAT
12991598 GTCCAAA
1 GTCCAAA
12991605 GTCCAAA
1 GTCCAAA
12991612 GTCCAAA
1 GTCCAAA
12991619 GTCCAA
1 GTCCAA
12991625 TTACAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.15
Consensus pattern (7 bp):
GTCCAAA
Found at i:12992636 original size:14 final size:14
Alignment explanation
Indices: 12992614--12992653 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
12992604 CATTCATCCA
*
12992614 TAATTAATTAATTT
1 TAATCAATTAATTT
*
12992628 TAATCAATTCATTT
1 TAATCAATTAATTT
12992642 TAATC-ATTAATT
1 TAATCAATTAATT
12992654 AAGGTACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATCAATTAATTT
Found at i:13006424 original size:306 final size:306
Alignment explanation
Indices: 13005871--13006481 Score: 1132
Period size: 306 Copynumber: 2.0 Consensus size: 306
13005861 GTTTAGGGCC
* *
13005871 TCATGTGACTCGACTTGCATGCCACTTCGATCTCCTCGACACACCGAAGCAGTCTTCCTTGCTTA
1 TCATGTGACTCGACTTGCATGCCACTTCGATCTCCTCAACACACCGAAGCAGTCCTCCTTGCTTA
*
13005936 CACTAGTCGGCCAAATGTCCCCGCAAGGATTATTGAGCATGAGCCATATGAGGATGATTGAGCGA
66 CACTAGCCGGCCAAATGTCCCCGCAAGGATTATTGAGCATGAGCCATATGAGGATGATTGAGCGA
*
13006001 CTTTATGGAGTGGATCCACCTCAGTACCAATTATCTCATTTTGATCCTCAGGATGAACCCGAGGA
131 CTTTATGGAATGGATCCACCTCAGTACCAATTATCTCATTTTGATCCTCAGGATGAACCCGAGGA
*
13006066 CTTCACTGACGATGTCCCCTTCTATCACAAGGATCCACCTCATCATCCACCTTCAAGTCACCGTC
196 CTTCACTAACGATGTCCCCTTCTATCACAAGGATCCACCTCATCATCCACCTTCAAGTCACCGTC
13006131 CTGCTTCTTCTGCTGCTACCTTAGCAAACCTCTCCGAGTGGTTCAT
261 CTGCTTCTTCTGCTGCTACCTTAGCAAACCTCTCCGAGTGGTTCAT
*
13006177 TCATGTGACTCGACTTGCATGCCACTTCGATCTCCTCAACACACCGAAGCGGTCCTCCTTGCTTA
1 TCATGTGACTCGACTTGCATGCCACTTCGATCTCCTCAACACACCGAAGCAGTCCTCCTTGCTTA
* *
13006242 CACTAGCCGGCCAGATGTCCTCGCAAGGATTATTGAGCATGAGCCATATGAGGATGATTGAGCGA
66 CACTAGCCGGCCAAATGTCCCCGCAAGGATTATTGAGCATGAGCCATATGAGGATGATTGAGCGA
*
13006307 CTTTATGTAATGGATCCACCTCAGTACCAATTATCTCATTTTGATCCTCAGGATGAACCCGAGGA
131 CTTTATGGAATGGATCCACCTCAGTACCAATTATCTCATTTTGATCCTCAGGATGAACCCGAGGA
13006372 CTTCACTAACGATGTCCCCTTCTATCACAAGGATCCACCTCATCATCCACCTTCAAGTCACCGTC
196 CTTCACTAACGATGTCCCCTTCTATCACAAGGATCCACCTCATCATCCACCTTCAAGTCACCGTC
*
13006437 CTGCTTCTTCTGCTGCTACCTTAGCGAACCTCTCCGAGTGGTTCA
261 CTGCTTCTTCTGCTGCTACCTTAGCAAACCTCTCCGAGTGGTTCA
13006482 CTTGTTTCGA
Statistics
Matches: 295, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
306 295 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (306 bp):
TCATGTGACTCGACTTGCATGCCACTTCGATCTCCTCAACACACCGAAGCAGTCCTCCTTGCTTA
CACTAGCCGGCCAAATGTCCCCGCAAGGATTATTGAGCATGAGCCATATGAGGATGATTGAGCGA
CTTTATGGAATGGATCCACCTCAGTACCAATTATCTCATTTTGATCCTCAGGATGAACCCGAGGA
CTTCACTAACGATGTCCCCTTCTATCACAAGGATCCACCTCATCATCCACCTTCAAGTCACCGTC
CTGCTTCTTCTGCTGCTACCTTAGCAAACCTCTCCGAGTGGTTCAT
Found at i:13010057 original size:28 final size:27
Alignment explanation
Indices: 13010009--13010062 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
13009999 TACATACATA
13010009 TGTATAATAAAAATAATTTAATATAGGT
1 TGTATAATAAAAATAATTTAA-ATAGGT
13010037 TGTATACAT-AAAA-AATATTAAATAGG
1 TGTATA-ATAAAAATAAT-TTAAATAGG
13010063 GATATTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 8 0.33
28 14 0.58
29 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (27 bp):
TGTATAATAAAAATAATTTAAATAGGT
Found at i:13010134 original size:18 final size:16
Alignment explanation
Indices: 13010111--13010146 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
13010101 AAATGGCTTT
13010111 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
13010129 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
13010145 TA
1 TA
13010147 TATTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:13016712 original size:24 final size:23
Alignment explanation
Indices: 13016674--13016895 Score: 167
Period size: 24 Copynumber: 9.4 Consensus size: 23
13016664 TTCACATCAA
* *
13016674 AATTTGGACAGCATAAATACAAC
1 AATTTGGGCAGCATATATACAAC
*
13016697 AATTTTGGGCAACATATATACAAC
1 AA-TTTGGGCAGCATATATACAAC
* * * *
13016721 AATTTGAGCAGCATTTTTACACC
1 AATTTGGGCAGCATATATACAAC
* * * *
13016744 AAAATTGGACAGCATAAATTCAAC
1 -AATTTGGGCAGCATATATACAAC
13016768 AATTTGGGCAGCATATATACAAC
1 AATTTGGGCAGCATATATACAAC
* * * *
13016791 AATTTGAGCAGCATTTTTACACC
1 AATTTGGGCAGCATATATACAAC
* *
13016814 AAAATTGGACAGCATATATACAAC
1 -AATTTGGGCAGCATATATACAAC
* * *
13016838 AAATTTGGACAGCATTTA-AGCATC
1 -AATTTGGGCAGCATATATA-CAAC
* * *
13016862 AAAATTGGACAGCATATATGCAAC
1 -AATTTGGGCAGCATATATACAAC
*
13016886 AAATTGGGCA
1 AATTTGGGCA
13016896 ACATTGAAGC
Statistics
Matches: 156, Mismatches: 38, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
23 66 0.42
24 90 0.58
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (23 bp):
AATTTGGGCAGCATATATACAAC
Found at i:13016794 original size:70 final size:70
Alignment explanation
Indices: 13016641--13016852 Score: 311
Period size: 70 Copynumber: 3.0 Consensus size: 70
13016631 GGACAACATT
* * * *
13016641 TATATACCA-AATTAGA-CAGCATTTTCACATCAAAATTTGGACAGCATAAATACAACAATTTTG
1 TATATACAACAATTTGAGCAGCATTTTTACACCAAAA-TTGGACAGCATAAATACAACAA-TTTG
*
13016704 GGCAACA
64 GGCAGCA
*
13016711 TATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATAAATTCAACAATTTGGG
1 TATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATAAATACAACAATTTGGG
13016776 CAGCA
66 CAGCA
*
13016781 TATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATATATACAACAAATTTGG
1 TATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATAAATACAAC-AATTTGG
*
13016846 ACAGCA
65 GCAGCA
13016852 T
1 T
13016853 TTAAGCATCA
Statistics
Matches: 130, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
70 73 0.56
71 40 0.31
72 17 0.13
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (70 bp):
TATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATAAATACAACAATTTGGG
CAGCA
Found at i:13016827 original size:47 final size:47
Alignment explanation
Indices: 13016771--13016906 Score: 159
Period size: 47 Copynumber: 2.9 Consensus size: 47
13016761 ATTCAACAAT
* *
13016771 TTGGGCAGCATATATACAACAATTT-GAGCAGCATTTTTA-CACCAAAA
1 TTGGACAGCATATATACAACAATTTGGA-CAGCA-TTTAAGCACCAAAA
*
13016818 TTGGACAGCATATATACAACAAATTTGGACAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATACAAC-AATTTGGACAGCATTTAAGCACCAAAA
* * * * *
13016866 TTGGACAGCATATATGCAACAAATTGGGCAACATTGAAGCA
1 TTGGACAGCATATATACAACAATTTGGACAGCATTTAAGCA
13016907 TCACCTATTC
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
47 40 0.51
48 36 0.46
49 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (47 bp):
TTGGACAGCATATATACAACAATTTGGACAGCATTTAAGCACCAAAA
Found at i:13017949 original size:43 final size:43
Alignment explanation
Indices: 13017901--13018013 Score: 135
Period size: 43 Copynumber: 2.6 Consensus size: 43
13017891 AACTCGTACA
* *
13017901 ATGCCAACGTCCCATACGTGGTCTTACATGTAATC-TCATA-TCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAT-A-AGTCG
13017944 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGTAAACATAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAAACATAAGTCG
*
13017987 ATGCCAATGTCCCAGACGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
13018014 GCGATAACAC
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
42 4 0.07
43 54 0.89
44 3 0.05
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACATAAGTCG
Found at i:13024374 original size:23 final size:23
Alignment explanation
Indices: 13024348--13024500 Score: 71
Period size: 23 Copynumber: 6.5 Consensus size: 23
13024338 TGGATAGCTC
*
13024348 TTATACATCAATTTGGACATCAT
1 TTATACAACAATTTGGACATCAT
* * * *
13024371 TTATATACCAAATTAGACAGT-AT
1 TTATACAACAATTTGGACA-TCAT
* *
13024394 TTTTACACCAAAATTTGGACATCAT
1 TTATACA--ACAATTTGGACATCAT
** *
13024419 AAATACAACAATTTTGG-CAGCAT
1 TTATACAACAA-TTTGGACATCAT
*
13024442 ATATACAACAATTT-GAGCAGT-AT
1 TTATACAACAATTTGGA-CA-TCAT
* * * *
13024465 TTTTACACCAAAATTGGACAGCAT
1 TTATACAAC-AATTTGGACATCAT
*
13024489 ATATACAACAAT
1 TTATACAACAAT
13024501 ATATATTTTT
Statistics
Matches: 93, Mismatches: 26, Indels: 22
0.66 0.18 0.16
Matches are distributed among these distances:
21 1 0.01
22 3 0.03
23 52 0.56
24 21 0.23
25 16 0.17
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (23 bp):
TTATACAACAATTTGGACATCAT
Found at i:13025165 original size:37 final size:36
Alignment explanation
Indices: 13025089--13025318 Score: 199
Period size: 37 Copynumber: 6.2 Consensus size: 36
13025079 ATACTAAATG
* * * **
13025089 GCTCAAATGAGTAATGTCTACTATTATACTGAATAT
1 GCTCAAATGAGCAATATCTACTAATATACTGAACGT
*
13025125 GCTCAAATGAGCAATATCTACTAAAACTACTGAACGT
1 GCTCAAATGAGCAATATCTACTAATA-TACTGAACGT
* * * *
13025162 GCTCAAAAGAGCAATATCTACTGATTATATTGAAAGTT
1 GCTCAAATGAGCAATATCTACT-AATATACTGAACG-T
* * * * *
13025200 GCTCAAATGAGCGATATCTACTGATTATACTAAATGG
1 GCTCAAATGAGCAATATCTACT-AATATACTGAACGT
* * * *
13025237 GCTCAAACGACCAATATTTACTAAATATATTGAACGT
1 GCTCAAATGAGCAATATCTACT-AATATACTGAACGT
* * *
13025274 GCTCAAAAGAGCAATGTCTACTAATTATACTGAAAGTT
1 GCTCAAATGAGCAATATCTACTAA-TATACTGAACG-T
13025312 GCTCAAA
1 GCTCAAA
13025319 CAAGCGATAT
Statistics
Matches: 156, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
36 24 0.15
37 90 0.58
38 42 0.27
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (36 bp):
GCTCAAATGAGCAATATCTACTAATATACTGAACGT
Found at i:13025211 original size:75 final size:74
Alignment explanation
Indices: 13025089--13025338 Score: 224
Period size: 75 Copynumber: 3.4 Consensus size: 74
13025079 ATACTAAATG
* * * * *
13025089 GCTCAAATGAGTAATGTCTACT-ATTATACTG-AA-TATGCTCAAATGAGCAATATCTACTAAAA
1 GCTCAAAAGAGCAATATCTACTGATTATATTGAAAGT-TGCTCAAATGAGCAATATCTACTAATA
*
13025151 CTACTGAACGT
65 -TACTGAAAGT
* *
13025162 GCTCAAAAGAGCAATATCTACTGATTATATTGAAAGTTGCTCAAATGAGCGATATCTACTGATTA
1 GCTCAAAAGAGCAATATCTACTGATTATATTGAAAGTTGCTCAAATGAGCAATATCTACT-AATA
*
13025227 TACT-AAATGG
65 TACTGAAA-GT
* * * * * * * *
13025237 GCTCAAACGACCAATATTTACTAAATATATTGAACG-TGCTCAAAAGAGCAATGTCTACTAATTA
1 GCTCAAAAGAGCAATATCTACTGATTATATTGAAAGTTGCTCAAATGAGCAATATCTACTAA-TA
13025301 TACTGAAAGTT
65 TACTGAAAG-T
* *
13025312 GCTCAAACA-AGCGATATCCACTGATTA
1 GCTCAAA-AGAGCAATATCTACTGATTA
13025339 CACTGAATGG
Statistics
Matches: 141, Mismatches: 27, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
73 20 0.14
74 37 0.26
75 81 0.57
76 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (74 bp):
GCTCAAAAGAGCAATATCTACTGATTATATTGAAAGTTGCTCAAATGAGCAATATCTACTAATAT
ACTGAAAGT
Found at i:13025285 original size:112 final size:112
Alignment explanation
Indices: 13025089--13025370 Score: 361
Period size: 112 Copynumber: 2.5 Consensus size: 112
13025079 ATACTAAATG
** * ** * *
13025089 GCTCAAATGAGTAATGTCTACT-ATTATACTGAATATGCTCAAATGAGCAATATCTACTAAAACT
1 GCTCAAATGAGCGATATCTACTGATTATACTGAATGGGCTCAAACGACCAATATCTACTAAAACT
* *
13025153 ACTGAACGTGCTCAAAAGAGCAATATCTACTGATTATATTGAAAGTT
66 ACTGAACGTGCTCAAAAGAGCAATATCTACTAATTATACTGAAAGTT
* *
13025200 GCTCAAATGAGCGATATCTACTGATTATACTAAATGGGCTCAAACGACCAATATTTACTAAATA-
1 GCTCAAATGAGCGATATCTACTGATTATACTGAATGGGCTCAAACGACCAATATCTACTAAA-AC
* *
13025264 TATTGAACGTGCTCAAAAGAGCAATGTCTACTAATTATACTGAAAGTT
65 TACTGAACGTGCTCAAAAGAGCAATATCTACTAATTATACTGAAAGTT
** * * * * *
13025312 GCTCAAACAAGCGATATCCACTGATTACACTGAATGGGCTCAAACAAGCGATATCTACT
1 GCTCAAATGAGCGATATCTACTGATTATACTGAATGGGCTCAAACGACCAATATCTACT
13025371 TGTTATATAG
Statistics
Matches: 147, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
111 19 0.13
112 127 0.86
113 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (112 bp):
GCTCAAATGAGCGATATCTACTGATTATACTGAATGGGCTCAAACGACCAATATCTACTAAAACT
ACTGAACGTGCTCAAAAGAGCAATATCTACTAATTATACTGAAAGTT
Found at i:13035152 original size:23 final size:23
Alignment explanation
Indices: 13035126--13035178 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
13035116 ATAAGTGCCA
13035126 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
13035149 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
13035172 CACTGAT
1 CACTGAT
13035179 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:13038200 original size:16 final size:15
Alignment explanation
Indices: 13038177--13038211 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13038167 GAGAAGAGAT
*
13038177 AAAAAAAAGAAAGGA
1 AAAAAAAAGAAAAGA
13038192 AAAAGAAAAGAAAAGA
1 AAAA-AAAAGAAAAGA
13038208 AAAA
1 AAAA
13038212 CATAACATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAGA
Found at i:13042836 original size:3 final size:3
Alignment explanation
Indices: 13042828--13042873 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
13042818 GGAAATCTAG
13042828 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13042874 GAAGGCCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13056851 original size:37 final size:38
Alignment explanation
Indices: 13056805--13056898 Score: 111
Period size: 37 Copynumber: 2.5 Consensus size: 38
13056795 ATCTTACTGC
* *
13056805 TATATTGAATGAAGCTCAATC-AAGCAAATCATACCGT
1 TATACTGAATGAAGCTCAATCTAAGCAAATCATACCAT
* * * *
13056842 TGTACTGAATGAAGCACAA-CTGAGCAATTCATACCAT
1 TATACTGAATGAAGCTCAATCTAAGCAAATCATACCAT
*
13056879 TATACTGAATGATGCTCAAT
1 TATACTGAATGAAGCTCAAT
13056899 TTAGTAAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
36 1 0.02
37 45 0.98
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (38 bp):
TATACTGAATGAAGCTCAATCTAAGCAAATCATACCAT
Found at i:13061466 original size:48 final size:48
Alignment explanation
Indices: 13061393--13061628 Score: 418
Period size: 48 Copynumber: 4.9 Consensus size: 48
13061383 TTACTGAATT
*
13061393 GATTTGAGATCCCGTATAAGGCCATATCTGGGATATGGCATCGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
*
13061441 GATTTGAGATCCCGTATAAGACCATATATGGGATATGGCATCGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
**
13061489 GATTTGAGATCTTGTATAAGACCATATCTGGGATATGGCATCGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
*
13061537 GATTTGTGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
*
13061585 GATTTGAGATCCCGTATAAGACCATATTTGGGATATGGCATCGG
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGG
13061629 TATGAGACTT
Statistics
Matches: 178, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 178 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
Found at i:13064445 original size:16 final size:18
Alignment explanation
Indices: 13064418--13064450 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13064408 TAGAATTGGG
13064418 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
13064435 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
13064451 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:13068747 original size:25 final size:23
Alignment explanation
Indices: 13068702--13068755 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
13068692 AGGCACCTGC
*
13068702 AACAAACAAACTCAAGAGAAACAAA
1 AACAAACAAACCCAAGAG-AA-AAA
*
13068727 AACAAACAATACCCACG-GAAAAA
1 AACAAACAA-ACCCAAGAGAAAAA
13068750 AACAAA
1 AACAAA
13068756 AACGGATACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 9 0.35
24 2 0.08
25 10 0.38
26 5 0.19
ACGTcount: A:0.67, C:0.22, G:0.07, T:0.04
Consensus pattern (23 bp):
AACAAACAAACCCAAGAGAAAAA
Found at i:13074571 original size:15 final size:14
Alignment explanation
Indices: 13074551--13074584 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13074541 GATCCTTTCA
*
13074551 AAAAAAATCAAAAT
1 AAAAAAATAAAAAT
13074565 CAAAAAAATAAAAAT
1 -AAAAAAATAAAAAT
13074580 AAAAA
1 AAAAA
13074585 TGAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:13074578 original size:21 final size:22
Alignment explanation
Indices: 13074553--13074594 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13074543 TCCTTTCAAA
*
13074553 AAAAATCAAAATCAAA-AAAAT
1 AAAAATAAAAATCAAAGAAAAT
*
13074574 AAAAATAAAAATGAAAGAAAA
1 AAAAATAAAAATCAAAGAAAA
13074595 AGAAAGAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAATCAAAGAAAAT
Found at i:13076960 original size:44 final size:44
Alignment explanation
Indices: 13076887--13077293 Score: 195
Period size: 44 Copynumber: 8.8 Consensus size: 44
13076877 GAAAATGGTG
*
13076887 AATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTGAAGCTAGA
1 AATCTCATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCTAGA
* * * *
13076931 AATCTCATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTCGT
1 AATCTCATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* **
13076975 AATC-CTATCTCCTTGAGATTACAGTGGAGC-GAATT-AAAATA-A
1 AATCTC-ATCTCCCTGAGATTACAGTGGAGCAG-ATTGAAGCTAGA
* * * *
13077017 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTACATCGCATCAGATTGAAGCCATA
1 A--ATCTCATCTCCCTGAGA-TTACAGT-G-G---A--G---CAGATTGAAGCTAGA
* * * * *
13077073 AATCTTATCTCCCTGAGATTACAGCGAAGCAAATTGAAGCTAGT
1 AATCTCATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* ** *
13077117 AATC-CTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAA
1 AATCTC-ATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * * * *
13077160 AGATCTTATCTCTCTGA-AGTTATAGTAGAGTACATCGCATCAGATTGAAGCCATA
1 A-ATCTCATCTCCCTGAGA-TTACAGT-G-G---A--G---CAGATTGAAGCTAGA
* * *
13077215 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTCATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* *
13077259 AATC-CTATCTCCCTGAGATTACAATGGAGCGGATT
1 AATCTC-ATCTCCCTGAGATTACAGTGGAGCAGATT
13077294 AAAATAAAGG
Statistics
Matches: 273, Mismatches: 52, Indels: 76
0.68 0.13 0.19
Matches are distributed among these distances:
42 1 0.00
43 13 0.05
44 183 0.67
45 2 0.01
46 2 0.01
47 2 0.01
49 4 0.01
51 2 0.01
52 1 0.00
53 2 0.01
54 48 0.18
55 11 0.04
56 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTCATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
Found at i:13077344 original size:142 final size:142
Alignment explanation
Indices: 13076916--13077333 Score: 719
Period size: 142 Copynumber: 2.9 Consensus size: 142
13076906 TACAGTGGAG
* * * * *
13076916 CAGATTGAAGCTAGAAATCTCATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTCGTAATCCT
1 CAGATTGAAGCCATAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
13076981 ATCTCCTTGAGATTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAG
13077046 AGTACATCGCAT
131 AGTACATCGCAT
* *
13077058 CAGATTGAAGCCATAAATCTTATCTCCCTGAGATTACAGCGAAGCAAATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCATAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
13077123 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAG
13077188 AGTACATCGCAT
131 AGTACATCGCAT
13077200 CAGATTGAAGCCATAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCATAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
13077265 ATCTCCCTGAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTATGAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAG
13077330 AGTA
131 AGTA
13077334 GATTGGATCA
Statistics
Matches: 260, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 260 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCATAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAG
AGTACATCGCAT
Found at i:13077477 original size:50 final size:50
Alignment explanation
Indices: 13077420--13077645 Score: 188
Period size: 50 Copynumber: 4.5 Consensus size: 50
13077410 GCAGTGGAAC
* * * *
13077420 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAACATTGCAATTCAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCTTCCCCAACATTGCAGTTCAAA
* * * * * * *** *
13077470 AGATTAAAGCTACAACAACGAATCTTACCT-CCCAGGCGA-TCCAGCGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTGCTTCCCCA-AC-ATTGCAGTTCAAA
* * * * *
13077520 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTCAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCTTCCCCAACATTGCAGTTCAAA
* *
13077570 AGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACATTGCAGTT-AAA
1 AGATTAAAGCCACAACAGCGAATCTTGCTTCCCCAACATTGCAGTTCAAA
* **
13077619 GAGATTAAAGCCATAATGGCGAATCTT
1 -AGATTAAAGCCACAACAGCGAATCTT
13077646 TCTTTCCAAA
Statistics
Matches: 133, Mismatches: 38, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
49 8 0.06
50 121 0.91
51 4 0.03
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTGCTTCCCCAACATTGCAGTTCAAA
Found at i:13077560 original size:100 final size:100
Alignment explanation
Indices: 13077387--13077593 Score: 342
Period size: 100 Copynumber: 2.1 Consensus size: 100
13077377 CCGAAGAATT
* * *
13077387 ACGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCC
1 ACGAATCTTACCTCCCAGGCGATCCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCC
*
13077452 CCAACATTGCAATTCAAAAGATTAAAGCTACAACA
66 CCAACATTGCAATTCAAAAGATTAAAGCCACAACA
13077487 ACGAATCTTACCTCCCAGGCGATCCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCC
1 ACGAATCTTACCTCCCAGGCGATCCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCC
* * *
13077552 CCGACATTGTAGTTCAAAAGATTAAAGCCACAACA
66 CCAACATTGCAATTCAAAAGATTAAAGCCACAACA
*
13077587 GCGAATC
1 ACGAATC
13077594 ATGCTTCCCC
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (100 bp):
ACGAATCTTACCTCCCAGGCGATCCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCC
CCAACATTGCAATTCAAAAGATTAAAGCCACAACA
Found at i:13078212 original size:25 final size:23
Alignment explanation
Indices: 13078167--13078220 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
13078157 AGACACCTGC
*
13078167 AACAAACAAACTCAAGAGAAACAGA
1 AACAAACAAACCCAAGAGAAA-A-A
*
13078192 AACAAACAATACCCACG-GAAAAA
1 AACAAACAA-ACCCAAGAGAAAAA
13078215 AACAAA
1 AACAAA
13078221 AACGGATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 7 0.27
24 1 0.04
25 13 0.50
26 5 0.19
ACGTcount: A:0.65, C:0.22, G:0.09, T:0.04
Consensus pattern (23 bp):
AACAAACAAACCCAAGAGAAAAA
Found at i:13079352 original size:11 final size:11
Alignment explanation
Indices: 13079338--13079390 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
13079328 ATTCAATGGT
13079338 TATTTTAATTC
1 TATTTTAATTC
* *
13079349 TATTTTGAGTC
1 TATTTTAATTC
13079360 TATTTTGAATTC
1 TATTTT-AATTC
13079372 ATATATTTAATT-
1 -TAT-TTTAATTC
13079384 TATTTTA
1 TATTTTA
13079391 GAACTTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 18 0.51
12 3 0.09
13 7 0.20
14 3 0.09
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (11 bp):
TATTTTAATTC
Found at i:13082383 original size:5 final size:5
Alignment explanation
Indices: 13082365--13082398 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
13082355 TAAAAACTAG
*
13082365 AAAAA AAAAGT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAA
13082399 GTTCTAATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:13084190 original size:31 final size:32
Alignment explanation
Indices: 13084138--13084208 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
13084128 GCTCTATGGG
* *
13084138 GCGACACCGCGATGACAGTAAGGT-CTTTGAA
1 GCGACACCGCGAAGACAGTAAGGTCCTTCGAA
*
13084169 GCGACACCGCGACAG-CGGTAAGGTCCTTCGAA
1 GCGACACCGCGA-AGACAGTAAGGTCCTTCGAA
*
13084201 GTGACACC
1 GCGACACC
13084209 TCCAAGAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.59
32 14 0.41
ACGTcount: A:0.27, C:0.28, G:0.30, T:0.15
Consensus pattern (32 bp):
GCGACACCGCGAAGACAGTAAGGTCCTTCGAA
Found at i:13084288 original size:27 final size:27
Alignment explanation
Indices: 13084264--13084341 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
13084254 AAAGAGTCCA
13084264 CCGAGACATTAAACATAGGGTAGTCTG
1 CCGAGACATTAAACATAGGGTAGTCTG
* ** *
13084291 CCGTGACATTAAACACGGGGTATTCTG
1 CCGAGACATTAAACATAGGGTAGTCTG
*
13084318 CC-AGGACATTAAACATAGAGTAGT
1 CCGA-GACATTAAACATAGGGTAGT
13084342 TCGTTGGGAC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (27 bp):
CCGAGACATTAAACATAGGGTAGTCTG
Found at i:13084351 original size:27 final size:27
Alignment explanation
Indices: 13084320--13084387 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
13084310 GTATTCTGCC
13084320 AGGACATTAAACATAGAGTAGTTCGTT
1 AGGACATTAAACATAGAGTAGTTCGTT
* * * *
13084347 GGGACATCAAACACAGGGTAGTTCGTT
1 AGGACATTAAACATAGAGTAGTTCGTT
*
13084374 AGGACGTTAAACAT
1 AGGACATTAAACAT
13084388 GAGATAAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (27 bp):
AGGACATTAAACATAGAGTAGTTCGTT
Found at i:13087125 original size:24 final size:24
Alignment explanation
Indices: 13087093--13087141 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13087083 CGTCTCAATT
13087093 GCTTAAGGTGGTGGAAGTATCATA
1 GCTTAAGGTGGTGGAAGTATCATA
13087117 GCTTAAGGTGGTGGAAGTATCATA
1 GCTTAAGGTGGTGGAAGTATCATA
13087141 G
1 G
13087142 GAGGCATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.35, T:0.29
Consensus pattern (24 bp):
GCTTAAGGTGGTGGAAGTATCATA
Found at i:13087870 original size:21 final size:21
Alignment explanation
Indices: 13087824--13087870 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13087814 AGGACATGGT
* *
13087824 TGTGTGGCTACTTCACACGCC
1 TGTGTGACTACTTCACACACC
* *
13087845 CGTGTGACTACTTCACACATC
1 TGTGTGACTACTTCACACACC
13087866 TGTGT
1 TGTGT
13087871 ACACTAATCG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (21 bp):
TGTGTGACTACTTCACACACC
Found at i:13100966 original size:8 final size:8
Alignment explanation
Indices: 13100953--13100978 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13100943 GTTATGGAAA
13100953 ATTCATGC
1 ATTCATGC
13100961 ATTCATGC
1 ATTCATGC
13100969 ATTCATGC
1 ATTCATGC
13100977 AT
1 AT
13100979 ACTCATACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (8 bp):
ATTCATGC
Found at i:13101249 original size:14 final size:16
Alignment explanation
Indices: 13101220--13101251 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13101210 GTGCAGGATG
13101220 AAGGAGAGAAGAGAGA
1 AAGGAGAGAAGAGAGA
13101236 AAGGAGA-AAG-GAGA
1 AAGGAGAGAAGAGAGA
13101250 AA
1 AA
13101252 AAAAATGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (16 bp):
AAGGAGAGAAGAGAGA
Found at i:13110608 original size:19 final size:19
Alignment explanation
Indices: 13110558--13110622 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
13110548 TTAAATATTC
* * *
13110558 AAAAATATAAAAATACATA
1 AAAAATTTAAAATTATATA
* * *
13110577 AATATTTTCAAAATTTTATA
1 AAAAATTT-AAAATTATATA
*
13110597 ATAAATTTAAAATTATATA
1 AAAAATTTAAAATTATATA
13110616 AAAAATT
1 AAAAATT
13110623 ATTAAAAAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
19 21 0.62
20 13 0.38
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTTAAAATTATATA
Found at i:13114710 original size:23 final size:23
Alignment explanation
Indices: 13114681--13115165 Score: 384
Period size: 23 Copynumber: 19.8 Consensus size: 23
13114671 AAATTATATA
13114681 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
13114704 AAATTAGGTTAGGGTTTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAA-TT
*
13114728 -AA--GGGTTTAGGGTTTTTAATT
1 AAATTAGG-TTAGGGTTTTTAATT
13114749 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
13114772 AAATTAGGTTA-GGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
13114794 AATTTAGGTTAAGGTTAGGGTTTTTAATT
1 AA---A--TT-AGGTTAGGGTTTTTAATT
13114823 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 -AA--A--TTA-GGTTAGGGTTTTTAATT
13114852 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
13114875 AATTTAGGTTAAGGTTAGGGTTTTTAAGTT
1 AA---A--TT-AGGTTAGGGTTTTTAA-TT
**
13114905 -AA-GGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
13114926 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
13114949 AATTTAGGTTAAGGTTAGGGTTTTTAAGTT
1 AA---A--TT-AGGTTAGGGTTTTTAA-TT
** **
13114979 -AA-GGGGTTAATGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
13115000 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 -AA--A--TTA-GGTTAGGGTTTTTAATT
13115029 AAATTAGGTTAGGGTTTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAA-TT
*
13115053 -AA--GGGTTTAGGGTTTTTAATT
1 AAATTAGG-TTAGGGTTTTTAATT
* *
13115074 AAATTAGGTTATGGTTTTTAACT
1 AAATTAGGTTAGGGTTTTTAATT
*
13115097 AAATTAGGTTAAGGTTAGGGTTT--TT
1 AAATTAGGTTAGGGTT----TTTAATT
*
13115122 AAGTTAAGGGTTTAGGGTTTTTAATT
1 AAATT-A-GG-TTAGGGTTTTTAATT
13115148 AAATTAGGTTAGGGTTTT
1 AAATTAGGTTAGGGTTTT
13115166 ATTACATCAA
Statistics
Matches: 387, Mismatches: 23, Indels: 104
0.75 0.04 0.20
Matches are distributed among these distances:
21 12 0.03
22 73 0.19
23 143 0.37
24 19 0.05
25 8 0.02
26 13 0.03
27 7 0.02
28 22 0.06
29 84 0.22
30 6 0.02
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAATT
Found at i:13114810 original size:51 final size:52
Alignment explanation
Indices: 13114681--13115163 Score: 399
Period size: 51 Copynumber: 9.8 Consensus size: 52
13114671 AAATTATATA
13114681 AAATTAGGTTAGGGTTTTTAATT-AA--A--TT-AGGTTAGGGTTTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAA-TT
*
13114728 -AA--GGGTTTAGGGTTTTTAATT-AA--A--TT-AGGTTAGGGTTTTTAATT
1 AAATTAGG-TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATT
*
13114772 AAATTAGGTTA-GGTTTTTAATTAATTTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATT
**
13114823 AAATTAGGTTAGGGTTAGGGTTT--TT-AATTAAATT-AGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTT----TTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATT
* * **** * *
13114875 AATTTAGGTTAAGG-TTAGGGTT--TTTAAGTTAAGGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAA--GGTTAGGGTTTTTAATT
*
13114926 AAATTAGGTTAGGGTTTTTAATTAATTTAGGTTAAGGTTAGGGTTTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAA-TT
** ** *
13114979 -AA-GGGGTTAATGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATT
*
13115029 AAATTAGGTTAGGGTTTTTAAGTT--A--AGG----GTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAA-TTAAATTAGGTTAAGGTTAGGGTTTTTAATT
* *
13115074 AAATTAGGTTATGGTTTTTAACTAAATTAGGTTAAGGTTAGGGTTTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAA-TT
* *
13115127 -AA--GGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 AAATTAGG-TTAGGGTTTTTAATTAAATTAGGTTAAGGTT
13115164 TTATTACATC
Statistics
Matches: 362, Mismatches: 37, Indels: 70
0.77 0.08 0.15
Matches are distributed among these distances:
44 5 0.01
45 85 0.23
46 7 0.02
47 3 0.01
48 10 0.03
49 6 0.02
50 6 0.02
51 130 0.36
52 84 0.23
53 12 0.03
54 11 0.03
56 3 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (52 bp):
AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATT
Found at i:13114823 original size:29 final size:28
Alignment explanation
Indices: 13114725--13115128 Score: 273
Period size: 29 Copynumber: 15.9 Consensus size: 28
13114715 GGGTTTTTAA
13114725 GTTAAGGGTTTAGGGTTTTTAATTAA--A-
1 GTTAA-GG-TTAGGGTTTTTAATTAATTAG
13114752 -TT-AGGTTAGGGTTTTTAATTAA--A-
1 GTTAAGGTTAGGGTTTTTAATTAATTAG
13114775 -TT-AGGTTA-GGTTTTTAATTAATTTAG
1 GTTAAGGTTAGGGTTTTTAATTAA-TTAG
13114801 GTTAAGGTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTAGGGTTTTTAATT-AATTAG
*
13114830 GTTAGGGTTAGGGTTTTTAATTAA--A-
1 GTTAAGGTTAGGGTTTTTAATTAATTAG
13114855 -TT-AGGTTAGGGTTTTTAATTAATTTAG
1 GTTAAGGTTAGGGTTTTTAATTAA-TTAG
13114882 GTTAAGGTTAGGGTTTTTAAGTT-A--AG
1 GTTAAGGTTAGGGTTTTTAA-TTAATTAG
13114908 G----GGTTAGGGTTTTTAATTAA--A-
1 GTTAAGGTTAGGGTTTTTAATTAATTAG
13114929 -TT-AGGTTAGGGTTTTTAATTAATTTAG
1 GTTAAGGTTAGGGTTTTTAATTAA-TTAG
13114956 GTTAAGGTTAGGGTTTTTAAGTT-A--AG
1 GTTAAGGTTAGGGTTTTTAA-TTAATTAG
**
13114982 G----GGTTAATGTTTTTAATTAAATTAG
1 GTTAAGGTTAGGGTTTTTAATT-AATTAG
*
13115007 GTTAGGGTTAGGGTTTTTAATTAA--A-
1 GTTAAGGTTAGGGTTTTTAATTAATTAG
13115032 -TT-AGGTTAGGGTTTTTAAGTT-A--AG
1 GTTAAGGTTAGGGTTTTTAA-TTAATTAG
*
13115056 G----GTTTAGGGTTTTTAATTAA--A-
1 GTTAAGGTTAGGGTTTTTAATTAATTAG
* *
13115077 -TT-AGGTTATGGTTTTTAACTAAATTAG
1 GTTAAGGTTAGGGTTTTTAA-TTAATTAG
13115104 GTTAAGGTTAGGGTTTTTAAGTTAA
1 GTTAAGGTTAGGGTTTTTAA-TTAA
13115129 GGGTTTAGGG
Statistics
Matches: 316, Mismatches: 14, Indels: 92
0.75 0.03 0.22
Matches are distributed among these distances:
21 6 0.02
22 59 0.19
23 95 0.30
24 11 0.03
25 5 0.02
26 13 0.04
27 2 0.01
28 16 0.05
29 103 0.33
30 6 0.02
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (28 bp):
GTTAAGGTTAGGGTTTTTAATTAATTAG
Found at i:13114947 original size:74 final size:74
Alignment explanation
Indices: 13114720--13115165 Score: 591
Period size: 74 Copynumber: 5.9 Consensus size: 74
13114710 GGTTAGGGTT
* **
13114720 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA-
1 TTTAGGTTAA-GG-TTAGGGTTTTTAAGTT-AA-GGGGTTAGGGTTTTTAATTAAATTAGGTTAG
13114783 GGTTTTTAATTAA
62 GGTTTTTAATTAA
13114796 TTTAGGTTAAGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTTAGGTTAAGGTTAGGGTTTTTAAGTT--A--A-G---GGGTTAGGGTTTTTAATTAAATTAGG
13114860 TTAGGGTTTTTAATTAA
58 TTAGGGTTTTTAATTAA
13114877 TTTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 TTTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
13114942 TTTAATTAA
66 TTTAATTAA
**
13114951 TTTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGGTTAATGTTTTTAATTAAATTAGGTTAGGGTT
1 TTTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
13115016 AGGGTTT--TTAA
66 ----TTTAATTAA
** * *
13115027 -TTAAATT-AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTATGGTT
1 TTTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
*
13115090 TTTAACTAA
66 TTTAATTAA
* *
13115099 ATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 TTTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
13115164 TT
66 TT
13115166 ATTACATCAA
Statistics
Matches: 338, Mismatches: 16, Indels: 34
0.87 0.04 0.09
Matches are distributed among these distances:
70 3 0.01
72 3 0.01
73 5 0.01
74 230 0.68
75 9 0.03
76 13 0.04
77 2 0.01
78 4 0.01
80 29 0.09
81 38 0.11
82 2 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (74 bp):
TTTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
TTTAATTAA
Found at i:13114996 original size:177 final size:170
Alignment explanation
Indices: 13114681--13115112 Score: 561
Period size: 177 Copynumber: 2.5 Consensus size: 170
13114671 AAATTATATA
*
13114681 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTA
1 AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTA
** *
13114746 ATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTTTTAATTAATTTAGGTTAAGGTTA
66 ATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTTAGAATT-ATTTAAGTTAAGGTTA
*
13114811 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
130 AGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
13114852 AAATTAGGTTAGGGTTTTTAATTAATTTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGG
1 AAATTAGGTTAGGGTTTTTAATTAA---A--TT-AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGG
* **
13114917 TTTTTAATTAAATTAGGTTAGGGTTTTTAATTAATTTAGGTTAAGG-TTAGGGTT-TTTAAGTTA
60 TTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTT-AGGTTTAGAATTATTTAAGTTA
*
13114980 AGGGGTTAATGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
124 A--GGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
* ** *
13115029 AAATTAGGTTAGGGTTTTTAAGTT-AA--GGGTTTAGGGTTTTTAA-TTAAATTAGGTTATGGTT
1 AAATTAGGTTAGGGTTTTTAA-TTAAATTAGG-TTAGGGTTTTTAAGTT-AA-GGGGTTAGGGTT
* *
13115090 TTTAACTAAATTAGGTTAAGGTT
62 TTTAATTAAATTAGGTTAGGGTT
13115113 AGGGTTTTTA
Statistics
Matches: 233, Mismatches: 15, Indels: 26
0.85 0.05 0.09
Matches are distributed among these distances:
169 4 0.02
170 15 0.06
171 55 0.24
174 2 0.01
175 9 0.04
176 2 0.01
177 141 0.61
178 5 0.02
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (170 bp):
AAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTA
ATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTTAGAATTATTTAAGTTAAGGTTAA
GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:13115190 original size:25 final size:25
Alignment explanation
Indices: 13115162--13115229 Score: 136
Period size: 25 Copynumber: 2.7 Consensus size: 25
13115152 TAGGTTAGGG
13115162 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
13115187 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
13115212 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
13115230 TATCAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:13115729 original size:18 final size:18
Alignment explanation
Indices: 13115706--13115740 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13115696 CGGAAAAGGA
*
13115706 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
13115724 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
13115741 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:13116399 original size:7 final size:7
Alignment explanation
Indices: 13116389--13116413 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13116379 TTATATACAT
13116389 AATACTA
1 AATACTA
13116396 AATACTA
1 AATACTA
13116403 AATACTA
1 AATACTA
13116410 AATA
1 AATA
13116414 TCAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:13118596 original size:51 final size:51
Alignment explanation
Indices: 13118540--13118650 Score: 197
Period size: 51 Copynumber: 2.2 Consensus size: 51
13118530 ATTTTAAAAA
*
13118540 AGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTTGAAGGAAATTGAG
1 AGGAAATTGAAATTAAATATGCATTTGAGAGAATTTTTGAAGGAAATTGAG
*
13118591 AGGAAATTGAAATTAAATATGCATTTGAGCGAATTTTTGAAGGAAATTGAG
1 AGGAAATTGAAATTAAATATGCATTTGAGAGAATTTTTGAAGGAAATTGAG
13118642 AGG-AATTGA
1 AGGAAATTGA
13118651 GAGGAAATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
50 6 0.10
51 52 0.90
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.31
Consensus pattern (51 bp):
AGGAAATTGAAATTAAATATGCATTTGAGAGAATTTTTGAAGGAAATTGAG
Found at i:13118665 original size:12 final size:11
Alignment explanation
Indices: 13118627--13118665 Score: 55
Period size: 10 Copynumber: 3.6 Consensus size: 11
13118617 GAGCGAATTT
13118627 TTGA-AGGAAA
1 TTGAGAGGAAA
13118637 TTGAGAGG-AA
1 TTGAGAGGAAA
13118647 TTGAGAGGAAA
1 TTGAGAGGAAA
13118658 TATGAGAG
1 T-TGAGAG
13118666 AGGATTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 14 0.54
11 6 0.23
12 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.21
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:13119674 original size:40 final size:40
Alignment explanation
Indices: 13119619--13119699 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
13119609 TTAGGTACAG
13119619 CTCTTCTCAACCTTTTAATAGGAAGATAAGTGCACTTCAA
1 CTCTTCTCAACCTTTTAATAGGAAGATAAGTGCACTTCAA
*
13119659 CTCTTCTCAACCTTTTAATAGGAAGATAAGTGTACTTCAA
1 CTCTTCTCAACCTTTTAATAGGAAGATAAGTGCACTTCAA
13119699 C
1 C
13119700 GTGCTTGAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.33
Consensus pattern (40 bp):
CTCTTCTCAACCTTTTAATAGGAAGATAAGTGCACTTCAA
Found at i:13126751 original size:21 final size:20
Alignment explanation
Indices: 13126706--13126753 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
13126696 TCCTACTGTA
13126706 CAAATTTGTAATAAAACTAC
1 CAAATTTGTAATAAAACTAC
* *
13126726 AAAATTTGCTATTAAAA-TAC
1 CAAATTTG-TAATAAAACTAC
13126746 TCAAATTT
1 -CAAATTT
13126754 TGCATGGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.35
Consensus pattern (20 bp):
CAAATTTGTAATAAAACTAC
Found at i:13129824 original size:22 final size:20
Alignment explanation
Indices: 13129799--13129838 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13129789 CCCTTGACCA
13129799 ATGCATTAAAACATACCAAAAC
1 ATGCA-TAAAA-ATACCAAAAC
*
13129821 ATGCATAAAATTACCAAA
1 ATGCATAAAAATACCAAA
13129839 TATATATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (20 bp):
ATGCATAAAAATACCAAAAC
Found at i:13131383 original size:20 final size:20
Alignment explanation
Indices: 13131318--13131545 Score: 83
Period size: 20 Copynumber: 11.4 Consensus size: 20
13131308 GATGCAGAAA
* *
13131318 AGGGGCACCAAAGTGCAATT
1 AGGGGCACCGAAGTGCAAAT
* *
13131338 AGGAGCA-CGAATGTG-TAAT
1 AGGGGCACCGAA-GTGCAAAT
*
13131357 CAAGGGCACCGAAGTGCAAAT
1 -AGGGGCACCGAAGTGCAAAT
* * *
13131378 AGGGGCACAGATGTGC-ATT
1 AGGGGCACCGAAGTGCAAAT
* * *
13131397 CAGGGGTACCGAGGTAC-AAT
1 -AGGGGCACCGAAGTGCAAAT
* * * * *
13131417 CAAGGGCACTGATGCGCAAAC
1 -AGGGGCACCGAAGTGCAAAT
* * *
13131438 AGGGGTACCAAAGTAC-AAT
1 AGGGGCACCGAAGTGCAAAT
*
13131457 CAGGGGCA-CTAATGTGCAAAT
1 -AGGGGCACCGAA-GTGCAAAT
* * * *
13131478 AGAGGTACCGAAGTACAAAC
1 AGGGGCACCGAAGTGCAAAT
* *
13131498 AGGGGCA-CTAATGTGCAAAC
1 AGGGGCACCGAA-GTGCAAAT
* * *
13131518 AGGGGTACCGAAGTACAATT
1 AGGGGCACCGAAGTGCAAAT
13131538 AGGGGCAC
1 AGGGGCAC
13131546 TTCTTCGTTT
Statistics
Matches: 147, Mismatches: 49, Indels: 24
0.67 0.22 0.11
Matches are distributed among these distances:
19 15 0.10
20 114 0.78
21 18 0.12
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (20 bp):
AGGGGCACCGAAGTGCAAAT
Found at i:13131546 original size:40 final size:40
Alignment explanation
Indices: 13131318--13131546 Score: 228
Period size: 40 Copynumber: 5.7 Consensus size: 40
13131308 GATGCAGAAA
* * * * * * * *
13131318 AGGGGCACCAAAGTGCAATTAGGAGCACGAATGTGTAATC
1 AGGGGTACCGAAGTACAATCAGGGGCACTAATGTGCAAAC
* * * **
13131358 AAGGGCACCGAAGTGCAAAT-AGGGGCAC-AGATGTGCATTC
1 AGGGGTACCGAAGTAC-AATCAGGGGCACTA-ATGTGCAAAC
* * * *
13131398 AGGGGTACCGAGGTACAATCAAGGGCACTGATGCGCAAAC
1 AGGGGTACCGAAGTACAATCAGGGGCACTAATGTGCAAAC
* *
13131438 AGGGGTACCAAAGTACAATCAGGGGCACTAATGTGCAAAT
1 AGGGGTACCGAAGTACAATCAGGGGCACTAATGTGCAAAC
* *
13131478 AGAGGTACCGAAGTACAAACAGGGGCACTAATGTGCAAAC
1 AGGGGTACCGAAGTACAATCAGGGGCACTAATGTGCAAAC
*
13131518 AGGGGTACCGAAGTACAATTAGGGGCACT
1 AGGGGTACCGAAGTACAATCAGGGGCACT
13131547 TCTTCGTTTC
Statistics
Matches: 158, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 151 0.96
41 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAATCAGGGGCACTAATGTGCAAAC
Found at i:13133944 original size:21 final size:19
Alignment explanation
Indices: 13133898--13133953 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 19
13133888 AATCTTCGAG
13133898 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13133917 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13133936 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
13133954 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 20 0.57
21 15 0.43
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13134175 original size:19 final size:21
Alignment explanation
Indices: 13134151--13134189 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
13134141 TGTTTTCTTT
*
13134151 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
13134170 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
13134190 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:13134414 original size:3 final size:3
Alignment explanation
Indices: 13134406--13134445 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
13134396 ATTAATTTTG
*
13134406 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
13134446 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13134414 original size:15 final size:15
Alignment explanation
Indices: 13134390--13134444 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
13134380 GTTTTTAGTC
13134390 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
13134404 TGTTATTATTATTTT
1 TATTATTATTAATTT
13134419 TATTATTA-T-ATTAT
1 TATTATTATTAATT-T
13134433 ATATTATTATTA
1 -TATTATTATTA
13134445 TACCTACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 2 0.06
14 5 0.16
15 24 0.75
16 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:13134421 original size:12 final size:12
Alignment explanation
Indices: 13134392--13134443 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
13134382 TTTTAGTCTA
13134392 TTTTATTAATT-T
1 TTTTATT-ATTAT
*
13134404 TGTTATTATTAT
1 TTTTATTATTAT
13134416 TTTTATTATTAT
1 TTTTATTATTAT
13134428 ATTATATATTATTAT
1 -TT-T-TATTATTAT
13134443 T
1 T
13134444 ATACCTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 18 0.53
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:13134817 original size:51 final size:52
Alignment explanation
Indices: 13134707--13134819 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 52
13134697 TTCCACGTTT
* **
13134707 TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATATTTTA
1 TATATATATATTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
* * * *
13134758 TATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTATTTTA
1 TATATATATATTTATATATTTCATT-TTTTCATAAATGCATGAATATATTTTA
13134809 TATATATATAT
1 TATATATATAT
13134820 AAGTTTTATA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
51 29 0.56
52 23 0.44
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (52 bp):
TATATATATATTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
Found at i:13141139 original size:132 final size:132
Alignment explanation
Indices: 13140902--13142089 Score: 1937
Period size: 132 Copynumber: 9.0 Consensus size: 132
13140892 ACTGGTGAAA
* *
13140902 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTTTCTCCCTAG
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
13140967 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
13141032 GC
131 GC
* *
13141034 CACCAAGCCTTGTCTCCCTGAGCAGCAACAGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
13141099 GTAGTAGTGGAGCAGATCGAAAACAACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
13141164 GC
131 GC
* ** ** *
13141166 CACGAAGCCTTGTCTCCCTGAATAGCAGTAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * * * *
13141231 ACAGTAGTGGGGCAGATCGAAGATGGCAAATATTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
13141296 GC
131 GC
*
13141298 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCTTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
13141363 GCAGTAGTAGAGCAGATCGAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
13141428 GC
131 GC
* *
13141430 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGAAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
13141495 GCAGTAGTGGAGCAGATCAAAGACAACAAATCTTATATTTCTAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
13141560 GT
131 GC
13141562 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
13141627 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
13141692 GC
131 GC
* *
13141694 CACCAAGCCTTGTCTCCTTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
13141759 GCAGTAATGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
13141824 GC
131 GC
* *
13141826 TACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
13141891 GAAATAGTGGAGCAGATTGAAGAC-AGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
66 GCAGTAGTGGAGCAGATCGAAGACGA-CAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
*
13141955 GGC
130 AGC
* *
13141958 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
13142023 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCATATCTTTCCAAGATAGTGGGAAGCAGATTAAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
13142088 GC
131 GC
13142090 TGACAACCCT
Statistics
Matches: 975, Mismatches: 79, Indels: 4
0.92 0.07 0.00
Matches are distributed among these distances:
131 1 0.00
132 974 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:13141528 original size:44 final size:44
Alignment explanation
Indices: 13140952--13142060 Score: 260
Period size: 44 Copynumber: 25.2 Consensus size: 44
13140942 AAGATTGTAG
* * *
13140952 ATCTTTTCTCCCTAGGCAGTAGTGGAGCAGATCGAAGAC-GACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAG-CAA
* * * *
13140996 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * *** * * ** * *
13141040 GCCTTGTCTCCCTGAGCAGCAACAGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * *
13141084 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAAACAACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * *
13141128 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAGCCA-CGAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGC-AA
** * * * * * * ** * *
13141172 GCCTTGTCTCCCTGAA-TAGCAGTAGAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * **
13141216 ATCTTATCTCCCTAAACAGTAGTGGGGCAGATCGAAGATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * * * *
13141260 ATATTATCTTTCC-AAG-A-TAGTGGGAAGCAAATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * * * * ** * *
13141304 GCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * *
13141348 ATCTTATCTCCTTAAGCAGTAGTAGAGCAGATCGAAGA-TGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAG-CAA
* * * *
13141392 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * * * * * ** * *
13141436 GCCTTGTCTCCCTGAGCAGCAGCGAAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
** *
13141480 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* ** * * *
13141524 ATCTTATATTTCTAAG-A-TAGTGGGAAGCAGATTTAAGTCACCAA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * * * * ** * *
13141568 GCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
** *
13141612 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * * *
13141656 ATCTTATCTTTCC-AAG-A-TAGTGGGAAACAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * * * * ** * *
13141700 GCCTTGTCTCCTTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* *
13141744 ATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGAC-GACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAG-CAA
* * *
13141788 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CTACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGAC-AGCAA
** * * * * * * ** * *
13141832 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* *
13141876 ATCTTATCTCCCTAAGAAATAGTGGAGCAGATTGAAGACAGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * * *
13141920 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAGGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * * * * * ** * *
13141964 GCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* *
13142008 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
*
13142052 ATCATATCT
1 ATCTTATCT
13142061 TTCCAAGATA
Statistics
Matches: 703, Mismatches: 305, Indels: 114
0.63 0.27 0.10
Matches are distributed among these distances:
42 31 0.04
43 50 0.07
44 562 0.80
45 43 0.06
46 17 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
Found at i:13142147 original size:44 final size:43
Alignment explanation
Indices: 13142099--13142388 Score: 173
Period size: 44 Copynumber: 6.7 Consensus size: 43
13142089 CTGACAACCC
*
13142099 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAATATCACAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAA-ATCACAGATCT
** * *** *
13142143 TATCTCTCTGAAGTTAAAG-AGAGCAGATCGCATC-TAG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAATCACAGATCT
* * * * * * *
13142183 TATCTCCCTAAAGTTACAGTGGAACAGACTAAGTAAGCA-AGTCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAATCA-CAGA-TCT
* * *
13142227 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAATCT
1 TATCTCT-CTGAAGTTGCAGTGGA-GCAGA-TTAA-ATCACAGATCT
* * *
13142272 TATCTC-CATGAAGTTGCAGTGGAGCAGATTAAAGC-CAATAATCC
1 TATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAATCAC-A-GATCT
* * **
13142316 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAACCATGGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTA-AATCACAGATCT
* **
13142360 TATCTCTTTGAAGTTGCAGCAGAGCAGAT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGAT
13142389 CACATCAAAT
Statistics
Matches: 187, Mismatches: 41, Indels: 36
0.71 0.16 0.14
Matches are distributed among these distances:
40 19 0.10
41 9 0.05
42 4 0.02
43 13 0.07
44 104 0.56
45 32 0.17
46 6 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAATCACAGATCT
Found at i:13142692 original size:19 final size:19
Alignment explanation
Indices: 13142664--13142759 Score: 120
Period size: 21 Copynumber: 4.8 Consensus size: 19
13142654 AATCTTCGAG
* * *
13142664 GATATCCAATCCTAAATAT
1 GATATGCAATCTTAGATAT
13142683 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13142702 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
13142723 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
13142744 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
13142760 AGATATGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
19 31 0.44
21 40 0.56
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13142710 original size:21 final size:21
Alignment explanation
Indices: 13142684--13142748 Score: 130
Period size: 21 Copynumber: 3.1 Consensus size: 21
13142674 CCTAAATATG
13142684 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
13142705 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
13142726 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
13142747 AT
1 AT
13142749 GTAATCTTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:13142778 original size:23 final size:22
Alignment explanation
Indices: 13142679--13142782 Score: 78
Period size: 21 Copynumber: 4.9 Consensus size: 22
13142669 CCAATCCTAA
* *
13142679 ATATGATATGCAATCTTAG-AT
1 ATATGATATGTAATCTTAGAAG
* *
13142700 ATGAT-ATATGCAATCTTAG-AT
1 AT-ATGATATGTAATCTTAGAAG
*
13142721 ATGAT-ATATGCAATCTT---AG
1 AT-ATGATATGTAATCTTAGAAG
13142740 ATATGATATGTAATCTTAGAAG
1 ATATGATATGTAATCTTAGAAG
*
13142762 ATATGATTTTGTAATCTTAGA
1 ATATGA-TATGTAATCTTAGA
13142783 GATTTAATTT
Statistics
Matches: 74, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
18 2 0.03
19 14 0.19
21 35 0.47
22 10 0.14
23 13 0.18
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (22 bp):
ATATGATATGTAATCTTAGAAG
Found at i:13142792 original size:22 final size:23
Alignment explanation
Indices: 13142748--13142792 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13142738 AGATATGATA
*
13142748 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
13142771 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
13142793 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:13143241 original size:15 final size:14
Alignment explanation
Indices: 13143217--13143247 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
13143207 TTAATTTTGT
13143217 TATTATTATTATTA
1 TATTATTATTATTA
13143231 TATTATATATTATTA
1 TATTAT-TATTATTA
13143246 TA
1 TA
13143248 CCTACATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:13143616 original size:51 final size:52
Alignment explanation
Indices: 13143506--13143617 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 52
13143496 TTCCACGTTT
**
13143506 TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATATTTTA
1 TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
* * * * *
13143557 TATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTATTTTA
1 TATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATATTTTA
13143608 TATATATATA
1 TATATATATA
13143618 AGTTTTATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 28 0.55
52 23 0.45
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (52 bp):
TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
Found at i:13143782 original size:24 final size:24
Alignment explanation
Indices: 13143733--13143782 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
13143723 GTTTATTTCC
* * *
13143733 TTCATTTACTTATTGATTTATGTT
1 TTCATTTACTAATTCATTTATATT
13143757 TTCATTTA-TAATTCATTTGATATT
1 TTCATTTACTAATTCATTT-ATATT
13143781 TT
1 TT
13143783 ACATGTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.24, C:0.08, G:0.06, T:0.62
Consensus pattern (24 bp):
TTCATTTACTAATTCATTTATATT
Found at i:13155661 original size:19 final size:19
Alignment explanation
Indices: 13155637--13155675 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13155627 ACCATTAGAA
*
13155637 GGTGTGCTAACTTGATACT
1 GGTGTGCTAACTCGATACT
13155656 GGTGTGCTAACTCGATACT
1 GGTGTGCTAACTCGATACT
13155675 G
1 G
13155676 CTCATTGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (19 bp):
GGTGTGCTAACTCGATACT
Found at i:13156640 original size:23 final size:22
Alignment explanation
Indices: 13156614--13156665 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
13156604 AATTTGCTAA
13156614 ATTTTTCTATTTGAT-TTCCCATT
1 ATTTTT-TATTT-ATGTTCCCATT
* *
13156637 ATTTATTTATTTATGTTCTCTTT
1 ATTT-TTTATTTATGTTCCCATT
13156660 ATTTTT
1 ATTTTT
13156666 ATTAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 4 0.16
23 19 0.76
24 2 0.08
ACGTcount: A:0.17, C:0.12, G:0.04, T:0.67
Consensus pattern (22 bp):
ATTTTTTATTTATGTTCCCATT
Found at i:13161801 original size:69 final size:67
Alignment explanation
Indices: 13161713--13162020 Score: 214
Period size: 69 Copynumber: 4.5 Consensus size: 67
13161703 GTTTAAGATA
* *
13161713 TAAGACAATAGCTATGCTATGACAGCCAATAGCATCTACCGGGATAGTAAACATGAGGATTATAA
1 TAAGACCATAGCTA-GCTATGACAACCAATAGCATCT-CCGGGATAGTAAACATGAGGATTATAA
*
13161778 AGTG
64 GGTG
* * * * *
13161782 TAAGACCATAGCTAGGCTATGACAACCAAT-GGAGTTTGCCAGGATAGTAAACACG-GAGAATAT
1 TAAGACCATAGCTA-GCTATGACAACCAATAGCA-TCT-CCGGGATAGTAAACATGAG-GATTAT
13161845 AAGGTG
62 AAGGTG
** * * * *
13161851 TAAGACCATAGCTCAATTATGGCAACCAATGGAGC-CCGT-CGGGACAGTAAACATTAGGATTAT
1 TAAGACCATAGCT-AGCTATGACAACCAAT--AGCATC-TCCGGGATAGTAAACATGAGGATTAT
13161914 AAGGTG
62 AAGGTG
* * * * ***
13161920 TAAGACCATAGCTCGACTATGGA-AACTAA-CGGAGTCTGTTAGGATAGTAAACATGAGGATTAT
1 TAAGACCATAGCTAG-CTAT-GACAACCAATAGCA-TCT-CCGGGATAGTAAACATGAGGATTAT
**
13161983 AAGGCA
62 AAGGTG
* *
13161989 TAAGACCATAGCTCGAATATGACAACCAATAG
1 TAAGACCATAGCTAG-CTATGACAACCAATAG
13162021 ATTCTGCAAG
Statistics
Matches: 185, Mismatches: 38, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
66 1 0.01
67 1 0.01
68 6 0.03
69 171 0.92
70 4 0.02
71 1 0.01
72 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (67 bp):
TAAGACCATAGCTAGCTATGACAACCAATAGCATCTCCGGGATAGTAAACATGAGGATTATAAGG
TG
Found at i:13161964 original size:138 final size:138
Alignment explanation
Indices: 13161752--13162018 Score: 351
Period size: 138 Copynumber: 1.9 Consensus size: 138
13161742 TAGCATCTAC
* * *
13161752 CGGGATAGTAAACATGAGGATTATAAAGTGTAAGACCATAGCTAGGCTATGACAACCAATGGAGT
1 CGGGACAGTAAACATGAGGATTATAAAGTGTAAGACCATAGCTAGACTATGACAACCAACGGAGT
* ** *
13161817 TTGCCAGGATAGTAAACACGGA-GAATATAAGGTGTAAGACCATAGCTC-AATTATGGCAACCAA
66 CTGCCAGGATAGTAAACA-GGAGGAATATAAGGCATAAGACCATAGCTCGAA-TATGACAACCAA
13161880 TGGAGCCCGT
129 TGGAGCCCGT
* * * *
13161890 CGGGACAGTAAACATTAGGATTATAAGGTGTAAGACCATAGCTCGACTATGGA-AACTAACGGAG
1 CGGGACAGTAAACATGAGGATTATAAAGTGTAAGACCATAGCTAGACTAT-GACAACCAACGGAG
** * *
13161954 TCTGTTAGGATAGTAAACATGAGGATTATAAGGCATAAGACCATAGCTCGAATATGACAACCAAT
65 TCTGCCAGGATAGTAAACAGGAGGAATATAAGGCATAAGACCATAGCTCGAATATGACAACCAAT
13162019 AGATTCTGCA
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
137 2 0.02
138 105 0.95
139 4 0.04
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (138 bp):
CGGGACAGTAAACATGAGGATTATAAAGTGTAAGACCATAGCTAGACTATGACAACCAACGGAGT
CTGCCAGGATAGTAAACAGGAGGAATATAAGGCATAAGACCATAGCTCGAATATGACAACCAATG
GAGCCCGT
Found at i:13162040 original size:69 final size:68
Alignment explanation
Indices: 13161758--13162041 Score: 277
Period size: 69 Copynumber: 4.1 Consensus size: 68
13161748 CTACCGGGAT
* * ** *
13161758 AGTAAACATGAGGATTATAAAGTGTAAGACCATAGCTAGGCTATGACAACCAATGGAGTTTGCCA
1 AGTAAACATGAGGATTATAAGGTGTAAGACCATAGCTCGAATATGACAACCAATGGAGTCTG-CA
*
13161823 GGAT
65 GGAC
* * * * *
13161827 AGTAAACACG-GAGAATATAAGGTGTAAGACCATAGCTC-AATTATGGCAACCAATGGAGCCCGT
1 AGTAAACATGAG-GATTATAAGGTGTAAGACCATAGCTCGAA-TATGACAACCAATGGAGTCTG-
*
13161890 CGGGAC
63 CAGGAC
* * * * *
13161896 AGTAAACATTAGGATTATAAGGTGTAAGACCATAGCTCGACTATGGA-AACTAACGGAGTCTGTT
1 AGTAAACATGAGGATTATAAGGTGTAAGACCATAGCTCGAATAT-GACAACCAATGGAGTCTG-C
*
13161960 AGGAT
64 AGGAC
** * *
13161965 AGTAAACATGAGGATTATAAGGCATAAGACCATAGCTCGAATATGACAACCAATAGATTCTGCAA
1 AGTAAACATGAGGATTATAAGGTGTAAGACCATAGCTCGAATATGACAACCAATGGAGTCTGC-A
13162030 GGAC
65 GGAC
*
13162034 AATAAACA
1 AGTAAACA
13162042 CGGGGAAGTC
Statistics
Matches: 172, Mismatches: 36, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
68 3 0.02
69 166 0.97
70 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.21
Consensus pattern (68 bp):
AGTAAACATGAGGATTATAAGGTGTAAGACCATAGCTCGAATATGACAACCAATGGAGTCTGCAG
GAC
Found at i:13177485 original size:101 final size:102
Alignment explanation
Indices: 13177370--13177592 Score: 231
Period size: 101 Copynumber: 2.2 Consensus size: 102
13177360 GCATGGACTG
* ** * *
13177370 TGTGTAGGCCACTATGTGAAAGTGAAAG-TGAT-GGTCACGTGTGTAGTA-TGATGTGCAGGCTA
1 TGTGTAGGCTACTATGTGAAACAGAAAGCT--TCGATCACGTATGTAGTACT-ATGTGCAGGCTA
* *
13177432 CTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGTACTA
63 CTACATGTACCAGATAGTGAT-GGTCACATGTGTAGTACTA
* * * * * *
13177471 TGTGTAAGCTACTATGCGTACCAGATAGCTTCGATCACGTATGTCGTACTATGTGCAGGCTACTA
1 TGTGTAGGCTACTATGTGAAACAGAAAGCTTCGATCACGTATGTAGTACTATGTGCAGGCTACTA
* *
13177536 CATGTATCGGATAGTGATGGTCACATGTGTAGTACTA
66 CATGTACCAGATAGTGATGGTCACATGTGTAGTACTA
*
13177573 TTTGTAGGCTACTATGTGAA
1 TGTGTAGGCTACTATGTGAA
13177593 CCGGTATCAT
Statistics
Matches: 98, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
100 1 0.01
101 56 0.57
102 37 0.38
103 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (102 bp):
TGTGTAGGCTACTATGTGAAACAGAAAGCTTCGATCACGTATGTAGTACTATGTGCAGGCTACTA
CATGTACCAGATAGTGATGGTCACATGTGTAGTACTA
Found at i:13177571 original size:51 final size:52
Alignment explanation
Indices: 13177396--13177586 Score: 171
Period size: 51 Copynumber: 3.8 Consensus size: 52
13177386 TGAAAGTGAA
*
13177396 AGTGAT-GGTCACGTGTGTAGTA-TGATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACT-ATGTGCAGGCTACTACGTGTACCAGAT
* * * * *
13177446 A-TGATAGGTCGCATGTGTAGTACTATGTGTAAGCTACTATGCGTACCAGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* * * * * * * *
13177497 AGCT--TCGATCACGTATGTCGTACTATGTGCAGGCTACTACATGTATCGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* *
13177548 AGTGAT-GGTCACATGTGTAGTACTATTTGTAGGCTACTA
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
13177587 TGTGAACCGG
Statistics
Matches: 109, Mismatches: 25, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
49 4 0.04
50 38 0.35
51 65 0.60
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
Found at i:13177835 original size:16 final size:16
Alignment explanation
Indices: 13177814--13177845 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13177804 TAATTGAAAG
*
13177814 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
13177830 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
13177846 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:13181555 original size:45 final size:45
Alignment explanation
Indices: 13181487--13181750 Score: 413
Period size: 45 Copynumber: 5.9 Consensus size: 45
13181477 AAGAGGTGGA
** * * *
13181487 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
13181532 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
13181577 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
13181622 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
13181667 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * *
13181712 CAACATCATGCATAATTTAAT-GAACAAATTGAGGAAGCA
1 CAACATCATGCATAA-TTCATGGAAGAATTTGAGGAAGCA
13181751 CCATGGTCGA
Statistics
Matches: 205, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 201 0.98
46 4 0.02
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:13186012 original size:27 final size:27
Alignment explanation
Indices: 13185956--13186021 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
13185946 ACCAAGACAA
* *
13185956 TAAACACGGGGTAGTCCGTAGGGACTT
1 TAAACAAGGGATAGTCCGTAGGGACTT
13185983 TAAACAAGGGATAGTCCGATA-GGA-TGT
1 TAAACAAGGGATAGTCCG-TAGGGACT-T
*
13186010 TAAACATGGGAT
1 TAAACAAGGGAT
13186022 CATAATGCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.91
28 2 0.06
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (27 bp):
TAAACAAGGGATAGTCCGTAGGGACTT
Found at i:13200845 original size:91 final size:91
Alignment explanation
Indices: 13200735--13200944 Score: 287
Period size: 91 Copynumber: 2.3 Consensus size: 91
13200725 CAAGTAATAT
* * * * **
13200735 AATAATACACAGATTGATAGTTTAAGTACCACATT-GAATATTTTTAAATTATAAGTATTACATT
1 AATAATACACAAATTGATAGTTTAAGTACCACATTAG-ACATTTTTAAAGTACAAGTACCACATT
* *
13200799 AGACATTTTATGAAAGTACAGGTACCG
65 AGACATTTTATGAAAGTACAAGTACCA
* * *
13200826 AATAATACTCAAATTGATAGTTTAGGTATCACATTAGACATTTTTAAAGTACAAGTACCACATTA
1 AATAATACACAAATTGATAGTTTAAGTACCACATTAGACATTTTTAAAGTACAAGTACCACATTA
13200891 GACATTTTATGAAAGTACAAGTACCA
66 GACATTTTATGAAAGTACAAGTACCA
*
13200917 AATAATACACAAATTGATTAGTTCAAGT
1 AATAATACACAAATTGA-TAGTTTAAGT
13200945 TAGAGGTGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
91 94 0.91
92 9 0.09
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (91 bp):
AATAATACACAAATTGATAGTTTAAGTACCACATTAGACATTTTTAAAGTACAAGTACCACATTA
GACATTTTATGAAAGTACAAGTACCA
Found at i:13200897 original size:29 final size:31
Alignment explanation
Indices: 13200855--13200916 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 31
13200845 GTTTAGGTAT
13200855 CACATTAGACATTTT-T-AAAGTACAAGTAC
1 CACATTAGACATTTTATGAAAGTACAAGTAC
13200884 CACATTAGACATTTTATGAAAGTACAAGTAC
1 CACATTAGACATTTTATGAAAGTACAAGTAC
13200915 CA
1 CA
13200917 AATAATACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 15 0.48
30 1 0.03
31 15 0.48
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (31 bp):
CACATTAGACATTTTATGAAAGTACAAGTAC
Found at i:13201187 original size:32 final size:33
Alignment explanation
Indices: 13201143--13201208 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
13201133 CCAAATATAA
*
13201143 TAAATATATTTTTTTTATTTT-TAAAAATATTT
1 TAAATATATTTTTTTAATTTTCTAAAAATATTT
*
13201175 TAAA-ATACTTTTTTTAATTTTCTAAAAATTTTT
1 TAAATATA-TTTTTTTAATTTTCTAAAAATATTT
13201208 T
1 T
13201209 TGGTGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 3 0.10
32 16 0.53
33 11 0.37
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (33 bp):
TAAATATATTTTTTTAATTTTCTAAAAATATTT
Found at i:13202315 original size:3 final size:3
Alignment explanation
Indices: 13202307--13202334 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13202297 AAATCGTGAT
13202307 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13202335 GCTTAAGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13202719 original size:21 final size:22
Alignment explanation
Indices: 13202695--13202740 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
13202685 AATTAGAATT
*
13202695 TTTTTTGTAAAA-ATTGTAAAA
1 TTTTTTATAAAATATTGTAAAA
13202716 TTTTTTATAAAATATTGTAAAA
1 TTTTTTATAAAATATTGTAAAA
13202738 TTT
1 TTT
13202741 AATAAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
TTTTTTATAAAATATTGTAAAA
Found at i:13202719 original size:22 final size:23
Alignment explanation
Indices: 13202694--13202740 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
13202684 AAATTAGAAT
*
13202694 TTTTTTTGTAAAA-ATTGTAAAA
1 TTTTTTTATAAAATATTGTAAAA
13202716 -TTTTTTATAAAATATTGTAAAA
1 TTTTTTTATAAAATATTGTAAAA
13202738 TTT
1 TTT
13202741 AATAAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 9 0.41
23 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (23 bp):
TTTTTTTATAAAATATTGTAAAA
Found at i:13203108 original size:10 final size:10
Alignment explanation
Indices: 13203093--13203131 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
13203083 AAAAAATTAC
13203093 AATTTTTTAT
1 AATTTTTTAT
*
13203103 AATTTTTTTT
1 AATTTTTTAT
*
13203113 ACAATTTTTAT
1 A-ATTTTTTAT
13203124 AATTTTTT
1 AATTTTTT
13203132 TTCTAGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:13203120 original size:21 final size:22
Alignment explanation
Indices: 13203089--13203133 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
13203079 TTAGAAAAAA
13203089 TTACAATTTTTTATAATTTTTT
1 TTACAATTTTTTATAATTTTTT
13203111 TTACAA-TTTTTATAATTTTTT
1 TTACAATTTTTTATAATTTTTT
13203132 TT
1 TT
13203134 CTAGTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (22 bp):
TTACAATTTTTTATAATTTTTT
Found at i:13203449 original size:91 final size:91
Alignment explanation
Indices: 13203334--13203500 Score: 223
Period size: 92 Copynumber: 1.8 Consensus size: 91
13203324 AATTAATTGC
* *
13203334 TTTTTGAAAAAGTTTGAAGGCC-TTTTGATGCATT-TCAAAAGTCCAAGTACCCAATTGGATGCA
1 TTTTTGAAAAAGTTTGAAGGCCTTTTTGATGCATTGTCAAAA-TCCAAGTACCCAAGTGAATGCA
13203397 AAAAAAAGTGGGGGATTAAGTGCTTTTT
65 AAAAAAAG-GGGGGATTAAGTGCTTTTT
* * * *
13203425 TTTTTGAAAAAGTTT-TAGGACCTTTTTGATGTATTGTGAAAATTCAAGTACCCAAGTGAATGCA
1 TTTTTGAAAAAGTTTGAAGG-CCTTTTTGATGCATTGTCAAAATCCAAGTACCCAAGTGAATGCA
*
13203489 AAAAGAAGGGGG
65 AAAAAAAGGGGG
13203501 TTTAATTACT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
90 3 0.05
91 21 0.32
92 37 0.56
93 5 0.08
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (91 bp):
TTTTTGAAAAAGTTTGAAGGCCTTTTTGATGCATTGTCAAAATCCAAGTACCCAAGTGAATGCAA
AAAAAAGGGGGGATTAAGTGCTTTTT
Found at i:13205188 original size:25 final size:24
Alignment explanation
Indices: 13205159--13205205 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
13205149 AAAATGTCAT
*
13205159 TAAAATAATAATAGTAGTCATTTAA
1 TAAAAGAAT-ATAGTAGTCATTTAA
* *
13205184 TAAAAGGATATATTAGTCATTT
1 TAAAAGAATATAGTAGTCATTT
13205206 CCTAACTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (24 bp):
TAAAAGAATATAGTAGTCATTTAA
Found at i:13207461 original size:31 final size:31
Alignment explanation
Indices: 13207417--13207553 Score: 111
Period size: 31 Copynumber: 4.5 Consensus size: 31
13207407 GAACATTTTC
*
13207417 AAAGTATAAGTACCACATTAGACATTTTATG
1 AAAGTACAAGTACCACATTAGACATTTTATG
* * * * **
13207448 AAAGTACATGTACCAAATAATACA-TAAATTG
1 AAAGTACAAGTACCACATTAGACATTTTA-TG
* * * *
13207479 ATAGTTCAAGTATCACATTAGACATTTT-TT
1 AAAGTACAAGTACCACATTAGACATTTTATG
* *
13207509 AAA-TACAAATACCACATCA-AGCATTTTATG
1 AAAGTACAAGTACCACATTAGA-CATTTTATG
13207539 AAAGTACAAGTACCA
1 AAAGTACAAGTACCA
13207554 AATAAAACAC
Statistics
Matches: 77, Mismatches: 24, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
28 1 0.01
29 18 0.23
30 9 0.12
31 48 0.62
32 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (31 bp):
AAAGTACAAGTACCACATTAGACATTTTATG
Found at i:13207469 original size:91 final size:91
Alignment explanation
Indices: 13207365--13207596 Score: 254
Period size: 91 Copynumber: 2.5 Consensus size: 91
13207355 TTAACTTTAG
* * * * *
13207365 GTACCATAATAATACACAAATTGATAGTTTAGGCACCCCATT-GAACA-TTTTCAAAGTATAAGT
1 GTACCA-AATAATACACAAATTGATAGTTCAAGCACCACATTAG-ACATTTTTCAAA-TACAAAT
* *
13207428 ACCACAT-TAGACATTTTATGAAAGTACAT
63 ACCACATCAAG-CATTTTATGAAAGTACAA
* * * *
13207457 GTACCAAATAATACATAAATTGATAGTTCAAGTATCACATTAGACATTTTTTAAATACAAATACC
1 GTACCAAATAATACACAAATTGATAGTTCAAGCACCACATTAGACATTTTTCAAATACAAATACC
13207522 ACATCAAGCATTTTATGAAAGTACAA
66 ACATCAAGCATTTTATGAAAGTACAA
* ** * * *
13207548 GTACCAAATAAAACACAAATAAATAGTTCAAGTATCACATTAGATATTT
1 GTACCAAATAATACACAAATTGATAGTTCAAGCACCACATTAGACATTT
13207597 CAATATTTTA
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
91 105 0.87
92 16 0.13
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (91 bp):
GTACCAAATAATACACAAATTGATAGTTCAAGCACCACATTAGACATTTTTCAAATACAAATACC
ACATCAAGCATTTTATGAAAGTACAA
Found at i:13208754 original size:18 final size:17
Alignment explanation
Indices: 13208733--13208778 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
13208723 AGTAGAATCA
13208733 TATTATTTGTTCCAACGT
1 TATTATTT-TTCCAACGT
13208751 TATTA-TTTTCTCAACGT
1 TATTATTTTTC-CAACGT
13208768 TA-TATTTTTCC
1 TATTATTTTTCC
13208779 TATTTTTGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.23
17 15 0.58
18 5 0.19
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (17 bp):
TATTATTTTTCCAACGT
Found at i:13209147 original size:356 final size:356
Alignment explanation
Indices: 13208661--13209306 Score: 807
Period size: 356 Copynumber: 1.8 Consensus size: 356
13208651 TTTTTTTTAA
*
13208661 TTTTTTACTATTTTAGTCAAACAAACTTCCTGAATTTTCTCAGGTTTCTAACGTTATTAACCAGT
1 TTTTTTACTATTTTAGTCAAACAAACTTCCTGAATTTTCTCAGGTTTCTAACGTTATTAACCAGC
* * * *
13208726 AGAATCATATTATTTGTTCCAACGTTATTATTTTCTCAACGTTATATTTTTCCTATTTTTGGCAT
66 AGAATCAAATTATTTATTCCAACGTTATTAGTTTCTCAACGTTATACTTTTCCTATTTTTGGCAT
** * * * * * * *
13208791 GCATTGTACCTGTAAATACTATGCATGACTGTACTTCAGAATCACACAACTTGTAAATTATTCAT
131 GCACGGTACATATAAAAACCATGCATGACTGCACTTCAGAATCACACAACCTATAAATTATTCAT
* ** *
13208856 CTTCACTCTCAAAGCTTTCTACCTTCTCAAATCTTTC-TCCCTCAATTCCAGTTGAGTATTT-AT
196 CTTCACTCCCAAAGCTTTCTACCTTCTCAAAGATTTCTTCCC-CAATTCCAGCTGAGTATTTAAT
* *
13208919 T-GCTTTGTTCTTCCTTGTTTCTTGTTTTCCTTCAGTTAATAAATCTGCTTGTTGAATCCTTGAG
260 TAG-TTTGTTCTTCCTT-TTCCATGTTTTCCTTCAGTTAATAAATCTGCTTGTTGAATCCTTGAG
13208983 GATAAGCGGATTTGTTTTTTTTTTCTGTATTATT
323 GATAAGCGGATTTGTTTTTTTTTTCTGTATTATT
* ** * * * *
13209017 TTTTTTCCTATTTTAGTCAAACAAGGTTCCTTAATTTTCTTAGATTTTCTAACGTTATTAACTAG
1 TTTTTTACTATTTTAGTCAAACAAACTTCCTGAATTTTCTCAG-GTTTCTAACGTTATTAACCAG
* **
13209082 CAGAATCAAATT-TTCTATTCCAACGTTATT-GTTTCTTATTGTTATACTTTTCCTATTTTTGGC
65 CAGAATCAAATTATT-TATTCCAACGTTATTAGTTTCTCAACGTTATACTTTTCCTATTTTTGGC
* * * * * * * *
13209145 ATGGACGGTATATATAAAAACCATGCATGATTGCATTTCAGAATTACTCAACCTATGAATTGTTC
129 ATGCACGGTACATATAAAAACCATGCATGACTGCACTTCAGAATCACACAACCTATAAATTATTC
* * * * ***
13209210 ATCTTCTCTCCCAACGCTTTTTGCCTTCTCAAAGATTTCTTCCCCAATTTTGGCTGAGTATTTAA
194 ATCTTCACTCCCAAAGCTTTCTACCTTCTCAAAGATTTCTTCCCCAATTCCAGCTGAGTATTTAA
13209275 TTAGTTTGTTCTTCCTTTTCCATGTTTTCCTT
259 TTAGTTTGTTCTTCCTTTTCCATGTTTTCCTT
13209307 AAATTAACAA
Statistics
Matches: 240, Mismatches: 45, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
356 176 0.73
357 63 0.26
358 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (356 bp):
TTTTTTACTATTTTAGTCAAACAAACTTCCTGAATTTTCTCAGGTTTCTAACGTTATTAACCAGC
AGAATCAAATTATTTATTCCAACGTTATTAGTTTCTCAACGTTATACTTTTCCTATTTTTGGCAT
GCACGGTACATATAAAAACCATGCATGACTGCACTTCAGAATCACACAACCTATAAATTATTCAT
CTTCACTCCCAAAGCTTTCTACCTTCTCAAAGATTTCTTCCCCAATTCCAGCTGAGTATTTAATT
AGTTTGTTCTTCCTTTTCCATGTTTTCCTTCAGTTAATAAATCTGCTTGTTGAATCCTTGAGGAT
AAGCGGATTTGTTTTTTTTTTCTGTATTATT
Found at i:13215433 original size:213 final size:213
Alignment explanation
Indices: 13215178--13215595 Score: 721
Period size: 213 Copynumber: 2.0 Consensus size: 213
13215168 TTTAGCTGGC
* *
13215178 AAACAGTATTAAGTGAGATGTCGAGGACTAATCCATAATTTTTCCTTTTCCTCAATTAACTTCTG
1 AAACAGTATTAAGCGAGATGTCGAGGACTAATCCACAATTTTTCCTTTTCCTCAATTAACTTCTG
** * *
13215243 ATTGATTCAAATATTGATCTAAATGTTAATCCATTTCAATTTATCCGTTTTAAATACCTTATAAC
66 ATTGATTCAAATATTGATCTAAACATTAATCCATTTCAATTTATCAGTTTCAAATACCTTATAAC
13215308 AGTTTATTTTATG-ATTATGAAAATTTCACAAATTAATCCTTAGGCTAACTAAATCAAGCTCCCA
131 AGTTTATTTTATGCA-TATGAAAATTTCACAAATTAATCCTTAGGCTAACTAAATCAAGCTCCCA
13215372 AGGTCTCAAAAATTTCACA
195 AGGTCTCAAAAATTTCACA
* ** *
13215391 AAACAGTATTAAGCGAGATGTTGAGGACTAATCCACAATTTTTCCTTTTCCTTGATTAACTTTTG
1 AAACAGTATTAAGCGAGATGTCGAGGACTAATCCACAATTTTTCCTTTTCCTCAATTAACTTCTG
13215456 ATTGATTCAAATATTGATCTAAACATTAATCCATTTCAATTTATCAGTTTCAAATACCTTATAAC
66 ATTGATTCAAATATTGATCTAAACATTAATCCATTTCAATTTATCAGTTTCAAATACCTTATAAC
*
13215521 AGTTTATTTTATGCATATGAAAATTTCACAAATTAATCCTTAGGCTAACTAAATCAAGCTTCCAA
131 AGTTTATTTTATGCATATGAAAATTTCACAAATTAATCCTTAGGCTAACTAAATCAAGCTCCCAA
13215586 GGTCTCAAAA
196 GGTCTCAAAA
13215596 TATAAAAATT
Statistics
Matches: 193, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
213 192 0.99
214 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.37
Consensus pattern (213 bp):
AAACAGTATTAAGCGAGATGTCGAGGACTAATCCACAATTTTTCCTTTTCCTCAATTAACTTCTG
ATTGATTCAAATATTGATCTAAACATTAATCCATTTCAATTTATCAGTTTCAAATACCTTATAAC
AGTTTATTTTATGCATATGAAAATTTCACAAATTAATCCTTAGGCTAACTAAATCAAGCTCCCAA
GGTCTCAAAAATTTCACA
Found at i:13217603 original size:17 final size:16
Alignment explanation
Indices: 13217576--13217609 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
13217566 TCTGAAAAAA
*
13217576 ACAAAAGAAATATCTC
1 ACAAAAGAAATAACTC
13217592 ACAAAGAGAAATAACTC
1 ACAAA-AGAAATAACTC
13217609 A
1 A
13217610 AAGAGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.59, C:0.18, G:0.09, T:0.15
Consensus pattern (16 bp):
ACAAAAGAAATAACTC
Found at i:13222158 original size:54 final size:55
Alignment explanation
Indices: 13222075--13222183 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 55
13222065 TGTTTTTCTT
13222075 ATTTTTATAAAATAGCTTTTCTCATCACCTTAGGATTAATCGTAATATAATTTAA
1 ATTTTTATAAAATAGCTTTTCTCATCACCTTAGGATTAATCGTAATATAATTTAA
*
13222130 ATTTTTAT-AAATATCTTTTCTCATCACCTTAGGATTAATCGTAATATAATTTAA
1 ATTTTTATAAAATAGCTTTTCTCATCACCTTAGGATTAATCGTAATATAATTTAA
13222184 TTAAATTATT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 45 0.85
55 8 0.15
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (55 bp):
ATTTTTATAAAATAGCTTTTCTCATCACCTTAGGATTAATCGTAATATAATTTAA
Found at i:13242003 original size:19 final size:21
Alignment explanation
Indices: 13241967--13242030 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 21
13241957 AGAAAAGAAG
13241967 AAAAACAAAAAGATGAGTGAT
1 AAAAACAAAAAGATGAGTGAT
*
13241988 AAAAA-AAAGAGA-GAGTGATT
1 AAAAACAAAAAGATGAGTGA-T
* *
13242008 CAAAAGAAAAAGAAATGAGTGAT
1 AAAAACAAAAAG--ATGAGTGAT
13242031 GAGATTGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
21 10 0.29
23 2 0.06
24 6 0.17
ACGTcount: A:0.61, C:0.03, G:0.22, T:0.14
Consensus pattern (21 bp):
AAAAACAAAAAGATGAGTGAT
Found at i:13242970 original size:20 final size:20
Alignment explanation
Indices: 13242947--13243000 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
13242937 AGTTTTTCCC
*
13242947 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
13242967 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
13242987 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
13243001 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:13242982 original size:30 final size:30
Alignment explanation
Indices: 13242947--13243020 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
13242937 AGTTTTTCCC
13242947 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
13242977 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
13243007 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
13243021 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:13243010 original size:20 final size:20
Alignment explanation
Indices: 13242947--13243011 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
13242937 AGTTTTTCCC
* * * *
13242947 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
13242967 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
13242986 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
13243007 AGCTC
1 AGCTC
13243012 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:13244669 original size:12 final size:12
Alignment explanation
Indices: 13244654--13244687 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13244644 AATTTGATTG
13244654 AAAAAAAAATTC
1 AAAAAAAAATTC
* *
13244666 AAAAAAAAAGTG
1 AAAAAAAAATTC
13244678 AAAAAAAAAT
1 AAAAAAAAAT
13244688 CGAGCAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:13244713 original size:30 final size:28
Alignment explanation
Indices: 13244665--13244738 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 28
13244655 AAAAAAAATT
*
13244665 CAAAAAAAAA-GTGAAAAAAAAATCGAG
1 CAAAAAAAAAGGTGAAAAAAAAATCAAG
13244692 CAAAAAAAAAGGTGACCAAAAAAAATCAAG
1 CAAAAAAAAAGGTGA--AAAAAAAATCAAG
**
13244722 TTAAAAAAAA-GTGAAAA
1 CAAAAAAAAAGGTGAAAA
13244739 GTCTTGCGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 13 0.32
28 4 0.10
29 4 0.10
30 20 0.49
ACGTcount: A:0.69, C:0.08, G:0.14, T:0.09
Consensus pattern (28 bp):
CAAAAAAAAAGGTGAAAAAAAAATCAAG
Found at i:13245797 original size:17 final size:18
Alignment explanation
Indices: 13245765--13245798 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13245755 AAAAGAGAGT
*
13245765 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
13245783 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
13245799 GGAGTGTTGT
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:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:13247087 original size:20 final size:20
Alignment explanation
Indices: 13247064--13247117 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
13247054 AGTTTTTCCC
*
13247064 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
13247084 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
13247104 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
13247118 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:13247099 original size:30 final size:30
Alignment explanation
Indices: 13247064--13247137 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
13247054 AGTTTTTCCC
13247064 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
13247094 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
13247124 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
13247138 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:13247127 original size:20 final size:20
Alignment explanation
Indices: 13247064--13247128 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
13247054 AGTTTTTCCC
* * * *
13247064 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
13247084 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
13247103 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
13247124 AGCTC
1 AGCTC
13247129 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:13249747 original size:20 final size:20
Alignment explanation
Indices: 13249724--13249777 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
13249714 AGTTTTTCCC
*
13249724 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
13249744 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
13249764 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
13249778 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:13249759 original size:30 final size:30
Alignment explanation
Indices: 13249724--13249797 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
13249714 AGTTTTTCCC
13249724 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
13249754 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
13249784 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
13249798 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:13249787 original size:20 final size:20
Alignment explanation
Indices: 13249724--13249788 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
13249714 AGTTTTTCCC
* * * *
13249724 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
13249744 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
13249763 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
13249784 AGCTC
1 AGCTC
13249789 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:13255208 original size:20 final size:20
Alignment explanation
Indices: 13255183--13255220 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13255173 AGCTTGTTTC
*
13255183 CAACTCACTCGAGCTCAAGT
1 CAACTCACTCAAGCTCAAGT
*
13255203 CAACTCATTCAAGCTCAA
1 CAACTCACTCAAGCTCAA
13255221 TTCAGCTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.21
Consensus pattern (20 bp):
CAACTCACTCAAGCTCAAGT
Found at i:13256791 original size:20 final size:21
Alignment explanation
Indices: 13256768--13256806 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13256758 AGAAGTGAGC
13256768 AAAAAAAAAGAA-AAAAAAGT
1 AAAAAAAAAGAACAAAAAAGT
*
13256788 AAAAGAAAAGAACAAAAAA
1 AAAAAAAAAGAACAAAAAA
13256807 AAAGTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAGAACAAAAAAGT
Found at i:13259656 original size:20 final size:20
Alignment explanation
Indices: 13259610--13259656 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
13259600 AGCTTGTTTC
*
13259610 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
13259630 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
13259650 CAGCTCA
1 CAGCTCA
13259657 ATCTTAACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Done.