Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 169 of 226
Found at i:51981003 original size:21 final size:21
Alignment explanation
Indices: 51980979--51981018 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
51980969 ATTTAATTTA
*
51980979 ATAAATTAATATATAATTATG
1 ATAAATCAATATATAATTATG
*
51981000 ATAAATCAATGTATAATTA
1 ATAAATCAATATATAATTA
51981019 CAGTTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAAATCAATATATAATTATG
Found at i:51985420 original size:22 final size:21
Alignment explanation
Indices: 51985373--51985420 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
51985363 TTTAATTTGG
* *
51985373 AATTTAATTTTAGGATTTTAG
1 AATTTAAGTTTAGGATTTTAA
* *
51985394 TATTTAAGGTTTAGGGTTTTAA
1 AATTTAA-GTTTAGGATTTTAA
51985416 AATTT
1 AATTT
51985421 TATAAGAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (21 bp):
AATTTAAGTTTAGGATTTTAA
Found at i:51985995 original size:89 final size:91
Alignment explanation
Indices: 51985834--51986053 Score: 261
Period size: 89 Copynumber: 2.4 Consensus size: 91
51985824 TTAAGGAAGC
* * * *
51985834 AAAAAGCCTTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCAGCTCTCTTTATTTGCACTCATTT
1 AAAAAGCC-TCAAACCTTTTC-AAAAAAGCAATTAAACCCCAGCTCTCTTTATTTGCACTCAATT
*
51985899 GGGTACTTAAACTTTTAAAATGCATAAAA
64 GGGTACTTAAACTTTCAAAATGCAT-AAA
* * *
51985928 AAAAAGCCTGAAACCTTTTCAAAACAAGTAATTAACCCCCA-CT-T-TTT-TTTGCACTCAATTG
1 AAAAAGCCTCAAACCTTTTCAAAA-AAGCAATTAAACCCCAGCTCTCTTTATTTGCACTCAATTG
* *
51985989 GGTACTTGAACTTTCAAAATGCATCAA
65 GGTACTTAAACTTTCAAAATGCATAAA
* *
51986016 AAAGACCCTCAAA-CTTTTCAAAAAAGCAATTAAACCCC
1 AAAAAGCCTCAAACCTTTTCAAAAAAGCAATTAAACCCC
51986054 TGCTTTTATT
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
86 13 0.12
87 10 0.09
88 12 0.11
89 35 0.32
90 3 0.03
91 1 0.01
92 6 0.05
93 23 0.21
94 8 0.07
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (91 bp):
AAAAAGCCTCAAACCTTTTCAAAAAAGCAATTAAACCCCAGCTCTCTTTATTTGCACTCAATTGG
GTACTTAAACTTTCAAAATGCATAAA
Found at i:51986138 original size:14 final size:13
Alignment explanation
Indices: 51986115--51986158 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
51986105 AAATTTTATT
51986115 AAAATTTAATAAA
1 AAAATTTAATAAA
*
51986128 AAAATTTTAATATTA
1 AAAA-TTTAATA-AA
*
51986143 AAAATTTATTAAA
1 AAAATTTAATAAA
51986156 AAA
1 AAA
51986159 TAGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 8 0.31
14 13 0.50
15 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATTTAATAAA
Found at i:51986194 original size:28 final size:27
Alignment explanation
Indices: 51986153--51986222 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
51986143 AAAATTTATT
* *
51986153 AAAAAATAGAAAAAAATATA-AGAATCGTA
1 AAAAAATA-TAAAAAATATAGA-AAT-ATA
*
51986182 AAAAAATATAAAATATATAGAAATATA
1 AAAAAATATAAAAAATATAGAAATATA
51986209 AAAAAATTATAAAA
1 AAAAAA-TATAAAA
51986223 TTTTATAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 8 0.22
28 19 0.53
29 9 0.25
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.21
Consensus pattern (27 bp):
AAAAAATATAAAAAATATAGAAATATA
Found at i:51986488 original size:29 final size:29
Alignment explanation
Indices: 51986430--51986492 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
51986420 GTCATTAAAT
* **
51986430 TTTTTTATGATTTTTATAAAATTTTATAA
1 TTTTTTACGATTTTTATAAAAAATTATAA
* *
51986459 TTTTTTACGTTTTTTATAAAAAATTCTAA
1 TTTTTTACGATTTTTATAAAAAATTATAA
51986488 TTTTT
1 TTTTT
51986493 AATAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTTTTACGATTTTTATAAAAAATTATAA
Found at i:51986548 original size:28 final size:27
Alignment explanation
Indices: 51986482--51986548 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
51986472 TTATAAAAAA
*
51986482 TTCTAATTTTTAATAAATTTTAATTTTT
1 TTCT-ATTTTTAATAAAATTTAATTTTT
** *
51986510 TTAAATCTTTTCATAAAATTTAATATTTT
1 TTCTAT-TTTTAATAAAATTTAAT-TTTT
51986539 TTCTATTTTT
1 TTCTATTTTT
51986549 TTTATTTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
27 2 0.06
28 21 0.68
29 8 0.26
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (27 bp):
TTCTATTTTTAATAAAATTTAATTTTT
Found at i:51986582 original size:19 final size:20
Alignment explanation
Indices: 51986544--51986583 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
51986534 ATTTTTTCTA
*
51986544 TTTTTTTTATTTTTCATAATT
1 TTTTTTTTACTTTT-ATAATT
51986565 TTTTTTTTACTTTT-TAATT
1 TTTTTTTTACTTTTATAATT
51986584 GGAGCAGCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTTACTTTTATAATT
Found at i:51986756 original size:85 final size:84
Alignment explanation
Indices: 51986595--51986749 Score: 195
Period size: 85 Copynumber: 1.8 Consensus size: 84
51986585 GAGCAGCGGA
* * * * *
51986595 TTAATTGCTTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAACTCAAGTACCCAAT
1 TTAATTGCTTTTTTGAAAAAGTTTGAGAGCCCTTTTGATGCATTTTGAAAACTCAAGTACCCAAC
51986660 TGAGTGAAAAAAAAGTTGT
66 TGAGTGAAAAAAAAGTTGT
* * * * *
51986679 TTAATTGCTTTTTTTGAAGAAGTTTGAGAGCCCTTTTGATGTATTTT-AAAAGTTCAAGTGCTCA
1 TTAATTGC-TTTTTTGAAAAAGTTTGAGAGCCCTTTTGATGCATTTTGAAAA-CTCAAGTACCCA
51986743 ACTGAGT
64 ACTGAGT
51986750 ACAAAAAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
84 12 0.20
85 47 0.80
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (84 bp):
TTAATTGCTTTTTTGAAAAAGTTTGAGAGCCCTTTTGATGCATTTTGAAAACTCAAGTACCCAAC
TGAGTGAAAAAAAAGTTGT
Found at i:51987464 original size:19 final size:17
Alignment explanation
Indices: 51987402--51987456 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 17
51987392 TTTCATGAGT
*
51987402 TAAATAAATAATCATAAAA
1 TAAATAAAT-ATTA-AAAA
*
51987421 TAATTAATGATATTAAAAA
1 TAAATAA--ATATTAAAAA
51987440 TAAATAAATATTAAAAA
1 TAAATAAATATTAAAAA
51987457 ATGTAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 10 0.32
19 16 0.52
20 3 0.10
21 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
TAAATAAATATTAAAAA
Found at i:51987934 original size:17 final size:17
Alignment explanation
Indices: 51987912--51987945 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51987902 GGAGTTCTAC
51987912 AAATAAAAATAATTATA
1 AAATAAAAATAATTATA
* *
51987929 AAATAAGAATCATTATA
1 AAATAAAAATAATTATA
51987946 TAAAAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAAATAATTATA
Found at i:51994039 original size:21 final size:20
Alignment explanation
Indices: 51994013--51994052 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
51994003 ATTTAGTTCA
51994013 ATAAATCAATATATAATTATG
1 ATAAATCAATATAT-ATTATG
*
51994034 ATAAATCAATGTATATTAT
1 ATAAATCAATATATATTAT
51994053 AGTTTGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAAATCAATATATATTATG
Found at i:51998792 original size:143 final size:143
Alignment explanation
Indices: 51998529--51998798 Score: 351
Period size: 143 Copynumber: 1.9 Consensus size: 143
51998519 ATTTTAAGAA
* * * **
51998529 TCTTTACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTTGTTGATTTACGATCATG
1 TCTTAACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTCGTTGATTTACAATCACA
** ** * * * *
51998594 TTTTAAGTTCATTGATATATGATCATGAGCAATTCATCTAAAGTTCACTGGTTTACTATCACGAC
66 ACTTAAGTTCATTGATATACAACCATGAACAATTCATCTAAAGTTCACTGATTTACGATCACGAC
51998659 TCCTCTTGACTCC
131 TCCTCTTGACTCC
* * *
51998672 TCTTAACAGTTTGCTGATTTACGATCGCAACTGGTATCATTAAAGCTCGTTGATTTACAATCGCA
1 TCTTAACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTCGTTGATTTACAATCACA
* * * **
51998737 ACTTAAGTTCATTGATTTACAACCATGAATAATTCATCTAGAGTTCGTTGATTTACGATCAC
66 ACTTAAGTTCATTGATATACAACCATGAACAATTCATCTAAAGTTCACTGATTTACGATCAC
51998799 AACTTGTAAT
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
143 106 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (143 bp):
TCTTAACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTCGTTGATTTACAATCACA
ACTTAAGTTCATTGATATACAACCATGAACAATTCATCTAAAGTTCACTGATTTACGATCACGAC
TCCTCTTGACTCC
Found at i:52002936 original size:43 final size:42
Alignment explanation
Indices: 52002831--52002995 Score: 168
Period size: 43 Copynumber: 3.9 Consensus size: 42
52002821 TACAGTAATA
* * * * *
52002831 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATCG
* * ** *
52002873 ATGCCAATAGCTCATCCATGGTCTTACACGAAATCACATATCG
1 ATGCC-ATATCCCAGACATGGTCTTACACGAAATCTCATATCG
* *
52002916 ATGCCAATGTCCCAGACATGGGTCTTACACGAACTCTCATATCG
1 ATGCC-ATATCCCAGACAT-GGTCTTACACGAAATCTCATATCG
* * *
52002960 ATGCCATATCCCAAATATGGTCTTACACGTAATCTC
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTC
52002996 GGTAACCCTA
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 21 0.21
43 51 0.52
44 27 0.27
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATCG
Found at i:52004300 original size:22 final size:22
Alignment explanation
Indices: 52004265--52004321 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
52004255 ATAATCAAAT
* *
52004265 TGGTGTTGCAACATCTAGGGTG
1 TGGTGTTGCGACATCCAGGGTG
*
52004287 TGGTGTCGCGACATCCAGGGTG
1 TGGTGTTGCGACATCCAGGGTG
52004309 TGGTGTTGCGACA
1 TGGTGTTGCGACA
52004322 CTCAAGATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.16, C:0.18, G:0.39, T:0.28
Consensus pattern (22 bp):
TGGTGTTGCGACATCCAGGGTG
Found at i:52007083 original size:23 final size:23
Alignment explanation
Indices: 52007052--52007102 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
52007042 ACCTACTTTC
* *
52007052 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
52007075 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
52007098 TTACA
1 TTACA
52007103 TTTCTCTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:52008702 original size:50 final size:50
Alignment explanation
Indices: 52008649--52009029 Score: 494
Period size: 50 Copynumber: 7.5 Consensus size: 50
52008639 ACTACCAATT
* * * ** * * *
52008649 GCCATATCCCATATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * *
52008699 GCCATGTACCAGACATAGTCTTACA-GGCGACCTCTCATCCCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTCGGTGCCAAC
*
52008749 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
52008799 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
52008849 GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * * *
52008899 ACCATGTCCAAGACATGGTCTTATATGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * * *
52008949 GCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGTGCCAAC
52009005 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
52009030 CTAGCTCACA
Statistics
Matches: 292, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
49 2 0.01
50 252 0.86
51 2 0.01
53 4 0.01
56 32 0.11
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:52008863 original size:150 final size:150
Alignment explanation
Indices: 52008592--52008987 Score: 512
Period size: 150 Copynumber: 2.6 Consensus size: 150
52008582 GATAATAACA
* * ** * *
52008592 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTC--CT-GTACTACCAATTGCCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG-A-TGCCAA-TGCCAT
* * ** * *
52008654 ATCCCATATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTACCAGACATAGTC
63 ATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTACCAGACATAGTC
52008719 TTACA-GGCGACCTCTCATCCCGG
128 TTACATGG-GACCTCTCATCCCGG
* *
52008742 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATATC
* * * *
52008807 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAGACATGGTCTTA
66 CCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTACCAGACATAGTCTTA
* *
52008872 CATGGGACCTTTCATCTCGG
131 CATGGGACCTCTCATCCCGG
* * * *
52008892 TGCCAACACCATGTCCAAGACATGGTCTTATATGGGACCTCTCATCTCGGTGCCAATGCCATATC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATATC
52008957 CCAGACATGGTCTTACATGGGACCTCTCATA
66 CCAGACATGGTCTTACATGGGACCTCTCATA
52008988 ATTTCAATGA
Statistics
Matches: 215, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
150 204 0.95
151 7 0.03
152 3 0.01
153 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (150 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATATC
CCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTACCAGACATAGTCTTA
CATGGGACCTCTCATCCCGG
Found at i:52009095 original size:48 final size:48
Alignment explanation
Indices: 52009003--52009095 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
52008993 AATGATGCCA
* * * *
52009003 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACACCGATGTCG
* * *
52009051 ATGCCATGTCCCAGACATGGTCTTATACGAGATCGCACGCCGATG
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACACCGATG
52009096 CCATATCTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACACCGATGTCG
Found at i:52011736 original size:23 final size:23
Alignment explanation
Indices: 52011695--52011739 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
52011685 TTTCTTACTG
** *
52011695 TAGTAATTTTTGGGGTATTACAC
1 TAGTAATTTTCAGGATATTACAC
52011718 TAGTAATTTTCAGGATATTACA
1 TAGTAATTTTCAGGATATTACA
52011740 ACATAACCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (23 bp):
TAGTAATTTTCAGGATATTACAC
Found at i:52013937 original size:22 final size:22
Alignment explanation
Indices: 52013909--52013992 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
52013899 GTGCTTTAAT
*
52013909 AGTAGGCACTAAAGTGCGAATC
1 AGTAGGCACTAAAGTGCAAATC
* * *
52013931 AGTAGGCACCATAGTGCAAAAC
1 AGTAGGCACTAAAGTGCAAATC
*
52013953 AGTAGGCA-TCATAGTG-AAAGTC
1 AGTAGGCACT-AAAGTGCAAA-TC
*
52013975 AGTAGGCACTGAAGTGCA
1 AGTAGGCACTAAAGTGCA
52013993 GAATAATTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
21 3 0.06
22 45 0.90
23 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (22 bp):
AGTAGGCACTAAAGTGCAAATC
Found at i:52017002 original size:39 final size:39
Alignment explanation
Indices: 52016959--52017232 Score: 340
Period size: 39 Copynumber: 7.1 Consensus size: 39
52016949 ATCGAGTATT
* * * *
52016959 CTGAATTATTGCTCAATCAAGCAAGACTTACTAAATATA
1 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
* * *
52016998 CTGAA-TGCTGCTCAATTGAGCAAAA-TCTACTGAACATA
1 CTGAATTGTTGCTCAATCGAGCAAAACT-TACTGAATATA
52017036 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
1 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
* ** * **
52017075 CT-AAATGCAGCTCAATCGAGCAAAA-TCTACTAAACGTA
1 CTGAATTGTTGCTCAATCGAGCAAAACT-TACTGAATATA
* *
52017113 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATA
1 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
* *
52017152 CGGAATTGTTGCTCAATCGAGCAAAATTTACTGAATATA
1 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
*
52017191 CTGAATTGTTGCTCAATCGAGAAAAACTTACTGAATATA
1 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
52017230 CTG
1 CTG
52017233 TGTAATACCC
Statistics
Matches: 200, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
37 2 0.01
38 59 0.29
39 137 0.69
40 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (39 bp):
CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
Found at i:52017052 original size:77 final size:77
Alignment explanation
Indices: 52016959--52017232 Score: 395
Period size: 77 Copynumber: 3.5 Consensus size: 77
52016949 ATCGAGTATT
* * *
52016959 CTGAATTATTGCTCAATCAAGCAAGACTTACTAAATATACTGAATGCTGCTCAATTGAGCAAAAT
1 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACTGAATGCTGCTCAATCGAGCAAAAT
52017024 CTACTGAACATA
66 CTACTGAACATA
* * * *
52017036 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATACTAAATGCAGCTCAATCGAGCAAAAT
1 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACTGAATGCTGCTCAATCGAGCAAAAT
* *
52017101 CTACTAAACGTA
66 CTACTGAACATA
* *
52017113 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACGGAATTGTTGCTCAATCGAGCAAAA
1 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACTGAA-TGCTGCTCAATCGAGCAAAA
* *
52017178 TTTACTGAATATA
65 TCTACTGAACATA
* * *
52017191 CTGAATTGTTGCTCAATCGAGAAAAACTTACTGAATATACTG
1 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACTG
52017233 TGTAATACCC
Statistics
Matches: 173, Mismatches: 23, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
77 108 0.62
78 65 0.38
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (77 bp):
CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACTGAATGCTGCTCAATCGAGCAAAAT
CTACTGAACATA
Found at i:52017172 original size:116 final size:116
Alignment explanation
Indices: 52016969--52017232 Score: 327
Period size: 116 Copynumber: 2.3 Consensus size: 116
52016959 CTGAATTATT
* * * ** *
52016969 GCTCAATCAAGCAAGACTTACTAAATATACTGAATGCTGCTCAATTGAGCAAAATCTACTGAACA
1 GCTCAATCGAGCAAAACTTACTAAACATACTGAATGCTGCTCAATCAAGCAAAATCTACTAAACA
*
52017034 TACTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATACT-AAATGCA
66 TACGGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATACTGAAATGCA
* *
52017084 GCTCAATCGAGCAAAA-TCTACTAAACGTACTGAATTGTTGCTCAATCAAGCAAAA-CTTACTAA
1 GCTCAATCGAGCAAAACT-TACTAAACATACTGAA-TGCTGCTCAATCAAGCAAAATC-TACTAA
* * * **
52017147 ATATACGGAATTGTTGCTCAATCGAGCAAAATTTACTGAATATACTGAATTGTT
63 ACATACGGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATACTGAAATGCA
* * *
52017201 GCTCAATCGAGAAAAACTTACTGAATATACTG
1 GCTCAATCGAGCAAAACTTACTAAACATACTG
52017233 TGTAATACCC
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
114 1 0.01
115 29 0.23
116 65 0.52
117 30 0.24
118 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (116 bp):
GCTCAATCGAGCAAAACTTACTAAACATACTGAATGCTGCTCAATCAAGCAAAATCTACTAAACA
TACGGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATACTGAAATGCA
Found at i:52017388 original size:19 final size:19
Alignment explanation
Indices: 52017364--52017474 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
52017354 AATCTTCAAG
52017364 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52017383 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
52017402 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52017421 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
** *
52017440 GATATATAATCTTAGATGT
1 GATATGCAATCTTAGATAT
52017459 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
52017475 AGATATAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:52017414 original size:38 final size:38
Alignment explanation
Indices: 52017371--52017474 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
52017361 AAGGATATGC
52017371 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
52017409 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
52017447 AATCTTAGATGTGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
52017475 AGATATAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:52017844 original size:21 final size:21
Alignment explanation
Indices: 52017800--52017844 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
52017790 ATTAAGTTTT
*
52017800 TTTTATTTTTTTAATTTACCA
1 TTTTATTTTTTTAATTTACAA
*
52017821 TTTTATTTATTTTTATTT-CAA
1 TTTTATTT-TTTTAATTTACAA
52017842 TTT
1 TTT
52017845 GGTCTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATTTTTTTAATTTACAA
Found at i:52021697 original size:7 final size:7
Alignment explanation
Indices: 52021685--52021729 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
52021675 TCAATCAGAA
*
52021685 AAAAAAC
1 AAAAAAG
52021692 AAAAAA-
1 AAAAAAG
*
52021698 AAGAAA-
1 AAAAAAG
52021704 AAAAAAG
1 AAAAAAG
52021711 AAAAAAG
1 AAAAAAG
52021718 AAAAAAG
1 AAAAAAG
52021725 AAAAA
1 AAAAA
52021730 GGAGAGGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 10 0.29
7 25 0.71
ACGTcount: A:0.89, C:0.02, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:52021698 original size:10 final size:10
Alignment explanation
Indices: 52021683--52021730 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
52021673 ATTCAATCAG
*
52021683 AAAAAAAA-C
1 AAAAAAAAGA
52021692 AAAAAAAAGA
1 AAAAAAAAGA
52021702 AAAAAAAAGA
1 AAAAAAAAGA
52021712 AAAAAGAAA-A
1 AAAAA-AAAGA
*
52021722 AAGAAAAAG
1 AAAAAAAAG
52021731 GAGAGGCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 11 0.32
10 20 0.59
11 3 0.09
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:52021704 original size:18 final size:17
Alignment explanation
Indices: 52021681--52021729 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
52021671 ATATTCAATC
52021681 AGAAAAAAAACAAAAAAA
1 AGAAAAAAAA-AAAAAAA
*
52021699 AGAAAAAAAAAGAAAAA
1 AGAAAAAAAAAAAAAAA
52021716 AGAAAAAAGAAAAA
1 AGAAAAAA-AAAAA
52021730 GGAGAGGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAAAAAAAA
Found at i:52023303 original size:44 final size:45
Alignment explanation
Indices: 52023248--52023574 Score: 130
Period size: 44 Copynumber: 7.4 Consensus size: 45
52023238 CCTGGACAAC
*
52023248 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAGCAGT
* ** * * * ** *
52023292 AGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAG-CAGT
* * **
52023337 AGTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCCTGAA-CAAC
1 AGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC-TCCCTGAAGCAGT
* *
52023380 AGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCT-AAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAGCAGT
* * ** * * * ** *
52023424 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAG-CAGT
* * * **
52023469 AGTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCCTGGA-CAAC
1 AGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC-TCCCTGAAGCAGT
* *
52023512 AGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCT-AAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAGCAGT
* *
52023556 AGTGGAGCAGATCGAAGAT
1 AGTGGAGTAGATTGAAGAT
52023575 GGCGGATTTT
Statistics
Matches: 202, Mismatches: 55, Indels: 52
0.65 0.18 0.17
Matches are distributed among these distances:
42 6 0.03
43 37 0.18
44 115 0.57
45 37 0.18
46 7 0.03
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAGCAGT
Found at i:52023636 original size:132 final size:132
Alignment explanation
Indices: 52023028--52023663 Score: 1078
Period size: 132 Copynumber: 4.8 Consensus size: 132
52023018 CTGCATTGAC
* *
52023028 AGTGAAGCAGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * * *
52023093 GTAATTCTACTTCCCTGGAAAATAGTGGAATAGATTGAATATTTAAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52023158 GT
131 GT
* *
52023160 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTATATTAAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
52023225 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52023290 GT
131 GT
* *
52023292 AGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* *
52023357 GTAATTCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52023422 GT
131 GT
*
52023424 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
52023489 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52023554 GT
131 GT
52023556 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * * *
52023621 GTAA-TCATA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATT
66 GTAATTC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
52023664 GTAAGTCCTA
Statistics
Matches: 479, Mismatches: 23, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
131 3 0.01
132 476 0.99
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:52024013 original size:19 final size:19
Alignment explanation
Indices: 52023989--52024099 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
52023979 AATCTTCAGG
52023989 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
52024008 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
* **
52024027 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52024046 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
52024065 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52024084 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
52024100 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:52024039 original size:38 final size:38
Alignment explanation
Indices: 52023996--52024099 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
52023986 AGGGATATGC
*
52023996 AATCTTAGATATGATATGCAATCTTATATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
52024034 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
52024072 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
52024100 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:52024125 original size:22 final size:22
Alignment explanation
Indices: 52023989--52024125 Score: 99
Period size: 19 Copynumber: 6.9 Consensus size: 22
52023979 AATCTTCAGG
52023989 GATATGC-AATCTT--AGATAT
1 GATATGCTAATCTTAGAGATAT
*
52024008 GATATGC-AATCTT--ATATAT
1 GATATGCTAATCTTAGAGATAT
* *
52024027 AATAT-ATAATCTT--AGATAT
1 GATATGCTAATCTTAGAGATAT
52024046 GATATGC-AATCTT--AGATAT
1 GATATGCTAATCTTAGAGATAT
*
52024065 GATAT-ATAATCTT--AGATAT
1 GATATGCTAATCTTAGAGATAT
52024084 GATATGC-AATCTTAGAAGATAT
1 GATATGCTAATCTTAG-AGATAT
* *
52024106 GATTTTCTAATCTTAGAGAT
1 GATATGCTAATCTTAGAGAT
52024126 TTAATTTGTA
Statistics
Matches: 100, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
19 77 0.77
22 15 0.15
23 8 0.08
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (22 bp):
GATATGCTAATCTTAGAGATAT
Found at i:52024470 original size:21 final size:21
Alignment explanation
Indices: 52024426--52024470 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
52024416 TTAAGTTTTT
*
52024426 TTTTATTTTTTTAATTTACCA
1 TTTTATTTTTTTAATTTACAA
*
52024447 TTTTATTTATTTTTATTT-CAA
1 TTTTATTT-TTTTAATTTACAA
52024468 TTT
1 TTT
52024471 GGTCTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATTTTTTTAATTTACAA
Found at i:52027370 original size:12 final size:12
Alignment explanation
Indices: 52027355--52027388 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52027345 ACGACCACCG
*
52027355 CCACTTGTTGTA
1 CCACCTGTTGTA
*
52027367 CCACCTGATGTA
1 CCACCTGTTGTA
52027379 CCACCTGTTG
1 CCACCTGTTG
52027389 CACCTCCTAC
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:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (12 bp):
CCACCTGTTGTA
Found at i:52034206 original size:133 final size:136
Alignment explanation
Indices: 52033953--52034340 Score: 476
Period size: 133 Copynumber: 2.8 Consensus size: 136
52033943 CGTTACACTA
* * * ** *
52033953 CTCTCAACAGTTTGCTGATTTATGATCGCAACTGATATCATTAAAGCTTACTAATTTATGATCAC
1 CTCTTAACAGTTTGTTGATTTACGATCGCAACTGATATCATTAAAGCTCGCTGATTTATGATCAC
* *
52034018 GGCTTAAGTTCATTGATTTACGATCATGAAAAATTCATCTAGAATTCGTTGATTTACGATC-A-T
66 GGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTAGAGTTCGTTGATTTACGATCAACT
52034081 -GACTC
131 CGACTC
* * *
52034086 CTCTTAACAGTTTTTTGATTTACGATAGCAACTGATATCATTAAAGCTCGCTGATTTACGATCAC
1 CTCTTAACAGTTTGTTGATTTACGATCGCAACTGATATCATTAAAGCTCGCTGATTTATGATCAC
* * ** *
52034151 AGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTTGAGTTTTTTTATTTACGATCATGA
66 GGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTAGAGTTCGTTGATTTACGATCA--A
52034216 CTCCTCTCGACTC
129 -----CTCGACTC
* * *
52034229 CTCTTAGCAGTTTGTTGATTTACGATCTCAGCTGATATCATTAAAGCTCGCTGATTTATGATCAC
1 CTCTTAACAGTTTGTTGATTTACGATCGCAACTGATATCATTAAAGCTCGCTGATTTATGATCAC
* * * * *
52034294 GGTTTGAGTTCATTAATTTACGATAATAAACAATTCATCTAGAGTTC
66 GGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTAGAGTTC
52034341 AAAAATTTAC
Statistics
Matches: 215, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
133 110 0.51
136 1 0.00
142 1 0.00
143 103 0.48
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (136 bp):
CTCTTAACAGTTTGTTGATTTACGATCGCAACTGATATCATTAAAGCTCGCTGATTTATGATCAC
GGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTAGAGTTCGTTGATTTACGATCAACT
CGACTC
Found at i:52034339 original size:143 final size:143
Alignment explanation
Indices: 52034081--52034339 Score: 401
Period size: 143 Copynumber: 1.8 Consensus size: 143
52034071 TTACGATCAT
*
52034081 GACTCCTCTTAACAGTTTTTTGATTTACGATAGCAACTGATATCATTAAAGCTCGCTGATTTACG
1 GACTCCTCTTAACAGTTTGTTGATTTACGATAGCAACTGATATCATTAAAGCTCGCTGATTTACG
* * * *
52034146 ATCACAGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTTGAGTTTTTTTATTTACGAT
66 ATCACAGCTTAAGTTCATTAATTTACGATAATAAACAATTCATCTAGAGTTTTTTTATTTACGAT
52034211 CATGACTCCTCTC
131 CATGACTCCTCTC
* ** * *
52034224 GACTCCTCTTAGCAGTTTGTTGATTTACGATCTCAGCTGATATCATTAAAGCTCGCTGATTTATG
1 GACTCCTCTTAACAGTTTGTTGATTTACGATAGCAACTGATATCATTAAAGCTCGCTGATTTACG
* * *
52034289 ATCACGGTTTGAGTTCATTAATTTACGATAATAAACAATTCATCTAGAGTT
66 ATCACAGCTTAAGTTCATTAATTTACGATAATAAACAATTCATCTAGAGTT
52034340 CAAAAATTTA
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
143 103 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (143 bp):
GACTCCTCTTAACAGTTTGTTGATTTACGATAGCAACTGATATCATTAAAGCTCGCTGATTTACG
ATCACAGCTTAAGTTCATTAATTTACGATAATAAACAATTCATCTAGAGTTTTTTTATTTACGAT
CATGACTCCTCTC
Found at i:52034447 original size:98 final size:99
Alignment explanation
Indices: 52034244--52034452 Score: 240
Period size: 98 Copynumber: 2.1 Consensus size: 99
52034234 AGCAGTTTGT
* * * * * *
52034244 TGATTTACGATCTCAGCTGATATCATTAAAGCTCGCTGATTTATGATCACGGTTTGAGTTCATTA
1 TGATTTACGATCGCAACTAATATCATTAAAGCTCGCTGATTTACGATCACGGCTTAAGTTCATTA
*
52034309 ATTTACGATAATAAACAATTCATCTAGAGTTCAA
66 ATTTACGATAATAAACAATTCATCTAAAGTTCAA
** * * * * *
52034343 AAATTTACGATCGCAACTAATATCATTAAAG-TCGTTGATTTACGATCATGGCTTAATTTTATTG
1 TGATTTACGATCGCAACTAATATCATTAAAGCTCGCTGATTTACGATCACGGCTTAAGTTCATTA
* * * * *
52034407 ATTTATGATCATGAACAATTCATTTAAAGTTCAC
66 ATTTACGATAATAAACAATTCATCTAAAGTTCAA
52034441 TGATTTACGATC
1 TGATTTACGATC
52034453 ACGACTCCTT
Statistics
Matches: 89, Mismatches: 21, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
98 63 0.71
99 26 0.29
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (99 bp):
TGATTTACGATCGCAACTAATATCATTAAAGCTCGCTGATTTACGATCACGGCTTAAGTTCATTA
ATTTACGATAATAAACAATTCATCTAAAGTTCAA
Found at i:52034540 original size:133 final size:132
Alignment explanation
Indices: 52034345--52034754 Score: 484
Period size: 133 Copynumber: 3.1 Consensus size: 132
52034335 GAGTTCAAAA
* * * * *
52034345 ATTTACGATCGCAACTAATATCATTAAAG-TCGTTGATTTACGATCATGGCTTAATTTTATTGAT
1 ATTTACGATCGCAACTAATAACATTAAAGCTCGCTGATTTACGATCA-CGCTTAAGTTAATTGAT
* * * *
52034409 TTATGATCATGAACAATTCATTTAAAGTTCACTGATTTACGATCACGACTCCTTTTAACAGTTTA
65 TTACGATCATGAACAATTCATTTAGAGTTCGCTGATTTACGATCACGACTCCTTTTAACAGTTTG
*
52034474 CTG
130 TTG
* * * *
52034477 ATTTACAATCGCTATTAATAACATTAAAGCTCGCTGATTTACGATCACAGCTTAAGTTCATTGAT
1 ATTTACGATCGCAACTAATAACATTAAAGCTCGCTGATTTACGATCAC-GCTTAAGTTAATTGAT
* * * * * *
52034542 TTACGATCATGAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTTTTGATAGTTCG
65 TTACGATCATGAACAATTCATTTAGAGTTCGCTGATTTACGATCACGACTCCTTTTAACAGTTTG
52034607 TTG
130 TTG
* * * *
52034610 ATTTACGATCGCAACTGATATA-ATCAAAGCTCGCT-AGTTTACGATCACGATTTCAGTTAATTG
1 ATTTACGATCGCAACTAATA-ACATTAAAGCTCGCTGA-TTTACGATCACG-CTTAAGTTAATTG
* * * * * *
52034673 ATTTACGATCATAAACACTTCATTTAGAGTTCGTTGATTTACGATCACGATTCCTCTTAACAATT
63 ATTTACGATCATGAACAATTCATTTAGAGTTCGCTGATTTACGATCACGACTCCTTTTAACAGTT
52034738 TGTTG
128 TGTTG
52034743 ATTTACGATCGC
1 ATTTACGATCGC
52034755 GACTGCTATT
Statistics
Matches: 234, Mismatches: 39, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
132 27 0.12
133 206 0.88
134 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (132 bp):
ATTTACGATCGCAACTAATAACATTAAAGCTCGCTGATTTACGATCACGCTTAAGTTAATTGATT
TACGATCATGAACAATTCATTTAGAGTTCGCTGATTTACGATCACGACTCCTTTTAACAGTTTGT
TG
Found at i:52034807 original size:133 final size:132
Alignment explanation
Indices: 52034403--52034816 Score: 316
Period size: 133 Copynumber: 3.1 Consensus size: 132
52034393 GCTTAATTTT
* * * * * * * *
52034403 ATTGATTTATGATCATGAACAATTCATTTAAAGTTCACTGATTTACGATCACGACTCCTTTTAAC
1 ATTGATTTACGATCATAAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTCTTAAC
* *** * * * * * * * * *
52034468 AGTTTACTGATTTACAATCGCTATTAATA-ACATTAAAGCTCGCT-GATTTACGATCACAGCTTA
66 AATTCGTTGATTTACGATCGCAACTGATATA-ATCAAAACTCGCTAG-TTAACAATCACA-TTTA
* *
52034531 AGTTC
128 AATTA
* * * *
52034536 ATTGATTTACGATCATGAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTTTTGAT
1 ATTGATTTACGATCATAAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTCTTAAC
* * * * * *
52034601 AGTTCGTTGATTTACGATCGCAACTGATATAATCAAAGCTCGCTAGTTTACGATCACGATTTCAG
66 AATTCGTTGATTTACGATCGCAACTGATATAATCAAAACTCGCTAGTTAACAATCAC-ATTTAAA
52034666 TTA
130 TTA
* * * * * *
52034669 ATTGATTTACGATCATAAACACTTCATTTAGAGTTCGTTGATTTACGATCACGATTCCTCTTAAC
1 ATTGATTTACGATCATAAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTCTTAAC
* * * * *
52034734 AATTTGTTGATTTACGATCGCGACTGCTATTAT-AAAACTCGCTA-TCATGAACAATTCA-TTTT
66 AATTCGTTGATTTACGATCGCAACTGATATAATCAAAACTCGCTAGT--T-AACAA-TCACATTT
52034796 AAATTA
127 AAATTA
*
52034802 GTTGATTTACGATCA
1 ATTGATTTACGATCA
52034817 CAACTTCATT
Statistics
Matches: 233, Mismatches: 41, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
131 1 0.00
132 10 0.04
133 213 0.91
134 6 0.03
135 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (132 bp):
ATTGATTTACGATCATAAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTCTTAAC
AATTCGTTGATTTACGATCGCAACTGATATAATCAAAACTCGCTAGTTAACAATCACATTTAAAT
TA
Found at i:52038113 original size:35 final size:35
Alignment explanation
Indices: 52038067--52038137 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
52038057 CATCTCTGGA
*
52038067 GCTTGGTAAATATGGAAAGTGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
* *
52038102 GCTTGGCAAATATGGAAGGTGATCTTCAAATATAT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
52038137 G
1 G
52038138 TGATCATAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
Found at i:52042666 original size:21 final size:21
Alignment explanation
Indices: 52042640--52042680 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
52042630 ATCTTATGGC
52042640 AAAA-GGTTAAAAGATATTTGG
1 AAAAGGGTT-AAAGATATTTGG
52042661 AAAAGGGTTAAAGATATTTG
1 AAAAGGGTTAAAGATATTTG
52042681 ACAGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (21 bp):
AAAAGGGTTAAAGATATTTGG
Found at i:52050433 original size:45 final size:45
Alignment explanation
Indices: 52050369--52050461 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
52050359 CATTCAACCC
52050369 CATATCATTTCTGCACATTTCCCATCACAACCTTACTTTAGTAGT
1 CATATCATTTCTGCACATTTCCCATCACAACCTTACTTTAGTAGT
52050414 CATATCATTTCTGCACATTTCCCATCACAACCTTACTTTAGTAGT
1 CATATCATTTCTGCACATTTCCCATCACAACCTTACTTTAGTAGT
52050459 CAT
1 CAT
52050462 CCACTAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.27, C:0.29, G:0.06, T:0.38
Consensus pattern (45 bp):
CATATCATTTCTGCACATTTCCCATCACAACCTTACTTTAGTAGT
Found at i:52055745 original size:23 final size:22
Alignment explanation
Indices: 52055719--52055794 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 22
52055709 AGTGTTATTG
52055719 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCT-CGGCTACAT
52055742 ATCAGTGGTAGCCTCGGCTACAT
1 ATCAGTGGTAG-CTCGGCTACAT
* *
52055765 TTTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGC-TCGGCTACAT
52055788 ATCAGTG
1 ATCAGTG
52055795 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.02
23 44 0.94
24 2 0.04
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (22 bp):
ATCAGTGGTAGCTCGGCTACAT
Found at i:52058080 original size:19 final size:20
Alignment explanation
Indices: 52058052--52058093 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
52058042 ATTTGATCCT
* *
52058052 AATTTTAAAAAT-ACATAAA
1 AATTTCAAAAATAAAATAAA
52058071 AATTTCAAAAATAAAATAAA
1 AATTTCAAAAATAAAATAAA
52058091 AAT
1 AAT
52058094 ACATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AATTTCAAAAATAAAATAAA
Found at i:52060609 original size:21 final size:20
Alignment explanation
Indices: 52060573--52060613 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
52060563 TTTTTATTTC
52060573 AAAATAAATCATAAATATATT
1 AAAATAAATCATAAAT-TATT
52060594 AAAATAAAT-ATAAAATTATT
1 AAAATAAATCAT-AAATTATT
52060614 TTTTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATAAATCATAAATTATT
Found at i:52064913 original size:7 final size:7
Alignment explanation
Indices: 52064901--52064948 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
52064891 TCCTAAGTTC
52064901 TCGATTT
1 TCGATTT
*
52064908 TTGATTT
1 TCGATTT
*
52064915 TTGATTT
1 TCGATTT
52064922 TCGATTT
1 TCGATTT
52064929 TCGATTT
1 TCGATTT
52064936 TCGATTT
1 TCGATTT
52064943 TCGATT
1 TCGATT
52064949 GTCAATCCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.60
Consensus pattern (7 bp):
TCGATTT
Found at i:52069788 original size:22 final size:24
Alignment explanation
Indices: 52069746--52069790 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
52069736 ATTTTTAAAA
*
52069746 AGATATATTTTTATATTTTAGATT
1 AGATATATTGTTATATTTTAGATT
52069770 AGAT-TATTGTTA-ATTTTAGAT
1 AGATATATTGTTATATTTTAGAT
52069791 ATAACTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 7 0.35
24 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (24 bp):
AGATATATTGTTATATTTTAGATT
Found at i:52069843 original size:18 final size:19
Alignment explanation
Indices: 52069796--52069843 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
52069786 TAGATATAAC
* *
52069796 TTTTAATATTATATTTCTG
1 TTTTAAGATTAGATTTCTG
*
52069815 TTTTAAAGATTAGATTTGTG
1 TTTT-AAGATTAGATTTCTG
52069835 -TTTAAGATT
1 TTTTAAGATT
52069844 TATGGATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 7 0.28
20 12 0.48
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (19 bp):
TTTTAAGATTAGATTTCTG
Found at i:52071230 original size:67 final size:68
Alignment explanation
Indices: 52071148--52071374 Score: 266
Period size: 67 Copynumber: 3.4 Consensus size: 68
52071138 CCTTAAAAGA
* * * * *
52071148 GGTTACGAGGTGTAAGAGCATAGCTTGAGTATGACAACCTATAGTGTCTGCCAGTGCATTAAACA
1 GGTTACAAGGTGTAAGACCATAGCTTGACTATGACAACCTATAGAGTCTACCAGTGCATTAAACA
52071213 TGG
66 TGG
* * **
52071216 GGTTAC-ATGTGTAAGACCATAGCTTGACTATGGCAACGAATAGAGTCTACCAAGATG--TTAAA
1 GGTTACAAGGTGTAAGACCATAGCTTGACTATGACAACCTATAGAGTCTACC-AG-TGCATTAAA
52071278 CATGG
64 CATGG
* * * *
52071283 GGTTACAAGGTGTAAGCCCGTAGCTCGACTATGACAACCTATAGAGTCCACCAG-GACATTAAAC
1 GGTTACAAGGTGTAAGACCATAGCTTGACTATGACAACCTATAGAGTCTACCAGTG-CATTAAAC
52071347 ATGG
65 ATGG
*
52071351 GGTTAC-ATGTGTAAGACCATAGCT
1 GGTTACAAGGTGTAAGACCATAGCT
52071375 CAACTATGGC
Statistics
Matches: 134, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
65 1 0.01
67 70 0.52
68 61 0.46
69 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (68 bp):
GGTTACAAGGTGTAAGACCATAGCTTGACTATGACAACCTATAGAGTCTACCAGTGCATTAAACA
TGG
Found at i:52071314 original size:68 final size:67
Alignment explanation
Indices: 52071204--52071387 Score: 251
Period size: 68 Copynumber: 2.7 Consensus size: 67
52071194 TCTGCCAGTG
* * *
52071204 CATTAAACATGGGGTTACATGTGTAAGACCATAGCTTGACTATGGCAACGAATAGAGTCTACCAA
1 CATTAAACATGGGGTTACATGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCACCAA
52071269 GA
66 GA
** * * * * *
52071271 TGTTAAACATGGGGTTACAAGGTGTAAGCCCGTAGCTCGACTATGACAACCTATAGAGTCCACCA
1 CATTAAACATGGGGTTAC-ATGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCACCA
*
52071336 GGA
65 AGA
*
52071339 CATTAAACATGGGGTTACATGTGTAAGACCATAGCTCAACTATGGCAAC
1 CATTAAACATGGGGTTACATGTGTAAGACCATAGCTCGACTATGGCAAC
52071388 ATGTTGAGTC
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
67 42 0.43
68 56 0.57
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (67 bp):
CATTAAACATGGGGTTACATGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCACCAA
GA
Found at i:52074605 original size:42 final size:42
Alignment explanation
Indices: 52074546--52074631 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
52074536 GTTTCCTCAC
* *
52074546 CCGTGTAACTTAATGAGTTGTCTCACACGCCCGTGTGCCAGG
1 CCGTGTAACTTAATGAGTTGCCACACACGCCCGTGTGCCAGG
* *
52074588 CCGTGTAACTCT-TTGAGTTGCCACACACGCCCGTGTGCTAGG
1 CCGTGTAACT-TAATGAGTTGCCACACACGCCCGTGTGCCAGG
52074630 CC
1 CC
52074632 CTGTGCTAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.17, C:0.31, G:0.26, T:0.26
Consensus pattern (42 bp):
CCGTGTAACTTAATGAGTTGCCACACACGCCCGTGTGCCAGG
Found at i:52100505 original size:25 final size:25
Alignment explanation
Indices: 52100464--52100532 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
52100454 ATGCTTATAC
* *
52100464 GAGCTGTA-AACGTTAAGCTCCTCT
1 GAGCTGAATAACGGTAAGCTCCTCT
*
52100488 GAGCTGAATAACGGTAAGCTCCTTT
1 GAGCTGAATAACGGTAAGCTCCTCT
*
52100513 GAGATGAATAACGGTAAGCT
1 GAGCTGAATAACGGTAAGCT
52100533 AATAAGAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 7 0.17
25 33 0.82
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAGCTCCTCT
Found at i:52100545 original size:25 final size:25
Alignment explanation
Indices: 52100492--52100545 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
52100482 TCCTCTGAGC
** **
52100492 TGAATAACGGTAAGCTCCTTTGAGA
1 TGAATAACGGTAAGCTAATAAGAGA
*
52100517 TGAATAACGGTAAGCTAATAAGAGT
1 TGAATAACGGTAAGCTAATAAGAGA
52100542 TGAA
1 TGAA
52100546 ATCGATAACC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (25 bp):
TGAATAACGGTAAGCTAATAAGAGA
Found at i:52109114 original size:42 final size:43
Alignment explanation
Indices: 52109013--52109184 Score: 118
Period size: 43 Copynumber: 4.0 Consensus size: 43
52109003 AGCTCGTACA
* * * * * * *
52109013 ATGCCAACGTTCCAGAC-GTGGTCTTACATGTATTCAAATAACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCATATATCG
* *
52109056 ATGCCACTTTCCCAGACAGGGTCTTACACGAAATCATATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATATATCG
* * * * *
52109098 ATGCCAATGTCCCAGACATGATCATACACGTAAATC-TCAAATCA
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATCAT-ATATCG
* * * *
52109142 ATGCCAAAGTCCCAGAC-GTGGTCTTATACGATATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCATATATCG
52109185 GAATTCCTGT
Statistics
Matches: 98, Mismatches: 25, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
42 27 0.28
43 46 0.47
44 25 0.26
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATATATCG
Found at i:52117078 original size:43 final size:42
Alignment explanation
Indices: 52117044--52117175 Score: 117
Period size: 42 Copynumber: 3.1 Consensus size: 42
52117034 TTCCATGTAT
* *
52117044 TCAAATAATGATGCCACTGTCCCAGACAGAGTCTTACACGAAA
1 TCAAAT-ACGATGCCAATGTCCCAGACAGAGTCTTACACGAAA
*
52117087 TCATATACGATGCCAATGTCCCAGACATG-GTCTTACACGTAAA
1 TCAAATACGATGCCAATGTCCCAGACA-GAGTCTTACACG-AAA
* * * * *
52117130 TCTCAAAT-CAATGCCAACGTCCCAAACATG-GTCTTATACGATA
1 --TCAAATACGATGCCAATGTCCCAGACA-GAGTCTTACACGAAA
52117173 TCA
1 TCA
52117176 CATATCGGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
41 3 0.04
42 29 0.38
43 11 0.14
44 28 0.37
45 5 0.07
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (42 bp):
TCAAATACGATGCCAATGTCCCAGACAGAGTCTTACACGAAA
Found at i:52123307 original size:43 final size:43
Alignment explanation
Indices: 52123230--52123514 Score: 351
Period size: 43 Copynumber: 6.7 Consensus size: 43
52123220 TGTCCCAAAC
* ** * **
52123230 ATGGTCTTACATGGAAATCTCGTATCGATTCCAATAGCCCTCCT
1 ATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
52123274 ATAGTCATACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
** *
52123317 ATGGTCTTACACGAAATCTCAAATCGATGGTAATAGCCCAACT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
* * **
52123360 ATGGTCTTACAAG-AATCTCAAATCGACGCCAATATTCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
* * * * *
52123402 ATGGTCTTACAAG-AATCTCAAATCAACGACAATAGCCTAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
52123444 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
52123487 ATGGTCTTACACG-AATATCAAATCGATG
1 ATGGTCTTACACGAAATCTCAAATCGATG
52123515 TCATATCCCA
Statistics
Matches: 209, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
42 86 0.41
43 114 0.55
44 9 0.04
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:52123400 original size:85 final size:85
Alignment explanation
Indices: 52123261--52123514 Score: 339
Period size: 85 Copynumber: 3.0 Consensus size: 85
52123251 GTATCGATTC
** * * *
52123261 CAATAGCCCTCCTATAGTCATACACGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
1 CAATAGCCCAACTATGGTCTTACAAGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
*
52123326 CACGAAATCTCAAATCGATGG
66 CACG-AATCTCAAATCGATGA
* * **
52123347 TAATAGCCCAACTATGGTCTTACAAG-AATCTCAAATCGACGCCAATATTCCAGCTATGGTCTTA
1 CAATAGCCCAACTATGGTCTTACAAGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
* * *
52123411 CAAGAATCTCAAATCAACGA
66 CACGAATCTCAAATCGATGA
* * *
52123431 CAATAGCCTAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
1 CAATAGCCCAACTATGGTCTTACAAGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
*
52123496 CACGAATATCAAATCGATG
66 CACGAATCTCAAATCGATG
52123515 TCATATCCCA
Statistics
Matches: 143, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
84 35 0.24
85 88 0.62
86 20 0.14
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (85 bp):
CAATAGCCCAACTATGGTCTTACAAGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
CACGAATCTCAAATCGATGA
Found at i:52123549 original size:127 final size:127
Alignment explanation
Indices: 52123288--52123536 Score: 356
Period size: 127 Copynumber: 2.0 Consensus size: 127
52123278 TCATACACGA
* * * **
52123288 AATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGATGGTAATAG
1 AATCTCAAATCAACGACAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
* * * *
52123353 CCCAACTATGGTCTTACAAGAATCTCAAATCGACGCCAATATTCCAGCTATGGTCTTACAAG
66 CCCAACTATGGTCTTACAAGAATATCAAATCGACGCCAATATCCCAGATATGGACTTACAAG
*
52123415 AATCTCAAATCAACGACAATAGCCTAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
1 AATCTCAAATCAACGACAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
* * * * *
52123480 CCCAGCTATGGTCTTACACGAATATCAAATCGATGTC-ATATCCCATATATGGACTTA
66 CCCAACTATGGTCTTACAAGAATATCAAATCGACGCCAATATCCCAGATATGGACTTA
52123537 TACGGGATCT
Statistics
Matches: 107, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
126 16 0.15
127 91 0.85
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (127 bp):
AATCTCAAATCAACGACAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
CCCAACTATGGTCTTACAAGAATATCAAATCGACGCCAATATCCCAGATATGGACTTACAAG
Found at i:52134234 original size:44 final size:45
Alignment explanation
Indices: 52134165--52135060 Score: 287
Period size: 44 Copynumber: 20.8 Consensus size: 45
52134155 CTACTGTTTT
* * *
52134165 AATCCACTCCACTGTAA-CTCTAGGGAGATAGGA-TTATCGTCTTC
1 AATCTACTCCACTGCAACCTC-AGGGAGATAAGACTTATCGTCTTC
* * * *
52134209 AATCTGCTCCACTGCAACCACAGGGAGATAAGACTT-GCTTCTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
* * * * **
52134253 GATCTACTCCGCTGCAACCTCAGGGAGATAACACCTGAT-GTGAT-
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGA-CTTATCGTCTTC
** * * **
52134297 -AT-T-CTCTGCTGCAACCTTAGAGAGATAAGA-TCTATTAT-TTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACT-TATCGTCTTC
* * *
52134338 AATCCACTCCACTGCAACTTCAGGGAGATAGGA-TTATCAG-CTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATC-GTCTTC
* * * * *
52134382 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCT-GCTTCTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
* * * *
52134426 GATCTACTCCGCTGCAACCTCAGGGAGATAAAACCTGAT-G---T-
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGA-CTTATCGTCTTC
* *** * * **
52134467 GATCTACTTTGCTGCAACTTCAGAGAGATAAGA-TCTATTAT-TTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACT-TATCGTCTTC
* * *
52134511 AATC--C-GCACTGCAACTTCAGGGAGATAGGA-TTATCAG-CTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATC-GTCTTC
* * * * * * * *
52134552 CATCTGCTTCACTGCAACCTTAAGGAGATAAGACCTGT-TTCTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
* * *
52134596 GATCTACTCCGCTGCAACCTCAGGGAGATAAGACCTAAT-G---T-
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGA-CTTATCGTCTTC
* *** * * * **
52134637 GATCTACTCTGTTGCAACTTCAGAGAAATAAGA-TCTATTAT-TTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACT-TATCGTCTTC
** * * * * *
52134681 AATCCGCTCTACTACAACTTCAGAGAGATAGGA-TTATCAG-CTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATC-GTCTTC
* * *
52134725 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGAT-G---T-
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGA-CTTATCGTCTTC
* ** * * **
52134766 GATCTACTCTGCTGCAACTTCAGAGAGATAAGA-TCTATTAT-TTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACT-TATCGTCTTC
* * * *
52134810 AATCCACTCCACTACAACTTCAGGGAGATAGGA-TTATCAG-CTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATC-GTCTTC
* * * * * *
52134854 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCT-GCTTCTTT
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
* ** * * * *
52134898 GATCTACTCTGCTGTAATCTCAGGGAGATAAGA-TT-T-GACGT-
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
* ** * * **
52134939 GATCTACTCTGCTGCAACTTCAGAGAGATAAGA-TCTATTAT-TTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACT-TATCGTCTTC
* * * *
52134983 AATCCACTCCATTGCAACTTCAGGGAGATAGGA-TTATCAG-CTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATC-GTCTTC
* * * *
52135027 CATTTGCTCTACTGCAACCTCAGGGAGATAAGAC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGAC
52135061 CTGATGTGAT
Statistics
Matches: 628, Mismatches: 170, Indels: 107
0.69 0.19 0.12
Matches are distributed among these distances:
39 4 0.01
40 12 0.02
41 164 0.26
42 10 0.02
43 21 0.03
44 399 0.64
45 15 0.02
46 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (45 bp):
AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
Found at i:52134339 original size:129 final size:130
Alignment explanation
Indices: 52134206--52135148 Score: 517
Period size: 129 Copynumber: 7.3 Consensus size: 130
52134196 GATTATCGTC
* * *
52134206 TTCAATCTGCTCCACTGCAACCACAGGGAGATAAGACTTGCTTCTTCGATCTACTCCGCTGCAAC
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCTTCGATCTACTCTGCTGCAAC
* * *
52134271 CTCAGGGAGATAACACCTGATGTGATATTCTCTGCTGCAACCTT-AGAGAGATAAGATCTATTAT
66 CTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTATTAT
* * * * ** * * **
52134335 TTCAATCCACTCCACTGCAACTTCAGGGAGATAGGA-TTATCAGCTTCCATCTGCTCCACTGCAA
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTT-GCTTCTTCGATCTACTCTGCTGCAA
* * * * * *
52134399 CCTCAGGGAGATAAGACCTGCTTCTTCGATCTACTCCGCTGCAACC-TCAGGGAGATAA-AAC-C
65 CCTCAGGGAGATAAGACCTG-AT-GT-GATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTA
*
52134461 TGAT
127 TTAT
* * *** * * * * *
52134465 GT-GATCTACTTTGCTGCAACTTCAGAGAGATAAGATCTAT--TAT-TTCAATC--CGC-ACTGC
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGA-CT-TGCT-TCTTCGATCTACTCTGCTGC
* * * * * * *
52134523 AACTTCAGGGAGATAGGA--TTATCAGCTTCCATCTGCT-TCACTGCAACCTTAAG-GAGATAAG
63 AACCTCAGGGAGATAAGACCTGAT--G--T-GATCTACTCT-GCTGCAACCTTCAGAGAGATAAG
* *
52134584 ACCTGTT-T
122 ATCTATTAT
* * ** *
52134592 CTTCGATCTACTCCGCTGCAACCTCAGGGAGATAAGAC---CTAATGT-GATCTACTCTGTTGCA
1 -TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCT-TCGATCTACTCTGCTGCA
* * * * * * * ** * * *
52134653 ACTTCAGAGAAATAAGATCTATTATTTCAATCCGCTCTACTACAA-CTTCAGAGAGATAGGAT-T
64 ACCTCAGGGAGATAAGA-C-CTGATGT-GATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCT
* *
52134716 ATCAGC
126 ATTA-T
* * * * *
52134722 TTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTG-AT-GT-GATCTACTCTGCTGCAAC
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCTTCGATCTACTCTGCTGCAAC
* * * * * * * ** * * *
52134784 TTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAA-CTTCAGGGAGATAGGAT-TAT
66 CTCAGGGAGATAAGA-C-CTGATGT-GATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTAT
* *
52134847 CAGC
128 TA-T
* * * * * *
52134851 TTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTTGATCTACTCTGCTGTAAT
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCTTCGATCTACTCTGCTGCAAC
** *
52134916 CTCAGGGAGATAAGATTTGACGTGATCTACTCTGCTGCAA-CTTCAGAGAGATAAGATCTATTAT
66 CTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTATTAT
* * * * * ** * * * *
52134980 TTCAATCCACTCCATTGCAACTTCAGGGAGATAGGA-TTATCAGCTTCCATTTGCTCTACTGCAA
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTT-GCTTCTTCGATCTACTCTGCTGCAA
52135044 CCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAA-CTTCAGAGAGATAAGATCTATTA
65 CCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTATTA
52135108 T
130 T
** * *
52135109 TTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGACTTG
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTG
52135149 GTGCGATCTC
Statistics
Matches: 649, Mismatches: 124, Indels: 82
0.76 0.15 0.10
Matches are distributed among these distances:
123 1 0.00
124 1 0.00
126 49 0.08
127 9 0.01
128 15 0.02
129 493 0.76
130 16 0.02
131 6 0.01
132 55 0.08
133 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (130 bp):
TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCTTCGATCTACTCTGCTGCAAC
CTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTATTAT
Found at i:52134371 original size:173 final size:173
Alignment explanation
Indices: 52134082--52134798 Score: 1029
Period size: 173 Copynumber: 4.2 Consensus size: 173
52134072 CCATTCTCAG
* * * * * *
52134082 TCTACTCCTCTGAAACCTTAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAAGTTTAGAGA
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGA
* * * * *
52134147 GATAAGATCTACTGTTTTAATCCACTCCACTGTAAC-TCTAGGGAGATAGGATTATC-GTCTTCA
66 GATAAGATCTATTATTTCAATCCACTCCACTGCAACTTC-AGGGAGATAGGATTATCAG-CTTCC
* *
52134210 ATCTGCTCCACTGCAACCACAGGGAGATAAGACTTGCTTCTTCGA
129 ATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * *
52134255 TCTACTCCGCTGCAACCTCAGGGAGATAACACCTGATGTGATATTCTCTGCTGCAACCTT-AGAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAA-CTTCAGAG
52134319 AGATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCA
65 AGATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCA
52134384 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
130 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* *
52134428 TCTACTCCGCTGCAACCTCAGGGAGATAAAACCTGATGTGATCTACTTTGCTGCAACTTCAGAGA
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGA
*
52134493 GATAAGATCTATTATTTCAAT-C-C-GCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCAT
66 GATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCAT
* * * *
52134555 CTGCTTCACTGCAACCTTAAGGAGATAAGACCTGTTTCTTCGA
131 CTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* *
52134598 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTAATGTGATCTACTCTGTTGCAACTTCAGAGA
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGA
* * * * *
52134663 AATAAGATCTATTATTTCAATCCGCTCTACTACAACTTCAGAGAGATAGGATTATCAGCTTCCAT
66 GATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCAT
* *
52134728 CTGCTCCACTGCAACCTCAGGGAGATAAGACCTG-AT-GT-GA
131 CTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * *
52134768 TCTACTCTGCTGCAACTTCAGAGAGATAAGA
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGA
52134799 TCTATTATTT
Statistics
Matches: 496, Mismatches: 41, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
170 188 0.38
171 3 0.01
172 6 0.01
173 294 0.59
174 5 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (173 bp):
TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGA
GATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCAT
CTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
Found at i:52134830 original size:173 final size:176
Alignment explanation
Indices: 52134082--52135056 Score: 881
Period size: 173 Copynumber: 5.7 Consensus size: 176
52134072 CCATTCTCAG
* * * * * * * * *
52134082 TCTACTCCTCTGAAACCTTAGGGAGATAAGACC--TGATGT-GATCTACTCTACTGCAAGTTTAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
* * * * *
52134144 AGAGATAAGATCTACTGTTTTAATCCACTCCACTGTAAC-TCTAGGGAGATAGGATTATC-GTCT
66 AGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTC-AGGGAGATAGGATTATCAG-CT
* * *
52134207 TCAATCTGCTCCACTGCAACCACAGGGAGATAAGACTTGCTTCTTCGA
129 TCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * * * **
52134255 TCTACTCCGCTGCAACCTCAGGGAGATAACACC--TGATGTGATAT-T-CTCTGCTGCAACCTT-
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCA-ATCTACTCCACTGCAA-CTTC
*
52134315 AGAGAGATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCT
64 AGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCT
52134380 TCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
129 TCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * * * ***
52134428 TCTACTCCGCTGCAACCTCAGGGAGATAAAACC--TGATGT-GATCTACTTTGCTGCAACTTCAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
52134490 AGAGATAAGATCTATTATTTCAATCCG---CACTGCAACTTCAGGGAGATAGGATTATCAGCTTC
66 AGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTC
* * * *
52134552 CATCTGCTTCACTGCAACCTTAAGGAGATAAGACCTGTTTCTTCGA
131 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * ***
52134598 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTA--ATGT-GATCTACTCTGTTGCAACTTCAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
* * * *
52134660 AGAAATAAGATCTATTATTTCAATCCGCTCTACTACAACTTCAGAGAGATAGGATTATCAGCTTC
66 AGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTC
* *
52134725 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTG-AT-GT-GA
131 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * * * * *
52134768 TCTACTCTGCTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
* * * * * * * * * * **
52134833 GGAGATAGGAT-TATCAGCTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCT-GCTTCT
66 AGAGATAAGATCTATTA-TTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTATCAGCT
** * ** * * ** * *
52134896 TTGATCTACTCTGCTGTAATCTCAGGGAGATAAGATTTG--ACGT-GA
129 TCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * * * * *
52134941 TCTACTCTGCTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCACTCCATTGCAACTTCAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
* * * * * ** * *
52135006 GGAGATAGGAT-TATCAGCTTCCATTTGCTCTACTGCAACCTCAGGGAGATA
66 AGAGATAAGATCTATTA-TTTCAATCCGCTCCACTGCAACTTCAGGGAGATA
52135057 AGACCTGATG
Statistics
Matches: 708, Mismatches: 75, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
170 193 0.27
171 3 0.00
172 12 0.02
173 491 0.69
174 7 0.01
175 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (176 bp):
TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
AGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTC
CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
Found at i:52134904 original size:302 final size:301
Alignment explanation
Indices: 52134422--52135144 Score: 1162
Period size: 302 Copynumber: 2.4 Consensus size: 301
52134412 AGACCTGCTT
* * * * *
52134422 CTTCGATCTACTCCGCTGCAACCTCAGGGAGATAAAACCTGATGTGATCTACTTTGCTGCAACTT
1 CTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
*
52134487 CAGAGAGATAAGATCTATTATTTCAAT-CC-GCACTGCAACTTCAGGGAGATAGGATTATCAGCT
66 CAGAGAGATAAGATCTATTATTTCAATCCCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCT
* * *
52134550 TCCATCTGCTTCACTGCAACCTTAAGGAGATAAGACCTGTTTCTTCGATCTACTCCGCTGCAACC
131 TCCATCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGCTTCTTCGATCTACTCCGCTGCAACC
* *
52134615 TCAGGGAGATAAGACCTAATGTGATCTACTCTGTTGCAACTTCAGAGAAATAAGATCTATTATTT
196 TCAGGGAGATAAGACCTAACGTGATCTACTCTGCTGCAACTTCAGAGAAATAAGATCTATTATTT
* *
52134680 CAATCCGCTCTACTACAACTTCAGAGAGATAGGATTATCAG
261 CAATCCACTCCACTACAACTTCAGAGAGATAGGATTATCAG
52134721 CTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
1 CTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
*
52134786 CAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGC
66 CAGAGAGATAAGATCTATTATTTCAATCC-CTCCACTGCAACTTCAGGGAGATAGGATTATCAGC
* * * * *
52134851 TTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTTGATCTACTCTGCTGTAAT
130 TTCCATCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGCTTCTTCGATCTACTCCGCTGCAAC
** * *
52134916 CTCAGGGAGATAAGATTTGACGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCTATTATT
195 CTCAGGGAGATAAGACCTAACGTGATCTACTCTGCTGCAACTTCAGAGAAATAAGATCTATTATT
* * *
52134981 TCAATCCACTCCATTGCAACTTCAGGGAGATAGGATTATCAG
260 TCAATCCACTCCACTACAACTTCAGAGAGATAGGATTATCAG
* *
52135023 CTTCCATTTGCTCTACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
1 CTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
52135088 CAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
66 CAGAGAGATAAGATCTATTATTTCAATCC-CTCCACTGCAACTTCAGGGAGATAGGA
52135145 CTTGGTGCGA
Statistics
Matches: 391, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
299 87 0.22
300 1 0.00
301 1 0.00
302 302 0.77
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (301 bp):
CTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
CAGAGAGATAAGATCTATTATTTCAATCCCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCT
TCCATCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGCTTCTTCGATCTACTCCGCTGCAACC
TCAGGGAGATAAGACCTAACGTGATCTACTCTGCTGCAACTTCAGAGAAATAAGATCTATTATTT
CAATCCACTCCACTACAACTTCAGAGAGATAGGATTATCAG
Found at i:52135057 original size:173 final size:169
Alignment explanation
Indices: 52134736--52135103 Score: 583
Period size: 173 Copynumber: 2.1 Consensus size: 169
52134726 ATCTGCTCCA
* *
52134736 CTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATC
1 CTGCAA-CTCAGGGAGATAAGATCTGACGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATC
52134801 TATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCCATCTGCTCCAC
65 TATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCCATCTGCTCCAC
* *
52134866 TGCAACCTCAGGGAGATAAGACCTGCTTCTTTGATCTACTCTG
130 TGCAACCTCAGGGAGATAAGACCTG---ATGTGATCTACTCTG
* *
52134909 CTGTAATCTCAGGGAGATAAGATTTGACGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATC
1 CTGCAA-CTCAGGGAGATAAGATCTGACGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATC
* * * *
52134974 TATTATTTCAATCCACTCCATTGCAACTTCAGGGAGATAGGATTATCAGCTTCCATTTGCTCTAC
65 TATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCCATCTGCTCCAC
52135039 TGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTG
130 TGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTG
*
52135079 CTGCAACTTCAGAGAGATAAGATCT
1 CTGCAAC-TCAGGGAGATAAGATCT
52135104 ATTATTTCAA
Statistics
Matches: 180, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
169 1 0.01
170 33 0.18
173 146 0.81
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (169 bp):
CTGCAACTCAGGGAGATAAGATCTGACGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCT
ATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCCATCTGCTCCACT
GCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTG
Found at i:52139943 original size:8 final size:8
Alignment explanation
Indices: 52139930--52139954 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52139920 ACTTGCATGG
52139930 AAAGAATA
1 AAAGAATA
52139938 AAAGAATA
1 AAAGAATA
52139946 AAAGAATA
1 AAAGAATA
52139954 A
1 A
52139955 TTGCCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAGAATA
Found at i:52143035 original size:8 final size:8
Alignment explanation
Indices: 52143022--52143058 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
52143012 AATAATGATT
52143022 TTTTAGAA
1 TTTTAGAA
52143030 TTTTAGAA
1 TTTTAGAA
52143038 TTTTAGAA
1 TTTTAGAA
52143046 TTTTAGAA
1 TTTTAGAA
52143054 TTTTA
1 TTTTA
52143059 ATATTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (8 bp):
TTTTAGAA
Found at i:52147105 original size:23 final size:23
Alignment explanation
Indices: 52147075--52147119 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
52147065 CAATAATACC
* * *
52147075 TTTATGGCGTATTCTGTCTGGCA
1 TTTATGGCATAATCTGTATGGCA
52147098 TTTATGGCATAATCTGTATGGC
1 TTTATGGCATAATCTGTATGGC
52147120 TTATGTGGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.42
Consensus pattern (23 bp):
TTTATGGCATAATCTGTATGGCA
Found at i:52147148 original size:21 final size:21
Alignment explanation
Indices: 52147124--52147184 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
52147114 TATGGCTTAT
*
52147124 GTGGCATTCT-ATTTGGCCTTC
1 GTGGCATTCTGA-TTAGCCTTC
*
52147145 GTGGCATTGTGATTAGCCTTC
1 GTGGCATTCTGATTAGCCTTC
*
52147166 GTGGCATTTTG-TTAGCCTT
1 GTGGCATTCTGATTAGCCTT
52147185 TATGGTGTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.22
21 27 0.75
22 1 0.03
ACGTcount: A:0.11, C:0.20, G:0.26, T:0.43
Consensus pattern (21 bp):
GTGGCATTCTGATTAGCCTTC
Found at i:52147182 original size:20 final size:21
Alignment explanation
Indices: 52147139--52147184 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
52147129 ATTCTATTTG
52147139 GCCTTCGTGGCATTGTGATTA
1 GCCTTCGTGGCATTGTGATTA
*
52147160 GCCTTCGTGGCATTTTG-TTA
1 GCCTTCGTGGCATTGTGATTA
52147180 GCCTT
1 GCCTT
52147185 TATGGTGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.11, C:0.22, G:0.26, T:0.41
Consensus pattern (21 bp):
GCCTTCGTGGCATTGTGATTA
Found at i:52151765 original size:37 final size:37
Alignment explanation
Indices: 52151722--52151795 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
52151712 AATTACCTAT
52151722 AAATTTGGAGATGGCCAAATGGTTGAAAGCTTGAAGC
1 AAATTTGGAGATGGCCAAATGGTTGAAAGCTTGAAGC
52151759 AAATTTGGAGATGGCCAAATGGTTGAAAGCTTGAAGC
1 AAATTTGGAGATGGCCAAATGGTTGAAAGCTTGAAGC
52151796 TTTCTCTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (37 bp):
AAATTTGGAGATGGCCAAATGGTTGAAAGCTTGAAGC
Found at i:52156427 original size:159 final size:162
Alignment explanation
Indices: 52156136--52156452 Score: 415
Period size: 165 Copynumber: 2.0 Consensus size: 162
52156126 GAAAAATATG
* * *
52156136 TATATTCCTTCTATAAAGATTTGATCCTTTTGCTATCCAACCTTTTAAAATTATTGTTTTATCTC
1 TATATTCCTTCCATAAAGATTTGATCCTTTTGCTATCCAACCTTTTAAAATTATTATTTTATCTA
* * * * *
52156201 TATTATAATAATCATTCAAGTGAATTAATGTCACAAGTTAATCGGGTAACAATTTAATTGAAAAA
66 TATTATAATAA-CATT--A-TAAATGAATGTCACAAGTTAATCGAGTAACAATTCAATTAAAAAA
*
52156266 TGGTTAAAATCTTA-TTTTAATTAAATATTCAAATT
127 TGGTTAAAATCTTATTTTTAATCAAATATTCAAATT
* * * * * * *
52156301 TATATTCTTTCCATAAATATTTTATTCTTTTGTTGTCCATCCTTTTAAAATTATTATTTTATCTA
1 TATATTCCTTCCATAAAGATTTGATCCTTTTGCTATCCAACCTTTTAAAATTATTATTTTATCTA
* *
52156366 TGTTATAATAA-ATT-TAAATGAGTGTCACAAGTTAATCGAGTAACAATTCAATTAAAAAATGGT
66 TATTATAATAACATTATAAATGAATGTCACAAGTTAATCGAGTAACAATTCAATTAAAAAATGGT
52156429 TAAAATCTTATTTTTAATCAAATA
131 TAAAATCTTATTTTTAATCAAATA
52156453 ATATAGGGAT
Statistics
Matches: 133, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
159 53 0.40
160 12 0.09
163 3 0.02
165 65 0.49
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (162 bp):
TATATTCCTTCCATAAAGATTTGATCCTTTTGCTATCCAACCTTTTAAAATTATTATTTTATCTA
TATTATAATAACATTATAAATGAATGTCACAAGTTAATCGAGTAACAATTCAATTAAAAAATGGT
TAAAATCTTATTTTTAATCAAATATTCAAATT
Found at i:52156726 original size:29 final size:30
Alignment explanation
Indices: 52156682--52156739 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
52156672 AAATTGAATC
52156682 AAATCAAAATATTATGTATAAAATTACACA
1 AAATCAAAATATTATGTATAAAATTACACA
*
52156712 AAATCAAAAT-TTATGTATAATATTACAC
1 AAATCAAAATATTATGTATAAAATTACAC
52156740 GTTAAACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (30 bp):
AAATCAAAATATTATGTATAAAATTACACA
Found at i:52157103 original size:30 final size:31
Alignment explanation
Indices: 52157067--52157125 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
52157057 GTATTAAAAG
52157067 AAATCATATATTAAAAGAAATAAC-AATTTT
1 AAATCATATATTAAAAGAAATAACTAATTTT
* *
52157097 AAATCATGTATTAAAATAAATAACTAATT
1 AAATCATATATTAAAAGAAATAACTAATT
52157126 ACTTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (31 bp):
AAATCATATATTAAAAGAAATAACTAATTTT
Found at i:52158624 original size:34 final size:33
Alignment explanation
Indices: 52158499--52158614 Score: 133
Period size: 34 Copynumber: 3.4 Consensus size: 33
52158489 TTTTAAAAAA
* *
52158499 TAAATCAGGGTTTACAATTTTTTAAAAAATTAAT
1 TAAATTAGGGTTTAC-AGTTTTTAAAAAATTAAT
* ** *
52158533 TAAATTAGGTTTTAGGGATTTTAAATAAATTAAT
1 TAAATTAGGGTTTACAGTTTTTAAA-AAATTAAT
* *
52158567 TAAATTAAGGTTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTACAGTTTTTAA-AAAATTAAT
52158601 TAAATTAGGGTTTA
1 TAAATTAGGGTTTA
52158615 ATTTTTTTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
33 7 0.10
34 61 0.88
35 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (33 bp):
TAAATTAGGGTTTACAGTTTTTAAAAAATTAAT
Found at i:52158942 original size:126 final size:124
Alignment explanation
Indices: 52158715--52159359 Score: 781
Period size: 126 Copynumber: 5.1 Consensus size: 124
52158705 ATTTTATTTT
* * * * *
52158715 TTTTTCTACAGTAGTTTCAGAAAAATTAATTTTGAGAAGATGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAG-TTCATAAAAA-AAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * *
52158780 ACACTACAAACAGGATGCACTGTCAACAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
64 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
52158841 TCTTTCTACAGTAGTTCATAAAAAACACATTTTGAGAAGAAGGTTCTGAAAATATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCATAAAAAA-A-ATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * *
52158906 ACGCTTCAAGCAGGATGCACTGTTAGCAAAATTACTAAAAAAAGCTCCCACGTAGACGCTC
64 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
52158967 TCTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCAT-AAAAAA-AATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
** * *
52159032 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTTCCACGTGGACGCTT
64 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
52159093 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTAAAAAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCAT-AAAAAA-AATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * *
52159158 ATGTTTCAAGAAAGATGCACTATCAACAAAATTACTGAAAAAAGCTCCCATGTGGAAGCTC
64 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* ** * * *
52159219 TTTTTCTACGGTAGTT-ACTGAAAAATGATTTTGAGAATACGATTCTG-AAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCA-T-AAAAAAAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * *
52159282 ACACTCCAAGTAGGATGCACTGTCAACAAAATTACTGAAAAAATCTCCCACGTGAACGCTC
64 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
52159343 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
52159360 TTGCTTGGCC
Statistics
Matches: 454, Mismatches: 60, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
124 80 0.18
125 27 0.06
126 340 0.75
127 7 0.02
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTCATAAAAAAAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAAC
GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:52167170 original size:15 final size:15
Alignment explanation
Indices: 52167152--52167186 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52167142 TTCTGCATGA
52167152 TATTACTGTATCTGT
1 TATTACTGTATCTGT
*
52167167 TATTTCTGTATCTGT
1 TATTACTGTATCTGT
*
52167182 GATTA
1 TATTA
52167187 AGGTGGGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (15 bp):
TATTACTGTATCTGT
Found at i:52175245 original size:24 final size:24
Alignment explanation
Indices: 52175187--52175245 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
52175177 TTCTAATTAA
**
52175187 ATTTTATAAATATTTATTATTTAT
1 ATTTTATAAATATTTAAAATTTAT
* *
52175211 -TGCTTAAAAATATTTAAAATTTAT
1 AT-TTTATAAATATTTAAAATTTAT
52175235 ATTTTATAAAT
1 ATTTTATAAAT
52175246 TAAATTATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.93
25 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTATAAATATTTAAAATTTAT
Found at i:52181919 original size:20 final size:23
Alignment explanation
Indices: 52181896--52181950 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 23
52181886 TTTTTTAATA
52181896 ATTTTTGAATTTTTAA-A-A-AT
1 ATTTTTGAATTTTTAATATATAT
**
52181916 ATTTTTTTATTTTTAATATATAT
1 ATTTTTGAATTTTTAATATATAT
52181939 ATTTTTAGAATT
1 ATTTTT-GAATT
52181951 AAGTCTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 14 0.52
21 1 0.04
22 1 0.04
23 8 0.30
24 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
ATTTTTGAATTTTTAATATATAT
Found at i:52181921 original size:21 final size:23
Alignment explanation
Indices: 52181891--52181950 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
52181881 AATCATTTTT
*
52181891 TAATAATTTTTGAATTTTTAA-A
1 TAATATTTTTTGAATTTTTAATA
*
52181913 -AATATTTTTT-TATTTTTAATA
1 TAATATTTTTTGAATTTTTAATA
*
52181934 TATATATTTTTAGAATT
1 TA-ATATTTTTTGAATT
52181951 AAGTCTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 8 0.27
21 10 0.33
22 1 0.03
23 8 0.27
24 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (23 bp):
TAATATTTTTTGAATTTTTAATA
Found at i:52181936 original size:19 final size:19
Alignment explanation
Indices: 52181887--52181936 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
52181877 TATAAATCAT
52181887 TTTTTAATA-ATTTTTGAA
1 TTTTTAATATATTTTTGAA
* **
52181905 TTTTTAAAAATATTTTTTTA
1 TTTTT-AATATATTTTTGAA
52181925 TTTTTAATATAT
1 TTTTTAATATAT
52181937 ATATTTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.19
19 9 0.35
20 12 0.46
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAATATATTTTTGAA
Found at i:52183469 original size:22 final size:22
Alignment explanation
Indices: 52183443--52183484 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
52183433 ATTTTAAATA
52183443 CATTTATTT-TATTATATCATGT
1 CATTTATTTAT-TTATATCATGT
52183465 CATTTATTTATTTATATCAT
1 CATTTATTTATTTATATCAT
52183485 TTTAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (22 bp):
CATTTATTTATTTATATCATGT
Found at i:52195532 original size:44 final size:45
Alignment explanation
Indices: 52195454--52195558 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
52195444 ATAGCAAACC
* * ** *
52195454 TTATCTCCCCGAAGTTACAGTGGAGGAGGTTGAAGTTA-C-AAGTA
1 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAA-TA
*
52195498 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATA
*
52195543 TTATTTCCCTGAAGTT
1 TTATCTCCCTGAAGTT
52195559 GTAGTGGAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 33 0.63
45 17 0.33
46 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATA
Found at i:52195646 original size:40 final size:40
Alignment explanation
Indices: 52195591--52195752 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 40
52195581 TAAAATACAG
*
52195591 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATATCA
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCATATCA
* * * * *
52195631 ATCTTATCTCCCTAAATTTGTAGTGGAATAGGCTAAAGTTATAAATTACA
1 ATCTTATCTCCCTAAAGTTGCAGT---AGA-GC-AGA-TCAT--A-T-CA
* *
52195681 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCA
1 -ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCATATCA
*
52195722 ATCTTATCTCCCTGAAA-TTGCAGTGGAGCAG
1 ATCTTATCTCCCT-AAAGTTGCAGTAGAGCAG
52195753 GTTGGAGTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
40 46 0.49
41 4 0.04
42 1 0.01
43 3 0.03
44 2 0.02
45 5 0.05
46 5 0.05
47 2 0.02
48 3 0.03
49 1 0.01
50 2 0.02
51 20 0.21
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (40 bp):
ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCATATCA
Found at i:52195658 original size:91 final size:90
Alignment explanation
Indices: 52195539--52195748 Score: 303
Period size: 91 Copynumber: 2.3 Consensus size: 90
52195529 GAAGATAGCG
* * *
52195539 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAACTATAAAATACAGATCTTATCTCTCT
1 AATCTTATCTCCCT-AAATTGTAGTGGAACAGACTAAAACTATAAAATACAGATCTTATCTCTCT
52195604 AAAGTTGCAGTAGAGCAGATCATATC
65 AAAGTTGCAGTAGAGCAGATCATATC
* * ** *
52195630 AATCTTATCTCCCTAAATTTGTAGTGGAATAGGCTAAAGTTATAAATTACAGATCTTATCTCTCT
1 AATCTTATCTCCCTAAA-TTGTAGTGGAACAGACTAAAACTATAAAATACAGATCTTATCTCTCT
*
52195695 GAAGTTGCAGTAGAGCAGATCATATC
65 AAAGTTGCAGTAGAGCAGATCATATC
*
52195721 AATCTTATCTCCCTGAAATTGCAGTGGA
1 AATCTTATCTCCCT-AAATTGTAGTGGA
52195749 GCAGGTTGGA
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
90 2 0.02
91 102 0.95
92 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (90 bp):
AATCTTATCTCCCTAAATTGTAGTGGAACAGACTAAAACTATAAAATACAGATCTTATCTCTCTA
AAGTTGCAGTAGAGCAGATCATATC
Found at i:52195787 original size:44 final size:44
Alignment explanation
Indices: 52195731--52195847 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 44
52195721 AATCTTATCT
* * *
52195731 CCCTGAAATTGCAGTGGAGCAGGTTGGAGTTACAAAGCTTA-TA
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAAGCTTATTA
* * * *
52195774 CCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTATAGATCTTATTT
1 CCC-TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAAGCTTATTA
* * *
52195819 CCCTAAAGTTGCAGTGGAGTAGATCGAAG
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAG
52195848 CAACAATTCT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.05
44 55 0.89
45 4 0.06
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAAGCTTATTA
Found at i:52198687 original size:19 final size:19
Alignment explanation
Indices: 52198652--52198704 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
52198642 ATAAAATATT
*
52198652 AAGAGTATTACTTAATGTTTA
1 AAGATTATTA-TTAATG-TTA
52198673 AA-ATTATTATTAATGTTA
1 AAGATTATTATTAATGTTA
*
52198691 AAGTTTATTATTAA
1 AAGATTATTATTAA
52198705 AATAAATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 5 0.17
19 16 0.55
20 6 0.21
21 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (19 bp):
AAGATTATTATTAATGTTA
Found at i:52198898 original size:14 final size:15
Alignment explanation
Indices: 52198881--52198910 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
52198871 TATAATTCAC
52198881 TACATATTTAT-TTT
1 TACATATTTATGTTT
52198895 TACATATTTATGTTT
1 TACATATTTATGTTT
52198910 T
1 T
52198911 TCAACCACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (15 bp):
TACATATTTATGTTT
Found at i:52199872 original size:28 final size:30
Alignment explanation
Indices: 52199827--52199892 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 30
52199817 AAAAAGGGGC
52199827 AATTTACCAAAAAAAGCC-ATTTTTTTTA-
1 AATTTACCAAAAAAAGCCGATTTTTTTTAT
* **
52199855 AATTTACCGAAATGAGCCGATTTTTTTTAT
1 AATTTACCAAAAAAAGCCGATTTTTTTTAT
*
52199885 TATTTACC
1 AATTTACC
52199893 CGAATGGGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 15 0.47
29 10 0.31
30 7 0.22
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (30 bp):
AATTTACCAAAAAAAGCCGATTTTTTTTAT
Found at i:52200303 original size:14 final size:14
Alignment explanation
Indices: 52200280--52200309 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52200270 ATTTGGCTTT
*
52200280 TTTTATAAAATTAA
1 TTTTAAAAAATTAA
52200294 TTTTAAAAAATTAA
1 TTTTAAAAAATTAA
52200308 TT
1 TT
52200310 AATTATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTAAAAAATTAA
Found at i:52200632 original size:23 final size:23
Alignment explanation
Indices: 52200606--52200738 Score: 96
Period size: 23 Copynumber: 5.8 Consensus size: 23
52200596 CATTTTTCTA
52200606 TTTTTTAATTTGTTTATTATTTG
1 TTTTTTAATTTGTTTATTATTTG
* *
52200629 TTTTTTAAATTATTTATTATTTG
1 TTTTTTAATTTGTTTATTATTTG
* * *
52200652 TTTTATAATAT-TTTA--A-ATG
1 TTTTTTAATTTGTTTATTATTTG
* **
52200671 TTTTATAATATTTGTTTATTCAAAT-
1 TTTT-TTA-ATTTGTTTATT-ATTTG
*
52200696 TTTTTTAATTTTTTTATTATTTG
1 TTTTTTAATTTGTTTATTATTTG
*
52200719 TTTTATAATATTTGTTTATT
1 TTTT-TTA-ATTTGTTTATT
52200739 CATACGTTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
19 6 0.07
20 2 0.02
21 3 0.04
22 10 0.12
23 43 0.51
24 4 0.05
25 15 0.18
26 2 0.02
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTTTTAATTTGTTTATTATTTG
Found at i:52200749 original size:48 final size:48
Alignment explanation
Indices: 52200607--52200749 Score: 147
Period size: 48 Copynumber: 3.1 Consensus size: 48
52200597 ATTTTTCTAT
* * * *
52200607 TTTTTAATTTGTTTATTATTTGTTTTTTAA-A-TTATTTATT-ATTTG
1 TTTTTAATTTTTTTATTATTTGTTTTATAATATTTGTTTATTCATATG
* * * *
52200652 TTTTATAA-TATTTTA--A-ATGTTTTATAATATTTGTTTATTCAAATT
1 TTTT-TAATTTTTTTATTATTTGTTTTATAATATTTGTTTATTCATATG
*
52200697 TTTTTAATTTTTTTATTATTTGTTTTATAATATTTGTTTATTCATACG
1 TTTTTAATTTTTTTATTATTTGTTTTATAATATTTGTTTATTCATATG
52200745 TTTTT
1 TTTTT
52200750 CAGAAAATAT
Statistics
Matches: 77, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
42 9 0.12
43 2 0.03
44 11 0.14
45 21 0.27
46 3 0.04
47 1 0.01
48 30 0.39
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (48 bp):
TTTTTAATTTTTTTATTATTTGTTTTATAATATTTGTTTATTCATATG
Found at i:52206577 original size:20 final size:20
Alignment explanation
Indices: 52206554--52206591 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52206544 AATGTTAAAT
* *
52206554 TATATAAATTAAAATTAGCA
1 TATAAAAATGAAAATTAGCA
52206574 TATAAAAATGAAAATTAG
1 TATAAAAATGAAAATTAG
52206592 AAGGTAAGGT
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:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (20 bp):
TATAAAAATGAAAATTAGCA
Found at i:52207822 original size:22 final size:22
Alignment explanation
Indices: 52207787--52207829 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
52207777 ATTTTCTAAC
*
52207787 AGATTTAATAAATAAATTCAAG
1 AGATTAAATAAATAAATTCAAG
*
52207809 AGATTAAATGAATAAATTCAA
1 AGATTAAATAAATAAATTCAA
52207830 TGTTTCAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (22 bp):
AGATTAAATAAATAAATTCAAG
Found at i:52208546 original size:13 final size:14
Alignment explanation
Indices: 52208521--52208551 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
52208511 TGATGTGTTT
52208521 TAAACTAAATTTAC
1 TAAACTAAATTTAC
52208535 TAAACT-AATTTAC
1 TAAACTAAATTTAC
52208548 TAAA
1 TAAA
52208552 AACTCAACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAACTAAATTTAC
Found at i:52214661 original size:23 final size:24
Alignment explanation
Indices: 52214617--52214662 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
52214607 TTTCTCACAT
* **
52214617 TTTCAAGTCAATCATTTTTCCACC
1 TTTCAAGTCAATAATTAATCCACC
52214641 TTTCAA-TCAATAATTAATCCAC
1 TTTCAAGTCAATAATTAATCCAC
52214663 AAACTCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (24 bp):
TTTCAAGTCAATAATTAATCCACC
Found at i:52214816 original size:3 final size:3
Alignment explanation
Indices: 52214808--52214833 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
52214798 TCACTCATCT
52214808 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
52214834 CTTACCTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:52215471 original size:17 final size:17
Alignment explanation
Indices: 52215437--52215470 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
52215427 GAATGGTCTC
*
52215437 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
52215454 TGTTTCTTTTATT-TTT
1 TGTTTCTTTTATTCTTT
52215470 T
1 T
52215471 TATTTTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:52215524 original size:22 final size:24
Alignment explanation
Indices: 52215496--52215542 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
52215486 ATGTATTAGT
52215496 TAATAAT-A-ATAACAATATATTA
1 TAATAATCATATAACAATATATTA
* *
52215518 TAATAATCATATAATAATATTTTA
1 TAATAATCATATAACAATATATTA
52215542 T
1 T
52215543 TCACAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 13 0.62
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATAATCATATAACAATATATTA
Found at i:52230249 original size:72 final size:72
Alignment explanation
Indices: 52230132--52230299 Score: 223
Period size: 72 Copynumber: 2.3 Consensus size: 72
52230122 TCTCTAAATC
* *
52230132 TGTTTCTTCCCCTA-CTGCTGATGACTTTCTTTCTGCAGCCATTGAAGACGTTTCTTTTTCAGCC
1 TGTTTCTTCCCC-AGTTGCTGATGACCTTCTTTCTGCAGCCATTGAAGACGTTTCTTTTTCAGCC
52230196 ATTGAAGA
65 ATTGAAGA
* * * *
52230204 TGTTTCTTCCCCAGTTGCTGATGACGCTTGTTT-TTCAGTCATTGAAGGCGTTTCTTTTTCAGCC
1 TGTTTCTTCCCCAGTTGCTGATGAC-CTTCTTTCTGCAGCCATTGAAGACGTTTCTTTTTCAGCC
*
52230268 ATTGAAGT
65 ATTGAAGA
* *
52230276 TGTTTCTGCCCCTGTTGCTGATGA
1 TGTTTCTTCCCCAGTTGCTGATGA
52230300 GTCTCCTTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 1 0.01
72 79 0.93
73 5 0.06
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (72 bp):
TGTTTCTTCCCCAGTTGCTGATGACCTTCTTTCTGCAGCCATTGAAGACGTTTCTTTTTCAGCCA
TTGAAGA
Found at i:52230282 original size:24 final size:24
Alignment explanation
Indices: 52230157--52230274 Score: 101
Period size: 24 Copynumber: 4.9 Consensus size: 24
52230147 TGCTGATGAC
*
52230157 TTTCTTTCTGCAGCCATTGAAGACG
1 TTTCTTT-TTCAGCCATTGAAGACG
*
52230182 TTTCTTTTTCAGCCATTGAAGATG
1 TTTCTTTTTCAGCCATTGAAGACG
*** **** *
52230206 TTTCTTCCCCAGTTGCTGATGACG
1 TTTCTTTTTCAGCCATTGAAGACG
* * * *
52230230 CTTGTTTTTCAGTCATTGAAGGCG
1 TTTCTTTTTCAGCCATTGAAGACG
52230254 TTTCTTTTTCAGCCATTGAAG
1 TTTCTTTTTCAGCCATTGAAG
52230275 TTGTTTCTGC
Statistics
Matches: 69, Mismatches: 24, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
24 62 0.90
25 7 0.10
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.42
Consensus pattern (24 bp):
TTTCTTTTTCAGCCATTGAAGACG
Found at i:52230310 original size:72 final size:72
Alignment explanation
Indices: 52230167--52230323 Score: 226
Period size: 72 Copynumber: 2.2 Consensus size: 72
52230157 TTTCTTTCTG
*
52230167 CAGCCATTGAAGACGTTTCTTTTTCAGCCATTGAAGATGTTTCTTCCCCAGTTGCTGATGACGCT
1 CAGCCATTGAAGACGTTTCTTTTTCAGCCATTGAAGATGTTTCTGCCCCAGTTGCTGATGACGCT
**
52230232 TGTTTTT
66 CCTTTTT
* * * *
52230239 CAGTCATTGAAGGCGTTTCTTTTTCAGCCATTGAAGTTGTTTCTGCCCCTGTTGCTGATGA-GTC
1 CAGCCATTGAAGACGTTTCTTTTTCAGCCATTGAAGATGTTTCTGCCCCAGTTGCTGATGACG-C
52230303 TCCTTTTT
65 TCCTTTTT
*
52230311 CAGCCATTTAAGA
1 CAGCCATTGAAGA
52230324 AGAAAAGAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
71 1 0.01
72 73 0.99
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (72 bp):
CAGCCATTGAAGACGTTTCTTTTTCAGCCATTGAAGATGTTTCTGCCCCAGTTGCTGATGACGCT
CCTTTTT
Found at i:52232733 original size:13 final size:13
Alignment explanation
Indices: 52232715--52232739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52232705 TATTTTAATA
52232715 TTATTTTGTGTGT
1 TTATTTTGTGTGT
52232728 TTATTTTGTGTG
1 TTATTTTGTGTG
52232740 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:52233850 original size:114 final size:114
Alignment explanation
Indices: 52233719--52233940 Score: 408
Period size: 114 Copynumber: 1.9 Consensus size: 114
52233709 ATCAGCATAT
* *
52233719 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
1 ATATATACGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
52233784 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
* *
52233833 ATATATACGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGT
1 ATATATACGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
52233898 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
52233941 GTATATATGA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.40
Consensus pattern (114 bp):
ATATATACGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
Found at i:52234476 original size:41 final size:41
Alignment explanation
Indices: 52234427--52234530 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
52234417 GACTTTACGT
*
52234427 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
52234468 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
52234509 TTAGCAGGTTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
52234531 ATATGTTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:52236424 original size:15 final size:16
Alignment explanation
Indices: 52236393--52236425 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52236383 ATATCCTTTT
*
52236393 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
52236409 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
52236424 AA
1 AA
52236426 GGCAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:52237730 original size:17 final size:17
Alignment explanation
Indices: 52237676--52237734 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
52237666 GAAATTAATA
52237676 TTTTAAATATTTTTTAT
1 TTTTAAATATTTTTTAT
** *
52237693 ATTTATATAA-ATCATTGAT
1 -TTT-TA-AATATTTTTTAT
52237712 TTTTAAATATTTTTTAT
1 TTTTAAATATTTTTTAT
52237729 TTTTAA
1 TTTTAA
52237735 TAATTCATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
16 2 0.06
17 14 0.44
18 6 0.19
19 8 0.25
20 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTAAATATTTTTTAT
Found at i:52237746 original size:34 final size:36
Alignment explanation
Indices: 52237676--52237746 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
52237666 GAAATTAATA
52237676 TTTTAAATATTTTTTATATTTATATAAATCATTGAT
1 TTTTAAATATTTTTTATATTTATATAAATCATTGAT
* *
52237712 TTTTAAATATTTTTTATTTTTA-ATAATTCA-TGAT
1 TTTTAAATATTTTTTATATTTATATAAATCATTGAT
52237746 T
1 T
52237747 AAATTAGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 5 0.15
35 7 0.21
36 21 0.64
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (36 bp):
TTTTAAATATTTTTTATATTTATATAAATCATTGAT
Found at i:52254870 original size:21 final size:22
Alignment explanation
Indices: 52254832--52254873 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
52254822 AAAAACAAGA
*
52254832 ATAAATAATTGTCATCTTAATC
1 ATAAACAATTGTCATCTTAATC
52254854 ATAAACAATTG-CATCTTAAT
1 ATAAACAATTGTCATCTTAAT
52254874 TCCTTCAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAAACAATTGTCATCTTAATC
Found at i:52260315 original size:37 final size:37
Alignment explanation
Indices: 52260265--52260356 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
52260255 TTAAACTTTT
* *
52260265 CCTCATGTTTCAAGTTATGACGGTCCGCTGGACTTGC
1 CCTCATGTTTCAAGTTATGACGATCCGCTAGACTTGC
** *
52260302 CCTCATGTTTCAAGTTATGACGATTTGCTAGACTTTC
1 CCTCATGTTTCAAGTTATGACGATCCGCTAGACTTGC
* *
52260339 CCACATATTTCAAGTTAT
1 CCTCATGTTTCAAGTTAT
52260357 AACAGTTCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (37 bp):
CCTCATGTTTCAAGTTATGACGATCCGCTAGACTTGC
Found at i:52260613 original size:26 final size:26
Alignment explanation
Indices: 52260584--52260690 Score: 117
Period size: 26 Copynumber: 4.1 Consensus size: 26
52260574 AATAGTCTAT
52260584 AAGGACTATTTCAAGTATGAGTCCGC
1 AAGGACTATTTCAAGTATGAGTCCGC
* *
52260610 AAGGACTATTTCATGTATGAGTCTGC
1 AAGGACTATTTCAAGTATGAGTCCGC
* * **
52260636 -AGATACTATTTCAAGCATGAGTCCAA
1 AAG-GACTATTTCAAGTATGAGTCCGC
* *
52260662 AAAGACTATTATCAAGTATGAGTCTGC
1 AAGGACTATT-TCAAGTATGAGTCCGC
52260689 AA
1 AA
52260691 AGATTTCTTA
Statistics
Matches: 64, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
25 2 0.03
26 47 0.73
27 15 0.23
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (26 bp):
AAGGACTATTTCAAGTATGAGTCCGC
Found at i:52260644 original size:52 final size:53
Alignment explanation
Indices: 52260588--52260689 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
52260578 GTCTATAAGG
* ** * *
52260588 ACTATTTCAAGTATGAGTCCGCAAGGACTATT-TCATGTATGAGTCTGCAGAT
1 ACTATTTCAAGCATGAGTCCAAAAAGACTATTATCAAGTATGAGTCTGCAGAT
52260640 ACTATTTCAAGCATGAGTCCAAAAAGACTATTATCAAGTATGAGTCTGCA
1 ACTATTTCAAGCATGAGTCCAAAAAGACTATTATCAAGTATGAGTCTGCA
52260690 AAGATTTCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 28 0.64
53 16 0.36
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (53 bp):
ACTATTTCAAGCATGAGTCCAAAAAGACTATTATCAAGTATGAGTCTGCAGAT
Found at i:52272297 original size:172 final size:175
Alignment explanation
Indices: 52271935--52272344 Score: 558
Period size: 184 Copynumber: 2.3 Consensus size: 175
52271925 AAAATACATA
* * * * *
52271935 TATAAAGTGTTTAAGAAAATATATTAATGGTTGAATTTTGATATTTTGATTTCATATATAAAACC
1 TATAAAGTCTTTAAGAAAACATATAAATGGTTAAATTTTGATATTTTGATTTGATATATAAAACC
*
52272000 ATTTGATCATGTCTTGTCTCTTGTACACGATGACTTAGTTGAGGATGGCCAGAACAACACGACTT
66 ATTTGATCATGTCTTGTCTCTTGTACACGATGACTTAGTCGAGGATGGCCAGAACAACACGACTT
* * *
52272065 TAGTGTAATGGATTAATTTGCTTTATTTACCAAAAAAAACCATATATATATATT
131 TAATGTAATGGATTAATTTACTTTATTT---------AACCATATATATATATC
*
52272119 TATAAAGTCTTTAAGAAAACATATAAATGGTTAAATTTTGATATTTTGATTTGATATATAAAATC
1 TATAAAGTCTTTAAGAAAACATATAAATGGTTAAATTTTGATATTTTGATTTGATATATAAAACC
* * *
52272184 ATTTGATTATGTCTTGTCTCTTGTTCATGATGACTT-GATCGAGGATGGCCAGAACAACACGACT
66 ATTTGATCATGTCTTGTCTCTTGTACACGATGACTTAG-TCGAGGATGGCCAGAACAACACGACT
*
52272248 TTAATTTAATGGATTAATTTACTTTATTT-A-CA-ATATATATATC
130 TTAATGTAATGGATTAATTTACTTTATTTAACCATATATATATATC
* *
52272291 TATAAAGTCTTTACGAAAGCATATAAATGGTTAAATTTTGATATTTTGATTTGA
1 TATAAAGTCTTTAAGAAAACATATAAATGGTTAAATTTTGATATTTTGATTTGA
52272345 AAATTTAAGT
Statistics
Matches: 209, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
172 62 0.30
173 2 0.01
174 1 0.00
183 1 0.00
184 143 0.68
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.40
Consensus pattern (175 bp):
TATAAAGTCTTTAAGAAAACATATAAATGGTTAAATTTTGATATTTTGATTTGATATATAAAACC
ATTTGATCATGTCTTGTCTCTTGTACACGATGACTTAGTCGAGGATGGCCAGAACAACACGACTT
TAATGTAATGGATTAATTTACTTTATTTAACCATATATATATATC
Found at i:52274766 original size:26 final size:26
Alignment explanation
Indices: 52274732--52274890 Score: 111
Period size: 26 Copynumber: 6.4 Consensus size: 26
52274722 TGGCTATCCG
*
52274732 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAGGCTCTTTGT
* *
52274757 GAGCTTCCTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTTGT
* * * *
52274783 GAACTTCCTGATT-ATGACTC-TTAT
1 GAGCTTCCTGATTAAAGGCTCTTTGT
****
52274807 GAGCTTCCTG-TTATATA-GC-CCGAAT
1 GAGCTTCCTGATTA-A-AGGCTCTTTGT
* *
52274832 AAGCTTTCTGA-T--AGGCTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTTGT
*
52274855 GAGCTTCCTGATTAATGGCTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTTGT
52274881 GAGCTTCCTG
1 GAGCTTCCTG
52274891 TTATATGGCT
Statistics
Matches: 100, Mismatches: 23, Indels: 21
0.69 0.16 0.15
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 13 0.13
24 14 0.14
25 20 0.20
26 50 0.50
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAGGCTCTTTGT
Found at i:52274860 original size:23 final size:26
Alignment explanation
Indices: 52274845--52274900 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
52274835 CTTTCTGATA
52274845 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTTGTGAGCTTCCTGATTAAT
52274871 GGCTCTTTGTGAGCTTCCTG-TTATAT
1 GGCTCTTTGTGAGCTTCCTGATTA-AT
52274897 GGCT
1 GGCT
52274901 TGAGAGAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.12, C:0.20, G:0.25, T:0.43
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTGATTAAT
Found at i:52275947 original size:74 final size:73
Alignment explanation
Indices: 52275819--52275962 Score: 225
Period size: 74 Copynumber: 2.0 Consensus size: 73
52275809 CTCGGATTTG
* *
52275819 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCTGAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
52275884 TTGAGAAA
66 TTGAGAAA
** * *
52275892 AAAAAGGGGATCATGCCCAGTAAGTTAGGACATGATCTCTTCTTGATTCCCGAGATCGTTTAATA
1 AAAAA-GGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAA
52275957 CTTGAG
65 CTTGAG
52275963 TTTGAAAAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
73 5 0.08
74 59 0.92
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (73 bp):
AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
TTGAGAAA
Found at i:52276170 original size:9 final size:9
Alignment explanation
Indices: 52276153--52276189 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
52276143 TGAGTTTTCG
52276153 AATTCGAAT
1 AATTCGAAT
*
52276162 AACTCGAAT
1 AATTCGAAT
52276171 AATTCGAAT
1 AATTCGAAT
52276180 AATTCGAAT
1 AATTCGAAT
52276189 A
1 A
52276190 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:52286150 original size:30 final size:30
Alignment explanation
Indices: 52286116--52286450 Score: 190
Period size: 30 Copynumber: 11.2 Consensus size: 30
52286106 GTATCCTGAA
**
52286116 TGGTGTGATAATGCAGCCCCATATCCGGCT
1 TGGTGTGATGGTGCAGCCCCATATCCGGCT
* * * * *
52286146 TGGTGTGACGGTGTAACCACATATCCGGGT
1 TGGTGTGATGGTGCAGCCCCATATCCGGCT
* *
52286176 TGGTGT-AGCGGTGCAGCCCCATATCCAGCT
1 TGGTGTGA-TGGTGCAGCCCCATATCCGGCT
* * * *
52286206 TGGTGCGATGGTACAGCTCCA-AACTCGGCT
1 TGGTGTGATGGTGCAGCCCCATATC-CGGCT
* *
52286236 TGGTGTGACGGTGC-GACTCCATATCCGGCT
1 TGGTGTGATGGTGCAG-CCCCATATCCGGCT
* * **
52286266 TGGTGCGACGGTGGGGCCCCATATCCAAGG--
1 TGGTGTGATGGTGCAGCCCCATATCC--GGCT
* * *
52286296 TGGTGTAATGATGCAGTCCCATATCCTGG-T
1 TGGTGTGATGGTGCAGCCCCATATCC-GGCT
52286326 TGGTGCTG-TGGTGCAGCCCCATATCCTGG-T
1 TGGTG-TGATGGTGCAGCCCCATATCC-GGCT
* ** *
52286356 TGGTGT-AGTAGTGTTGCCCCATATCCAGCT
1 TGGTGTGA-TGGTGCAGCCCCATATCCGGCT
* **
52286386 TGGTG-CATGGGTGCAGCAACATATCCGAG-T
1 TGGTGTGAT-GGTGCAGCCCCATATCCG-GCT
* * *
52286416 TGGTGCGGTGGTGCAGCACCATATCCAGG-T
1 TGGTGTGATGGTGCAGCCCCATATCC-GGCT
52286446 TGGTG
1 TGGTG
52286451 AGGCAATGGT
Statistics
Matches: 238, Mismatches: 49, Indels: 36
0.74 0.15 0.11
Matches are distributed among these distances:
29 9 0.04
30 219 0.92
31 8 0.03
32 2 0.01
ACGTcount: A:0.17, C:0.24, G:0.32, T:0.26
Consensus pattern (30 bp):
TGGTGTGATGGTGCAGCCCCATATCCGGCT
Done.