Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 26 of 97
Found at i:11000279 original size:41 final size:41
Alignment explanation
Indices: 11000234--11000315 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
11000224 TTAAGAGTGT
** *
11000234 AAAAGTTTTTTTGTTTTGGGAGTGGATTTGAACAAGATATG
1 AAAAGTTTTCGTGTTTTGGGAGTGAATTTGAACAAGATATG
11000275 AAAAGTTTTCGTGTTTTGGGAGTGAATTTGAACAAGATATG
1 AAAAGTTTTCGTGTTTTGGGAGTGAATTTGAACAAGATATG
11000316 CTAAGAGGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.30, C:0.04, G:0.27, T:0.39
Consensus pattern (41 bp):
AAAAGTTTTCGTGTTTTGGGAGTGAATTTGAACAAGATATG
Found at i:11003404 original size:34 final size:34
Alignment explanation
Indices: 11003366--11003440 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
11003356 TTTTACGGGC
* * *
11003366 TTAAGCACAACCCT-TACACTTGCTTTTTCAAGGT
1 TTAAGCACAA-CCTATACACTTACTTTTTCAAAGA
* *
11003400 TTAAGCAGAACCTATACATTTACTTTTTCAAAGA
1 TTAAGCACAACCTATACACTTACTTTTTCAAAGA
11003434 TTAAGCA
1 TTAAGCA
11003441 AAAGTTCTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 3 0.09
34 32 0.91
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (34 bp):
TTAAGCACAACCTATACACTTACTTTTTCAAAGA
Found at i:11008002 original size:28 final size:28
Alignment explanation
Indices: 11007953--11008087 Score: 153
Period size: 28 Copynumber: 4.8 Consensus size: 28
11007943 ATGTTGTAAA
* * * *
11007953 GGTTATGCTTGATCCTTCAAAAAACAAT
1 GGTTATGCTTGATCCATGAAAAGACAAG
* ** *
11007981 GGTTGTGCTTGATCTTTGAAAAGACAAC
1 GGTTATGCTTGATCCATGAAAAGACAAG
* * * *
11008009 TGTTATTCTTGATCAATGAAAAGGCAAG
1 GGTTATGCTTGATCCATGAAAAGACAAG
*
11008037 GGTTATGCTTGATCCATGAAAAGGCAAG
1 GGTTATGCTTGATCCATGAAAAGACAAG
11008065 GGTTATGCTTGATCCATGAAAAG
1 GGTTATGCTTGATCCATGAAAAG
11008088 CAGTGCTTTG
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 92 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (28 bp):
GGTTATGCTTGATCCATGAAAAGACAAG
Found at i:11010967 original size:2 final size:2
Alignment explanation
Indices: 11010962--11010996 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11010952 GTGTGTGTGC
*
11010962 AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11010997 TCAGCATGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11048131 original size:2 final size:2
Alignment explanation
Indices: 11048124--11048177 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
11048114 ATTGAAAACG
* *
11048124 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11048166 AT AT AT AT AT AT
1 AT AT AT AT AT AT
11048178 GTATGTGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11048186 original size:6 final size:6
Alignment explanation
Indices: 11048125--11048192 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
11048115 TTGAAAACGA
* * * * * * * *
11048125 TATATA TATATA TATATG TATATA TATATA TATATA TCTATA TATATA
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
11048173 TATATG TATGTG TATATG TA
1 TATATG TATATG TATATG TA
11048193 AAATTATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:11060137 original size:13 final size:13
Alignment explanation
Indices: 11060119--11060144 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11060109 AGGAGAAATT
11060119 ATGATTTTATAAA
1 ATGATTTTATAAA
11060132 ATGATTTTATAAA
1 ATGATTTTATAAA
11060145 TTTCCTAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:11067550 original size:44 final size:44
Alignment explanation
Indices: 11067501--11068028 Score: 520
Period size: 44 Copynumber: 11.5 Consensus size: 44
11067491 TGTTTAAATT
* * * *
11067501 TTTAAAGTTATGTACCCTCATTCAAGATGAAGAGCTTATTCTTA
1 TTTAAAGTTACGTAGCCTCATTCAAGATGAAGAGCTCATTCCTA
* * * **
11067545 GTTAAAGTTACGTAGCTTCATTCAAGAT-AAGGGGCTCATTTTTA
1 TTTAAAGTTACGTAGCCTCATTCAAGATGAA-GAGCTCATTCCTA
* *
11067589 TTTAAAGTTACATAACCTCATTCAAGATGAGATGAAGAACTCATTCCTA
1 TTTAAAGTTACGTAGCCTCATTCAAGATGA-A-G-AG--CTCATTCCTA
* * *
11067638 TTTAAAGTTATGTAGCCTCATTCAAGATGAGGAGCTCCTTCCTA
1 TTTAAAGTTACGTAGCCTCATTCAAGATGAAGAGCTCATTCCTA
* * *
11067682 CTTAAAGTTACGTAGCTTCATTCAAGATGAGATGAGGAGTTCATTCCTA
1 TTTAAAGTTACGTAGCCTCATTCAAGAT--GA--A-GAGCTCATTCCTA
* * * * *
11067731 TTTAAAGTTATGTAGCTTTATTCAAGATGAGGAGCTTATTCCTA
1 TTTAAAGTTACGTAGCCTCATTCAAGATGAAGAGCTCATTCCTA
* *
11067775 TTTAAAGTTATGTAGCCTCATTCAAGATGAGGAGCTCATTCCTA
1 TTTAAAGTTACGTAGCCTCATTCAAGATGAAGAGCTCATTCCTA
*
11067819 TTTAAAGTTACGTAGCCTCATTCAAGATTAGATGAAGAGCTTATTCCTA
1 TTTAAAGTTACGTAGCCTCATTC---A--AGATGAAGAGCTCATTCCTA
* *
11067868 TTTAAAGTTACGTAGCCTCATTTAAAATGAGATGAGGGGCTCATTCCTA
1 TTTAAAGTTACGTAGCCTCATTCAAGATGA-A-GA---GCTCATTCCTA
*
11067917 TTTAAAGTTACGTAGCCTCATTCAAGATG-AGACGCTCATTTCTA
1 TTTAAAGTTACGTAGCCTCATTCAAGATGAAGA-GCTCATTCCTA
* * * * * *
11067961 TTTAAAGTTATGTAGCCTTATTCAAGATGAATAGTTTATTCCATT
1 TTTAAAGTTACGTAGCCTCATTCAAGATGAAGAGCTCATTCC-TA
*
11068006 TTTAAAGTTACGTAGCCACATTC
1 TTTAAAGTTACGTAGCCTCATTC
11068029 TAAATAAAAA
Statistics
Matches: 406, Mismatches: 55, Indels: 45
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.00
44 214 0.53
45 25 0.06
46 11 0.03
47 6 0.01
49 148 0.36
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (44 bp):
TTTAAAGTTACGTAGCCTCATTCAAGATGAAGAGCTCATTCCTA
Found at i:11067661 original size:93 final size:93
Alignment explanation
Indices: 11067525--11067990 Score: 566
Period size: 93 Copynumber: 5.0 Consensus size: 93
11067515 CCCTCATTCA
* * * * * * **
11067525 AGATGAAGAGCTTATTCTTAGTTAAAGTTACGTAGCTTCATTCAAGATAAGGGGCTCATTTTTAT
1 AGATGAAGAGCTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATGAGGAGCTCATTCCTAT
* *
11067590 TTAAAGTTACATAACCTCATTCAAGATG
66 TTAAAGTTACGTAGCCTCATTCAAGATG
* * * *
11067618 AGATGAAGAACTCATTCCTATTTAAAGTTATGTAGCCTCATTCAAGATGAGGAGCTCCTTCCTAC
1 AGATGAAGAGCTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATGAGGAGCTCATTCCTAT
*
11067683 TTAAAGTTACGTAGCTTCATTCAAGATG
66 TTAAAGTTACGTAGCCTCATTCAAGATG
* * * * * *
11067711 AGATGAGGAGTTCATTCCTATTTAAAGTTATGTAGCTTTATTCAAGATGAGGAGCTTATTCCTAT
1 AGATGAAGAGCTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATGAGGAGCTCATTCCTAT
*
11067776 TTAAAGTTATGTAGCCTCATTCAAGAT-
66 TTAAAGTTACGTAGCCTCATTCAAGATG
*
11067803 -GA-G--GAGCTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATTAGATGAAGAGCTTATT
1 AGATGAAGAGCTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGA-T-GA-G--GAGCTCATT
* *
11067864 CCTATTTAAAGTTACGTAGCCTCATTTAAAATG
61 CCTATTTAAAGTTACGTAGCCTCATTCAAGATG
* * *
11067897 AGATGAGGGGCTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATGA-GACGCTCATTTCTA
1 AGATGAAGAGCTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATGAGGA-GCTCATTCCTA
* *
11067961 TTTAAAGTTATGTAGCCTTATTCAAGATG
65 TTTAAAGTTACGTAGCCTCATTCAAGATG
11067990 A
1 A
11067991 ATAGTTTATT
Statistics
Matches: 323, Mismatches: 39, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
88 36 0.11
89 1 0.00
90 3 0.01
91 3 0.01
92 2 0.01
93 233 0.72
95 2 0.01
96 3 0.01
97 1 0.00
98 39 0.12
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (93 bp):
AGATGAAGAGCTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATGAGGAGCTCATTCCTAT
TTAAAGTTACGTAGCCTCATTCAAGATG
Found at i:11067759 original size:137 final size:137
Alignment explanation
Indices: 11067501--11068028 Score: 587
Period size: 137 Copynumber: 3.8 Consensus size: 137
11067491 TGTTTAAATT
* * * * *
11067501 TTTAAAGTTATGTACCCTCATTCAAGATGAAGAGCTTATTCTTAGTTAAAGTTACGTAGCTTCAT
1 TTTAAAGTTATGTAGCCTCATTCAAGATGAGGAGCTCATTCCTATTTAAAGTTACGTAGCTTCAT
* ** * *
11067566 TCAAGAT-A-A-G-GG-GCTCATTTTTATTTAAAGTTACATAACCTCATTCAAGATGAGATGAAG
66 TCAAGATGAGATGAGGAGTTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATGA-A-G-AG
11067626 AACTCATTCCTA
128 --CTCATTCCTA
* *
11067638 TTTAAAGTTATGTAGCCTCATTCAAGATGAGGAGCTCCTTCCTACTTAAAGTTACGTAGCTTCAT
1 TTTAAAGTTATGTAGCCTCATTCAAGATGAGGAGCTCATTCCTATTTAAAGTTACGTAGCTTCAT
* * * * *
11067703 TCAAGATGAGATGAGGAGTTCATTCCTATTTAAAGTTATGTAGCTTTATTCAAGATGAGGAGCTT
66 TCAAGATGAGATGAGGAGTTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATGAAGAGCTC
11067768 ATTCCTA
131 ATTCCTA
*
11067775 TTTAAAGTTATGTAGCCTCATTCAAGATGAGGAGCTCATTCCTATTTAAAGTTACGTAGCCTCAT
1 TTTAAAGTTATGTAGCCTCATTCAAGATGAGGAGCTCATTCCTATTTAAAGTTACGTAGCTTCAT
* * * *
11067840 TCAAGATTAGATGAAGAGCTT-ATTCCTATTTAAAGTTACGTAGCCTCATTTAAAATGAGATGAG
66 TCAAGATGAGATGAGGAG-TTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATGA-A-GA-
11067904 GGGCTCATTCCTA
127 --GCTCATTCCTA
* * *
11067917 TTTAAAGTTACGTAGCCTCATTCAAGATGA-GACGCTCATTTCTATTTAAAGTTATGTAGCCTT-
1 TTTAAAGTTATGTAGCCTCATTCAAGATGAGGA-GCTCATTCCTATTTAAAGTTACGTAG-CTTC
* * *
11067980 ATTCAAGATGA-AT----AGTTTATTCCATTTTTAAAGTTACGTAGCCACATTC
64 ATTCAAGATGAGATGAGGAGTTCATTCC-TATTTAAAGTTACGTAGCCTCATTC
11068029 TAAATAAAAA
Statistics
Matches: 340, Mismatches: 36, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
136 2 0.01
137 192 0.56
138 25 0.07
139 5 0.01
140 2 0.01
141 6 0.02
142 106 0.31
143 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (137 bp):
TTTAAAGTTATGTAGCCTCATTCAAGATGAGGAGCTCATTCCTATTTAAAGTTACGTAGCTTCAT
TCAAGATGAGATGAGGAGTTCATTCCTATTTAAAGTTACGTAGCCTCATTCAAGATGAAGAGCTC
ATTCCTA
Found at i:11069098 original size:38 final size:38
Alignment explanation
Indices: 11069044--11069117 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
11069034 AAGAAAATAA
*
11069044 AAATAAGAAAAGGAAATAAAATTAAAATATTAAACTTG
1 AAATAAGAAAAAGAAATAAAATTAAAATATTAAACTTG
* * *
11069082 AAATAGGAAAAAGAAATAGAATTAAAATATTGAACT
1 AAATAAGAAAAAGAAATAAAATTAAAATATTAAACT
11069118 AGATTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.23
Consensus pattern (38 bp):
AAATAAGAAAAAGAAATAAAATTAAAATATTAAACTTG
Found at i:11070323 original size:116 final size:117
Alignment explanation
Indices: 11070121--11070353 Score: 407
Period size: 116 Copynumber: 2.0 Consensus size: 117
11070111 TCTCTCTTCC
* * *
11070121 TCACTCCTCTCTCTAAAGCACAAAAGACACAAAATTTTTTACTTCATTTTCAAAAAAAGGGAAAT
1 TCACCCCTCTCTCTAAAGCACAAAACACACAAAATATTTTACTTCATTTTCAAAAAAAGGGAAAT
*
11070186 GAAAATATTTAAATATTATTTAATATATTAATATTATTTCACTATAATAAAT
66 GAAAATATTTAAATATAATTTAATATATTAATATTATTTCACTATAATAAAT
11070238 NTCACCCCTCTCTCTAAAGCACAAAACACAC-AAATATTTTACTTCATTTTCAAAAAAA-GGAAA
1 -TCACCCCTCTCTCTAAAGCACAAAACACACAAAATATTTTACTTCATTTTCAAAAAAAGGGAAA
11070301 TGAAAATATTTAAATATAATTTAATATATTAATATTATTTCACTATAATAAAT
65 TGAAAATATTTAAATATAATTTAATATATTAATATTATTTCACTATAATAAAT
11070354 ATTATAAAGC
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
116 57 0.51
117 26 0.23
118 28 0.25
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (117 bp):
TCACCCCTCTCTCTAAAGCACAAAACACACAAAATATTTTACTTCATTTTCAAAAAAAGGGAAAT
GAAAATATTTAAATATAATTTAATATATTAATATTATTTCACTATAATAAAT
Found at i:11073387 original size:40 final size:40
Alignment explanation
Indices: 11073332--11073461 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
11073322 AAAGGTAGAG
* *
11073332 GGGTTGTGCTTTAACCTTGAAAAGACAAAGACTTTGTGAA
1 GGGTTGTGCTTTAACCTTGAAAAGGCAGAGACTTTGTGAA
* *
11073372 GGGTTGTGCTTTAACCTTGAAAAGGTAGAGACTTTATGAA
1 GGGTTGTGCTTTAACCTTGAAAAGGCAGAGACTTTGTGAA
** * *
11073412 ATGTTGTGCTTTAATCTTGAAAAGGCAGTGACTTTGT-AA
1 GGGTTGTGCTTTAACCTTGAAAAGGCAGAGACTTTGTGAA
*
11073451 -GGTTATGCTTT
1 GGGTTGTGCTTT
11073462 TTTTTCTTGA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 9 0.12
39 2 0.03
40 67 0.86
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.35
Consensus pattern (40 bp):
GGGTTGTGCTTTAACCTTGAAAAGGCAGAGACTTTGTGAA
Found at i:11079443 original size:19 final size:20
Alignment explanation
Indices: 11079416--11079461 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
11079406 AGGAGACAAG
*
11079416 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
11079435 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
11079454 ATAATATT
1 ATAATATT
11079462 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:11087093 original size:14 final size:16
Alignment explanation
Indices: 11087073--11087108 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11087063 ATAACTCACT
* *
11087073 TAAAAAAAACTAATTA
1 TAAAAACAACTAAATA
11087089 TAAAAACAACTAAATA
1 TAAAAACAACTAAATA
11087105 TAAA
1 TAAA
11087109 TAAATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAACAACTAAATA
Found at i:11095735 original size:16 final size:16
Alignment explanation
Indices: 11095714--11095746 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11095704 TTCGTCACGC
*
11095714 AATCTATATCCCACTA
1 AATCTACATCCCACTA
11095730 AATCTACATCCCACTA
1 AATCTACATCCCACTA
11095746 A
1 A
11095747 CTAGCATCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.27
Consensus pattern (16 bp):
AATCTACATCCCACTA
Found at i:11102772 original size:13 final size:13
Alignment explanation
Indices: 11102754--11102778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11102744 GGAAAATAGG
11102754 ATTTTATAAAATA
1 ATTTTATAAAATA
11102767 ATTTTATAAAAT
1 ATTTTATAAAAT
11102779 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:11104551 original size:75 final size:76
Alignment explanation
Indices: 11104472--11104618 Score: 210
Period size: 77 Copynumber: 1.9 Consensus size: 76
11104462 TTCGATCCAT
* *
11104472 TTTTTCCAACGGAAAAA-TTCCGTTGAAAA-TCTGTTGGAAAA-ATTTTTGGCGAGCAAGAAAAA
1 TTTTTCCAACGGAAAAACTTCCGTTGAAAATTC-GTT-AAAAATATTTTTGGCGAGCAAAAAAAA
*
11104534 CAAGAGACAAAAA
64 AAAGAGACAAAAA
*
11104547 TTTTTCCAACGGAAAAACTTTCCGTTGGAAATTCGTTAAAAATATTTTTGGCGAGCAAAAAAAAA
1 TTTTTCCAACGGAAAAAC-TTCCGTTGAAAATTCGTTAAAAATATTTTTGGCGAGCAAAAAAAAA
11104612 AAGAGAC
65 AAGAGAC
11104619 CACCATTTCT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
75 17 0.27
76 4 0.06
77 41 0.64
78 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (76 bp):
TTTTTCCAACGGAAAAACTTCCGTTGAAAATTCGTTAAAAATATTTTTGGCGAGCAAAAAAAAAA
AGAGACAAAAA
Found at i:11104749 original size:112 final size:112
Alignment explanation
Indices: 11104550--11104759 Score: 293
Period size: 112 Copynumber: 1.9 Consensus size: 112
11104540 ACAAAAATTT
*
11104550 TTCCAACGGAAAAACTTTCCGTTGGAAATTCGTTAAAAATATTTTTGGCGAGCAAAAAAAAAAAG
1 TTCCAACGGAAAAACTTTCCGCTGGAAATTCGTTAAAAATATTTTTGGCGAGCAAAAAAAAAAAG
* * *
11104615 AGACCACCATTTCTGACAGAATTTTCAATGGAATTTCTGTTGGAAAA
66 AGACCACCATGTCAGACAGAATTTCCAATGGAATTTCTGTTGGAAAA
* *
11104662 TTCCAACGG-AAAATTTTCCGCTGGAAA-TCAGTTGGAAAA-ATTTTTGAG-GAGCAAAAAAAAA
1 TTCCAACGGAAAAACTTTCCGCTGGAAATTC-GTT-AAAAATATTTTTG-GCGAGCAAAAAAAAA
*
11104723 AAGGAGACCACCATGTCAGACGGAATTTCCAATGGAA
63 AA-GAGACCACCATGTCAGACAGAATTTCCAATGGAA
11104760 AATTTTTTGT
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
110 2 0.02
111 41 0.47
112 44 0.51
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (112 bp):
TTCCAACGGAAAAACTTTCCGCTGGAAATTCGTTAAAAATATTTTTGGCGAGCAAAAAAAAAAAG
AGACCACCATGTCAGACAGAATTTCCAATGGAATTTCTGTTGGAAAA
Found at i:11107225 original size:175 final size:175
Alignment explanation
Indices: 11106933--11107262 Score: 536
Period size: 175 Copynumber: 1.9 Consensus size: 175
11106923 TTTTTCTGCT
*
11106933 CTCCCTTCATTTTCTTCTTTCCCTTTCTCTCTCTAGCCGCAGCCACCCTCTCACTTTTCTCTAAA
1 CTCCCTTCATTTTCTTCTTTCCCTTTCTCTCTCTAGCCGCAGCCACCCTCTCACTTCTCTCTAAA
* * * * *
11106998 CTTCTCTCTCCGTTGGTCGCTTTCTCCTTCTCTCTCACTTTCCCCTCCACCGGTGGCTTGAAGCT
66 CTTCTCTCTCCGTCGGCCACTTTCTCCTTCTCTCTCACCTTCCCCGCCACCGGTGGCTTGAAGCT
*
11107063 CGGTCACCTAAAACCCTAAATATCTTTCCCCTCCGCCAACAATCC
131 CGGTCACCCAAAACCCTAAATATCTTTCCCCTCCGCCAACAATCC
* **
11107108 CTCCCTTCATTTTCTTCTTTCCCTTTCTCTCTCTAGTCGTGGCCACCCTCTCACTTCTCTCTAAA
1 CTCCCTTCATTTTCTTCTTTCCCTTTCTCTCTCTAGCCGCAGCCACCCTCTCACTTCTCTCTAAA
* *
11107173 CTTTTC-CTTTCGTCGGCCACTTTCTCCTTCTCTCTCACCTTCCCCGCCACCGGTGGCTTGAAGC
66 CTTCTCTC-TCCGTCGGCCACTTTCTCCTTCTCTCTCACCTTCCCCGCCACCGGTGGCTTGAAGC
11107237 TCGGTCACCCAAAACCCTAAATATCT
130 TCGGTCACCCAAAACCCTAAATATCT
11107263 CTTCTCTCCA
Statistics
Matches: 142, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 1 0.01
175 141 0.99
ACGTcount: A:0.14, C:0.41, G:0.10, T:0.36
Consensus pattern (175 bp):
CTCCCTTCATTTTCTTCTTTCCCTTTCTCTCTCTAGCCGCAGCCACCCTCTCACTTCTCTCTAAA
CTTCTCTCTCCGTCGGCCACTTTCTCCTTCTCTCTCACCTTCCCCGCCACCGGTGGCTTGAAGCT
CGGTCACCCAAAACCCTAAATATCTTTCCCCTCCGCCAACAATCC
Found at i:11107475 original size:22 final size:21
Alignment explanation
Indices: 11107450--11107501 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
11107440 TTTAATTTTC
*
11107450 ATTTTTATTATGTTATTTGATT-
1 ATTTTTATTAT-TT-CTTGATTA
11107472 A-TTTTATTTATTTCTTGATTA
1 ATTTTTA-TTATTTCTTGATTA
11107493 ATTTTTATT
1 ATTTTTATT
11107502 TTATGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 6 0.23
21 10 0.38
22 10 0.38
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
ATTTTTATTATTTCTTGATTA
Found at i:11108137 original size:33 final size:33
Alignment explanation
Indices: 11108093--11108158 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
11108083 AAGAAGTTGA
* *
11108093 CTACCATTTTCTTCATGTTTAGCAACAAGATTG
1 CTACCAGTTTCTTAATGTTTAGCAACAAGATTG
*
11108126 CTACCAGTTTCTTAATGTTTAGCAACAATATTG
1 CTACCAGTTTCTTAATGTTTAGCAACAAGATTG
11108159 AAAGATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (33 bp):
CTACCAGTTTCTTAATGTTTAGCAACAAGATTG
Found at i:11113059 original size:18 final size:18
Alignment explanation
Indices: 11113038--11113085 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
11113028 ATATCCTTTA
*
11113038 ATATCCTATGTATCTCCC
1 ATATCCAATGTATCTCCC
11113056 ATATCCAATGTATCTCCC
1 ATATCCAATGTATCTCCC
11113074 ATATCCAATGTA
1 ATATCCAATGTA
11113086 CATATTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATCCAATGTATCTCCC
Found at i:11114260 original size:2 final size:2
Alignment explanation
Indices: 11114253--11114302 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
11114243 TTCACTTAGA
11114253 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11114295 AT AT AT AT
1 AT AT AT AT
11114303 TACAAAAACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11121231 original size:2 final size:2
Alignment explanation
Indices: 11121226--11121265 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
11121216 CTTAAAAAAG
11121226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11121266 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11122257 original size:2 final size:2
Alignment explanation
Indices: 11122246--11122298 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
11122236 NNNNNNNNTG
11122246 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11122287 TA TA TA TA TA TA
1 TA TA TA TA TA TA
11122299 ATTCATTGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11126742 original size:74 final size:75
Alignment explanation
Indices: 11126621--11126786 Score: 209
Period size: 74 Copynumber: 2.2 Consensus size: 75
11126611 AACAGAGTGC
* * * * *
11126621 TCTTAGTTGACTAACCATACTTTTTTGTTGATTAAGTCTTCTCTGTCTTGTAATTGAA-TTCTCT
1 TCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTTGGAATTAAAGTT-TCT
11126685 AGCA-A-TGAG-T
65 -G-ATAGTGAGCT
11126695 TCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGT-TCTCTCTGTCTTGGAATTAAAGTTTCT
1 TCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCT-TCTCTGTCTTGGAATTAAAGTTTCT
11126759 GATAGTGAGCT
65 GATAGTGAGCT
11126770 T-TTAGTTGACTAACCAT
1 TCTTAGTTGACTAACCAT
11126787 GCATGAGAGA
Statistics
Matches: 82, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
72 1 0.01
73 3 0.04
74 74 0.90
75 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (75 bp):
TCTTAGTTGACTAACCATACTTCTTAGTCGATTAAGTCTTCTCTGTCTTGGAATTAAAGTTTCTG
ATAGTGAGCT
Found at i:11133950 original size:74 final size:74
Alignment explanation
Indices: 11133848--11134037 Score: 222
Period size: 74 Copynumber: 2.6 Consensus size: 74
11133838 GTGCTTTTAG
* * * * * *
11133848 TTGACTAACCATACTTCTTAGACAATTAAGTCTTCTCTGTCTTGTAATTGAA-TTCTTTGGAAGT
1 TTGAATAACCATGCTTCTTAGTCGATTAAGTCTTCTCTGTCTTGTAATTGAAGTT-TCTAGAAGT
11133912 GAGCTCTTAA
65 GAGCTCTTAA
* * *
11133922 TTGAATGACTATGCTTCTTAGTCGATTAAGT-TCTCTCTGTCTTGTAATTGAAGTTTCTAGCAGT
1 TTGAATAACCATGCTTCTTAGTCGATTAAGTCT-TCTCTGTCTTGTAATTGAAGTTTCTAGAAGT
*
11133986 GAGCTCTTAG
65 GAGCTCTTAA
* * * *
11133996 TTGACTAACCATGCTTCTTGGTTGACTAAGTCTTCTCTGTCT
1 TTGAATAACCATGCTTCTTAGTCGATTAAGTCTTCTCTGTCT
11134038 CACAATCTGC
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
73 1 0.01
74 93 0.96
75 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (74 bp):
TTGAATAACCATGCTTCTTAGTCGATTAAGTCTTCTCTGTCTTGTAATTGAAGTTTCTAGAAGTG
AGCTCTTAA
Found at i:11137721 original size:14 final size:14
Alignment explanation
Indices: 11137704--11137739 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
11137694 CTAAATAATC
11137704 AAAATTAATTAACT
1 AAAATTAATTAACT
*
11137718 AAAACTAATTAACT
1 AAAATTAATTAACT
*
11137732 ACAATTAA
1 AAAATTAA
11137740 AATCAACAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTAATTAACT
Found at i:11140130 original size:21 final size:20
Alignment explanation
Indices: 11140106--11140153 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
11140096 AATCTTACTT
* *
11140106 TTTTTCACTTGTTTCCTTTAA
1 TTTTTCACTT-TTCCCTTGAA
*
11140127 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
11140148 TTTTTC
1 TTTTTC
11140154 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.15, C:0.23, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:11144166 original size:24 final size:22
Alignment explanation
Indices: 11144135--11144193 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
11144125 TTCAGTGTTT
*
11144135 TTAATAGACACATCTTTTGAAA
1 TTAATAGACACATCTATTGAAA
*
11144157 CTTAACTAGACACGTCTATTGAAA
1 -TTAA-TAGACACATCTATTGAAA
*
11144181 TAAATTAGACACA
1 TTAA-TAGACACA
11144194 AAAAGGAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (22 bp):
TTAATAGACACATCTATTGAAA
Found at i:11145210 original size:14 final size:14
Alignment explanation
Indices: 11145191--11145217 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11145181 AGGTTGGAGC
11145191 CGTCCGTGGCTGCA
1 CGTCCGTGGCTGCA
11145205 CGTCCGTGGCTGC
1 CGTCCGTGGCTGC
11145218 CAGTATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.37, G:0.37, T:0.22
Consensus pattern (14 bp):
CGTCCGTGGCTGCA
Found at i:11146416 original size:31 final size:31
Alignment explanation
Indices: 11146315--11146423 Score: 121
Period size: 31 Copynumber: 3.5 Consensus size: 31
11146305 GACATATAAC
* * * *
11146315 ATATTTTTGT-ACATGGCGTGCAACAATAAT
1 ATATTTTTTTAACATGACGTGTAACAATAGT
* * *
11146345 ATATTTTTTCAATATGACGTGTAACAACAGT
1 ATATTTTTTTAACATGACGTGTAACAATAGT
*
11146376 ATGTTTTTTTAACATGACGTGTAACAATAGT
1 ATATTTTTTTAACATGACGTGTAACAATAGT
*
11146407 ATTTTTTTTTTAACATG
1 A-TATTTTTTTAACATG
11146424 GCATGTAATA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 8 0.12
31 43 0.66
32 14 0.22
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (31 bp):
ATATTTTTTTAACATGACGTGTAACAATAGT
Found at i:11146623 original size:30 final size:29
Alignment explanation
Indices: 11146562--11146620 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
11146552 AATCATAAAG
* **
11146562 AAAGTTATTTTTGAAAATATTTTATTTTT
1 AAAGTTATTTTTAAAAATATCCTATTTTT
11146591 AAAGATTATTTTTAAAAATACTCCTATTTT
1 AAAG-TTATTTTTAAAAATA-TCCTATTTT
11146621 AAATTGACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 14 0.56
31 7 0.28
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (29 bp):
AAAGTTATTTTTAAAAATATCCTATTTTT
Found at i:11150038 original size:17 final size:16
Alignment explanation
Indices: 11150018--11150049 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11150008 TTTATTTTTT
11150018 TATTTATATTATTTAAC
1 TATTTATA-TATTTAAC
11150035 TATTTATATATTTAA
1 TATTTATATATTTAA
11150050 TCATTCTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTATATATTTAAC
Found at i:11150721 original size:157 final size:158
Alignment explanation
Indices: 11150439--11150749 Score: 509
Period size: 157 Copynumber: 2.0 Consensus size: 158
11150429 ACAATAAAGT
*
11150439 TTATATTTTTCAAAAAAAAAATCTAAAAACATCAAATGATAAAGATGAGAAAACGTGTTTCTTAT
1 TTATATTTTTCAAAAAAAAAAACTAAAAACATCAAATGATAAAGATGAGAAAACGTGTTTCTTAT
* * * *
11150504 GTTTTTTTGATAATGTTTTGAGGACACGATCAGAGGCAGATAGATACAAATGCATAGTGACCTGT
66 GTATTTTTGATAATGTTTTGACGACACGATCAGAGGCAGATAGACACAAATGCATAGTGACCTCT
* *
11150569 CCTTTAGGATGTACGAAACAAACAACAG
131 ACTTTAGGAAGTACGAAACAAACAACAG
* *
11150597 TTATATTTTTCAAAAAAAAAAACTAAAAACATGAAATGATGAAGATGAGAAAACGTGTTTCTTA-
1 TTATATTTTTCAAAAAAAAAAACTAAAAACATCAAATGATAAAGATGAGAAAACGTGTTTCTTAT
*
11150661 GTATTTTTGATAATGTTTTGACGACACGA-CTAGAGGCAGATAGACACAAATGCATGGTGACCTC
66 GTATTTTTGATAATGTTTTGACGACACGATC-AGAGGCAGATAGACACAAATGCATAGTGACCTC
11150725 TACTTTAGGAAGTACGAAACAAACA
130 TACTTTAGGAAGTACGAAACAAACA
11150750 GCAGCCACGC
Statistics
Matches: 142, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
156 1 0.01
157 80 0.56
158 61 0.43
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (158 bp):
TTATATTTTTCAAAAAAAAAAACTAAAAACATCAAATGATAAAGATGAGAAAACGTGTTTCTTAT
GTATTTTTGATAATGTTTTGACGACACGATCAGAGGCAGATAGACACAAATGCATAGTGACCTCT
ACTTTAGGAAGTACGAAACAAACAACAG
Found at i:11151510 original size:5 final size:5
Alignment explanation
Indices: 11151500--11151524 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11151490 ATTCAAATTT
11151500 AAATC AAATC AAATC AAATC AAATC
1 AAATC AAATC AAATC AAATC AAATC
11151525 CTAAGCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATC
Found at i:11156145 original size:18 final size:18
Alignment explanation
Indices: 11156124--11156159 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11156114 CTTGGGGTTC
*
11156124 TTTCTTTTTTTCTTTTTT
1 TTTCTTATTTTCTTTTTT
11156142 TTTCTTATTTTCTTTTTT
1 TTTCTTATTTTCTTTTTT
11156160 GGTGTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTCTTATTTTCTTTTTT
Found at i:11176434 original size:21 final size:19
Alignment explanation
Indices: 11176408--11176448 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
11176398 AATTTAAAAC
11176408 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
11176429 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
11176448 A
1 A
11176449 CTCAACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:11182528 original size:21 final size:19
Alignment explanation
Indices: 11182503--11182543 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
11182493 AATTTGAAAC
11182503 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
11182524 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
11182543 A
1 A
11182544 CCCAACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:11187786 original size:28 final size:23
Alignment explanation
Indices: 11187716--11187771 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
11187706 TATATATATA
11187716 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATGCACACCAT
11187739 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATGCACACCAT
11187762 CCCATCATCA
1 CCCATCATCA
11187772 CCAGCTCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.45, G:0.04, T:0.21
Consensus pattern (23 bp):
CCCATCATCATCATGCACACCAT
Found at i:11187854 original size:43 final size:43
Alignment explanation
Indices: 11187766--11187888 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 43
11187756 CACCATCCCA
* * * * ***
11187766 TCATCACCAGCTCATGCACACTCCCTACTCGCACAT-GGTTAGG
1 TCATCACCGGCTTATACGCACTCCCTACTCGCACATAACCT-GG
* * *
11187809 TCATCACCGGTTTATGCGCACTCCCTACTCGTACATAACCTGG
1 TCATCACCGGCTTATACGCACTCCCTACTCGCACATAACCTGG
* *
11187852 TCATCATCGGCTTATACGCACTCCTTACTCGCACATA
1 TCATCACCGGCTTATACGCACTCCCTACTCGCACATA
11187889 GCCTAGTCCA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
43 65 0.98
44 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.27
Consensus pattern (43 bp):
TCATCACCGGCTTATACGCACTCCCTACTCGCACATAACCTGG
Found at i:11192325 original size:15 final size:18
Alignment explanation
Indices: 11192289--11192327 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11192279 ATTAGTCAAG
11192289 AATAAAAAATATATAAAT
1 AATAAAAAATATATAAAT
* *
11192307 AATAAAAAATAAAAAAAT
1 AATAAAAAATATATAAAT
11192325 AAT
1 AAT
11192328 TAATTTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAAAATATATAAAT
Found at i:11199851 original size:42 final size:42
Alignment explanation
Indices: 11199731--11199853 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
11199721 TGTTGATGTG
* ** *
11199731 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCTATTGTT
1 GACCCGACTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
**
11199773 GACCCGACTATGTTTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGACTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
* ** *
11199815 GACCTGGTTATGTGCGAGTGGGAGTGCGCATAAGCCGTT
1 GACCCGACTATGTGCGAGTGGGAGTGCACATAAGCCGTT
11199854 ACATATGAGA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (42 bp):
GACCCGACTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
Found at i:11201446 original size:50 final size:51
Alignment explanation
Indices: 11201387--11201486 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 51
11201377 TTTGTATTCC
* * *
11201387 TCAAGAACACGTGGGTTCTTACATGTTTGTTGCATGTTCCTTTTCATTTCT
1 TCAAGAACACGTGGGTTCTTACATGTTTCTTACATGTTCCTTTCCATTTCT
11201438 TCAA-AACACGTGGGTTCTTACATGTTTCTTACATGTTCCTTTCCATTTC
1 TCAAGAACACGTGGGTTCTTACATGTTTCTTACATGTTCCTTTCCATTTC
11201487 CCGAGTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 42 0.91
51 4 0.09
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (51 bp):
TCAAGAACACGTGGGTTCTTACATGTTTCTTACATGTTCCTTTCCATTTCT
Found at i:11202651 original size:2 final size:2
Alignment explanation
Indices: 11202646--11202672 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11202636 TTGAGTATAT
11202646 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
11202673 TAAAGTCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11205342 original size:73 final size:74
Alignment explanation
Indices: 11205202--11205342 Score: 160
Period size: 73 Copynumber: 1.9 Consensus size: 74
11205192 AGCATTTAAC
** ***
11205202 GGAGGATCAAATCACACTTAGTGCTAAAGCAACTGGCGAAGAATCAAATCACACTCGGTGTTGAA
1 GGAGGATCAAATCACACTTAGTGCTAAAGCAACTGGCGAAGAATCAAATCACACTCAATGCCAAA
11205267 GCATCCGAT
66 GCATCCGAT
** * * * *
11205276 GGAGGATCAAATCA-TGTTAGTG-TCGAAGCAACTGGTGGAGAATCAAATCACGCTCAATGCCAA
1 GGAGGATCAAATCACACTTAGTGCT-AAAGCAACTGGCGAAGAATCAAATCACACTCAATGCCAA
11205339 AGCA
65 AGCA
11205343 ACTAGCTAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
72 1 0.02
73 40 0.73
74 14 0.25
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (74 bp):
GGAGGATCAAATCACACTTAGTGCTAAAGCAACTGGCGAAGAATCAAATCACACTCAATGCCAAA
GCATCCGAT
Found at i:11211532 original size:18 final size:18
Alignment explanation
Indices: 11211492--11211533 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11211482 CGAGCACAGG
11211492 ATTTTTTCTTTTTCCAGA
1 ATTTTTTCTTTTTCCAGA
* **
11211510 TTTTTTTCTTTTTGTAGA
1 ATTTTTTCTTTTTCCAGA
11211528 ATTTTT
1 ATTTTT
11211534 CTACTACCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (18 bp):
ATTTTTTCTTTTTCCAGA
Found at i:11212720 original size:4 final size:4
Alignment explanation
Indices: 11212705--11212772 Score: 73
Period size: 4 Copynumber: 17.0 Consensus size: 4
11212695 CGTGTATATA
* * * *
11212705 TATG TATA TATG TATG TATG TATG TATG CATG CATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
11212753 CATG CATG CATG TATG TATG
1 TATG TATG TATG TATG TATG
11212773 GGAAGCGCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 58 1.00
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (4 bp):
TATG
Found at i:11212720 original size:12 final size:12
Alignment explanation
Indices: 11212699--11212732 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11212689 CTCATACGTG
*
11212699 TATATATATGTA
1 TATATGTATGTA
11212711 TATATGTATGTA
1 TATATGTATGTA
*
11212723 TGTATGTATG
1 TATATGTATG
11212733 CATGCATGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
TATATGTATGTA
Found at i:11212730 original size:20 final size:20
Alignment explanation
Indices: 11212722--11212772 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
11212712 ATATGTATGT
11212722 ATGTATGTATGCATGCATGC
1 ATGTATGTATGCATGCATGC
11212742 ATGTATGTATGCATGCATGC
1 ATGTATGTATGCATGCATGC
11212762 ATGTATGTATG
1 ATGTATGTATG
11212773 GGAAGCGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.37
Consensus pattern (20 bp):
ATGTATGTATGCATGCATGC
Found at i:11222344 original size:29 final size:29
Alignment explanation
Indices: 11222311--11222370 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
11222301 TATATTGATG
11222311 AGAACATGATTTGGACTATAGTTAGTTGA
1 AGAACATGATTTGGACTATAGTTAGTTGA
11222340 AGAACATGATTTGGACTATAGTTAGTTGA
1 AGAACATGATTTGGACTATAGTTAGTTGA
11222369 AG
1 AG
11222371 TTTAACATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (29 bp):
AGAACATGATTTGGACTATAGTTAGTTGA
Found at i:11226397 original size:44 final size:44
Alignment explanation
Indices: 11226271--11226439 Score: 169
Period size: 44 Copynumber: 3.7 Consensus size: 44
11226261 AAGACAAAGA
* * * *
11226271 ATATATTTTGTTATCTAGTTCAACTCAACTTGACTCACTTAGGT
1 ATATATTTTGTTATCTAATTGAACTCAACTAGACTCATTTAGGT
** *
11226315 ATATATTTTGTTATCTGGTTGAACTCAACTAGGCTCATTTAGGT
1 ATATATTTTGTTATCTAATTGAACTCAACTAGACTCATTTAGGT
* * *
11226359 ATATATTTTGTTATCTAATTGACCTTAA-TCAGATTCATTTAGGATCTAT
1 ATATATTTTGTTATCTAATTGAACTCAACT-AGACTCATTTAGG-----T
*
11226408 ATATATTTTGTTCATCTAGTTGAACTCAACTA
1 ATATATTTTGTT-ATCTAATTGAACTCAACTA
11226440 CATTTATGGT
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.01
44 74 0.72
49 13 0.13
50 14 0.14
51 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (44 bp):
ATATATTTTGTTATCTAATTGAACTCAACTAGACTCATTTAGGT
Found at i:11235073 original size:22 final size:20
Alignment explanation
Indices: 11235039--11235078 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
11235029 CCATTGGCCC
11235039 GTTTCAAAATTTCATCCATTT
1 GTTTCAAAATTTCA-CCATTT
*
11235060 GTTTCCAAATTTTCACCAT
1 GTTT-CAAAATTTCACCAT
11235079 ACACTTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.45
Consensus pattern (20 bp):
GTTTCAAAATTTCACCATTT
Found at i:11235214 original size:28 final size:29
Alignment explanation
Indices: 11235156--11235217 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
11235146 TTTTTGAAAT
** *
11235156 TTACACTTTTGCCCTTGGAAAAGTGAAAAA
1 TTACACTTTTGCCC-TAAAAAACTGAAAAA
11235186 TTACACTTTTGCCC-AAAAAACTGAAAAA
1 TTACACTTTTGCCCTAAAAAACTGAAAAA
11235214 TTAC
1 TTAC
11235218 CCATAGACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 15 0.52
30 14 0.48
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (29 bp):
TTACACTTTTGCCCTAAAAAACTGAAAAA
Found at i:11240554 original size:76 final size:76
Alignment explanation
Indices: 11240428--11240580 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
11240418 CAAGTAGAGG
*
11240428 AAAGTCTAAATTCACAACATATTTTGTCAATAAGTTCATAATTAATGATTGAATGAGCTTATTAA
1 AAAGTCTAAATTCACAACATATTTTGTCAATAAGTTCATAATTAATGATTGAATCAGCTTATTAA
11240493 TTGTGATAAAT
66 TTGTGATAAAT
* * *
11240504 AAAGTCTCAATTCACAACATCTTTTGTCACTAAGTTCATAATTAATGATTGAATCAGCTTATTAA
1 AAAGTCTAAATTCACAACATATTTTGTCAATAAGTTCATAATTAATGATTGAATCAGCTTATTAA
11240569 TTGTGATAAAT
66 TTGTGATAAAT
11240580 A
1 A
11240581 TCACGATTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (76 bp):
AAAGTCTAAATTCACAACATATTTTGTCAATAAGTTCATAATTAATGATTGAATCAGCTTATTAA
TTGTGATAAAT
Found at i:11247318 original size:2 final size:2
Alignment explanation
Indices: 11247311--11247436 Score: 116
Period size: 2 Copynumber: 63.0 Consensus size: 2
11247301 TTAGAACCCA
11247311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * ** *
11247353 AT AT AT AT TT GT -T GAT -T AG A- AA AT GACC CC AN AT AT AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT -A-T AT AT AT AT AT AT
11247393 AT AT AT AT AT A- AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
11247435 AT
1 AT
11247437 TTGTTGCATA
Statistics
Matches: 107, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
1 4 0.04
2 99 0.93
3 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11256098 original size:21 final size:21
Alignment explanation
Indices: 11256039--11256098 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
11256029 GGTTTTGGGG
* *
11256039 TTTTAGGTATTGCGTGACTAG
1 TTTTAGGCATTGCGTGACTAA
* *
11256060 TTGATAGGGCA-TGTGTGACTAA
1 TT-TTA-GGCATTGCGTGACTAA
11256082 TTTTAGGCATTGCGTGA
1 TTTTAGGCATTGCGTGA
11256099 TTGGTTGATA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
20 4 0.13
21 10 0.33
22 13 0.43
23 3 0.10
ACGTcount: A:0.22, C:0.10, G:0.30, T:0.38
Consensus pattern (21 bp):
TTTTAGGCATTGCGTGACTAA
Found at i:11256115 original size:23 final size:22
Alignment explanation
Indices: 11256085--11256147 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
11256075 TGACTAATTT
*
11256085 TAGGCATTGCGTGATTGGTTGA
1 TAGGCATTGCATGATTGGTTGA
* *
11256107 TAGGACATTAG-ATGACTAGTTGA
1 TAGG-CATT-GCATGATTGGTTGA
11256130 TAGGGCATTGCATGATTG
1 TA-GGCATTGCATGATTG
11256148 ATTTTTAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
22 5 0.16
23 24 0.75
24 3 0.09
ACGTcount: A:0.25, C:0.10, G:0.32, T:0.33
Consensus pattern (22 bp):
TAGGCATTGCATGATTGGTTGA
Found at i:11256189 original size:23 final size:22
Alignment explanation
Indices: 11256158--11256264 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
11256148 ATTTTTAGTT
11256158 ATTGCGTGACTAGTTTGTAAGGC
1 ATTGCGTGACTAGTTT-TAAGGC
* * * *
11256181 ATTGTGTGACTGGTTTGTAGGGA
1 ATTGCGTGACTAGTTT-TAAGGC
* * *
11256204 ATTGTGTGATTAGTTTTTAGGC
1 ATTGCGTGACTAGTTTTAAGGC
* *
11256226 ATTGCATGACTAGGTTTAAGGC
1 ATTGCGTGACTAGTTTTAAGGC
* * *
11256248 ATTACATGACTATTTTT
1 ATTGCGTGACTAGTTTT
11256265 TGCAGAGTAT
Statistics
Matches: 67, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
22 34 0.51
23 33 0.49
ACGTcount: A:0.22, C:0.09, G:0.27, T:0.41
Consensus pattern (22 bp):
ATTGCGTGACTAGTTTTAAGGC
Found at i:11256191 original size:68 final size:67
Alignment explanation
Indices: 11256119--11256250 Score: 151
Period size: 68 Copynumber: 2.0 Consensus size: 67
11256109 GGACATTAGA
* ** * *
11256119 TGACTAG-TTGATAGGGCATTGCATGATT-GATTTTTAGTTATTGCGTGACTAGTTTGTAAGGCA
1 TGACTAGTTTG-TAGGGAATTGCATGATTAG-TTTTTAGGCATTGCATGACTAGGTT-TAAGGCA
11256182 TTGTG
63 TTGTG
* **
11256187 TGACTGGTTTGTAGGGAATTGTGTGATTAGTTTTTAGGCATTGCATGACTAGGTTTAAGGCATT
1 TGACTAGTTTGTAGGGAATTGCATGATTAGTTTTTAGGCATTGCATGACTAGGTTTAAGGCATT
11256251 ACATGACTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
67 9 0.17
68 41 0.76
69 4 0.07
ACGTcount: A:0.22, C:0.08, G:0.29, T:0.41
Consensus pattern (67 bp):
TGACTAGTTTGTAGGGAATTGCATGATTAGTTTTTAGGCATTGCATGACTAGGTTTAAGGCATTG
TG
Found at i:11259353 original size:20 final size:20
Alignment explanation
Indices: 11259330--11259375 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11259320 CTTCTAAACC
11259330 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
11259350 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCCAATAAG
11259370 TCAAAT
1 TCAAAT
11259376 GGGGTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:11261891 original size:29 final size:29
Alignment explanation
Indices: 11261756--11262088 Score: 406
Period size: 29 Copynumber: 11.6 Consensus size: 29
11261746 TCTTATCTTT
* *
11261756 AATTAGGAC-AAACATGTTATCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* *
11261784 AATTGAGAC-AAATATGTTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* *
11261812 GATTAAGACAAAACATTTTTTTCTTGTCTTA
1 AATTAAGACAAAACA-TGTTTTCTTGTC-TA
* * * *
11261843 AATTAAGAC-AAATATATTTTCTTATCTG
1 AATTAAGACAAAACATGTTTTCTTGTCTA
*
11261871 AATTAAGACAAAACAT-TTTTTTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
11261899 AATTAAGACAAAACATGTTTTCTTTGTCTA
1 AATTAAGACAAAACATGTTTTC-TTGTCTA
11261929 AATTAAGACAAAACATGTTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * * *
11261958 AATTAAAACATAACATGTTTTCATGTCAA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
11261987 AATTAAGACATAACATCTTTTCTTGTTTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* *
11262016 AATTAACACAAAACATATTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
*
11262045 AATTAAGAC-AAACATGTTTGCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
*
11262073 AATTAGGACAAAACAT
1 AATTAAGACAAAACAT
11262089 ATTAAACTGT
Statistics
Matches: 263, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
28 91 0.35
29 118 0.45
30 44 0.17
31 10 0.04
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (29 bp):
AATTAAGACAAAACATGTTTTCTTGTCTA
Found at i:11264479 original size:94 final size:94
Alignment explanation
Indices: 11264310--11264492 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 94
11264300 TTCCCTAATA
* ** * * * *
11264310 GCATTATTTCCCATTATATGCCACTAGTTTGGGTACTTTGATAGCTCATGTTGTAAAAAGTGACC
1 GCATTATTTCCCATTATATGCCACCAGTTCAGGTACTTTGACAACGCATGCTGTAAAAAGTGACC
* *
11264375 TTGGATGTGGATGAGCTAGGAATTAAATC
66 GTGGACGTGGATGAGCTAGGAATTAAATC
* * *
11264404 GCATTATTTTCTATTATATGCCACCAGTTCAGGTACTTTGACAACGCGTGCTGTAAAAAGTGACC
1 GCATTATTTCCCATTATATGCCACCAGTTCAGGTACTTTGACAACGCATGCTGTAAAAAGTGACC
11264469 GTGGACGTGGATGAGCTAGGAATT
66 GTGGACGTGGATGAGCTAGGAATT
11264493 TGAAACCCCA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (94 bp):
GCATTATTTCCCATTATATGCCACCAGTTCAGGTACTTTGACAACGCATGCTGTAAAAAGTGACC
GTGGACGTGGATGAGCTAGGAATTAAATC
Found at i:11265267 original size:22 final size:23
Alignment explanation
Indices: 11265208--11265271 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
11265198 CAATTTTTTA
* *
11265208 AGCATTGTGTGACTAGTTTGATAG
1 AGCATTGTGTGA-TTGGTTGATAG
* *
11265232 AGTATTATGTGATTGGTTGATAG
1 AGCATTGTGTGATTGGTTGATAG
11265255 -GCATTGTGTGATTGGTT
1 AGCATTGTGTGATTGGTT
11265272 TGTATGAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 15 0.44
23 9 0.26
24 10 0.29
ACGTcount: A:0.22, C:0.05, G:0.31, T:0.42
Consensus pattern (23 bp):
AGCATTGTGTGATTGGTTGATAG
Found at i:11272161 original size:37 final size:37
Alignment explanation
Indices: 11272109--11272188 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
11272099 TCATATACAT
11272109 AGGTATGTCCTTCACATATAAGCTTACTCATCTCATA
1 AGGTATGTCCTTCACATATAAGCTTACTCATCTCATA
*
11272146 ATGTATGTCCTTCACATATAAGCTTACTCATCTCATA
1 AGGTATGTCCTTCACATATAAGCTTACTCATCTCATA
11272183 AGGTAT
1 AGGTAT
11272189 ACGAAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (37 bp):
AGGTATGTCCTTCACATATAAGCTTACTCATCTCATA
Found at i:11272336 original size:68 final size:68
Alignment explanation
Indices: 11272168--11272414 Score: 264
Period size: 68 Copynumber: 3.6 Consensus size: 68
11272158 CACATATAAG
* * * * ** * *
11272168 CTTACTCATCTCATAAGGTATACGAAAAATACATTATTTACATAATCTCATGGCATTCA-CATGC
1 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGC
*
11272232 ATT
66 ATA
* * ** * *
11272235 CTCAATCATCTCATGTAATATATGGAATATACATCATATACATAATCTCATGGCATTTATCATGC
1 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGC
11272300 ATA
66 ATA
* * * * * * *
11272303 CTTAATCA-CTTTATATGGTATATGGAATTTACATCATATGCACAATCTTATAGTATACATCATG
1 CTTAATCATC-TCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATG
11272367 CATA
65 CATA
*
11272371 CTTAATTATCTCATATGGTATATGGAATTTACATCATATACATA
1 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACATA
11272415 TTATAGCATT
Statistics
Matches: 147, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
67 48 0.33
68 98 0.67
69 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (68 bp):
CTTAATCATCTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGC
ATA
Found at i:11278133 original size:26 final size:26
Alignment explanation
Indices: 11278104--11278187 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
11278094 ATAACCTCTT
*
11278104 TTTTTTCAACATGACGTGTAACAAAA
1 TTTTTTCAACATGATGTGTAACAAAA
* **
11278130 TTTTTTCAATATGGCATGTAGTAAC-ATT
1 TTTTTTCAACAT-G-ATGT-GTAACAAAA
*
11278158 TTTTTTCAACATGATGTGTAGCAAAA
1 TTTTTTCAACATGATGTGTAACAAAA
11278184 TTTT
1 TTTT
11278188 AAAACACATG
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
25 4 0.09
26 20 0.43
27 2 0.04
28 15 0.33
29 5 0.11
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (26 bp):
TTTTTTCAACATGATGTGTAACAAAA
Found at i:11278134 original size:28 final size:28
Alignment explanation
Indices: 11278102--11278187 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
11278092 GTATAACCTC
*
11278102 TTTTTTTTCAACATGACGTGTAACAAAA
1 TTTTTTTTCAACATGACGTGTAGCAAAA
* * * * *
11278130 --TTTTTTCAATATGGCATGTAGTAACA
1 TTTTTTTTCAACATGACGTGTAGCAAAA
*
11278156 TTTTTTTTCAACATGATGTGTAGCAAAA
1 TTTTTTTTCAACATGACGTGTAGCAAAA
11278184 TTTT
1 TTTT
11278188 AAAACACATG
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
26 20 0.45
28 24 0.55
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (28 bp):
TTTTTTTTCAACATGACGTGTAGCAAAA
Found at i:11279207 original size:113 final size:110
Alignment explanation
Indices: 11279072--11279286 Score: 313
Period size: 113 Copynumber: 1.9 Consensus size: 110
11279062 ACTGGATTTT
* * * *
11279072 GGCATGGCATCACTTAGGGTGTGTGTGATTGCATTAGGGTTTAACATTGCGTGACTAGTCGATAT
1 GGCAAGGCATCACTTAGGGTGTGCGTGATTGCATTAGCGTTTAACATTGCATGACTAGTCGATAT
*
11279137 GTCATTGCGTGACTTCTTGTTAATAGGTCTTTGCGTGACTATTGTTCA
66 GTAATTGCGTGA---CTTGTTAATAGGTCTTTGCGTGACTATTGTTCA
* * *
11279185 GGCAAGGCATCACTTAGGGTGTGCGTGATTGCATTAGCGTTTAACATTGCATGATTGGTTGATAT
1 GGCAAGGCATCACTTAGGGTGTGCGTGATTGCATTAGCGTTTAACATTGCATGACTAGTCGATAT
* *
11279250 GTAATTGTGTGACTTGTTTATAGGTCTTTGCGTGACT
66 GTAATTGCGTGACTTGTTAATAGGTCTTTGCGTGACT
11279287 GGTTGATAGA
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
110 24 0.26
113 68 0.74
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.38
Consensus pattern (110 bp):
GGCAAGGCATCACTTAGGGTGTGCGTGATTGCATTAGCGTTTAACATTGCATGACTAGTCGATAT
GTAATTGCGTGACTTGTTAATAGGTCTTTGCGTGACTATTGTTCA
Found at i:11279295 original size:23 final size:23
Alignment explanation
Indices: 11279230--11279295 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
11279220 AGCGTTTAAC
* * *
11279230 ATTGCATGATTGGTTGATATGTA
1 ATTGCGTGACTGGTTGATAGGTA
* * * *
11279253 ATTGTGTGACTTGTTTATAGGTC
1 ATTGCGTGACTGGTTGATAGGTA
*
11279276 TTTGCGTGACTGGTTGATAG
1 ATTGCGTGACTGGTTGATAG
11279296 ATCATTGTGT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.20, C:0.08, G:0.29, T:0.44
Consensus pattern (23 bp):
ATTGCGTGACTGGTTGATAGGTA
Found at i:11279307 original size:23 final size:22
Alignment explanation
Indices: 11279240--11279307 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
11279230 ATTGCATGAT
*
11279240 TGGTTGATATGTAATTGTGTGAC
1 TGGTTGATA-GTCATTGTGTGAC
* * * *
11279263 TTGTTTATAGGTCTTTGCGTGAC
1 TGGTTGATA-GTCATTGTGTGAC
11279286 TGGTTGATAGATCATTGTGTGA
1 TGGTTGATAG-TCATTGTGTGA
11279308 ATATTGTTCA
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.19, C:0.07, G:0.29, T:0.44
Consensus pattern (22 bp):
TGGTTGATAGTCATTGTGTGAC
Found at i:11280304 original size:12 final size:12
Alignment explanation
Indices: 11280286--11280357 Score: 63
Period size: 12 Copynumber: 6.0 Consensus size: 12
11280276 CCTCTTACGA
11280286 CTCCTCATGCTG
1 CTCCTCATGCTG
* *
11280298 CTTCTCATGTTG
1 CTCCTCATGCTG
* *
11280310 CTCCTGATGCTA
1 CTCCTCATGCTG
* * *
11280322 CTTCTCCTGATG
1 CTCCTCATGCTG
*
11280334 CTCCTTATGCTG
1 CTCCTCATGCTG
*
11280346 CTACTCATGCTG
1 CTCCTCATGCTG
11280358 TAGTTGCCAT
Statistics
Matches: 43, Mismatches: 17, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.11, C:0.33, G:0.17, T:0.39
Consensus pattern (12 bp):
CTCCTCATGCTG
Found at i:11280319 original size:24 final size:24
Alignment explanation
Indices: 11280286--11280354 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
11280276 CCTCTTACGA
*
11280286 CTCCTCATGCTGCTTCTCATGTTG
1 CTCCTCATGCTGCTTCTCATGATG
* * *
11280310 CTCCTGATGCTACTTCTCCTGATG
1 CTCCTCATGCTGCTTCTCATGATG
* *
11280334 CTCCTTATGCTGCTACTCATG
1 CTCCTCATGCTGCTTCTCATG
11280355 CTGTAGTTGC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.12, C:0.33, G:0.16, T:0.39
Consensus pattern (24 bp):
CTCCTCATGCTGCTTCTCATGATG
Found at i:11282538 original size:23 final size:23
Alignment explanation
Indices: 11282512--11282804 Score: 160
Period size: 23 Copynumber: 12.7 Consensus size: 23
11282502 AACCGTTAAG
* *
11282512 ATGGAATCATGTGAGTAGTAAAT
1 ATGGAATCACGTGACTAGTAAAT
* * * *
11282535 ATGGAATCACGTTATTAGTTATT
1 ATGGAATCACGTGACTAGTAAAT
* *
11282558 ATGGAATCGA-GTAACTAGTTAAT
1 ATGGAATC-ACGTGACTAGTAAAT
* * *
11282581 ATGGAAT-AGTGTGAGTAGTAAAG
1 ATGGAATCA-CGTGACTAGTAAAT
*
11282604 ATGGAATCGCGTGACTAGTAAAT
1 ATGGAATCACGTGACTAGTAAAT
* * **
11282627 ATAGAATCGCGTGACTAGTTTAT
1 ATGGAATCACGTGACTAGTAAAT
* * *
11282650 ATGAAATCATGTGAGTAGTAAAT
1 ATGGAATCACGTGACTAGTAAAT
* * * *
11282673 ATGGAATCACATTACTAGTTATT
1 ATGGAATCACGTGACTAGTAAAT
* * * **
11282696 ATGGAATCGA-GCGAGTATTTCAT
1 ATGGAATC-ACGTGACTAGTAAAT
* *
11282719 AGGGAATAACGTGACTAGTAAAT
1 ATGGAATCACGTGACTAGTAAAT
** * * * *
11282742 ATGGAATTGCGTTACTATTTATT
1 ATGGAATCACGTGACTAGTAAAT
* * **
11282765 ATGGAATCGCGTGACTAATTGAT
1 ATGGAATCACGTGACTAGTAAAT
* *
11282788 ATGGAATCGCGAGACTA
1 ATGGAATCACGTGACTA
11282805 CTTGATATGG
Statistics
Matches: 204, Mismatches: 60, Indels: 12
0.74 0.22 0.04
Matches are distributed among these distances:
21 1 0.00
22 1 0.00
23 200 0.98
24 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (23 bp):
ATGGAATCACGTGACTAGTAAAT
Found at i:11282712 original size:46 final size:46
Alignment explanation
Indices: 11282512--11282748 Score: 178
Period size: 46 Copynumber: 5.2 Consensus size: 46
11282502 AACCGTTAAG
*
11282512 ATGGAATC-ATGTGAGTAGTAAATATGGAATCACGTTATTAGTTATT
1 ATGGAATCGA-GTGAGTAGTAAATATGGAATCACGTTACTAGTTATT
* * * * * **
11282558 ATGGAATCGAGTAACTAGTTAATATGGAAT-A-GTGTGAGTAGTAAAG
1 ATGGAATCGAGTGAGTAGTAAATATGGAATCACGT-T-ACTAGTTATT
* * * * *
11282604 ATGGAATCGCGTGACTAGTAAATATAGAATCGCGTGACTAGTT-TAT
1 ATGGAATCGAGTGAGTAGTAAATATGGAATCACGTTACTAGTTAT-T
* *
11282650 ATGAAATC-ATGTGAGTAGTAAATATGGAATCACATTACTAGTTATT
1 ATGGAATCGA-GTGAGTAGTAAATATGGAATCACGTTACTAGTTATT
* * ** * * * * *
11282696 ATGGAATCGAGCGAGTATTTCATAGGGAATAACGTGACTAGTAAAT
1 ATGGAATCGAGTGAGTAGTAAATATGGAATCACGTTACTAGTTATT
11282742 ATGGAAT
1 ATGGAAT
11282749 TGCGTTACTA
Statistics
Matches: 147, Mismatches: 35, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
44 2 0.01
45 2 0.01
46 138 0.94
47 3 0.02
48 2 0.01
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (46 bp):
ATGGAATCGAGTGAGTAGTAAATATGGAATCACGTTACTAGTTATT
Found at i:11282757 original size:69 final size:68
Alignment explanation
Indices: 11282512--11282794 Score: 305
Period size: 69 Copynumber: 4.1 Consensus size: 68
11282502 AACCGTTAAG
* * *
11282512 ATGGAATCATGTGAGTAGTAAATATGGAATCACGTTATTAGTTATTATGGAATCGAGTAACTAGT
1 ATGGAATAATGTGAGTAGTAAATATGGAATCACGTTACTAGTTATTATGGAATCGAGTGACTA-T
*
11282577 TAAT
65 TTAT
* * * * * * * *
11282581 ATGGAATAGTGTGAGTAGTAAAGATGGAATCGCGTGACTAGTAAATATAGAATCGCGTGACTAGT
1 ATGGAATAATGTGAGTAGTAAATATGGAATCACGTTACTAGTTATTATGGAATCGAGTGACTA-T
11282646 TTAT
65 TTAT
* * * * *
11282650 ATGAAATCATGTGAGTAGTAAATATGGAATCACATTACTAGTTATTATGGAATCGAGCGAGTATT
1 ATGGAATAATGTGAGTAGTAAATATGGAATCACGTTACTAGTTATTATGGAATCGAGTGACTATT
11282715 TCAT
66 T-AT
* * * ** * *
11282719 AGGGAATAACGTGACTAGTAAATATGGAATTGCGTTACTATTTATTATGGAATCGCGTGACTAAT
1 ATGGAATAATGTGAGTAGTAAATATGGAATCACGTTACTAGTTATTATGGAATCGAGTGACT-AT
*
11282784 TGAT
65 TTAT
11282788 ATGGAAT
1 ATGGAAT
11282795 CGCGAGACTA
Statistics
Matches: 173, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
68 3 0.02
69 167 0.97
70 3 0.02
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (68 bp):
ATGGAATAATGTGAGTAGTAAATATGGAATCACGTTACTAGTTATTATGGAATCGAGTGACTATT
TAT
Found at i:11282771 original size:46 final size:46
Alignment explanation
Indices: 11282721--11282826 Score: 106
Period size: 46 Copynumber: 2.3 Consensus size: 46
11282711 TATTTCATAG
* * ** *
11282721 GGAATAACGTGACTAGTAAATATGGAATTGCGTTACTA-TTTATTAT
1 GGAATAACGTGACTAATAAATATGGAATCGCGAGACTACTTGA-TAT
** **
11282767 GGAATCGCGTGACTAATTGATATGGAATCGCGAGACTACTTGATAT
1 GGAATAACGTGACTAATAAATATGGAATCGCGAGACTACTTGATAT
*
11282813 GGAATAATGTGACT
1 GGAATAACGTGACT
11282827 TTTTGATATG
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
46 44 0.94
47 3 0.06
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (46 bp):
GGAATAACGTGACTAATAAATATGGAATCGCGAGACTACTTGATAT
Found at i:11282809 original size:23 final size:23
Alignment explanation
Indices: 11282764--11282817 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
11282754 TACTATTTAT
*
11282764 TATGGAATCGCGTGACTAATTGA
1 TATGGAATCGCGAGACTAATTGA
*
11282787 TATGGAATCGCGAGACTACTTGA
1 TATGGAATCGCGAGACTAATTGA
11282810 TATGGAAT
1 TATGGAAT
11282818 AATGTGACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (23 bp):
TATGGAATCGCGAGACTAATTGA
Found at i:11282826 original size:23 final size:23
Alignment explanation
Indices: 11282721--11282837 Score: 74
Period size: 23 Copynumber: 5.1 Consensus size: 23
11282711 TATTTCATAG
* **
11282721 GGAATAACGTGACTAGTAAATAT
1 GGAATAACGTGACTAATTGATAT
** * *
11282744 GGAATTGCGTTACT-ATTTATTAT
1 GGAATAACGTGACTAATTGA-TAT
**
11282767 GGAATCGCGTGACTAATTGATAT
1 GGAATAACGTGACTAATTGATAT
** * *
11282790 GGAATCGCGAGACTACTTGATAT
1 GGAATAACGTGACTAATTGATAT
* **
11282813 GGAATAATGTGACTTTTTGATAT
1 GGAATAACGTGACTAATTGATAT
11282836 GG
1 GG
11282838 GATTGCTTGA
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
22 2 0.03
23 69 0.92
24 4 0.05
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (23 bp):
GGAATAACGTGACTAATTGATAT
Found at i:11289008 original size:189 final size:189
Alignment explanation
Indices: 11288676--11289113 Score: 590
Period size: 189 Copynumber: 2.3 Consensus size: 189
11288666 ACGTACCGTT
* * *
11288676 AGTCTCTCAATACCTAATAATAAGTCA-CTCAATGCCTAATATCCACTCAAGTTATGCCAATATA
1 AGTCTCACAATACCTAATAATAAGTCACCT-AATGCCTAATATCCACTCACGTTATGCCAACATA
** * * * *
11288740 ACCAGTAACGTACTAGCCCAATGTCACGCAATACATAACAACAAGTCAAGTAATACATAAAAATC
65 ACCAGTAACGTACTAGCCCAACATCAAGCAATAAATAACAACAAGTCAAGCAATACATAAAAACC
* ** **
11288805 AGTCACGCAATGTCTCAACACAAGATATGCATTGCGTAATTCACGCAACACCTATAACCC
130 AGTCACGCAATGTCTCAACACAAGATATACAGAGCACAATTCACGCAACACCTATAACCC
*
11288865 AGTCTCACAATACCTAATAATAAGTAACCTAATGCCTAATATCCACTCACGTTATGCCAACATAA
1 AGTCTCACAATACCTAATAATAAGTCACCTAATGCCTAATATCCACTCACGTTATGCCAACATAA
* * * * * * *
11288930 CCAGTCACGTATTGGCCCAACATTAAGTAATAAATAACAACAGGTCATGCAATACATAAAAACCA
66 CCAGTAACGTACTAGCCCAACATCAAGCAATAAATAACAACAAGTCAAGCAATACATAAAAACCA
* * * *
11288995 GTCACGTAATGTCTCAACACAAGATATACAGAGCACAATTCACGCAGCACCTTTGACCC
131 GTCACGCAATGTCTCAACACAAGATATACAGAGCACAATTCACGCAACACCTATAACCC
* * * *
11289054 AGTCTCAAAATACCTAATAATAGGTCACGTAATGCCTAACATCCACTCACGTTATGCCAA
1 AGTCTCACAATACCTAATAATAAGTCACCTAATGCCTAATATCCACTCACGTTATGCCAA
11289114 AATACCCAAT
Statistics
Matches: 217, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
189 215 0.99
190 2 0.01
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.23
Consensus pattern (189 bp):
AGTCTCACAATACCTAATAATAAGTCACCTAATGCCTAATATCCACTCACGTTATGCCAACATAA
CCAGTAACGTACTAGCCCAACATCAAGCAATAAATAACAACAAGTCAAGCAATACATAAAAACCA
GTCACGCAATGTCTCAACACAAGATATACAGAGCACAATTCACGCAACACCTATAACCC
Found at i:11289175 original size:189 final size:189
Alignment explanation
Indices: 11288684--11289177 Score: 582
Period size: 189 Copynumber: 2.6 Consensus size: 189
11288674 TTAGTCTCTC
* * *
11288684 AATACCTAATAATAAGTCACTCAATGCCTAATATCCACTCAAGTTATGCCAATATAACCAGTAAC
1 AATACCTAATAATAAGTCACT-AATGCCTAATATCCACTCACGTTATGCCAAAATAACCAGTCAC
* * * * * * *
11288749 GTACTAGCCCAATGTCACGCAATACATAACAACAAGT-CAAGTAATACATAAAAATCAGTCACGC
65 GTATTGGCCCAACGTCACGCTATACATAACAACAAGTCCTAGCAATACATAAAAACCAGTCACGC
* ** ** *
11288813 AATGTCTCAACACAAGATATGCATTGCGTAATTCACGCAACACCTATAACCCAGTCTCAC
130 AATGTCTCAACACAAGATATACAGAGCACAATTCACGCAACACCTATAACCCAGTCTCAA
* *
11288873 AATACCTAATAATAAGTAACCTAATGCCTAATATCCACTCACGTTATGCCAACATAACCAGTCAC
1 AATACCTAATAATAAGTCA-CTAATGCCTAATATCCACTCACGTTATGCCAAAATAACCAGTCAC
* * * * * *
11288938 GTATTGGCCCAACATTAAG-TAATAAATAACAACAGGTCAT-GCAATACATAAAAACCAGTCACG
65 GTATTGGCCCAACGTCACGCT-ATACATAACAACAAGTCCTAGCAATACATAAAAACCAGTCACG
* * * *
11289001 TAATGTCTCAACACAAGATATACAGAGCACAATTCACGCAGCACCTTTGACCCAGTCTCAA
129 CAATGTCTCAACACAAGATATACAGAGCACAATTCACGCAACACCTATAACCCAGTCTCAA
* * * * *
11289062 AATACCTAATAATAGGTCACGTAATGCCTAACATCCACTCACGTTATGCCAAAATACCCAATCAT
1 AATACCTAATAATAAGTCAC-TAATGCCTAATATCCACTCACGTTATGCCAAAATAACCAGTCAC
* ** * *
11289127 GCATTGGCCTTACGTCGCGCTATACATAAAAACAAGTCCTAG-AATACATAA
65 GTATTGGCCCAACGTCACGCTATACATAACAACAAGTCCTAGCAATACATAA
11289178 CAACTAGACA
Statistics
Matches: 254, Mismatches: 45, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
188 1 0.00
189 249 0.98
190 4 0.02
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (189 bp):
AATACCTAATAATAAGTCACTAATGCCTAATATCCACTCACGTTATGCCAAAATAACCAGTCACG
TATTGGCCCAACGTCACGCTATACATAACAACAAGTCCTAGCAATACATAAAAACCAGTCACGCA
ATGTCTCAACACAAGATATACAGAGCACAATTCACGCAACACCTATAACCCAGTCTCAA
Found at i:11290228 original size:20 final size:20
Alignment explanation
Indices: 11290190--11290228 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11290180 GGTTACGATT
**
11290190 CCTAATATCCACTCGCACAC
1 CCTAATATCCACTAACACAC
*
11290210 CCTAATATCCAGTAACACA
1 CCTAATATCCACTAACACA
11290229 ATGCCTAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.38, G:0.05, T:0.21
Consensus pattern (20 bp):
CCTAATATCCACTAACACAC
Found at i:11290441 original size:18 final size:18
Alignment explanation
Indices: 11290418--11290479 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
11290408 GAGAAAGTTG
11290418 GATGGCGATATAGACCTC
1 GATGGCGATATAGACCTC
* * *
11290436 GATGGC-ATTGTAGAGCTA
1 GATGGCGA-TATAGACCTC
*
11290454 GACGGCAAGATATAGACCTC
1 GATGGC--GATATAGACCTC
11290474 GATGGC
1 GATGGC
11290480 ATTGGAGAGC
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 1 0.03
18 18 0.56
20 12 0.38
21 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (18 bp):
GATGGCGATATAGACCTC
Found at i:11290466 original size:38 final size:38
Alignment explanation
Indices: 11290424--11290496 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
11290414 GTTGGATGGC
*
11290424 GATATAGACCTCGATGGCATTGTAGAGCTAGACGGCAA
1 GATATAGACCTCGATGGCATTGGAGAGCTAGACGGCAA
11290462 GATATAGACCTCGATGGCATTGGAGAGCTAGACGG
1 GATATAGACCTCGATGGCATTGGAGAGCTAGACGG
11290497 AGAGTAGCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.21
Consensus pattern (38 bp):
GATATAGACCTCGATGGCATTGGAGAGCTAGACGGCAA
Found at i:11290480 original size:20 final size:20
Alignment explanation
Indices: 11290424--11290480 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
11290414 GTTGGATGGC
11290424 GATATAGACCTCGATGGC-A
1 GATATAGACCTCGATGGCAA
* * * * *
11290443 -TTGTAGAGCTAGACGGCAA
1 GATATAGACCTCGATGGCAA
11290462 GATATAGACCTCGATGGCA
1 GATATAGACCTCGATGGCA
11290481 TTGGAGAGCT
Statistics
Matches: 26, Mismatches: 10, Indels: 3
0.67 0.26 0.08
Matches are distributed among these distances:
18 12 0.46
19 1 0.04
20 13 0.50
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (20 bp):
GATATAGACCTCGATGGCAA
Found at i:11291024 original size:10 final size:10
Alignment explanation
Indices: 11291009--11291040 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
11290999 TAAAAATGAT
*
11291009 GAGAGAGAGA
1 GAGAGACAGA
11291019 GAGAGACAGA
1 GAGAGACAGA
11291029 GAGAGACAGA
1 GAGAGACAGA
11291039 GA
1 GA
11291041 AAGAACTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.44, T:0.00
Consensus pattern (10 bp):
GAGAGACAGA
Found at i:11309583 original size:17 final size:17
Alignment explanation
Indices: 11309561--11309594 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11309551 CCTAATCCGT
11309561 TATAA-GGTTGTATCTTG
1 TATAAGGGTTGTA-CTTG
11309578 TATAAGGGTTGTACTTG
1 TATAAGGGTTGTACTTG
11309595 AACCTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.24, C:0.06, G:0.26, T:0.44
Consensus pattern (17 bp):
TATAAGGGTTGTACTTG
Found at i:11314778 original size:21 final size:21
Alignment explanation
Indices: 11314714--11314786 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
11314704 GAATATTACT
* * *
11314714 TTTAAATTTAAACCAGTAAAA
1 TTTAAATTTAAACAAATTAAA
* ** *
11314735 TTTAAATGT-AATGAATCTTAA
1 TTTAAATTTAAACAAAT-TAAA
11314756 TTTAAATTTAAACAAATTAAA
1 TTTAAATTTAAACAAATTAAA
11314777 TTTAAATTTA
1 TTTAAATTTA
11314787 CATCCTATCT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 4 0.10
21 31 0.77
22 5 0.12
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (21 bp):
TTTAAATTTAAACAAATTAAA
Found at i:11323458 original size:25 final size:23
Alignment explanation
Indices: 11323420--11323466 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
11323410 ATCAATTTGA
11323420 TTGAATTTGATAAAAGTGAATTTAT
1 TTGAATTTGATAAAA-T-AATTTAT
**
11323445 TTGAATTTTTTAAAATAATTTA
1 TTGAATTTGATAAAATAATTTA
11323467 AAGTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 1 0.05
25 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (23 bp):
TTGAATTTGATAAAATAATTTAT
Found at i:11325557 original size:57 final size:57
Alignment explanation
Indices: 11325493--11325610 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 57
11325483 GCCAACCATG
*
11325493 TTGACCAAAGGGTAGCATTC-CACACCATAAGCTACCTCTTCTTAATGCCAGTCCAAC
1 TTGACCAAAGGGTAGCA-TCGCACACCATAAGCTACCTCTTCTTAATGCCACTCCAAC
11325550 TTGACCAAAGGGTAGCATCGCACACCATAAGCTACCTCTTCTTAATGCCACTCCAAC
1 TTGACCAAAGGGTAGCATCGCACACCATAAGCTACCTCTTCTTAATGCCACTCCAAC
11325607 TTGA
1 TTGA
11325611 AGAGTATAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 2 0.03
57 57 0.97
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (57 bp):
TTGACCAAAGGGTAGCATCGCACACCATAAGCTACCTCTTCTTAATGCCACTCCAAC
Found at i:11327931 original size:34 final size:34
Alignment explanation
Indices: 11327893--11327960 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
11327883 TTTATTCTTA
*
11327893 AGATTCAACAAACTCTTTTTGAATAATTGAATCT
1 AGATTCAACAAACTCTTCTTGAATAATTGAATCT
11327927 AGATTCAACAAACTCTTCTTGAATAATTGAATCT
1 AGATTCAACAAACTCTTCTTGAATAATTGAATCT
11327961 TCTTGGATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (34 bp):
AGATTCAACAAACTCTTCTTGAATAATTGAATCT
Found at i:11328201 original size:52 final size:52
Alignment explanation
Indices: 11328132--11328234 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
11328122 AAATAAAACA
* *
11328132 TTTTGTGATCAGAAAAATATTTTGTAATGGTATAAAAATATTTTAAAAAATT
1 TTTTGTAATCAGAAAAATATTTTGTAACGGTATAAAAATATTTTAAAAAATT
* * *
11328184 TTTTGTAATCA-AGAAAATATTTTGTAACGTTATAAAAGTATTTTGAAAAAT
1 TTTTGTAATCAGA-AAAATATTTTGTAACGGTATAAAAATATTTTAAAAAAT
11328235 AATCGAACAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
51 1 0.02
52 44 0.98
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.42
Consensus pattern (52 bp):
TTTTGTAATCAGAAAAATATTTTGTAACGGTATAAAAATATTTTAAAAAATT
Found at i:11328341 original size:96 final size:96
Alignment explanation
Indices: 11328230--11328413 Score: 325
Period size: 96 Copynumber: 1.9 Consensus size: 96
11328220 AGTATTTTGA
*
11328230 AAAATAATCGAACACCAAATCAAGTCATGTAATAGTTTATTTTATAATGTTGGCCTAATCAAAAA
1 AAAATAATCGAACACCAAATCAAGTCATGTAATAGTTTATTTTATAATGTTGGCCAAATCAAAAA
11328295 CCAAATCAAATTCTATTTTCCAAATATTCTG
66 CCAAATCAAATTCTATTTTCCAAATATTCTG
* *
11328326 AAAATAATC-AGACACCAAATCAAGTCCTGTAATAGTTTATTTTATAATGTTGGCCAAATTAAAA
1 AAAATAATCGA-ACACCAAATCAAGTCATGTAATAGTTTATTTTATAATGTTGGCCAAATCAAAA
11328390 ACCAAATCAAATTCTATTTTCCAA
65 ACCAAATCAAATTCTATTTTCCAA
11328414 CCATGGTAAG
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
95 1 0.01
96 83 0.99
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (96 bp):
AAAATAATCGAACACCAAATCAAGTCATGTAATAGTTTATTTTATAATGTTGGCCAAATCAAAAA
CCAAATCAAATTCTATTTTCCAAATATTCTG
Found at i:11330998 original size:35 final size:33
Alignment explanation
Indices: 11330954--11331029 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
11330944 TGTGATAAGG
*
11330954 AAAAAATTCTGTAACAATATAAAAAATATTCTGAA
1 AAAAAATTCTATAAC-AT-TAAAAAATATTCTGAA
* * *
11330989 AAAAAATTCTATAACGTTATAAAATATTTTGAA
1 AAAAAATTCTATAACATTAAAAAATATTCTGAA
*
11331022 AAATAATT
1 AAAAAATT
11331030 AAATAAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 21 0.58
34 1 0.03
35 14 0.39
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (33 bp):
AAAAAATTCTATAACATTAAAAAATATTCTGAA
Found at i:11336853 original size:25 final size:26
Alignment explanation
Indices: 11336825--11336880 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
11336815 AATCAATTAG
* *
11336825 TCAATTCAAATCTCCTTCATTACTC-
1 TCAATCCAAATCTCCTTCATTAATCT
*
11336850 TCAAGCCAAATCTCCTTCATTAATCT
1 TCAATCCAAATCTCCTTCATTAATCT
11336876 TCAAT
1 TCAAT
11336881 AGCATGCGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.30, C:0.30, G:0.02, T:0.38
Consensus pattern (26 bp):
TCAATCCAAATCTCCTTCATTAATCT
Found at i:11350842 original size:19 final size:19
Alignment explanation
Indices: 11350820--11350905 Score: 52
Period size: 19 Copynumber: 4.3 Consensus size: 19
11350810 GCAATACACA
11350820 AAAAGAGATGGTAAATACC
1 AAAAGAGATGGTAAATACC
* *
11350839 AAAAGTCAGAAAAGATAGAATAACC
1 AAAAG--AG--ATGGTA-AAT-ACC
*
11350864 -AAAGAGAT-G-CAATACAC
1 AAAAGAGATGGTAAATAC-C
11350881 AAAAAGAGATGGTAAATACC
1 -AAAAGAGATGGTAAATACC
11350901 AAAAG
1 AAAAG
11350906 TCAGAAAGGC
Statistics
Matches: 50, Mismatches: 6, Indels: 22
0.64 0.08 0.28
Matches are distributed among these distances:
16 2 0.04
17 4 0.08
19 18 0.36
20 3 0.06
21 7 0.14
22 2 0.04
23 4 0.08
24 7 0.14
25 3 0.06
ACGTcount: A:0.57, C:0.12, G:0.19, T:0.13
Consensus pattern (19 bp):
AAAAGAGATGGTAAATACC
Found at i:11350885 original size:62 final size:62
Alignment explanation
Indices: 11350788--11350912 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
11350778 ATGCGTATGT
11350788 AAGATAGAATAACCAAAGAGATGCAATACACAAAAAGAGATGGTAAATACCAAAAGTCAGAA
1 AAGATAGAATAACCAAAGAGATGCAATACACAAAAAGAGATGGTAAATACCAAAAGTCAGAA
11350850 AAGATAGAATAACCAAAGAGATGCAATACACAAAAAGAGATGGTAAATACCAAAAGTCAGAA
1 AAGATAGAATAACCAAAGAGATGCAATACACAAAAAGAGATGGTAAATACCAAAAGTCAGAA
11350912 A
1 A
11350913 GGCTCACGAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.57, C:0.13, G:0.18, T:0.13
Consensus pattern (62 bp):
AAGATAGAATAACCAAAGAGATGCAATACACAAAAAGAGATGGTAAATACCAAAAGTCAGAA
Found at i:11355940 original size:6 final size:6
Alignment explanation
Indices: 11355926--11355959 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
11355916 ATCCAGTGGC
*
11355926 GGTTGG GGTTCG GGTTCG GGTTCG GGTTCG GGTT
1 GGTTCG GGTTCG GGTTCG GGTTCG GGTTCG GGTT
11355960 GGGGAAACGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.53, T:0.35
Consensus pattern (6 bp):
GGTTCG
Found at i:11357682 original size:30 final size:30
Alignment explanation
Indices: 11357646--11357710 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
11357636 AGTTCTTGAG
11357646 ATTTAGTTTAATTATTAGTTATTTTTAGTC
1 ATTTAGTTTAATTATTAGTTATTTTTAGTC
11357676 ATTTAGTTTAATTATTAGTTATTTTTAGTC
1 ATTTAGTTTAATTATTAGTTATTTTTAGTC
11357706 ATTTA
1 ATTTA
11357711 TTTTGTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.60
Consensus pattern (30 bp):
ATTTAGTTTAATTATTAGTTATTTTTAGTC
Found at i:11358734 original size:26 final size:26
Alignment explanation
Indices: 11358698--11358750 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11358688 GAGTTTAGAG
11358698 TAAGCCATGGATGAAATAGCATATGT
1 TAAGCCATGGATGAAATAGCATATGT
11358724 TAAGCCATGGATGAAATAGCATATGT
1 TAAGCCATGGATGAAATAGCATATGT
11358750 T
1 T
11358751 CAATATCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (26 bp):
TAAGCCATGGATGAAATAGCATATGT
Found at i:11362239 original size:180 final size:180
Alignment explanation
Indices: 11362053--11362490 Score: 614
Period size: 180 Copynumber: 2.4 Consensus size: 180
11362043 AAAATGTCTC
* * * * *
11362053 CTAAAATCTTGAAAAAATATTATGGAGTAGCTCCATGAGTTTTCTATTAGGATTAATTTTATTAG
1 CTAAAATCCTGAAAAATTATTCTGGAATAGCTCCATGAGTTATCTATTAGGATTAATTTTATTAG
* * * ** ***
11362118 GAATTAGATTTCTAAGTTTGAGTCACAAAGAATTTCAAAAGTTCTCAAAAATGGATTCTACCAC-
66 GAATTAAATTCCTAAGTTTGAGGCACAAAGAATTTCAAAAGGACTCAAAAACCAATTCTACCACA
11362182 CGACAGATAAAGGTCACGATTTTTGAATTTTTTGAATGGCCAAATCACCTT
131 CG-CAGATAAAGGTCACGATTTTTGAATTTTTTGAATGGCCAAATCACCTT
* *
11362233 CTAAAATCCT-AAAAATTTATTCTGGAATAGCTCCATGAGTCATCTATTAGGATAAATTTTATTA
1 CTAAAATCCTGAAAAA-TTATTCTGGAATAGCTCCATGAGTTATCTATTAGGATTAATTTTATTA
* * * *
11362297 GGAATTAAATTCCTAATTTTTAGGCACAAAGAATTTCAAAAGGACTCAAAAACCAATTTTGCCAC
65 GGAATTAAATTCCTAAGTTTGAGGCACAAAGAATTTCAAAAGGACTCAAAAACCAATTCTACCAC
* *
11362362 ATGCAGATAAAGGTCACGGTTTTTGAATTTTTTGAATGGCCAAATCACCTT
130 ACGCAGATAAAGGTCACGATTTTTGAATTTTTTGAATGGCCAAATCACCTT
* * *
11362413 CTAAAATCCTGAAAATTTATTCTGGAATAGTTCCATGAGTTATCTATCAGGA-TAATTTTATTA-
1 CTAAAATCCTGAAAAATTATTCTGGAATAGCTCCATGAGTTATCTATTAGGATTAATTTTATTAG
11362476 GAATTAAATTCCTAA
66 GAATTAAATTCCTAA
11362491 AGATACACCG
Statistics
Matches: 229, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
178 15 0.07
179 15 0.07
180 194 0.85
181 5 0.02
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (180 bp):
CTAAAATCCTGAAAAATTATTCTGGAATAGCTCCATGAGTTATCTATTAGGATTAATTTTATTAG
GAATTAAATTCCTAAGTTTGAGGCACAAAGAATTTCAAAAGGACTCAAAAACCAATTCTACCACA
CGCAGATAAAGGTCACGATTTTTGAATTTTTTGAATGGCCAAATCACCTT
Found at i:11363856 original size:58 final size:58
Alignment explanation
Indices: 11363727--11363891 Score: 242
Period size: 58 Copynumber: 2.9 Consensus size: 58
11363717 TCATCCAAAG
* * * *
11363727 TAGTTTGCATGTGATAGATTTA-TTTATGCGATTTAATGAACGCTATGCAATGTAAAG
1 TAGTTTGCATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATGCAATGAAAAA
* * *
11363784 TAGTTTGCACGTGATAGATTTATTTTATACAATTTAATAAATGCTATGCAATGAAAAA
1 TAGTTTGCATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATGCAATGAAAAA
* *
11363842 TAGTATGCATGTGATAGATTTATTTTATGCGATTTAATAAATGGTATGCA
1 TAGTTTGCATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATGCA
11363892 TGCAAAGATG
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 21 0.22
58 74 0.78
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (58 bp):
TAGTTTGCATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATGCAATGAAAAA
Found at i:11370515 original size:28 final size:29
Alignment explanation
Indices: 11370468--11370539 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
11370458 TTCAAGAGGC
* * * *
11370468 TCACCATAAACCTATTG-TTTTAACAAGT
1 TCACCACAAACCCATGGTTTTTAACAAGA
*
11370496 TCACCACAAATCCATGGTTTTTAACAAGA
1 TCACCACAAACCCATGGTTTTTAACAAGA
11370525 TCACCACAAACCCAT
1 TCACCACAAACCCAT
11370540 ACAATGGCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 13 0.35
29 24 0.65
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (29 bp):
TCACCACAAACCCATGGTTTTTAACAAGA
Found at i:11373972 original size:2 final size:2
Alignment explanation
Indices: 11373965--11374030 Score: 111
Period size: 2 Copynumber: 34.5 Consensus size: 2
11373955 CTTGCTTTGC
11373965 TA TA TA TA TA TA TA TA TA TA T- TA T- TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11374004 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11374031 CCTTTCTTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 58 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11392660 original size:109 final size:108
Alignment explanation
Indices: 11392468--11392685 Score: 409
Period size: 109 Copynumber: 2.0 Consensus size: 108
11392458 CCTCCTTAGG
11392468 GTTTTTCTATGCTTTCCCCCTTTGTTCTTTGGCTTGAACGGCAATGAGAGAGTGAATGGGAGAGT
1 GTTTTTCTATGCTTTCCCCCTTTGTTCTTTGGCTTGAACGGCAATGAGAGAGTGAATGGGAGAGT
11392533 TTATGTTGAGCTTATAAAGGAAATTATAAAATAATAAAAACTT
66 TTATGTTGAGCTTATAAAGGAAATTATAAAATAATAAAAACTT
*
11392576 GNTTTTTCTATTCTTTCCCCCTTTGTTCTTTGGCTTGAACGGCAATGAGAGAGTGAATGGGAGAG
1 G-TTTTTCTATGCTTTCCCCCTTTGTTCTTTGGCTTGAACGGCAATGAGAGAGTGAATGGGAGAG
*
11392641 TTTATGTTGAGTTTATAAAGGAAATTATAAAATAATAAAAACTT
65 TTTATGTTGAGCTTATAAAGGAAATTATAAAATAATAAAAACTT
11392685 G
1 G
11392686 ACACATGGCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
108 1 0.01
109 106 0.99
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.37
Consensus pattern (108 bp):
GTTTTTCTATGCTTTCCCCCTTTGTTCTTTGGCTTGAACGGCAATGAGAGAGTGAATGGGAGAGT
TTATGTTGAGCTTATAAAGGAAATTATAAAATAATAAAAACTT
Found at i:11400736 original size:33 final size:33
Alignment explanation
Indices: 11400686--11400799 Score: 131
Period size: 33 Copynumber: 3.5 Consensus size: 33
11400676 CTTGGTGGGT
* **
11400686 TAAA-TTATACATCCACTCCTGGTAAGTAAAAC
1 TAAAGTTATACATCCACTCTTGGTGGGTAAAAC
* * * *
11400718 TAAAGTTAGACATCCACTCTTTGTGGGTGAAAT
1 TAAAGTTATACATCCACTCTTGGTGGGTAAAAC
* *
11400751 TAAAGTTATCCATCTACTCTTGGTGGGTAAAAC
1 TAAAGTTATACATCCACTCTTGGTGGGTAAAAC
*
11400784 TAAAGTTATCCATCCA
1 TAAAGTTATACATCCA
11400800 TCCCTTGCGA
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
32 4 0.06
33 63 0.94
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (33 bp):
TAAAGTTATACATCCACTCTTGGTGGGTAAAAC
Found at i:11400814 original size:33 final size:32
Alignment explanation
Indices: 11400686--11400814 Score: 98
Period size: 33 Copynumber: 3.9 Consensus size: 32
11400676 CTTGGTGGGT
* * *
11400686 TAAA-TTATACATCCACTCCTGGTAAGTAAAAC
1 TAAAGTTATCCATCCAC-CCTTGTGAGTAAAAC
** * * * *
11400718 TAAAGTTAGACATCCACTCTTTGTGGGTGAAAT
1 TAAAGTTATCCATCCAC-CCTTGTGAGTAAAAC
* * *
11400751 TAAAGTTATCCATCTACTCTTGGTGGGTAAAAC
1 TAAAGTTATCCATCCACCCTT-GTGAGTAAAAC
*
11400784 TAAAGTTATCCATCCATCCCTTGCGAGTAAA
1 TAAAGTTATCCATCCA-CCCTTGTGAGTAAA
11400815 GTTATCCATC
Statistics
Matches: 76, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
32 6 0.08
33 66 0.87
34 4 0.05
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (32 bp):
TAAAGTTATCCATCCACCCTTGTGAGTAAAAC
Found at i:11403513 original size:12 final size:12
Alignment explanation
Indices: 11403496--11403526 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
11403486 TTTTAACAAT
11403496 ATATATAAATAA
1 ATATATAAATAA
11403508 ATATATAAATAA
1 ATATATAAATAA
11403520 ATATATA
1 ATATATA
11403527 TATATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATATAAATAA
Found at i:11403519 original size:16 final size:16
Alignment explanation
Indices: 11403494--11403535 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
11403484 TGTTTTAACA
11403494 ATATATATAAATAAAT
1 ATATATATAAATAAAT
* *
11403510 ATATAAATAAATATAT
1 ATATATATAAATAAAT
11403526 ATATATATAA
1 ATATATATAA
11403536 TATGGATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATATAAATAAAT
Found at i:11405151 original size:39 final size:39
Alignment explanation
Indices: 11405075--11405173 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 39
11405065 CTCTATGGGA
* *
11405075 CTCTCCCATCAGCCCAAATAATAAACATATATGGGGCATC
1 CTCTCCCATCAGCCCACAT-ATAAACATATATAGGGCATC
*
11405115 CTCTCCCATCAGCCCACATATAAACATATCTAGGGCATC
1 CTCTCCCATCAGCCCACATATAAACATATATAGGGCATC
*
11405154 CTCTCCCATCAGCCCCCATA
1 CTCTCCCATCAGCCCACATA
11405174 ACAGATCCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 37 0.67
40 18 0.33
ACGTcount: A:0.30, C:0.37, G:0.10, T:0.22
Consensus pattern (39 bp):
CTCTCCCATCAGCCCACATATAAACATATATAGGGCATC
Found at i:11405978 original size:19 final size:19
Alignment explanation
Indices: 11405941--11406023 Score: 55
Period size: 20 Copynumber: 4.3 Consensus size: 19
11405931 ACTGCTCTTG
11405941 AGCTTCAAAT-TGCTTCCTTA
1 AGCTTCAAATAT--TTCCTTA
*
11405961 AGCTTCAAATATTTCCTTTG
1 AGCTTCAAATATTTCC-TTA
* *
11405981 AGCTTCAACAGA-TTCTTTA
1 AGCTTCAA-ATATTTCCTTA
* * *
11406000 AG-TCCCAATATTTGCTTA
1 AGCTTCAAATATTTCCTTA
11406018 AGCTTC
1 AGCTTC
11406024 CTAGTATTCC
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
17 2 0.04
18 10 0.21
19 10 0.21
20 23 0.48
21 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.40
Consensus pattern (19 bp):
AGCTTCAAATATTTCCTTA
Found at i:11405984 original size:20 final size:19
Alignment explanation
Indices: 11405937--11405988 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
11405927 ACTTACTGCT
11405937 CTTGAGCTTCAAATTGCTTC
1 CTTGAGCTTCAAATT-CTTC
*
11405957 CTTAAGCTTCAAATAT-TTC
1 CTTGAGCTTCAAAT-TCTTC
11405976 CTTTGAGCTTCAA
1 C-TTGAGCTTCAA
11405989 CAGATTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.14
20 23 0.82
21 1 0.04
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (19 bp):
CTTGAGCTTCAAATTCTTC
Found at i:11410270 original size:28 final size:29
Alignment explanation
Indices: 11410229--11410288 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
11410219 GTCTATGGGC
*
11410229 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
11410257 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
11410287 AA
1 AA
11410289 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:11412992 original size:3 final size:3
Alignment explanation
Indices: 11412984--11413024 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11412974 ATGGTTATGC
11412984 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11413025 GATGTTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11416720 original size:19 final size:19
Alignment explanation
Indices: 11416696--11416733 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11416686 CTATTTGACT
11416696 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
11416715 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
11416734 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:11416809 original size:28 final size:27
Alignment explanation
Indices: 11416778--11416831 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
11416768 ATTTGGAGCA
*
11416778 TAGGGGTAAAATGGTAATTTTGCCACCT
1 TAGGGGCAAAATGGTAATTTT-CCACCT
*
11416806 TAGGGGCAAAATTGTAATTTTCCACC
1 TAGGGGCAAAATGGTAATTTTCCACC
11416832 ACCAGGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (27 bp):
TAGGGGCAAAATGGTAATTTTCCACCT
Found at i:11419369 original size:15 final size:15
Alignment explanation
Indices: 11419331--11419376 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
11419321 GAGATTTTGG
* **
11419331 TTTTAAAGCTTTAGA
1 TTTTAAAGTTTTTTA
11419346 TTTTAAAGTTTTTTA
1 TTTTAAAGTTTTTTA
11419361 TTTTAAAGTTGTTTTA
1 TTTTAAAGTT-TTTTA
11419377 AGAAATCCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTTAAAGTTTTTTA
Found at i:11421675 original size:19 final size:19
Alignment explanation
Indices: 11421651--11421688 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11421641 CCATTTGACT
11421651 TATTGGAATATGATTTGAG
1 TATTGGAATATGATTTGAG
*
11421670 TATTGGAGTATGATTTGAG
1 TATTGGAATATGATTTGAG
11421689 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAATATGATTTGAG
Found at i:11421792 original size:28 final size:28
Alignment explanation
Indices: 11421737--11421792 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
11421727 TGGAGCATAA
*
11421737 GGGTAAAATGGTAATTTTGCCACTCCAG
1 GGGTAAAATGGTAATTTTGCCACACCAG
* *
11421765 GGGTAAATTTGTAATTTT-CCACCACCAG
1 GGGTAAAATGGTAATTTTGCCA-CACCAG
11421793 AACATTTGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTGCCACACCAG
Done.