Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 21 of 82
Found at i:7162210 original size:27 final size:29
Alignment explanation
Indices: 7162180--7162237 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
7162170 TTTGAGCATA
*
7162180 AAGGGCAAAATAGTCATTTTAC-CC-CCC
1 AAGGGCAAAATAGTAATTTTACACCACCC
*
7162207 AAGGGCAAAATTGTAATTTTACACCACCC
1 AAGGGCAAAATAGTAATTTTACACCACCC
7162236 AA
1 AA
7162238 CACTTGTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 20 0.74
28 2 0.07
29 5 0.19
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGGGCAAAATAGTAATTTTACACCACCC
Found at i:7162507 original size:21 final size:22
Alignment explanation
Indices: 7162482--7162522 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7162472 CCTAGGTGGA
*
7162482 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
7162503 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
7162523 AAAAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:7162523 original size:20 final size:21
Alignment explanation
Indices: 7162482--7162526 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7162472 CCTAGGTGGA
*
7162482 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
7162503 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
7162523 AAAA
1 AAAA
7162527 AAAAAGGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:7162527 original size:21 final size:20
Alignment explanation
Indices: 7162480--7162527 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
7162470 ACCCTAGGTG
*
7162480 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
7162500 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
7162522 GAAAAA
1 GAAAAA
7162528 AAAAGGTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:7165955 original size:23 final size:23
Alignment explanation
Indices: 7165929--7165974 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
7165919 TATTACGTTT
*
7165929 ATGCCTCGTTATGAGCCTATAGG
1 ATGCCGCGTTATGAGCCTATAGG
7165952 ATGCCGCGTTATGAGCCTATAGG
1 ATGCCGCGTTATGAGCCTATAGG
7165975 GGTTGAGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (23 bp):
ATGCCGCGTTATGAGCCTATAGG
Found at i:7176528 original size:54 final size:54
Alignment explanation
Indices: 7176446--7176548 Score: 179
Period size: 54 Copynumber: 1.9 Consensus size: 54
7176436 TCATCATGTG
* *
7176446 CATCTCACCCAGCTGATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAACCGGACATCC
*
7176500 CATCTGACCCAGCTCATGTGCATCCCACCACATCGTGCACATAACCGGA
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAACCGGA
7176549 TAGTATCACC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.25, C:0.40, G:0.17, T:0.18
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAACCGGACATCC
Found at i:7181368 original size:29 final size:29
Alignment explanation
Indices: 7181297--7181566 Score: 276
Period size: 29 Copynumber: 9.3 Consensus size: 29
7181287 TCTTATCTTT
* * *
7181297 AATTAAGACAAAATATGTTATCTTGTTTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* *
7181326 ATATTGATAC-AAACATGTTTTCTTGTCTA
1 A-ATTAAGACAAAACATGTTTTCTTGTCTA
* *
7181355 GATTAAGACAAAACATATTTTTCTTGTCTA
1 AATTAAGACAAAACAT-GTTTTCTTGTCTA
* * *
7181385 AATTAAGA-TAAATATGTTTTCTTCTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* *
7181413 AATGAAGACAAAACATGTATTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
7181442 AATTTAGACAAAACATGTTTTATTATCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * * *
7181471 AATTAAGAC-AAACAAGTCTACTTGTCTT
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
7181499 AGTTAAGCCAAAACATGTTTTCTAGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
7181528 AATTTAGACAAAACATGTGTTCTTGTCCA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
7181557 AATTAAGACA
1 AATTAAGACA
7181567 CACATGCAAA
Statistics
Matches: 191, Mismatches: 45, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
28 44 0.23
29 122 0.64
30 25 0.13
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (29 bp):
AATTAAGACAAAACATGTTTTCTTGTCTA
Found at i:7181527 original size:86 final size:86
Alignment explanation
Indices: 7181336--7181566 Score: 282
Period size: 86 Copynumber: 2.7 Consensus size: 86
7181326 ATATTGATAC
* * * * * *
7181336 AAACATGTTTTCTTGTCTAGATTAAGACAAAACATATTTTTCTTGTCTAAATTAAGATAAATATG
1 AAACATGTTTTCTTGTCTAAATTTAGACAAAACAT-GTTTTCTTGTCTAAATTAAGACAAACAAG
* *
7181401 TTTTCTTCTCTAAATGAAGACA
65 TCTACTTCTCTAAATGAAGACA
* * *
7181423 AAACATGTATTCTTGTCTAAATTTAGACAAAACATGTTTTATTATCTAAATTAAGACAAACAAGT
1 AAACATGTTTTCTTGTCTAAATTTAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACAAGT
* * * * *
7181488 CTACTTGTCTTAGTTAAGCCA
66 CTACTTCTCTAAATGAAGACA
* * *
7181509 AAACATGTTTTCTAGTCTAAATTTAGACAAAACATGTGTTCTTGTCCAAATTAAGACA
1 AAACATGTTTTCTTGTCTAAATTTAGACAAAACATGTTTTCTTGTCTAAATTAAGACA
7181567 CACATGCAAA
Statistics
Matches: 122, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
86 90 0.74
87 32 0.26
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (86 bp):
AAACATGTTTTCTTGTCTAAATTTAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACAAGT
CTACTTCTCTAAATGAAGACA
Found at i:7184993 original size:43 final size:43
Alignment explanation
Indices: 7184932--7185014 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
7184922 TGTGATAATT
7184932 ATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATG
*
7184975 ATGACCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
7185015 GTGTTTATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.20, C:0.18, G:0.37, T:0.24
Consensus pattern (43 bp):
ATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATG
Found at i:7191370 original size:31 final size:32
Alignment explanation
Indices: 7191330--7191394 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 32
7191320 CTTCTTGAAT
7191330 CTCTGTAGGATTTCTACTCAGTGTCCGTGTAG
1 CTCTGTAGGATTTCTACTCAGTGTCCGTGTAG
* *
7191362 CTCT-TAGGATTTCTACTTAGTGTTCGTGTAG
1 CTCTGTAGGATTTCTACTCAGTGTCCGTGTAG
7191393 CT
1 CT
7191395 AACTTCTCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (32 bp):
CTCTGTAGGATTTCTACTCAGTGTCCGTGTAG
Found at i:7195101 original size:16 final size:16
Alignment explanation
Indices: 7195065--7195103 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7195055 AAGGTGGTGC
* *
7195065 ATGAAAGGAAATGCAT
1 ATGAAATGAAATGCAA
*
7195081 GTGAAATGAAATGCAA
1 ATGAAATGAAATGCAA
7195097 ATGAAAT
1 ATGAAAT
7195104 AAACCAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (16 bp):
ATGAAATGAAATGCAA
Found at i:7195364 original size:15 final size:14
Alignment explanation
Indices: 7195310--7195415 Score: 77
Period size: 15 Copynumber: 6.9 Consensus size: 14
7195300 ATAACAAAGT
*
7195310 GAAAAGAGAAGGGAA
1 GAAAAGAGAA-AGAA
* *
7195325 GGAAAGAAGGAAGAA
1 GAAAAG-AGAAAGAA
7195340 GAAAAGAGAGCAAGAAA
1 GAAAAGAGA--AAG-AA
7195357 GAAAAGAGAAAGAA
1 GAAAAGAGAAAGAA
7195371 GAAAAAGAGAAAGGAA
1 G-AAAAGAGAAA-GAA
* *
7195387 GAAAACAAGAAAGGGA
1 GAAAA-GAGAAA-GAA
7195403 GAAAAAGAGAAAG
1 G-AAAAGAGAAAG
7195416 GGAGGTTTGG
Statistics
Matches: 75, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
14 5 0.07
15 31 0.41
16 24 0.32
17 15 0.20
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (14 bp):
GAAAAGAGAAAGAA
Found at i:7195419 original size:16 final size:16
Alignment explanation
Indices: 7195311--7195416 Score: 98
Period size: 16 Copynumber: 6.8 Consensus size: 16
7195301 TAACAAAGTG
*
7195311 AAAAGAGAAGGGAAGGA
1 AAAAGAGAAAGGAA-GA
7195328 AAGAAG-G-AA-GAAGA
1 AA-AAGAGAAAGGAAGA
* *
7195342 AAAGAGAGCAAGAAAG-
1 AAA-AGAGAAAGGAAGA
7195358 AAAAGAGAAA-GAAGA
1 AAAAGAGAAAGGAAGA
7195373 AAAAGAGAAAGGAAGA
1 AAAAGAGAAAGGAAGA
*
7195389 AAACA-AGAAAGGGAGA
1 AAA-AGAGAAAGGAAGA
7195405 AAAAGAGAAAGG
1 AAAAGAGAAAGG
7195417 GAGGTTTGGC
Statistics
Matches: 75, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
13 1 0.01
14 9 0.12
15 21 0.28
16 34 0.45
17 7 0.09
18 3 0.04
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (16 bp):
AAAAGAGAAAGGAAGA
Found at i:7196842 original size:38 final size:38
Alignment explanation
Indices: 7196791--7196904 Score: 174
Period size: 38 Copynumber: 3.0 Consensus size: 38
7196781 CACACTTAGC
* ***
7196791 TCATGTGCACTCCCTACACGCACAAGGCAATATCATCA
1 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
7196829 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
1 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
* *
7196867 TCATGTGCATTCCTTACTCGCACATTTCAATATCATCA
1 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
7196905 CACGCACTCC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 70 1.00
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.30
Consensus pattern (38 bp):
TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
Found at i:7206628 original size:5 final size:5
Alignment explanation
Indices: 7206613--7206659 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
7206603 TGTAGACACC
*
7206613 ATTTT ATTTTT ATTTT ATTTAT ATTTT CTTTT A-TTT A-TTT ATTTT AT
1 ATTTT A-TTTT ATTTT ATTT-T ATTTT ATTTT ATTTT ATTTT ATTTT AT
7206660 ATGTTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 8 0.22
5 19 0.51
6 10 0.27
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:7206639 original size:16 final size:15
Alignment explanation
Indices: 7206615--7206652 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
7206605 TAGACACCAT
7206615 TTTATTTTTATTTTA
1 TTTATTTTTATTTTA
*
7206630 TTTATATTTTCTTTTA
1 TTTAT-TTTTATTTTA
7206646 TTTATTT
1 TTTATTT
7206653 ATTTTATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTTATTTTA
Found at i:7206658 original size:25 final size:24
Alignment explanation
Indices: 7206621--7206669 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
7206611 CCATTTTATT
*
7206621 TTTATTTTATTTATATTTTCTTTTA
1 TTTATTTTATTTATATGTT-TTTTA
7206646 TTTA-TTTATTTTATATGTTTTTTA
1 TTTATTTTA-TTTATATGTTTTTTA
7206670 AGGTTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTATTTTATTTATATGTTTTTTA
Found at i:7207890 original size:18 final size:18
Alignment explanation
Indices: 7207869--7207916 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
7207859 AGAAAACTAG
7207869 AAAATAATA-ATAATAGCA
1 AAAATAATAGATAATA-CA
7207887 AAAATAATAGA-AATACA
1 AAAATAATAGATAATACA
*
7207904 AAAA-AATATATAA
1 AAAATAATAGATAA
7207917 AGAAAAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 5 0.19
17 8 0.30
18 13 0.48
19 1 0.04
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAATAATAGATAATACA
Found at i:7207936 original size:20 final size:23
Alignment explanation
Indices: 7207888--7207938 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
7207878 ATAATAGCAA
7207888 AAATAATAGAAATACAAAAAAAT
1 AAATAATAGAAATACAAAAAAAT
* *
7207911 ATATAA-AGAAA-A-AAACAAAT
1 AAATAATAGAAATACAAAAAAAT
7207931 AAATAATA
1 AAATAATA
7207939 TATTTAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 12 0.50
21 2 0.08
22 5 0.21
23 5 0.21
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (23 bp):
AAATAATAGAAATACAAAAAAAT
Found at i:7213072 original size:68 final size:68
Alignment explanation
Indices: 7212909--7213176 Score: 241
Period size: 68 Copynumber: 3.9 Consensus size: 68
7212899 CATGTTTGGT
* * * ** * *
7212909 ATGATGAATGCCATAAGATTATGTGTATTTTGTAAATTCCATATACCATATGAGATGATTTAGTA
1 ATGATGAATGACATGAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGAGTAAGTA
*
7212974 TCC
66 TGC
* * * * *
7212977 ATGATGTAT-ACTATAAGATTGTATATATGATGTAAATTCCATATACCATATGAGGTGAGTAAGT
1 ATGATGAATGAC-ATGAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGAGTAAGT
7213041 ATGC
65 ATGC
* * * * * * * * *
7213045 ATGATAAATGTCATGAGATAATGTATATGATGTATATTCGCATATACAACATGAGATGATTGAGA
1 ATGATGAATGACATGAGATTATGTATATGATGTAAATTC-CATATACCATATGAGATGAGTAAGT
*
7213110 AAGC
65 ATGC
* * ** ** *
7213114 ATGATGAATGCCATGAGATTATGTCTATGATGTATTTTCTGTATACCTTATGAGATGAGTAAG
1 ATGATGAATGACATGAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGAGTAAG
7213177 CTAGTATATG
Statistics
Matches: 159, Mismatches: 38, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
67 1 0.01
68 101 0.64
69 57 0.36
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (68 bp):
ATGATGAATGACATGAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGAGTAAGTA
TGC
Found at i:7213116 original size:69 final size:68
Alignment explanation
Indices: 7213000--7213176 Score: 183
Period size: 69 Copynumber: 2.6 Consensus size: 68
7212990 TAAGATTGTA
* * * * * * *
7213000 TATATGATGTAAATTCCATATACCATATGAGGTGAGTAAGTATGCATGATAAATGTCATGAGATA
1 TATATGATGTATATTCCATATACAACATGAGATGAGTAAGAAAGCATGATAAATGCCATGAGATA
7213065 ATG
66 ATG
* * *
7213068 TATATGATGTATATTCGCATATACAACATGAGATGATTGAGAAAGCATGATGAATGCCATGAGAT
1 TATATGATGTATATTC-CATATACAACATGAGATGAGTAAGAAAGCATGATAAATGCCATGAGAT
*
7213133 TATG
65 AATG
* * ** ***
7213137 TCTATGATGTATTTTCTGTATACCTTATGAGATGAGTAAG
1 TATATGATGTATATTCCATATACAACATGAGATGAGTAAG
7213177 CTAGTATATG
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
68 32 0.36
69 56 0.64
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (68 bp):
TATATGATGTATATTCCATATACAACATGAGATGAGTAAGAAAGCATGATAAATGCCATGAGATA
ATG
Found at i:7231030 original size:42 final size:42
Alignment explanation
Indices: 7230971--7231073 Score: 134
Period size: 42 Copynumber: 2.5 Consensus size: 42
7230961 TTGTGTGATG
7230971 ATGATGACCCAGCCATGTGCGTGTAGAAGTACACATGAGCTA
1 ATGATGACCCAGCCATGTGCGTGTAGAAGTACACATGAGCTA
* * * * *
7231013 ATGATGACCCAGCCATGTACGTGTAGGAGTGCATATGAGCTG
1 ATGATGACCCAGCCATGTGCGTGTAGAAGTACACATGAGCTA
* * *
7231055 ATGCTCACCCAGCTATGTG
1 ATGATGACCCAGCCATGTG
7231074 AAAGTGGGGA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (42 bp):
ATGATGACCCAGCCATGTGCGTGTAGAAGTACACATGAGCTA
Found at i:7241326 original size:22 final size:22
Alignment explanation
Indices: 7241301--7241346 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
7241291 ATTTTTAAAA
7241301 TAACTTTAAAACCAAAAACTCT
1 TAACTTTAAAACCAAAAACTCT
*
7241323 TAACTTTAAAACCAAAAGCTCT
1 TAACTTTAAAACCAAAAACTCT
7241345 TA
1 TA
7241347 TACTAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.22, G:0.02, T:0.28
Consensus pattern (22 bp):
TAACTTTAAAACCAAAAACTCT
Found at i:7244861 original size:21 final size:21
Alignment explanation
Indices: 7244819--7244862 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
7244809 AAAGATTTTG
*
7244819 AAAACACAATGCACTTATTTT
1 AAAACACAATGCACTTAGTTT
*
7244840 AAAA-ACAATGCAATTTAGTTT
1 AAAACACAATGC-ACTTAGTTT
7244861 AA
1 AA
7244863 TTTATTGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAACACAATGCACTTAGTTT
Found at i:7260392 original size:35 final size:35
Alignment explanation
Indices: 7260276--7260383 Score: 189
Period size: 35 Copynumber: 3.1 Consensus size: 35
7260266 CTTACTCAGC
7260276 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
7260311 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
***
7260346 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
7260381 TCA
1 TCA
7260384 CACGCACTCT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 70 1.00
ACGTcount: A:0.31, C:0.34, G:0.12, T:0.23
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACGCACAAGGCAATATCA
Found at i:7261633 original size:20 final size:19
Alignment explanation
Indices: 7261610--7261656 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
7261600 TAAATATAAA
7261610 TAACATAAAACT-AACATTAT
1 TAACATAAAA-TAAACATT-T
*
7261630 TAACTTAAAATAAACATTT
1 TAACATAAAATAAACATTT
*
7261649 AAACATAA
1 TAACATAA
7261657 TTAAACTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (19 bp):
TAACATAAAATAAACATTT
Found at i:7269106 original size:20 final size:19
Alignment explanation
Indices: 7269060--7269107 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
7269050 ATGGGAGGAA
* *
7269060 GGAGAA-GAAGAAGTTGCT
1 GGAGAATGAAGAAGCTACT
7269078 GGAGAAATGAAGAAGCTACT
1 GGAG-AATGAAGAAGCTACT
7269098 GGAAGAATGA
1 GG-AGAATGA
7269108 GATTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 4 0.16
19 2 0.08
20 17 0.68
21 2 0.08
ACGTcount: A:0.44, C:0.06, G:0.35, T:0.15
Consensus pattern (19 bp):
GGAGAATGAAGAAGCTACT
Found at i:7270015 original size:43 final size:43
Alignment explanation
Indices: 7269945--7270028 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
7269935 CCTGCCATAC
**
7269945 TCAGCTCATGTGCACTCCTTACTCGCACATAGCTCGGTCATCA
1 TCAGCTCATGTGCACTCCACACTCGCACATAGCTCGGTCATCA
*
7269988 TCAGCTCATGTGCACTTCCACAC-CGCACATAGCTGGGTCAT
1 TCAGCTCATGTGCAC-TCCACACTCGCACATAGCTCGGTCAT
7270029 TATTATCACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 32 0.86
44 5 0.14
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCACACTCGCACATAGCTCGGTCATCA
Found at i:7273640 original size:73 final size:73
Alignment explanation
Indices: 7273545--7273702 Score: 169
Period size: 73 Copynumber: 2.2 Consensus size: 73
7273535 GAAGAAAGTC
* * * *
7273545 AGTCGACTAAGAGCCTATTGCCAGAAATCTGGACTT-CAAGATAGAAACAACTTAATCGACTAAG
1 AGTCGACTAAGAGCCTACTGCCA-AAATCTGGAATTACAAAACAGAAACAACTTAATCGACTAAG
*
7273609 AAG-GGAGTT
65 -AGCGCAGTT
* * * * *
7273618 AGTCGACTAAGTG-CTCACTGCCAAAATTTGGAATTAGAAAACAGAGACAACTTAGTCGACTAAG
1 AGTCGACTAAGAGCCT-ACTGCCAAAATCTGGAATTACAAAACAGAAACAACTTAATCGACTAAG
7273682 AGCGCAGTT
65 AGCGCAGTT
*
7273691 AGTCAACTAAGA
1 AGTCGACTAAGA
7273703 TTATTCTGTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
72 14 0.20
73 56 0.80
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (73 bp):
AGTCGACTAAGAGCCTACTGCCAAAATCTGGAATTACAAAACAGAAACAACTTAATCGACTAAGA
GCGCAGTT
Found at i:7274179 original size:35 final size:35
Alignment explanation
Indices: 7274114--7274184 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
7274104 TTAGTTGTTG
* ** *
7274114 GGTTTTGGTTGATCCCAGTAAAAATGATTGTGAAA
1 GGTTTTGGTTGAGCCCAGTAAAAACCATTGTAAAA
**
7274149 GGTTTTGGTTGAGCCTGGTAAAAACCATTGTAAAA
1 GGTTTTGGTTGAGCCCAGTAAAAACCATTGTAAAA
7274184 G
1 G
7274185 CTTGGTGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (35 bp):
GGTTTTGGTTGAGCCCAGTAAAAACCATTGTAAAA
Found at i:7278947 original size:19 final size:19
Alignment explanation
Indices: 7278923--7279021 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
7278913 TGCCCGTGTG
7278923 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
7278942 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
*
7278961 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGGGATGTA
* ** *
7278980 CACGATGGTGCCGGCTATGTG
1 CACGAT-GTG-GGGGGATGTA
7279001 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
7279020 CA
1 CA
7279022 TGAGCCGGGT
Statistics
Matches: 56, Mismatches: 20, Indels: 8
0.67 0.24 0.10
Matches are distributed among these distances:
18 3 0.05
19 33 0.59
20 9 0.16
21 11 0.20
ACGTcount: A:0.20, C:0.17, G:0.41, T:0.21
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:7278961 original size:38 final size:40
Alignment explanation
Indices: 7278919--7279021 Score: 149
Period size: 38 Copynumber: 2.6 Consensus size: 40
7278909 ATAGTGCCCG
*
7278919 TGTGCACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGC-CGGATA
* *
7278957 TGTGCACGATGTGGGGGGATGCACACGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
7278997 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
7279022 TGAGCCGGGT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
38 28 0.48
39 4 0.07
40 26 0.45
ACGTcount: A:0.19, C:0.17, G:0.42, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
Found at i:7281605 original size:54 final size:54
Alignment explanation
Indices: 7281522--7281676 Score: 274
Period size: 54 Copynumber: 2.9 Consensus size: 54
7281512 TCATCATGTG
7281522 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
* * *
7281576 TATCTCACCCAGCTCATGTGCATCCCACCACATCTTGCACATAGCCAGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
*
7281630 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTCCACATAGCCG
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCG
7281677 AACAGTATCA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.25, C:0.43, G:0.13, T:0.20
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
Found at i:7281654 original size:25 final size:25
Alignment explanation
Indices: 7281571--7281656 Score: 64
Period size: 25 Copynumber: 3.3 Consensus size: 25
7281561 CATAGCCGGA
*
7281571 CATCCTATCTCACCCAGCTCATGTG
1 CATCCCATCTCACCCAGCTCATGTG
* * * ** * *
7281596 CATCCCACCACATCTTGCACATAGCCAG
1 CATCCCATCTCACCCAGCTCAT-G--TG
7281624 ACATCCCATCTCACCCAGCTCATGTG
1 -CATCCCATCTCACCCAGCTCATGTG
7281650 CATCCCA
1 CATCCCA
7281657 CCACATCGTC
Statistics
Matches: 42, Mismatches: 15, Indels: 8
0.65 0.23 0.12
Matches are distributed among these distances:
25 22 0.52
26 2 0.05
28 2 0.05
29 16 0.38
ACGTcount: A:0.24, C:0.43, G:0.10, T:0.22
Consensus pattern (25 bp):
CATCCCATCTCACCCAGCTCATGTG
Found at i:7283606 original size:163 final size:163
Alignment explanation
Indices: 7283319--7283663 Score: 489
Period size: 163 Copynumber: 2.1 Consensus size: 163
7283309 GGGGTACTAC
* * * *
7283319 AAAATGTATCGATACATTCTTAATAGAATGAACTACATAAGGTGTATGAGGGAAATTGTATCGAT
1 AAAAAGTATTGATACATTCTTAATAGAATGAACTACATAAGGTGTATGAGGGAAAATGTATCAAT
* * * * * * *
7283384 ACATTCTCCAATGTATCAGTACATTCATAGTAGGATGAATATCTATTGATACGTTGTCCAAATGC
66 ACATTCCCCAATGTATCAGTACACTCATAGTAAGATGAACATCTATCGATACATTGTCCAAATAC
*
7283449 ATTGATAGATTTAAAACAGAGAGCACCTAAGGG
131 ATTGATAGATTTAAAACAGAGAGCACCCAAGGG
* *
7283482 AAAAAGTATTGATACATTC-TAGATAGAGTGAACTACATAA-GTCGTTTGAGGGAAAATGTATCA
1 AAAAAGTATTGATACATTCTTA-ATAGAATGAACTACATAAGGT-GTATGAGGGAAAATGTATCA
*
7283545 ATACATTCCCCAATGTATC-GATACACTCATAGTAATATGAACATCTATCGATACATTGTCCAAA
64 ATACATTCCCCAATGTATCAG-TACACTCATAGTAAGATGAACATCTATCGATACATTGTCCAAA
* *
7283609 TATATTGATAGATTTGAAACAGAGAGCACCCAAGGG
128 TACATTGATAGATTTAAAACAGAGAGCACCCAAGGG
7283645 AAAAAGTATTGATACATTC
1 AAAAAGTATTGATACATTC
7283664 CCTCATGTAT
Statistics
Matches: 162, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
162 5 0.03
163 157 0.97
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (163 bp):
AAAAAGTATTGATACATTCTTAATAGAATGAACTACATAAGGTGTATGAGGGAAAATGTATCAAT
ACATTCCCCAATGTATCAGTACACTCATAGTAAGATGAACATCTATCGATACATTGTCCAAATAC
ATTGATAGATTTAAAACAGAGAGCACCCAAGGG
Found at i:7287053 original size:19 final size:20
Alignment explanation
Indices: 7287008--7287053 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
7286998 AGGTAGGTGC
*
7287008 ATCATTTTTTTTTTATTTTG
1 ATCATGTTTTTTTTATTTTG
* *
7287028 CT-GTGTTTTTTTTA-TTTG
1 ATCATGTTTTTTTTATTTTG
7287046 ATCATGTT
1 ATCATGTT
7287054 ATAGCTAACA
Statistics
Matches: 20, Mismatches: 5, Indels: 3
0.71 0.18 0.11
Matches are distributed among these distances:
18 5 0.25
19 14 0.70
20 1 0.05
ACGTcount: A:0.13, C:0.07, G:0.11, T:0.70
Consensus pattern (20 bp):
ATCATGTTTTTTTTATTTTG
Found at i:7287511 original size:20 final size:20
Alignment explanation
Indices: 7287486--7287529 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7287476 TTCTACAATT
* *
7287486 ATTATCTACAAAATTCATCC
1 ATTATCAACAAAATTCATCA
*
7287506 ATTATCAACGAAATTCATCA
1 ATTATCAACAAAATTCATCA
7287526 ATTA
1 ATTA
7287530 CCAATGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.34
Consensus pattern (20 bp):
ATTATCAACAAAATTCATCA
Found at i:7287538 original size:20 final size:20
Alignment explanation
Indices: 7287496--7287540 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7287486 ATTATCTACA
* *
7287496 AAATTCATCCATTATCAACG
1 AAATTCATCAATTACCAACG
*
7287516 AAATTCATCAATTACCAATG
1 AAATTCATCAATTACCAACG
7287536 AAATT
1 AAATT
7287541 GCTGACGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (20 bp):
AAATTCATCAATTACCAACG
Found at i:7296257 original size:54 final size:54
Alignment explanation
Indices: 7296114--7296257 Score: 207
Period size: 54 Copynumber: 2.7 Consensus size: 54
7296104 TTAAGATTCA
* * *
7296114 TCATGTGCATCCCACCACATCATGCACATAGCCGAAGATCCCATCTCACCCAAC
1 TCATGTGCATCCCACCACATCGTGCACATAGCTGGAGATCCCATCTCACCCAAC
* *
7296168 TCATGTGCATCCCACCACATCGTGCACATAGCTGGATATCCCATCTCACCCAGC
1 TCATGTGCATCCCACCACATCGTGCACATAGCTGGAGATCCCATCTCACCCAAC
* * * *
7296222 TCATGTACATCCCACCACATTGTGCCCATAACTGGA
1 TCATGTGCATCCCACCACATCGTGCACATAGCTGGA
7296258 CAGTATCACC
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.27, C:0.38, G:0.13, T:0.22
Consensus pattern (54 bp):
TCATGTGCATCCCACCACATCGTGCACATAGCTGGAGATCCCATCTCACCCAAC
Found at i:7302848 original size:20 final size:21
Alignment explanation
Indices: 7302823--7302862 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
7302813 AATTTAAAAC
7302823 AAAATAACATAAAT-AAACTT
1 AAAATAACATAAATCAAACTT
*
7302843 AAAATAACTTAAATCAAACT
1 AAAATAACATAAATCAAACT
7302863 AACCAACGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATAACATAAATCAAACTT
Found at i:7304886 original size:57 final size:57
Alignment explanation
Indices: 7304797--7304987 Score: 208
Period size: 57 Copynumber: 3.3 Consensus size: 57
7304787 GACAACTTGT
* * *
7304797 ACATGTTTTGTTTTAATTTAGACAAGAAAACATATTACGTCTTAATTTAGACTAGAAA
1 ACATGCTTTGTCTTAATTTAGACAAGAAAACATATT-TGTCTTAATTTAGACTAGAAA
*
7304855 ACATG-TTTGTCTTAATTTAGACAAGAAAACATATTTTGTCTTCATTTAGA-TAAGAAAA
1 ACATGCTTTGTCTTAATTTAGACAAGAAAACATA-TTTGTCTTAATTTAGACT-AG-AAA
* ** * * * *
7304913 ATATATTTTGTCTTAATCTAGACAAGAAAACATGTTTGTCTCAATTTAGAC-AGGATA
1 ACATGCTTTGTCTTAATTTAGACAAGAAAACATATTTGTCTTAATTTAGACTA-GAAA
*
7304970 ACATGCTTTGTCATAATT
1 ACATGCTTTGTCTTAATT
7304988 AAAGACAATA
Statistics
Matches: 112, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
56 1 0.01
57 57 0.51
58 28 0.25
59 26 0.23
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (57 bp):
ACATGCTTTGTCTTAATTTAGACAAGAAAACATATTTGTCTTAATTTAGACTAGAAA
Found at i:7304921 original size:30 final size:30
Alignment explanation
Indices: 7304797--7304964 Score: 186
Period size: 29 Copynumber: 5.8 Consensus size: 30
7304787 GACAACTTGT
* *
7304797 ACATGTTTTGTTTTAATTTAGACAAG-AAA
1 ACATATTTTGTCTTAATTTAGACAAGAAAA
** *
7304826 ACATATTACGTCTTAATTTAGACTAG-AAA
1 ACATATTTTGTCTTAATTTAGACAAGAAAA
*
7304855 ACAT-GTTTGTCTTAATTTAGACAAG-AAA
1 ACATATTTTGTCTTAATTTAGACAAGAAAA
* *
7304883 ACATATTTTGTCTTCATTTAGATAAGAAAA
1 ACATATTTTGTCTTAATTTAGACAAGAAAA
* *
7304913 ATATATTTTGTCTTAATCTAGACAAG-AAA
1 ACATATTTTGTCTTAATTTAGACAAGAAAA
* *
7304942 ACAT-GTTTGTCTCAATTTAGACA
1 ACATATTTTGTCTTAATTTAGACA
7304965 GGATAACATG
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
28 40 0.34
29 52 0.44
30 25 0.21
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (30 bp):
ACATATTTTGTCTTAATTTAGACAAGAAAA
Found at i:7304935 original size:87 final size:86
Alignment explanation
Indices: 7304797--7304987 Score: 238
Period size: 87 Copynumber: 2.2 Consensus size: 86
7304787 GACAACTTGT
* * * *
7304797 ACATGTTTTGTTTTAATTTAGACAAGAAAACATATTACGTCTTAATTTAGACTAGAAAACATGTT
1 ACATATTTTGTCTTAATTTAGACAAGAAAACATATTACGTCTTAATCTAGACAAGAAAACATGTT
*
7304862 TGTCTTAATTTAGACAAGAAA
66 TGTCTCAATTTAGACAAGAAA
* * * **
7304883 ACATATTTTGTCTTCATTTAGATAAGAAAAATATATTTTGTCTTAATCTAGACAAGAAAACATGT
1 ACATATTTTGTCTTAATTTAGACAAG-AAAACATATTACGTCTTAATCTAGACAAGAAAACATGT
* *
7304948 TTGTCTCAATTTAGACAGGATA
65 TTGTCTCAATTTAGACAAGAAA
** *
7304970 ACATGCTTTGTCATAATT
1 ACATATTTTGTCTTAATT
7304988 AAAGACAATA
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
86 22 0.25
87 66 0.75
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (86 bp):
ACATATTTTGTCTTAATTTAGACAAGAAAACATATTACGTCTTAATCTAGACAAGAAAACATGTT
TGTCTCAATTTAGACAAGAAA
Found at i:7319258 original size:20 final size:19
Alignment explanation
Indices: 7319201--7319263 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
7319191 TATATACATA
*
7319201 TCATCATCATCTCACCAAC
1 TCATCATCATCTCACCAGC
*
7319220 CCATCATCATCGTCACCAGC
1 TCATCATCATC-TCACCAGC
7319240 TCATCATCATCATCACCAGC
1 TCATCATCATC-TCACCAGC
7319260 TCAT
1 TCAT
7319264 GCGCACTCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 10 0.26
20 29 0.74
ACGTcount: A:0.29, C:0.41, G:0.05, T:0.25
Consensus pattern (19 bp):
TCATCATCATCTCACCAGC
Found at i:7319310 original size:43 final size:43
Alignment explanation
Indices: 7319262--7319380 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
7319252 TCACCAGCTC
** * *
7319262 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
7319305 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
7319348 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
7319381 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:7326538 original size:20 final size:20
Alignment explanation
Indices: 7326481--7326543 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
7326471 TATATACCCA
*
7326481 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
7326500 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
7326520 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
7326540 TCAT
1 TCAT
7326544 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:7326590 original size:43 final size:43
Alignment explanation
Indices: 7326542--7326660 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
7326532 TCACCAGCTC
** *
7326542 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGATT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGATT
*
7326585 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGATT
* * *
7326628 ATGCACACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
7326661 ACATAATTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGATT
Found at i:7337711 original size:28 final size:29
Alignment explanation
Indices: 7337653--7337714 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
7337643 TTTTTGAAAT
* *
7337653 TTACACTTTTACCCCTGTAAAAGTGAAAAA
1 TTACACTTTTACCCC-GAAAAACTGAAAAA
*
7337683 TTACATTTTTACCCC-AAAAACTGAAAAA
1 TTACACTTTTACCCCGAAAAACTGAAAAA
7337711 TTAC
1 TTAC
7337715 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:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (29 bp):
TTACACTTTTACCCCGAAAAACTGAAAAA
Found at i:7341344 original size:19 final size:20
Alignment explanation
Indices: 7341298--7341344 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7341288 TGGAAGGAGG
7341298 AAGGAGAAGAAGCTACTGGA
1 AAGGAGAAGAAGCTACTGGA
**
7341318 AA-TTGAAGAAGCTACT-GA
1 AAGGAGAAGAAGCTACTGGA
7341336 AAGGAGAAG
1 AAGGAGAAG
7341345 GTATTTATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 4 0.18
19 16 0.73
20 2 0.09
ACGTcount: A:0.47, C:0.09, G:0.32, T:0.13
Consensus pattern (20 bp):
AAGGAGAAGAAGCTACTGGA
Found at i:7343711 original size:61 final size:60
Alignment explanation
Indices: 7343578--7343718 Score: 174
Period size: 61 Copynumber: 2.3 Consensus size: 60
7343568 ACAGAATGTT
* * * * * *
7343578 TCAATCTCGCTACAACGAAATTGTAACCCAGAAACAGAATGTTTCTCGCTGTAGCGAAAT
1 TCAATCTCGCTACAACGAAATTGCAACCCAGAAACAAAAGGTTTCTCGCTGCAACGAAAA
* *
7343638 TCAATCTCGCTACAGCGAAATTGCAACCCAGAAACAAAAAGGTTTCTCGTTGCAACGAAAA
1 TCAATCTCGCTACAACGAAATTGCAACCCAGAAAC-AAAAGGTTTCTCGCTGCAACGAAAA
** *
7343699 TGTATTTCGCTACAACGAAA
1 TCAATCTCGCTACAACGAAA
7343719 AGCTACAGTG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 33 0.49
61 35 0.51
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.23
Consensus pattern (60 bp):
TCAATCTCGCTACAACGAAATTGCAACCCAGAAACAAAAGGTTTCTCGCTGCAACGAAAA
Found at i:7344047 original size:22 final size:23
Alignment explanation
Indices: 7344019--7344062 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
7344009 TACGCATATA
7344019 CCCATCATCATCATCA-CACCAT
1 CCCATCATCATCATCATCACCAT
7344041 CCCATCATCATCATCATCACCA
1 CCCATCATCATCATCATCACCA
7344063 GCTCATGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (23 bp):
CCCATCATCATCATCATCACCAT
Found at i:7349817 original size:21 final size:20
Alignment explanation
Indices: 7349793--7349840 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
7349783 ATCTTACCTT
*
7349793 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
7349814 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
7349835 TTTTTC
1 TTTTTC
7349841 CACCTAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:7349840 original size:22 final size:22
Alignment explanation
Indices: 7349798--7349838 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7349788 ACCTTTTTTT
*
7349798 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
7349820 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
7349839 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:7353854 original size:61 final size:61
Alignment explanation
Indices: 7353759--7353926 Score: 273
Period size: 61 Copynumber: 2.8 Consensus size: 61
7353749 GTGACAAATG
*
7353759 CAACCGTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
1 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
* *
7353820 CAACCGTGCATGTGCGGAGTGGGCAGTGCTCATGCCGGTAATGATGCTGTCGTGATAATTA
1 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
* * * *
7353881 CAATCGTGCATGTGTGGAGTGGGCAGTGCACATGCCGATTATGATG
1 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATG
7353927 TACATGAGCA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 99 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (61 bp):
CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
Found at i:7355025 original size:2 final size:2
Alignment explanation
Indices: 7355015--7355054 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
7355005 TATAACACAC
* *
7355015 AT AT CT AT AT AT GT 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
7355055 CCATCACCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7355153 original size:42 final size:42
Alignment explanation
Indices: 7355096--7355240 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
7355086 AACTCATATG
* * * * **
7355096 CACTCCCACTAGCACATGGTTGGGTCAGCATCGGCTTAAGTG
1 CACTCCTACTAGCACATAGTCGGGTCAGCATCGGCTTATGCA
* *
7355138 CACTCCTACTAGCACATAGTCGGGTTAGCATCGACTTATGCA
1 CACTCCTACTAGCACATAGTCGGGTCAGCATCGGCTTATGCA
* *
7355180 CACTCCCT-CTCGCACATAGCCGGGTCAGCATCGGCTTATGCA
1 CACT-CCTACTAGCACATAGTCGGGTCAGCATCGGCTTATGCA
*
7355222 CACTCCTACTCGCACATAG
1 CACTCCTACTAGCACATAG
7355241 CCAGGTCAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 3 0.03
42 83 0.93
43 3 0.03
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (42 bp):
CACTCCTACTAGCACATAGTCGGGTCAGCATCGGCTTATGCA
Found at i:7355241 original size:42 final size:42
Alignment explanation
Indices: 7355117--7355248 Score: 176
Period size: 42 Copynumber: 3.1 Consensus size: 42
7355107 GCACATGGTT
* ** * *
7355117 GGGTCAGCATCGGCTTAAGTGCACTCCTACTAGCACATAGTC
1 GGGTCAGCATCGGCTTATGCACACTCCTACTCGCACATAGCC
* *
7355159 GGGTTAGCATCGACTTATGCACACTCCCT-CTCGCACATAGCC
1 GGGTCAGCATCGGCTTATGCACACT-CCTACTCGCACATAGCC
7355201 GGGTCAGCATCGGCTTATGCACACTCCTACTCGCACATAGCC
1 GGGTCAGCATCGGCTTATGCACACTCCTACTCGCACATAGCC
*
7355243 AGGTCA
1 GGGTCA
7355249 ATATCATTAC
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 3 0.04
42 72 0.92
43 3 0.04
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.23
Consensus pattern (42 bp):
GGGTCAGCATCGGCTTATGCACACTCCTACTCGCACATAGCC
Found at i:7368456 original size:19 final size:22
Alignment explanation
Indices: 7368418--7368461 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 22
7368408 CAATTAATTA
7368418 AAACTAAATTCAATCAAAAACT
1 AAACTAAATTCAATCAAAAACT
7368440 AAACT-AATT-AA-CAAAAACT
1 AAACTAAATTCAATCAAAAACT
7368459 AAA
1 AAA
7368462 ATTCACTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 4 0.18
22 5 0.23
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (22 bp):
AAACTAAATTCAATCAAAAACT
Found at i:7369781 original size:20 final size:21
Alignment explanation
Indices: 7369743--7369788 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
7369733 AAGTAACTTA
7369743 AAAC-AAAATAACATAAAATT
1 AAACTAAAATAACATAAAATT
*
7369763 AAACTAAAATAAC-TTAAATT
1 AAACTAAAATAACATAAAATT
7369783 AAACTA
1 AAACTA
7369789 CTCAACATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (21 bp):
AAACTAAAATAACATAAAATT
Found at i:7369783 original size:91 final size:91
Alignment explanation
Indices: 7369628--7369808 Score: 301
Period size: 91 Copynumber: 2.0 Consensus size: 91
7369618 AGAAACCAAT
* * *
7369628 AATAACTATTCTTAATGTACTTTAATACAAAATAACCTAAAATTAAACTAAAATAACTTAAATTA
1 AATAACTATTCTTAAAGTACTTTAAAACAAAATAACATAAAATTAAACTAAAATAACTTAAATTA
* *
7369693 AGCTACTTAACATGTAATCAAACTTA
66 AACTACTCAACATGTAATCAAACTTA
7369719 AATAACTATTCTTAAAGTAAC-TTAAAACAAAATAACATAAAATTAAACTAAAATAACTTAAATT
1 AATAACTATTCTTAAAGT-ACTTTAAAACAAAATAACATAAAATTAAACTAAAATAACTTAAATT
7369783 AAACTACTCAACATGTAATCAAACTT
65 AAACTACTCAACATGTAATCAAACTT
7369809 GATTAAGAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
91 82 0.98
92 2 0.02
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (91 bp):
AATAACTATTCTTAAAGTACTTTAAAACAAAATAACATAAAATTAAACTAAAATAACTTAAATTA
AACTACTCAACATGTAATCAAACTTA
Found at i:7373461 original size:21 final size:20
Alignment explanation
Indices: 7373417--7373458 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
7373407 TGTTAAGTAG
7373417 TTAATTTAAATTATTTTAGT
1 TTAATTTAAATTATTTTAGT
*
7373437 TTAATTTTATATTATTTT-GT
1 TTAA-TTTAAATTATTTTAGT
7373457 TT
1 TT
7373459 TAAATTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTAATTTAAATTATTTTAGT
Found at i:7374594 original size:19 final size:19
Alignment explanation
Indices: 7374570--7374611 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
7374560 CTTCTTCTTC
7374570 TTCATGCTCCCATGCCATT
1 TTCATGCTCCCATGCCATT
*
7374589 TTCATGCTCCCATGCTATT
1 TTCATGCTCCCATGCCATT
7374608 TTCA
1 TTCA
7374612 CCTTACCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.33, G:0.10, T:0.40
Consensus pattern (19 bp):
TTCATGCTCCCATGCCATT
Found at i:7388065 original size:37 final size:37
Alignment explanation
Indices: 7388024--7388105 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
7388014 CACATTCTAT
7388024 CATCATCATGTGTGCACTCCCTA-TGCACACACTTCAA
1 CATCATCATGTGTGCACTCCCTACT-CACACACTTCAA
* *
7388061 CATCATCATGTGTGCACTCCCTACTCGCACAGTTCAA
1 CATCATCATGTGTGCACTCCCTACTCACACACTTCAA
7388098 CATCATCA
1 CATCATCA
7388106 CGCAACATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 41 0.98
38 1 0.02
ACGTcount: A:0.27, C:0.35, G:0.11, T:0.27
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCACACACTTCAA
Found at i:7388105 original size:40 final size:38
Alignment explanation
Indices: 7388014--7388105 Score: 120
Period size: 37 Copynumber: 2.5 Consensus size: 38
7388004 TCGTGACACG
*
7388014 CACA-TTCTATCATCATCATGTGTGCACTCCCTATGCA
1 CACACTTCAATCATCATCATGTGTGCACTCCCTATGCA
*
7388051 CACACTTCAA-CATCATCATGTGTGCACTCCCTACT-CG
1 CACACTTCAATCATCATCATGTGTGCACTCCCTA-TGCA
*
7388088 CACAGTTCAA-CATCATCA
1 CACACTTCAATCATCATCA
7388106 CGCAACATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
37 45 0.90
38 5 0.10
ACGTcount: A:0.27, C:0.35, G:0.10, T:0.28
Consensus pattern (38 bp):
CACACTTCAATCATCATCATGTGTGCACTCCCTATGCA
Found at i:7388715 original size:20 final size:20
Alignment explanation
Indices: 7388686--7388724 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7388676 GAAGAACAAC
*
7388686 AAGCTGCTGGAAAAATGAGG
1 AAGCTACTGGAAAAATGAGG
*
7388706 AAGCTACTGGAGAAATGAG
1 AAGCTACTGGAAAAATGAG
7388725 ATATTTATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.33, T:0.15
Consensus pattern (20 bp):
AAGCTACTGGAAAAATGAGG
Found at i:7393639 original size:43 final size:43
Alignment explanation
Indices: 7393528--7393652 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 43
7393518 TTGTGTGATA
7393528 ATGATGACCCAGCTATGTGCAATGT-GGGAGTGCACATGAACTG
1 ATGATGACCCAGCTATGTGCAA-GTAGGGAGTGCACATGAACTG
* * * *
7393571 ATGATGACCC-GACTATATGCGAGTAGCGG-GTGCGCAT-AAGTCG
1 ATGATGACCCAG-CTATGTGCAAGTAG-GGAGTGCACATGAACT-G
*
7393614 ATGATGACCCAGCTATGTGCAAGTAGGGAGTGCATATGA
1 ATGATGACCCAGCTATGTGCAAGTAGGGAGTGCACATGA
7393653 CGATGAATGA
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
42 8 0.12
43 55 0.82
44 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.22
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCAAGTAGGGAGTGCACATGAACTG
Found at i:7393998 original size:22 final size:22
Alignment explanation
Indices: 7393914--7393999 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
7393904 CTAGCCCTGT
* * *
7393914 TTCTCGCTGCAGCGAAAAAGAA
1 TTCTCGCTGTAGCGAAAATGGA
* * *
7393936 TTCTTGCTGTACCAAAAATGGA
1 TTCTCGCTGTAGCGAAAATGGA
7393958 TTCTCGCTGTAGCGAAAATGGA
1 TTCTCGCTGTAGCGAAAATGGA
7393980 TTCTCGCTGTAGCGAAAATG
1 TTCTCGCTGTAGCGAAAATG
7394000 CAACAAGAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (22 bp):
TTCTCGCTGTAGCGAAAATGGA
Found at i:7394989 original size:75 final size:74
Alignment explanation
Indices: 7394857--7395006 Score: 219
Period size: 75 Copynumber: 2.0 Consensus size: 74
7394847 ATAAAAAGCC
*
7394857 TTGCTTGGGCCTAGTGGGCTATGCCCATTGAGCCCATGCGCTGGTCATAGCCCAGAATTTAGGTT
1 TTGCTTGGGCCTAGTGGGCTATGCCCATTGAGCCCATGCGCCGGTCATAGCCCAGAATTTAGGTT
7394922 GTGACAATG
66 GTGACAATG
* ** * * * *
7394931 NTTGCTTGGGCTTAGTGGGCTATTTCCATTGGGCCCATGCGCCGGTGATGGCCTAGAATTTAGGT
1 -TTGCTTGGGCCTAGTGGGCTATGCCCATTGAGCCCATGCGCCGGTCATAGCCCAGAATTTAGGT
7394996 TGTGACAATG
65 TGTGACAATG
7395006 T
1 T
7395007 GTAAGAACCC
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
74 1 0.01
75 66 0.99
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.31
Consensus pattern (74 bp):
TTGCTTGGGCCTAGTGGGCTATGCCCATTGAGCCCATGCGCCGGTCATAGCCCAGAATTTAGGTT
GTGACAATG
Found at i:7397757 original size:37 final size:37
Alignment explanation
Indices: 7397705--7397850 Score: 213
Period size: 37 Copynumber: 3.9 Consensus size: 37
7397695 TTCATCGTCA
* *
7397705 TGTGCACTCCATACTCGCACA-TTCTATCATCATCATG
1 TGTGCACTCCCTACTCGCACACTTC-AACATCATCATG
* *
7397742 TGTGCACTCCCTACTCACACACTTCAACATCATTATG
1 TGTGCACTCCCTACTCGCACACTTCAACATCATCATG
*
7397779 TGTGCACTCCCTACTTGCACACTTCAACATCATCATG
1 TGTGCACTCCCTACTCGCACACTTCAACATCATCATG
* *
7397816 TGTGCACTCCCTACTTGCATACTTCAACATCATCA
1 TGTGCACTCCCTACTCGCACACTTCAACATCATCA
7397851 CACAGCATTA
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
37 97 0.97
38 3 0.03
ACGTcount: A:0.25, C:0.34, G:0.10, T:0.31
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACACTTCAACATCATCATG
Found at i:7399289 original size:46 final size:45
Alignment explanation
Indices: 7399225--7399358 Score: 139
Period size: 46 Copynumber: 3.0 Consensus size: 45
7399215 TCATTCATCG
* *
7399225 TCATGTGCACTCCTTACTCGCACATAGCTTGGTCATCATCATCAGC
1 TCATGTGCACTCCCTACTCGCACATAGCTCGGTCATCATCATCA-C
** * *
7399271 TCATGTGCACTCCCTACTCGCATGTAGCTGGGTCATCAT--TGAC
1 TCATGTGCACTCCCTACTCGCACATAGCTCGGTCATCATCATCAC
* * **
7399314 TAATGCGCACTCCCTACTAACACATAGC-CGAGTCATCATCATCAC
1 TCATGTGCACTCCCTACTCGCACATAGCTCG-GTCATCATCATCAC
7399359 ACAACATTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
42 1 0.01
43 31 0.43
44 2 0.03
45 3 0.04
46 35 0.49
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (45 bp):
TCATGTGCACTCCCTACTCGCACATAGCTCGGTCATCATCATCAC
Found at i:7399324 original size:43 final size:45
Alignment explanation
Indices: 7399231--7399357 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 45
7399221 ATCGTCATGT
* * * *
7399231 GCACTCCTTACTCGCACATAGCTTGGTCATCATCATCAGCTCATGT
1 GCACTCCCTACTCGCACATAGCTGGGTCATCAT-ATCAGCTAATGC
** *
7399277 GCACTCCCTACTCGCATGTAGCTGGGTCATCAT-TGA-CTAATGC
1 GCACTCCCTACTCGCACATAGCTGGGTCATCATATCAGCTAATGC
** * *
7399320 GCACTCCCTACTAACACATAGCCGAGTCATCATCATCA
1 GCACTCCCTACTCGCACATAGCTGGGTCATCAT-ATCA
7399358 CACAACATTA
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
43 32 0.49
44 2 0.03
45 2 0.03
46 29 0.45
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (45 bp):
GCACTCCCTACTCGCACATAGCTGGGTCATCATATCAGCTAATGC
Found at i:7402625 original size:25 final size:24
Alignment explanation
Indices: 7402592--7402644 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
7402582 CTTCCCATTT
* * *
7402592 TTTTCTATTGGGCCATGCCTATTC
1 TTTTCTATTAGGCCATGCCCACTC
*
7402616 TTTTCTTATTAGGCTATGCCCACTC
1 TTTTC-TATTAGGCCATGCCCACTC
7402641 TTTT
1 TTTT
7402645 TTTTTTGCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.13, C:0.25, G:0.13, T:0.49
Consensus pattern (24 bp):
TTTTCTATTAGGCCATGCCCACTC
Found at i:7402894 original size:35 final size:35
Alignment explanation
Indices: 7402829--7402903 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
7402819 TCTTTCAACA
* * *
7402829 TAAAAATCAGCAACTTAAACTCCTCTTTTCAGCCT
1 TAAAAATCAGCAACTCAAACTCCTCATTTCACCCT
*
7402864 TAAAAATCAGCAAC-CAAAGCTGCTCATTTCACCCT
1 TAAAAATCAGCAACTCAAA-CTCCTCATTTCACCCT
*
7402899 CAAAA
1 TAAAA
7402904 CTGATAGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.39, C:0.29, G:0.07, T:0.25
Consensus pattern (35 bp):
TAAAAATCAGCAACTCAAACTCCTCATTTCACCCT
Found at i:7403129 original size:69 final size:70
Alignment explanation
Indices: 7402957--7403147 Score: 231
Period size: 69 Copynumber: 2.7 Consensus size: 70
7402947 TTTAGCCTTG
* * * * * * * *
7402957 AAAATCAGCAGCTAAAGCTACTCCTCTCACCTTCAAAACTTGGCAGCCAAAGCTGCTTTGTTCTT
1 AAAATTAGCAGC-CAAGCTACTCCTTTCTCCCTCAAAACTTGGCAGCAAAAGCTGCTTTGTTATG
7403022 CCTAAAA
65 CC-AAAA
* * *
7403029 AAAATTAGCAGCCAAGCTGCTCCTTTCTCCCTCAAAACTTGGCAACAAAAGTTGCTTTGTTATGC
1 AAAATTAGCAGCCAAGCTACTCCTTTCTCCCTCAAAACTTGGCAGCAAAAGCTGCTTTGTTATGC
*
7403094 C-ACA
66 CAAAA
* *
7403098 AAAGTTAGTAGCCAAGCTACTCCTTTCTCCCTCAAAACTTGGCAGCAAAA
1 AAAATTAGCAGCCAAGCTACTCCTTTCTCCCTCAAAACTTGGCAGCAAAA
7403148 CCACCCCCTA
Statistics
Matches: 103, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
69 48 0.47
71 44 0.43
72 11 0.11
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (70 bp):
AAAATTAGCAGCCAAGCTACTCCTTTCTCCCTCAAAACTTGGCAGCAAAAGCTGCTTTGTTATGC
CAAAA
Found at i:7404473 original size:69 final size:69
Alignment explanation
Indices: 7404354--7404523 Score: 196
Period size: 69 Copynumber: 2.5 Consensus size: 69
7404344 CGGAGTATTA
** * * * *
7404354 CAAAGCTATTCCGTTCTTCCTCTAAAATCAGTAGCCAAGCTATTCCTTTCTCCCTCAAAACTTGA
1 CAAAGCTGCTCCGTTCTTCCTCAAAAATCAGCAGCCAAGCTACTCCTTTCTCCCTCAAAACTCGA
*
7404419 CAGC
66 CAAC
* * * *
7404423 CAAAGCTGCTCCGTTCTTTCTCAAAAATCAGCAGCCAAGTTGCTCTTTTCTCCCTCAAAACTCGA
1 CAAAGCTGCTCCGTTCTTCCTCAAAAATCAGCAGCCAAGCTACTCCTTTCTCCCTCAAAACTCGA
*
7404488 CAAT
66 CAAC
** * *
7404492 CAAAGCTGCTCTTTTCTCCCTAAAAAATCAGC
1 CAAAGCTGCTCCGTTCTTCCTCAAAAATCAGC
7404524 CCTTTCTTTC
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 84 1.00
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (69 bp):
CAAAGCTGCTCCGTTCTTCCTCAAAAATCAGCAGCCAAGCTACTCCTTTCTCCCTCAAAACTCGA
CAAC
Found at i:7404504 original size:35 final size:35
Alignment explanation
Indices: 7404400--7404517 Score: 114
Period size: 35 Copynumber: 3.4 Consensus size: 35
7404390 AAGCTATTCC
* * *
7404400 TTTCTCCCTCAAAACTTGACAGCCAAAGCTGCTCC
1 TTTCTCCCTCAAAACTCGACAACCAAAGCTGCTCT
* ** * * *
7404435 GTTCTTTCTCAAAAATC-AGCAGCC-AAGTTGCTCT
1 TTTCTCCCTCAAAACTCGA-CAACCAAAGCTGCTCT
*
7404469 TTTCTCCCTCAAAACTCGACAATCAAAGCTGCTCT
1 TTTCTCCCTCAAAACTCGACAACCAAAGCTGCTCT
*
7404504 TTTCTCCCTAAAAA
1 TTTCTCCCTCAAAA
7404518 ATCAGCCCTT
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
34 25 0.38
35 40 0.62
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.30
Consensus pattern (35 bp):
TTTCTCCCTCAAAACTCGACAACCAAAGCTGCTCT
Found at i:7406239 original size:35 final size:35
Alignment explanation
Indices: 7406175--7406254 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
7406165 GGAGTACGTG
* *
7406175 TGATGATATTGAAATGTGCATGTAGGGAGTGCACA
1 TGATGATATTAAAATGTGCATGTAAGGAGTGCACA
**
7406210 TGATGATATTAAAATGTGTGTGTAAGGAGTGCACA
1 TGATGATATTAAAATGTGCATGTAAGGAGTGCACA
7406245 TGATGATATT
1 TGATGATATT
7406255 GCCTTGCTCG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (35 bp):
TGATGATATTAAAATGTGCATGTAAGGAGTGCACA
Found at i:7409596 original size:21 final size:21
Alignment explanation
Indices: 7409554--7409599 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7409544 TAGCATTATA
*
7409554 CAAAGTCAAACATCTCTCATT
1 CAAAGTCAAACAGCTCTCATT
*
7409575 CAAAGTCAAGCAGCT-TCAATT
1 CAAAGTCAAACAGCTCTC-ATT
7409596 CAAA
1 CAAA
7409600 ACCTTGAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (21 bp):
CAAAGTCAAACAGCTCTCATT
Found at i:7421375 original size:54 final size:54
Alignment explanation
Indices: 7421163--7421368 Score: 277
Period size: 54 Copynumber: 3.8 Consensus size: 54
7421153 TCATCATGTG
*
7421163 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAACCGAACATCC
1 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
* * * * * *
7421217 CATCTCACCTAGCTCATGTACATCCCACCACATTGTGCAGATAGCCAAACATCC
1 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
* * * * * *
7421271 CATTTCACCTAGCTCATGTGCATCCCACCACATCGTGCATATAGACGGACATCC
1 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
* *
7421325 CATCTCACCCAACTCATGTGTATCTCACCACATCGTGCACATAG
1 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAG
7421369 TCGGACAGTA
Statistics
Matches: 132, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 132 1.00
ACGTcount: A:0.28, C:0.38, G:0.12, T:0.22
Consensus pattern (54 bp):
CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
Found at i:7422690 original size:11 final size:11
Alignment explanation
Indices: 7422670--7422765 Score: 84
Period size: 11 Copynumber: 8.7 Consensus size: 11
7422660 CTAAATAAAA
7422670 TATTAATATTT
1 TATTAATATTT
* *
7422681 TAATATTATTT
1 TATTAATATTT
***
7422692 TATTAATAAAG
1 TATTAATATTT
7422703 TATTAATATTT
1 TATTAATATTT
* *
7422714 TAATATTATTT
1 TATTAATATTT
***
7422725 TATTAATAAAA
1 TATTAATATTT
7422736 TATTAATATTT
1 TATTAATATTT
* *
7422747 TAATATTATTT
1 TATTAATATTT
7422758 TATTAATA
1 TATTAATA
7422766 AAATATTATT
Statistics
Matches: 61, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
11 61 1.00
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (11 bp):
TATTAATATTT
Found at i:7422695 original size:22 final size:22
Alignment explanation
Indices: 7422670--7422780 Score: 84
Period size: 22 Copynumber: 5.2 Consensus size: 22
7422660 CTAAATAAAA
7422670 TATTAATATTTTAATATTATTT
1 TATTAATATTTTAATATTATTT
*** * *
7422692 TATTAATAAAGTATTAATATTT
1 TATTAATATTTTAATATTATTT
* * * * ***
7422714 TAATATTATTTTATTAATAAAA
1 TATTAATATTTTAATATTATTT
7422736 TATTAATATTTTAATATTATTT
1 TATTAATATTTTAATATTATTT
*
7422758 TATTAATA---AAATATTATTT
1 TATTAATATTTTAATATTATTT
7422777 TATT
1 TATT
7422781 CCAAAAGTTT
Statistics
Matches: 68, Mismatches: 21, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
19 14 0.21
22 54 0.79
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
TATTAATATTTTAATATTATTT
Found at i:7422700 original size:33 final size:33
Alignment explanation
Indices: 7422663--7422773 Score: 213
Period size: 33 Copynumber: 3.4 Consensus size: 33
7422653 TTTGACACTA
7422663 AATAAAATATTAATATTTTAATATTATTTTATT
1 AATAAAATATTAATATTTTAATATTATTTTATT
*
7422696 AATAAAGTATTAATATTTTAATATTATTTTATT
1 AATAAAATATTAATATTTTAATATTATTTTATT
7422729 AATAAAATATTAATATTTTAATATTATTTTATT
1 AATAAAATATTAATATTTTAATATTATTTTATT
7422762 AATAAAATATTA
1 AATAAAATATTA
7422774 TTTTATTCCA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (33 bp):
AATAAAATATTAATATTTTAATATTATTTTATT
Found at i:7422770 original size:19 final size:19
Alignment explanation
Indices: 7422682--7422780 Score: 83
Period size: 19 Copynumber: 5.7 Consensus size: 19
7422672 TTAATATTTT
7422682 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
* * *
7422701 AGTATTA--ATATT--T-T
1 AATATTATTTTATTAATAA
7422715 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
* *
7422734 AATATTA--ATATT--T-T
1 AATATTATTTTATTAATAA
7422748 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
7422767 AATATTATTTTATT
1 AATATTATTTTATT
7422781 CCAAAAGTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
14 13 0.22
15 2 0.03
16 8 0.13
17 8 0.13
18 2 0.03
19 27 0.45
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (19 bp):
AATATTATTTTATTAATAA
Found at i:7425831 original size:17 final size:17
Alignment explanation
Indices: 7425805--7425847 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
7425795 CACACATCAT
*
7425805 TATTCACAATTTC-TAG
1 TATTCACAATTCCTTAG
7425821 TATTCCACAATTCCTTAG
1 TATT-CACAATTCCTTAG
7425839 TATTCACAA
1 TATTCACAA
7425848 CTAATTGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 13 0.54
18 7 0.29
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (17 bp):
TATTCACAATTCCTTAG
Found at i:7427783 original size:54 final size:54
Alignment explanation
Indices: 7427701--7427805 Score: 167
Period size: 54 Copynumber: 1.9 Consensus size: 54
7427691 TCATCATGTG
*
7427701 CATCTCACCCAGCTCATGTGCATCCCACCACATTGTGCACATACCCAGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATACCCAGACATCC
* *
7427755 CATCTCACCTAGCTCATGTAG-ATCCCACCACATCGTGCACATAGCCAGACA
1 CATCTCACCCAGCTCATGT-GCATCCCACCACATCGTGCACATACCCAGACA
7427806 GTATCACCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 46 0.98
55 1 0.02
ACGTcount: A:0.28, C:0.40, G:0.12, T:0.20
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATACCCAGACATCC
Found at i:7431114 original size:42 final size:42
Alignment explanation
Indices: 7431055--7431138 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
7431045 GTAATGATAT
*
7431055 TGACCCGACTATGTGCGAGTAGGAGTGTGCATAAGCCAATGC
1 TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCAATGC
* * *
7431097 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
1 TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCAATGC
7431139 ATATGAGATG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.20
Consensus pattern (42 bp):
TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCAATGC
Found at i:7436609 original size:20 final size:20
Alignment explanation
Indices: 7436583--7436628 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
7436573 ATCTTACCGT
* *
7436583 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
7436604 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
7436625 TTTT
1 TTTT
7436629 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:7436630 original size:22 final size:22
Alignment explanation
Indices: 7436588--7436628 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7436578 ACCGTTTTTT
*
7436588 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
7436610 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
7436629 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:7442451 original size:13 final size:13
Alignment explanation
Indices: 7442433--7442457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7442423 TTTCAAAAAA
7442433 TTTATAAAATCAT
1 TTTATAAAATCAT
7442446 TTTATAAAATCA
1 TTTATAAAATCA
7442458 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:7443748 original size:19 final size:19
Alignment explanation
Indices: 7443724--7443761 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7443714 TACCAAAACC
*
7443724 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
7443743 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
7443762 AGTTAAATGG
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:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:7445821 original size:15 final size:15
Alignment explanation
Indices: 7445801--7445845 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
7445791 TTCTTAAAAT
7445801 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
7445816 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
7445831 AGCTTTTAAACCAAA
1 AACTTTAAAACCAAA
7445846 TTCTTTGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.53, C:0.20, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:7448455 original size:19 final size:19
Alignment explanation
Indices: 7448431--7448468 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7448421 TTGCCAAACC
*
7448431 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
7448450 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
7448469 AGTTAAATGG
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:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:7461985 original size:17 final size:17
Alignment explanation
Indices: 7461963--7461995 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7461953 ATAATAATAA
7461963 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
7461980 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
7461996 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:7463114 original size:34 final size:34
Alignment explanation
Indices: 7463049--7463114 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
7463039 TTCTTTAAAA
*
7463049 AAAATTCTGTTATTATAAAAAAAATATTTTCTTT
1 AAAATTCTGTTATTATAAAAAAAATAATTTCTTT
*
7463083 AAAATTCTGTATGTTATAAAAAAAA-AATTTCT
1 AAAATTCTGT-TATTATAAAAAAAATAATTTCT
7463115 ACTATTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (34 bp):
AAAATTCTGTTATTATAAAAAAAATAATTTCTTT
Found at i:7463387 original size:21 final size:18
Alignment explanation
Indices: 7463346--7463381 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
7463336 TTATTTTAAA
7463346 AAATATATATATATATTT
1 AAATATATATATATATTT
7463364 AAATATATTATATATATT
1 AAATATA-TATATATATT
7463382 CTTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATATATATATATATTT
Found at i:7471265 original size:22 final size:22
Alignment explanation
Indices: 7471240--7471283 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7471230 TTTGATTGGT
*
7471240 ATCAAAGCTTTTGGTTTTAAAG
1 ATCAAAGCTTTTAGTTTTAAAG
* *
7471262 ATCAGAGTTTTTAGTTTTAAAG
1 ATCAAAGCTTTTAGTTTTAAAG
7471284 TTGTTTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (22 bp):
ATCAAAGCTTTTAGTTTTAAAG
Found at i:7483940 original size:19 final size:20
Alignment explanation
Indices: 7483918--7483970 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
7483908 AAATTTTTAG
7483918 AATAAAATAATATTT-TATT
1 AATAAAATAATATTTATATT
7483937 AATAAAATAATATTTATATT
1 AATAAAATAATATTTATATT
7483957 AATAAAATAATATT
1 AATAAAATAATATT
7483971 AAAATATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATAAAATAATATTTATATT
Found at i:7484623 original size:93 final size:92
Alignment explanation
Indices: 7484458--7484649 Score: 269
Period size: 93 Copynumber: 2.1 Consensus size: 92
7484448 TTTTTCTGCC
* ** * *
7484458 ATTTTAAGGGTGAGAAGAGCAGCTTTAGCTGTTGATTTTTGAAGGCTAAAAGGAGCAGCTTTGGC
1 ATTTTGAGGGTGAGAAGAGCAGCTTTAGCTACTGAATTTTGAAGGCTAAAAGGAGCAACTTTGGC
* *
7484523 TGCTGATTTTTTTGAGGTTTTGGCTGTCG
66 TACTGA--TTTTTGAGGTTTTGGCTATCG
* *
7484552 ATTTTGAGGGTGAGAGGAGCAGCTTTAGCTACT-AATTTTGAAGGCTAAAAGGAGTAACTTTGGC
1 ATTTTGAGGGTGAGAAGAGCAGCTTTAGCTACTGAATTTTGAAGGCTAAAAGGAGCAACTTTGGC
*
7484616 TACTGATTTTTGAGGTTTTTGCTATCG
66 TACTGATTTTTGAGGTTTTGGCTATCG
7484643 ATTTTGA
1 ATTTTGA
7484650 AGGTAAAATG
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 26 0.30
93 33 0.38
94 29 0.33
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (92 bp):
ATTTTGAGGGTGAGAAGAGCAGCTTTAGCTACTGAATTTTGAAGGCTAAAAGGAGCAACTTTGGC
TACTGATTTTTGAGGTTTTGGCTATCG
Found at i:7484687 original size:91 final size:92
Alignment explanation
Indices: 7484474--7484688 Score: 270
Period size: 91 Copynumber: 2.3 Consensus size: 92
7484464 AGGGTGAGAA
* *
7484474 GAGCAGCTTTAGCTGTTGATTTTTGAAGGCTAAAAGGAGCAGCTTTGGCTGCTGATTTTTTTGAG
1 GAGCAGCTTTAGCTGTTGATTTTT-AAGGCTAAAAGGAGCAACTTTGGCTACTGA-TTTTTTGAG
* * * *
7484539 GTTTTGGCTGTCGATTTTGAGGGTGAGAG
64 GTTTTGGCTATCGATTTTGAAGGTAAAAG
** * * *
7484568 GAGCAGCTTTAGCTACTAATTTTGAAGGCTAAAAGGAGTAACTTTGGCTACTGA-TTTTTGAGGT
1 GAGCAGCTTTAGCTGTTGATTTTTAAGGCTAAAAGGAGCAACTTTGGCTACTGATTTTTTGAGGT
* *
7484632 TTTTGCTATCGATTTTGAAGGTAAAAT
66 TTTGGCTATCGATTTTGAAGGTAAAAG
* *
7484659 GAGTAGCTTTGGCTGTTGATTTTTAAGGCT
1 GAGCAGCTTTAGCTGTTGATTTTTAAGGCT
7484689 GAAATGAGGA
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
91 55 0.54
93 27 0.26
94 20 0.20
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (92 bp):
GAGCAGCTTTAGCTGTTGATTTTTAAGGCTAAAAGGAGCAACTTTGGCTACTGATTTTTTGAGGT
TTTGGCTATCGATTTTGAAGGTAAAAG
Found at i:7484713 original size:91 final size:90
Alignment explanation
Indices: 7484474--7484722 Score: 257
Period size: 91 Copynumber: 2.7 Consensus size: 90
7484464 AGGGTGAGAA
*
7484474 GAGCAGCTTTAGCTGTTGATTTTTGAAGGCTAAAAGGAGCAGCTTTGGCTGCTGATTTTTTTGAG
1 GAGCAGCTTTAGCTGTTGATTTTT-AAGGCTAAAAGGAGAAG-TTTGGCTGCTGA--TTTTTGAG
* * * *
7484539 GTTTTGGCTGTCGATTTTGAGGGTGAGAG
62 GTTTTGGCTATCGATTTTGAAGGTAAAAG
** * * * *
7484568 GAGCAGCTTTAGCTACTAATTTTGAAGGCTAAAAGGAGTAACTTTGGCTACTGATTTTTGAGGTT
1 GAGCAGCTTTAGCTGTTGATTTTTAAGGCTAAAAGGAG-AAGTTTGGCTGCTGATTTTTGAGGTT
* *
7484633 TTTGCTATCGATTTTGAAGGTAAAAT
65 TTGGCTATCGATTTTGAAGGTAAAAG
* * * * * * *
7484659 GAGTAGCTTTGGCTGTTGATTTTTAAGGCTGAAATGAGGAGTTTAAGCTGCTGATTATTG-GGTT
1 GAGCAGCTTTAGCTGTTGATTTTTAAGGCTAAAAGGAGAAGTTT-GGCTGCTGATTTTTGAGGTT
7484723 GAAAGAAGTG
Statistics
Matches: 127, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
90 8 0.06
91 73 0.57
93 25 0.20
94 21 0.17
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (90 bp):
GAGCAGCTTTAGCTGTTGATTTTTAAGGCTAAAAGGAGAAGTTTGGCTGCTGATTTTTGAGGTTT
TGGCTATCGATTTTGAAGGTAAAAG
Found at i:7484922 original size:25 final size:24
Alignment explanation
Indices: 7484890--7484957 Score: 91
Period size: 25 Copynumber: 2.8 Consensus size: 24
7484880 AGAAAAGAAA
7484890 AAAAAATGGGCATAGCCCAATAAG
1 AAAAAATGGGCATAGCCCAATAAG
* *
7484914 AAAAGAATGGGCATGGCCCAATAGG
1 AAAA-AATGGGCATAGCCCAATAAG
* *
7484939 AAAAAATGGGAAGAGCCCA
1 AAAAAATGGGCATAGCCCA
7484958 TGGAAAGGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 16 0.42
25 22 0.58
ACGTcount: A:0.47, C:0.16, G:0.26, T:0.10
Consensus pattern (24 bp):
AAAAAATGGGCATAGCCCAATAAG
Found at i:7486134 original size:63 final size:62
Alignment explanation
Indices: 7486035--7486194 Score: 239
Period size: 63 Copynumber: 2.5 Consensus size: 62
7486025 GGATGTAACT
* *
7486035 GTGCATGTGCAGAGTGGGCAGTGCACATGCCGGTTGAATGATGAGGTTTCGATAGTTACAACC
1 GTGCATGTGCAGAGT-GGCAGTGCACATGCCGGTTGAATGATGAGGTTGCGATAATTACAACC
* *
7486098 GTGCATGTGCAGAGTAGGCAGTGCACATGCCGGTTGAATGATGATGTTGCGATAATTACAACT
1 GTGCATGTGCAGAGT-GGCAGTGCACATGCCGGTTGAATGATGAGGTTGCGATAATTACAACC
* *
7486161 GTGCATGTGCAAAATGCGCAGTGCACATGCCGGT
1 GTGCATGTGCAGAGTG-GCAGTGCACATGCCGGT
7486195 AAAGATGCAT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
62 1 0.01
63 88 0.99
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (62 bp):
GTGCATGTGCAGAGTGGCAGTGCACATGCCGGTTGAATGATGAGGTTGCGATAATTACAACC
Found at i:7489392 original size:17 final size:17
Alignment explanation
Indices: 7489372--7489404 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7489362 ATAATTATAA
7489372 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
7489389 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
7489405 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:7489853 original size:191 final size:190
Alignment explanation
Indices: 7489518--7489898 Score: 701
Period size: 191 Copynumber: 2.0 Consensus size: 190
7489508 GATGGTCAAG
7489518 ATTGATTCAAGGTGTTTCATTTTGATTAAACCTTTAAAGCAAGAGTTTTAATAAAAATGAGAAGT
1 ATTGATTCAAGGTGTTTCATTTTGATTAAACCTTTAAAGCAAGAGTTTTAATAAAAATGAGAAGT
7489583 GATTGGAAGAAAATGGGAGAACGTACTTTTTCTTAAAAAAAAAAAAGTTTCAGCCATCTCTTCTC
66 GATTGGAAGAAAATGGGAGAACGTACTTTTTCTTAAAAAAAAAAAAGTTTCAGCCATCTCTTCTC
* * *
7489648 TTTTCCTCTTCCAAGGTTTTCCAAAGAAAAGAGAATAAACTTAATTGTCATCTTGTAGCC
131 TTTTCCTCTTCCAAGGTTTTCCAAAGAAAAGAGAATAAAATCAATTGCCATCTTGTAGCC
7489708 NATTGATTCAAAGGTGTTTCATTTTGATTAAACCTTTAAAGCAAGAGTTTTAATAAAAATGAGAA
1 -ATTGATTC-AAGGTGTTTCATTTTGATTAAACCTTTAAAGCAAGAGTTTTAATAAAAATGAGAA
*
7489773 GTGATTGGAAGAAAATGGGAGAACGTACTTTTTCTT-AAAAAAAAAAAGTTTGAGCCATCTCTTC
64 GTGATTGGAAGAAAATGGGAGAACGTACTTTTTCTTAAAAAAAAAAAAGTTTCAGCCATCTCTTC
7489837 TCTTTTCCTCTTCCAAGGTTTTCCAAAGAAAAGAGAATAAAATCAATTGCCATCTTGTAGCC
129 TCTTTTCCTCTTCCAAGGTTTTCCAAAGAAAAGAGAATAAAATCAATTGCCATCTTGTAGCC
7489899 TTGCAATCCA
Statistics
Matches: 185, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
191 94 0.51
192 91 0.49
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (190 bp):
ATTGATTCAAGGTGTTTCATTTTGATTAAACCTTTAAAGCAAGAGTTTTAATAAAAATGAGAAGT
GATTGGAAGAAAATGGGAGAACGTACTTTTTCTTAAAAAAAAAAAAGTTTCAGCCATCTCTTCTC
TTTTCCTCTTCCAAGGTTTTCCAAAGAAAAGAGAATAAAATCAATTGCCATCTTGTAGCC
Found at i:7494068 original size:43 final size:43
Alignment explanation
Indices: 7493998--7494129 Score: 176
Period size: 43 Copynumber: 3.1 Consensus size: 43
7493988 GTAATTATGT
* *
7493998 TGACTCGGCTATGTGCGAGTAGGGAGTGTGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGA
* *
7494041 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAATCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
* * * *
7494084 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
7494127 TGA
1 TGA
7494130 TGATGATGAG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 77 0.99
ACGTcount: A:0.22, C:0.18, G:0.39, T:0.21
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGA
Found at i:7494140 original size:20 final size:20
Alignment explanation
Indices: 7494115--7494177 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
7494105 GGGAGTGCGC
7494115 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
7494135 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
7494155 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
7494174 ATGA
1 ATGA
7494178 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:7506065 original size:43 final size:43
Alignment explanation
Indices: 7505995--7506113 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
7505985 GTAATTATGT
* *
7505995 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
7506038 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
7506081 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
7506114 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:7506123 original size:43 final size:43
Alignment explanation
Indices: 7506005--7506126 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
7505995 TGACTCGGCT
* **
7506005 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
7506048 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
7506091 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
7506127 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:7506137 original size:20 final size:20
Alignment explanation
Indices: 7506112--7506174 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
7506102 GGGAGTGCGC
7506112 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
7506132 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
7506152 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
7506171 ATGA
1 ATGA
7506175 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:7525473 original size:21 final size:22
Alignment explanation
Indices: 7525449--7525489 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
7525439 ACTCGAGATT
7525449 TTCTTGCTGCAGCGA-AAATGA
1 TTCTTGCTGCAGCGAGAAATGA
7525470 TTCTTGCTGCAGCGAGAAAT
1 TTCTTGCTGCAGCGAGAAAT
7525490 AGGGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (22 bp):
TTCTTGCTGCAGCGAGAAATGA
Found at i:7539201 original size:19 final size:19
Alignment explanation
Indices: 7539177--7539218 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
7539167 CTTCTTCTCC
7539177 TTCATGCTCCCACGCCATT
1 TTCATGCTCCCACGCCATT
* *
7539196 TTCATGCTCCCATGCTATT
1 TTCATGCTCCCACGCCATT
7539215 TTCA
1 TTCA
7539219 CCTTAACACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.36, G:0.10, T:0.38
Consensus pattern (19 bp):
TTCATGCTCCCACGCCATT
Found at i:7555802 original size:22 final size:22
Alignment explanation
Indices: 7555774--7555837 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
7555764 TTTAAAACAA
7555774 CTTTAAAACCAAAAGCTCTAAT
1 CTTTAAAACCAAAAGCTCTAAT
* *
7555796 CTTTAAAACCAGAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTAAT
7555818 CTTTAAAACCAAAAGCTCTA
1 CTTTAAAACCAAAAGCTCTA
7555838 TTACCACTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTAAT
Found at i:7578703 original size:43 final size:43
Alignment explanation
Indices: 7578656--7578782 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 43
7578646 TGTGATAATA
* * * *
7578656 ATGACCTAGCTATATGCGGTGTGGGAGTGCACATGAGCTGGTG
1 ATGACCTAACTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
7578699 ATGA-CTCAACTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCT-AACTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* *
7578742 ATGACCCAACTATGTGCGAGT-AAGGAGTGCACATGAGCTGA
1 ATGACCTAACTATGTGCG-GTGTAGGAGTGCACATGAGCTGA
7578783 GTGTGGCGGG
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
42 2 0.03
43 70 0.93
44 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (43 bp):
ATGACCTAACTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
Found at i:7581146 original size:35 final size:35
Alignment explanation
Indices: 7581093--7581165 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
7581083 GGAGTACATG
*
7581093 TGATGATATTGAAATGTGCATGTAAGGG-GTGTACA
1 TGATGATATTGAAATGTGCATGT-AGGGAGTGCACA
*** *
7581128 TGATGATATTGCCTTGTGCGTGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCATGTAGGGAGTGCACA
7581163 TGA
1 TGA
7581166 GCTGAGTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 4 0.12
35 28 0.88
ACGTcount: A:0.26, C:0.10, G:0.33, T:0.32
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCATGTAGGGAGTGCACA
Found at i:7581201 original size:2 final size:2
Alignment explanation
Indices: 7581194--7581256 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
7581184 GGTGTACATG
7581194 TA TA TA 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
7581236 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
7581257 GCTATAGACA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7582553 original size:124 final size:122
Alignment explanation
Indices: 7582416--7582639 Score: 340
Period size: 124 Copynumber: 1.8 Consensus size: 122
7582406 ACGTCTGCTG
* *
7582416 TTTTTTTGTTGTTTGTGTTATTTTATTGAATAATCTTTATTAATTTATAAAATGTTTTATTTGAT
1 TTTTTTTGTTGTTTGTGCTATTTTATTGAATAATCTTTATTAATGTATAAAATGTTTTA-TTGAT
7582481 TTTAATGTTTACCATGTCCTAGAAATGGTTTCGATAGGTCTACTATTTATTTTGTTGT
65 TTTAATGTTTACCATGTCCTAGAAATGGTTTCGATAGGTCTACTATTTATTTTGTTGT
* * *
7582539 TTTTATTTGTTGTTTGTGCTATTTTATTTAATAATCTTTATTAATGTATCAGATGTTTTATTGAT
1 TTTT-TTTGTTGTTTGTGCTATTTTATTGAATAATCTTTATTAATGTATAAAATGTTTTATTGAT
** * * *
7582604 TTTAATGTTTACTGTGTCTTAGAATTGGTTTTGATA
65 TTTAATGTTTACCATGTCCTAGAAATGGTTTCGATA
7582640 TTTTCATTTA
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
123 40 0.44
124 50 0.56
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (122 bp):
TTTTTTTGTTGTTTGTGCTATTTTATTGAATAATCTTTATTAATGTATAAAATGTTTTATTGATT
TTAATGTTTACCATGTCCTAGAAATGGTTTCGATAGGTCTACTATTTATTTTGTTGT
Found at i:7583995 original size:2 final size:2
Alignment explanation
Indices: 7583988--7584022 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7583978 TATTGCATAA
7583988 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7584023 CATACATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7584309 original size:2 final size:2
Alignment explanation
Indices: 7584298--7584354 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
7584288 TAAATTAGTT
7584298 TA TA -A TA TA TA TA T- 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
7584338 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
7584355 CAACATAACA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7585116 original size:20 final size:20
Alignment explanation
Indices: 7585091--7585132 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
7585081 GGGAGAAGAA
* *
7585091 GAAGAAGCTGCTGGAGAAAT
1 GAAGAAGCTGCTAGAAAAAT
7585111 GAAGAAGCTGCTAGAAAAAT
1 GAAGAAGCTGCTAGAAAAAT
7585131 GA
1 GA
7585133 TATTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.31, T:0.14
Consensus pattern (20 bp):
GAAGAAGCTGCTAGAAAAAT
Found at i:7585662 original size:27 final size:27
Alignment explanation
Indices: 7585599--7585855 Score: 253
Period size: 27 Copynumber: 9.4 Consensus size: 27
7585589 TTCAACGTGG
7585599 CATGGCATGTAACAACTAAAATTTTCAA
1 CATGGCATGTAACAACT-AAATTTTCAA
** **
7585627 CATGATATGTAACAACTAAAGCTTCAA
1 CATGGCATGTAACAACTAAATTTTCAA
* * *
7585654 CATGGTATGTAACAACTAAACTTCCAA
1 CATGGCATGTAACAACTAAATTTTCAA
*** * *
7585681 CATGATGTGTAACAACTATATTTTTTAA
1 CATGGCATGTAACAACTA-AATTTTCAA
*
7585709 CATGGCATGTAACAACTAAATCTTCAA
1 CATGGCATGTAACAACTAAATTTTCAA
* *
7585736 CATGGCATGCAACAACTAAAGTTTCAA
1 CATGGCATGTAACAACTAAATTTTCAA
* * *
7585763 CATGACGTGTAACAACTACATTTTTCAA
1 CATGGCATGTAACAACTA-AATTTTCAA
* * *
7585791 CATGGCCTATAACAATTAAATTTTCAA
1 CATGGCATGTAACAACTAAATTTTCAA
** * *
7585818 CATGGTGTGTAACTACTATATTTTCAA
1 CATGGCATGTAACAACTAAATTTTCAA
*
7585845 AATGGCATGTA
1 CATGGCATGTA
7585856 TCAATTATTT
Statistics
Matches: 185, Mismatches: 42, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
27 129 0.70
28 56 0.30
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (27 bp):
CATGGCATGTAACAACTAAATTTTCAA
Done.