Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 65 of 185
Found at i:18996772 original size:22 final size:22
Alignment explanation
Indices: 18996746--18996789 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18996736 CCCTTAATTT
*
18996746 TTACTAGAAGTTTATCTACAAA
1 TTACTAGAAGTTTATCCACAAA
**
18996768 TTACTAGTGGTTTATCCACAAA
1 TTACTAGAAGTTTATCCACAAA
18996790 GTGATGTGTA
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:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (22 bp):
TTACTAGAAGTTTATCCACAAA
Found at i:18997874 original size:7 final size:7
Alignment explanation
Indices: 18997862--18997900 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
18997852 AACTATAGTC
18997862 AAACTTT
1 AAACTTT
18997869 AAACTTT
1 AAACTTT
*
18997876 AAACTAT
1 AAACTTT
18997883 AAACTTT
1 AAACTTT
* *
18997890 AGACTAT
1 AAACTTT
18997897 AAAC
1 AAAC
18997901 ACTCAGAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (7 bp):
AAACTTT
Found at i:18997885 original size:14 final size:14
Alignment explanation
Indices: 18997862--18997900 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
18997852 AACTATAGTC
*
18997862 AAACTTTAAACTTT
1 AAACTATAAACTTT
18997876 AAACTATAAACTTT
1 AAACTATAAACTTT
*
18997890 AGACTATAAAC
1 AAACTATAAAC
18997901 ACTCAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (14 bp):
AAACTATAAACTTT
Found at i:19004530 original size:45 final size:45
Alignment explanation
Indices: 19004474--19004559 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
19004464 CAACAAAAAT
* * *
19004474 GTCACATATGGAATCTACATATAGCTGTGGGTACACAACAAGACC
1 GTCACAGATGGAATCTACATATAGCTATGAGTACACAACAAGACC
* *
19004519 GTCACAGATGGAATCTACCTATGGCTATGAGTACACAACAA
1 GTCACAGATGGAATCTACATATAGCTATGAGTACACAACAA
19004560 AAGAAATGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (45 bp):
GTCACAGATGGAATCTACATATAGCTATGAGTACACAACAAGACC
Found at i:19010632 original size:3 final size:3
Alignment explanation
Indices: 19010626--19010650 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19010616 ATGAAGCAAG
19010626 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
19010651 AATGGTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:19015214 original size:3 final size:3
Alignment explanation
Indices: 19015206--19015248 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
19015196 AATTTCAGTG
19015206 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19015249 TTGTTTTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19016846 original size:44 final size:45
Alignment explanation
Indices: 19016795--19016887 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 45
19016785 TACAATATCT
* *
19016795 ATTCCATTCAACCAGACACAA-GAA-TAC-TATTACAGCTCTATTCC
1 ATTCCATTCAACCA-A-ACAACGAATTACTTATTACAACTCTATTAC
19016839 ATTCCATTCAACCAAACAACTGAATTACTTATTACAACTCTATTAC
1 ATTCCATTCAACCAAACAAC-GAATTACTTATTACAACTCTATTAC
19016885 ATT
1 ATT
19016888 ACAACTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 4 0.09
43 1 0.02
44 17 0.40
45 3 0.07
46 18 0.42
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (45 bp):
ATTCCATTCAACCAAACAACGAATTACTTATTACAACTCTATTAC
Found at i:19016913 original size:16 final size:16
Alignment explanation
Indices: 19016869--19016919 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
19016859 TGAATTACTT
*
19016869 ATTACAA-CTCTATTAC
1 ATTACAACCT-TATTCC
*
19016885 ATTACAACTTTATTCC
1 ATTACAACCTTATTCC
19016901 ATTACAACCTTATTCC
1 ATTACAACCTTATTCC
19016917 ATT
1 ATT
19016920 CCCTCCAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTACAACCTTATTCC
Found at i:19019446 original size:96 final size:96
Alignment explanation
Indices: 19019330--19019521 Score: 296
Period size: 96 Copynumber: 2.0 Consensus size: 96
19019320 GTAACATGAA
19019330 CCAAATCATAGAATGAAAACTTTAATCTTTCTTTCAGAAGAAA-AGTTAATTTTTTCTTTAATCG
1 CCAAATCATAGAATGAAAACTTTAATCTTTCTTTCAGAAGAAAGA-TTAATTTTTTCTTTAATCG
* * *
19019394 GAAACTATACGTTATTTCCAGAAAATAAATTT
65 AAAACTAAACATTATTTCCAGAAAATAAATTT
* * * *
19019426 CCAAATCATAGAATGGAAACTTTAATTTTTCTTTCAGTAGAAAGATTATTTTTTTCTTTAATCGA
1 CCAAATCATAGAATGAAAACTTTAATCTTTCTTTCAGAAGAAAGATTAATTTTTTCTTTAATCGA
*
19019491 AAACTAAACATTATTTCTAGAAAATAAATTT
66 AAACTAAACATTATTTCCAGAAAATAAATTT
19019522 TCACTATTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 86 0.99
97 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (96 bp):
CCAAATCATAGAATGAAAACTTTAATCTTTCTTTCAGAAGAAAGATTAATTTTTTCTTTAATCGA
AAACTAAACATTATTTCCAGAAAATAAATTT
Found at i:19024517 original size:525 final size:525
Alignment explanation
Indices: 19023527--19024573 Score: 1679
Period size: 525 Copynumber: 2.0 Consensus size: 525
19023517 ACATAAAAGT
* **
19023527 ATATGAGTCACGAATACATAGTCCATCATCCACTCAGGATTAATGTATGTCACACTATGATTGTC
1 ATATGAGTCACGAATACATAGTCCATCATCCACTCAGGATTAAGGTATGTCACACTATGATCATC
19023592 ACAAGTGAATAAATCCATAATCAGATTTAGGATCTATTTTACTTAGGTCATGTTCGACGTACTAT
66 ACAAGTGAATAAATCCATAATCAGATTTAGGATCTATTTTACTTAGGTCATGTTCGACGTACTAT
*
19023657 AAATCCTGCCAGTCACATGTATGTCTCTATCTTCTAAGAGTCATTCGCTCCGATACCCATGACAA
131 AAATCCAGCCAGTCACATGTATGTCTCTATCTTCTAAGAGTCATTCGCTCCGATACCCATGACAA
* *
19023722 GGTATCTCCCCAATTTGGACTTGATAGACAATTTTAGTCTTTTAATTGATTTTCTCAATTTTGAT
196 GGTATCTCCCCAATTTAGACTTGATAGACAATATTAGTCTTTTAATTGATTTTCTCAATTTTGAT
* * * * * *
19023787 TTGACTAAGGATGTGTTTTGATTAACTACTAATATAAGCTGCCTTTTTATATTATGATTCGACCA
261 TAGACTAAGGACGTGTTTAGATTAACTACTAATATAAGCTGCCTTTCTATATTACGATCCGACCA
* *
19023852 CACAATACCACTTAATATTAGTTAAATGTTAGATACACAGTGAGCCAATATTTGCTTTCATTTTA
326 CACAATACCACTTAATATTAGTTAAACGTTAGATACACAGTGAGCCAATATTTGCTTTCACTTTA
* ** *
19023917 ATTTTAGTGCAAAAACCTTTGAGGAAAATATACGGAGATATTAATGAAACTAATGGATATTTTAT
391 ATTTGAGTGCAAAAACCTTTGAGGAAAATATACAAAGATATTAATGAAACTAATGGATATTTTAA
*
19023982 TAAACCAATTTATTCGAAAAAAATACAAGTACATATAGAC-ATAAATACTACACTAAGGGCGTTA
456 TAAACCAATTTATTCGAAAAAAATACAAGTACATATAGACGAT-AATACTACACTAAGGGCATTA
19024046 GATTAC
520 GATTAC
*
19024052 ATATGAGTCACGAATACATAGTCCATCATCCACTCAGGATTAAGGTATGTCACATTATGATCATC
1 ATATGAGTCACGAATACATAGTCCATCATCCACTCAGGATTAAGGTATGTCACACTATGATCATC
* * *
19024117 ACAAGTGAATAAATCCATAATCAGATTTAGGATCTATTTTACTTTGGTTATGTTCGATGTACTAT
66 ACAAGTGAATAAATCCATAATCAGATTTAGGATCTATTTTACTTAGGTCATGTTCGACGTACTAT
* * * * *
19024182 AAGTCCAGTCAGTCACATGTATGTCTCTATCTTTTAGGAGTCATTCGCTTCGATACCCATGACAA
131 AAATCCAGCCAGTCACATGTATGTCTCTATCTTCTAAGAGTCATTCGCTCCGATACCCATGACAA
*
19024247 GGTATCTCCCCAA-TTAGACTTGATAGACATCATATTAGTCTTTTACTTGATTTGT-TCAATTTT
196 GGTATCTCCCCAATTTAGACTTGATAGACA--ATATTAGTCTTTTAATTGATTT-TCTCAATTTT
* * *
19024310 GATTAGACTAAGGACGTGTTTAGATTAACTACTAATATAAGTTGTCTTTCTATCTTACGATCCGA
258 GATTAGACTAAGGACGTGTTTAGATTAACTACTAATATAAGCTGCCTTTCTATATTACGATCCGA
* *
19024375 CCACATAATACCACTTAATATTAGTTAAACGTTAGATACACAGTGAGCCAGTATTTGCTTTCACT
323 CCACACAATACCACTTAATATTAGTTAAACGTTAGATACACAGTGAGCCAATATTTGCTTTCACT
* * *
19024440 TTACTTTGCGTGCAAAAACCTTTGAGGACAATATACAAAGAT-TTAATGAAACTAATGGATATTT
388 TTAATTTGAGTGCAAAAACCTTTGAGGAAAATATACAAAGATATTAATGAAACTAATGGATATTT
* *
19024504 TAATAAACCAATTTTTTCGAAAAAAATACAATTACATATAGACGATAATACTACACTAAGGGCAT
453 TAATAAACCAATTTATTCGAAAAAAATACAAGTACATATAGACGATAATACTACACTAAGGGCAT
19024569 TAGAT
518 TAGAT
19024574 CCAAACACAT
Statistics
Matches: 479, Mismatches: 39, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
524 15 0.03
525 280 0.58
526 183 0.38
527 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (525 bp):
ATATGAGTCACGAATACATAGTCCATCATCCACTCAGGATTAAGGTATGTCACACTATGATCATC
ACAAGTGAATAAATCCATAATCAGATTTAGGATCTATTTTACTTAGGTCATGTTCGACGTACTAT
AAATCCAGCCAGTCACATGTATGTCTCTATCTTCTAAGAGTCATTCGCTCCGATACCCATGACAA
GGTATCTCCCCAATTTAGACTTGATAGACAATATTAGTCTTTTAATTGATTTTCTCAATTTTGAT
TAGACTAAGGACGTGTTTAGATTAACTACTAATATAAGCTGCCTTTCTATATTACGATCCGACCA
CACAATACCACTTAATATTAGTTAAACGTTAGATACACAGTGAGCCAATATTTGCTTTCACTTTA
ATTTGAGTGCAAAAACCTTTGAGGAAAATATACAAAGATATTAATGAAACTAATGGATATTTTAA
TAAACCAATTTATTCGAAAAAAATACAAGTACATATAGACGATAATACTACACTAAGGGCATTAG
ATTAC
Found at i:19029999 original size:20 final size:20
Alignment explanation
Indices: 19029962--19030000 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19029952 TACTTTCTTC
*
19029962 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCATACTTG
19029982 TTTACTTACT-TGCATACTT
1 TTTACTTACTCT-CATACTT
19030001 AAATAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTACTTACTCTCATACTTG
Found at i:19030352 original size:50 final size:50
Alignment explanation
Indices: 19030293--19030393 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
19030283 ATGAAAGTTA
* * * *
19030293 TCATATCGGTGCCCATGCTATGTCCCAGACATGGTCTTACAAGGGACCTC
1 TCATATCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAAGGGACCTC
* **
19030343 TCATTTCGGTGCCAACGCCATGTCCCAAACATGGTCTTACGTGGGACCTC
1 TCATATCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAAGGGACCTC
19030393 T
1 T
19030394 TGTAACCTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.27
Consensus pattern (50 bp):
TCATATCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAAGGGACCTC
Found at i:19033504 original size:113 final size:113
Alignment explanation
Indices: 19033304--19033515 Score: 264
Period size: 113 Copynumber: 1.9 Consensus size: 113
19033294 TCACTGCCCA
* *
19033304 TGTGACTTTAATTCCAAAATAGTGAGTTAGATGGCCTGAACACACAACCATGTCCCTGGCCTATG
1 TGTGACTCTAATTCCAAAATAGTGAGCTAGATGGCCTGAACACACAACCATGTCCCTGGCCTATG
*** * * *
19033369 TGTTTCTAATTCCAAAATAGTGAGTTACACGGCCGGGACACATGCCTG
66 TGACCCTAATTACAAAACAGTGAGTGACACGGCCGGGACACATGCCTG
** * * * ** *
19033417 TGTGACTCTAATTCTGAAATAGTGAGCTATATGGTCTGGACACACGCCCATGTCCCTGGCCTGTG
1 TGTGACTCTAATTCCAAAATAGTGAGCTAGATGGCCTGAACACACAACCATGTCCCTGGCCTATG
19033482 TGACCCTAATTTAC-AAACAGTGAGTGACACGGCC
66 TGACCCTAA-TTACAAAACAGTGAGTGACACGGCC
19033516 TGTCACATGA
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
113 79 0.96
114 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (113 bp):
TGTGACTCTAATTCCAAAATAGTGAGCTAGATGGCCTGAACACACAACCATGTCCCTGGCCTATG
TGACCCTAATTACAAAACAGTGAGTGACACGGCCGGGACACATGCCTG
Found at i:19034158 original size:17 final size:17
Alignment explanation
Indices: 19034138--19034173 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19034128 GAAAAAGGGG
*
19034138 AAAAAAAGGAAAGAAAT
1 AAAAAAAGGAAACAAAT
*
19034155 AAAAAATGGAAACAAAT
1 AAAAAAAGGAAACAAAT
19034172 AA
1 AA
19034174 GTTAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.03, G:0.14, T:0.08
Consensus pattern (17 bp):
AAAAAAAGGAAACAAAT
Found at i:19035663 original size:48 final size:48
Alignment explanation
Indices: 19035592--19035689 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
19035582 ATTGTTAAGT
19035592 TAACCACAATTTAACTGATGACAACGTCCCTATATTTCCAATGAGTAG
1 TAACCACAATTTAACTGATGACAACGTCCCTATATTTCCAATGAGTAG
19035640 TAACCACAATTTAACTGATGACAACGTCCCTATATTTCCAATGAGTAG
1 TAACCACAATTTAACTGATGACAACGTCCCTATATTTCCAATGAGTAG
19035688 TA
1 TA
19035690 TGTCATCGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (48 bp):
TAACCACAATTTAACTGATGACAACGTCCCTATATTTCCAATGAGTAG
Found at i:19057182 original size:42 final size:42
Alignment explanation
Indices: 19057133--19057440 Score: 220
Period size: 43 Copynumber: 7.3 Consensus size: 42
19057123 AAAAGGCGTC
** *
19057133 GCTAAGTGCTGATTCCCCAAATTATTGATTCTAAAGGTGGTT
1 GCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGTGGTT
* *
19057175 TCTAAGTGCTGATTCCACCGTA-TATTTGATTGTGAAAGG-GGTT
1 GCTAAGTGCTGATTCC-CCGTATTA-TTGATTAT-AAAGGTGGTT
* * *
19057218 GCTATGTGCTGATTCCCCGTATCGA-TGAATATAAAGGTGGTT
1 GCTAAGTGCTGATTCCCCGTAT-TATTGATTATAAAGGTGGTT
* * * *
19057260 GCTAAGTGCTGATTCCACCATA-TATTTCATTGTGAAATG-GGTT
1 GCTAAGTGCTGATTCC-CCGTATTA-TTGATTAT-AAAGGTGGTT
* * * * *
19057303 GCTATGTGCTGATTCTCCGTATCACTGAATATAAAGGTGGTT
1 GCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGTGGTT
* *
19057345 GCTAAGTACTGATTCCACCGTATCT-TTGATTGTGAAAGG-GGTT
1 GCTAAGTGCTGATTCC-CCGTAT-TATTGATTAT-AAAGGTGGTT
* * * * * *
19057388 GCTATGTGCTGATTTCTCATATCACTGAATT-T-AAGGTGGTT
1 GCTAAGTGCTGATTCCCCGTATTATTG-ATTATAAAGGTGGTT
*
19057429 GCTACGTGCTGA
1 GCTAAGTGCTGA
19057441 ATCCACCGAG
Statistics
Matches: 208, Mismatches: 40, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
40 4 0.02
41 25 0.12
42 78 0.38
43 86 0.41
44 15 0.07
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (42 bp):
GCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGTGGTT
Found at i:19057227 original size:43 final size:43
Alignment explanation
Indices: 19057133--19057401 Score: 248
Period size: 43 Copynumber: 6.3 Consensus size: 43
19057123 AAAAGGCGTC
** *
19057133 GCTAAGTGCTGATTCC-CCAAAT-TATTGATTCTAAAGGTGGTT
1 GCTAAGTGCTGATTCCACCGTATAT-TTGATTGTAAAGGTGGTT
*
19057175 TCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGG-GGTT
1 GCTAAGTGCTGATTCCACCGTATATTTGATTGT-AAAGGTGGTT
* *** * *
19057218 GCTATGTGCTGATTCC-CCGTATCGATGAATATAAAGGTGGTT
1 GCTAAGTGCTGATTCCACCGTATATTTGATTGTAAAGGTGGTT
* * *
19057260 GCTAAGTGCTGATTCCACCATATATTTCATTGTGAAATG-GGTT
1 GCTAAGTGCTGATTCCACCGTATATTTGATTGT-AAAGGTGGTT
* * * * *
19057303 GCTATGTGCTGATT-CTCCGTATCA-CTGAATATAAAGGTGGTT
1 GCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTAAAGGTGGTT
* *
19057345 GCTAAGTACTGATTCCACCGTATCTTTGATTGTGAAAGG-GGTT
1 GCTAAGTGCTGATTCCACCGTATATTTGATTGT-AAAGGTGGTT
*
19057388 GCTATGTGCTGATT
1 GCTAAGTGCTGATT
19057402 TCTCATATCA
Statistics
Matches: 179, Mismatches: 37, Indels: 21
0.76 0.16 0.09
Matches are distributed among these distances:
41 9 0.05
42 71 0.40
43 84 0.47
44 15 0.08
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (43 bp):
GCTAAGTGCTGATTCCACCGTATATTTGATTGTAAAGGTGGTT
Found at i:19057267 original size:85 final size:85
Alignment explanation
Indices: 19057164--19057448 Score: 430
Period size: 85 Copynumber: 3.4 Consensus size: 85
19057154 TTATTGATTC
*
19057164 TAAAGGTGGTTTCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
19057229 ATTCCCCGTATCGA-TGAATA
66 ATTCCCCGTATC-ACTGAATA
* * *
19057249 TAAAGGTGGTTGCTAAGTGCTGATTCCACCATATATTTCATTGTGAAATGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
*
19057314 ATTCTCCGTATCACTGAATA
66 ATTCCCCGTATCACTGAATA
* *
19057334 TAAAGGTGGTTGCTAAGTACTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
* * *
19057399 ATTTCTCATATCACTGAAT-
66 ATTCCCCGTATCACTGAATA
* * *
19057418 TTAAGGTGGTTGCTACGTGCTGAATCCACCG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCG
19057449 AGTAACGGAT
Statistics
Matches: 181, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
84 28 0.15
85 153 0.85
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (85 bp):
TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
ATTCCCCGTATCACTGAATA
Found at i:19062637 original size:26 final size:24
Alignment explanation
Indices: 19062601--19062650 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
19062591 CTTTCATAAT
*
19062601 TTCACTTTTTCACTATCTCAATTCCA
1 TTCAATTTTTCAC-ATCTC-ATTCCA
19062627 TTCAATTTTTCACATCTCATTCCA
1 TTCAATTTTTCACATCTCATTCCA
19062651 ATAGTTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 5 0.22
26 12 0.52
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (24 bp):
TTCAATTTTTCACATCTCATTCCA
Found at i:19062934 original size:51 final size:51
Alignment explanation
Indices: 19062867--19063161 Score: 235
Period size: 51 Copynumber: 5.8 Consensus size: 51
19062857 TAAATGATAC
* * * * *
19062867 CCGGTTCACATAGTAGCCTACACATAGTACTACACTTGTGACCATTTTAAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATATTAAT
* * * * *
19062918 CCGATACACGTAGTAGCATGCACATAGTACTACACACGTGATCGA-AGCT-AT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATA-TTAAT
* * * * * *
19062969 TCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATATTAAT
* * * *
19063019 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATA-TTAAT
** * * * * *
19063071 -CGGTATGCATAGTAGCCTGCACATAATACTACACATGCGACC-TATCATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATATTAAT
* * *
19063120 CTGGTACACGTAGTA-CCTTCACATAGTACTACACACGTGACC
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC
19063162 TAGCAACTTC
Statistics
Matches: 187, Mismatches: 48, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
49 25 0.13
50 51 0.27
51 106 0.57
52 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATATTAAT
Found at i:19063051 original size:101 final size:101
Alignment explanation
Indices: 19062875--19063159 Score: 437
Period size: 101 Copynumber: 2.8 Consensus size: 101
19062865 ACCCGGTTCA
* * * * * * * *
19062875 CATAGTAGCCTACACATAGTACTACACTTGTGACCATTTTAATCCGATACACGTAGTAGCATGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
*
19062940 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTACTCGGTACG
19062977 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGCCTGCAC
*
19063042 ATAGTACTACACACGTGATCGAAGCTACTCGGTATG
66 ATAGTACTACACACGTGATCGAAGCTACTCGGTACG
* * *
19063078 CATAGTAGCCTGCACATAATACTACACATGCGACCTATCATTCTGGTACACGTAGTA-CCTTCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGCCTGCAC
19063142 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
19063160 CCTAGCAACT
Statistics
Matches: 170, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
100 24 0.14
101 114 0.67
102 32 0.19
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTACTCGGTACG
Found at i:19065805 original size:25 final size:27
Alignment explanation
Indices: 19065741--19065811 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 27
19065731 TTTTCCATAG
*
19065741 TTTTAAGATTAGGTTTTCTTTTCTTTTCA
1 TTTTTAGATTAGGTTTTC--TTCTTTTCA
*
19065770 TTTTTATATTAGGTTTTC-TCTTTTC-
1 TTTTTAGATTAGGTTTTCTTCTTTTCA
*
19065795 TTTTTAGATTAGATTTT
1 TTTTTAGATTAGGTTTT
19065812 TTTTGTTTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 15 0.39
26 7 0.18
29 16 0.42
ACGTcount: A:0.17, C:0.08, G:0.10, T:0.65
Consensus pattern (27 bp):
TTTTTAGATTAGGTTTTCTTCTTTTCA
Found at i:19066002 original size:13 final size:13
Alignment explanation
Indices: 19065984--19066008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19065974 TAATTTATAT
19065984 GTGTGAAAATTTC
1 GTGTGAAAATTTC
19065997 GTGTGAAAATTT
1 GTGTGAAAATTT
19066009 TATAGATTAT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:19067203 original size:43 final size:42
Alignment explanation
Indices: 19067136--19067251 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 42
19067126 GATTTGCATA
* * * * *
19067136 TAAGACCATGTCTCGGACATTGGCATCGTATATGATT-TATG
1 TAAGACCACGTCTGGGATACTGGCATCGTATATGATTACATG
* * *
19067177 TTTAAGACC-CTGTTTGGGATAGTGGCATCGTTATTTGATTACATG
1 --TAAGACCAC-GTCTGGGATACTGGCATCG-TATATGATTACATG
19067222 TAAGACCACGTCTGGGATACTGGCATCGTA
1 TAAGACCACGTCTGGGATACTGGCATCGTA
19067252 CGAGCTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
42 2 0.03
43 46 0.77
44 9 0.15
45 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
TAAGACCACGTCTGGGATACTGGCATCGTATATGATTACATG
Found at i:19072891 original size:40 final size:40
Alignment explanation
Indices: 19072830--19073076 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
19072820 CGGAATTTAG
* * * *
19072830 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
19072870 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
19072910 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
19072950 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
19072990 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
19073030 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
19073070 CCGGATA
1 CCGGATA
19073077 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:19090758 original size:15 final size:15
Alignment explanation
Indices: 19090738--19090771 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
19090728 AGTTATGTCT
19090738 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
19090753 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
19090768 ATGT
1 ATGT
19090772 CAAAAAGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:19091790 original size:19 final size:19
Alignment explanation
Indices: 19091775--19091812 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19091765 TTTATTATAC
*
19091775 TTTTCTATTCTAATTAAAA
1 TTTTCGATTCTAATTAAAA
19091794 TTTTCGATTCTAATTAAAA
1 TTTTCGATTCTAATTAAAA
19091813 AATAAATAAA
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:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (19 bp):
TTTTCGATTCTAATTAAAA
Found at i:19095386 original size:21 final size:21
Alignment explanation
Indices: 19095362--19095403 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19095352 AGTAAATTAC
19095362 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
19095383 TAAATACAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
19095404 CGAGATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:19096952 original size:16 final size:16
Alignment explanation
Indices: 19096931--19096982 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
19096921 TTTCTAGTAT
*
19096931 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
19096947 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
*
19096963 TTTATTTACTGGCGTA
1 TTTATTTACTAGCGTA
19096979 TTTA
1 TTTA
19096983 CTCTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:19099577 original size:15 final size:15
Alignment explanation
Indices: 19099557--19099620 Score: 80
Period size: 15 Copynumber: 4.3 Consensus size: 15
19099547 CAAAAAATAG
19099557 AAATAATAATATATA
1 AAATAATAATATATA
19099572 AAATAATAATATAT-
1 AAATAATAATATATA
19099586 AAAT-ATAATATATA
1 AAATAATAATATATA
*
19099600 AATATAAAAATA-ACTA
1 AA-ATAATAATATA-TA
19099616 AAATA
1 AAATA
19099621 GTTAGAATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
13 9 0.20
14 6 0.14
15 20 0.45
16 9 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATAATAATATATA
Found at i:19099604 original size:36 final size:37
Alignment explanation
Indices: 19099564--19099689 Score: 105
Period size: 36 Copynumber: 3.3 Consensus size: 37
19099554 TAGAAATAAT
19099564 AATATATAAAATAATAATATA-TAAATATAATATATA
1 AATATATAAAATAATAATATATTAAATATAATATATA
* *
19099600 AATATA-AAAATAACTAAAATAGTTAGAATATATATAGAATAA
1 AATATATAAAATAA-TAATATA-TTA-AATATA-ATA-TAT-A
* * * *
19099642 AATAGATATAATATATAAATAAATTGAATATAATAT-TA
1 AATATATAAAATA-AT-AATATATTAAATATAATATATA
19099680 AATATATAAA
1 AATATATAAA
19099690 TAAATTAAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
35 7 0.10
36 12 0.17
38 11 0.16
39 7 0.10
40 3 0.04
41 5 0.07
42 12 0.17
43 8 0.11
44 5 0.07
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (37 bp):
AATATATAAAATAATAATATATTAAATATAATATATA
Found at i:19099665 original size:21 final size:22
Alignment explanation
Indices: 19099629--19099691 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
19099619 TAGTTAGAAT
19099629 ATATATAGAATAAAATAG-ATATA
1 ATATATA-AAT-AAATAGAATATA
*
19099652 ATATATAAATAAATTGAATATA
1 ATATATAAATAAATAGAATATA
*
19099674 ATAT-TAAATATATA-AATA
1 ATATATAAATAAATAGAATA
19099692 AATTAAACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.11
21 13 0.36
22 12 0.33
23 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
ATATATAAATAAATAGAATATA
Found at i:19099672 original size:22 final size:22
Alignment explanation
Indices: 19099535--19099683 Score: 80
Period size: 21 Copynumber: 6.7 Consensus size: 22
19099525 TTTGTATTGT
*
19099535 ATATAATGTATACAA-AAAATAG
1 ATATAATATATA-AATAAAATAG
* *
19099557 AAATAATA-ATATATAAAAT--
1 ATATAATATATAAATAAAATAG
*
19099576 A-ATAATATATAAATATAATATATAA
1 ATATAATATAT-AA-ATAA-A-ATAG
* *
19099601 ATATAA-AAATAACTAAAATAG
1 ATATAATATATAAATAAAATAG
* *
19099622 TTAGAATATATATAGAATAAAATAG
1 ATA-TA-ATATATA-AATAAAATAG
*
19099647 ATATAATATATAAAT-AAATTG
1 ATATAATATATAAATAAAATAG
19099668 AATATAATAT-TAAATA
1 -ATATAATATATAAATA
19099684 TATAAATAAA
Statistics
Matches: 98, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
18 6 0.06
19 3 0.03
20 2 0.02
21 27 0.28
22 21 0.21
23 13 0.13
24 7 0.07
25 15 0.15
26 4 0.04
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (22 bp):
ATATAATATATAAATAAAATAG
Found at i:19099696 original size:17 final size:17
Alignment explanation
Indices: 19099651--19099698 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
19099641 AAATAGATAT
19099651 AATATATAAATAAATT-
1 AATATATAAATAAATTA
*
19099667 GA-ATAT-AAT--ATTA
1 AATATATAAATAAATTA
19099680 AATATATAAATAAATTA
1 AATATATAAATAAATTA
19099697 AA
1 AA
19099699 CCAAAAGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 9
0.69 0.06 0.25
Matches are distributed among these distances:
12 3 0.12
13 1 0.04
14 7 0.28
15 7 0.28
16 1 0.04
17 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AATATATAAATAAATTA
Found at i:19100093 original size:13 final size:13
Alignment explanation
Indices: 19100075--19100102 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19100065 GTTATTCATA
19100075 ATTAATATGAATT
1 ATTAATATGAATT
19100088 ATTAATATGAATT
1 ATTAATATGAATT
19100101 AT
1 AT
19100103 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:19100317 original size:21 final size:20
Alignment explanation
Indices: 19100267--19100340 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 20
19100257 TCGATTTTAA
*
19100267 TTTTTTATATATAT-ATATT
1 TTTTTTATATATTTAATATT
*
19100286 ATTTATCTATATATTTAATATCT
1 -TTT-TTTATATATTTAATAT-T
*
19100309 TTTTTTATAT-CTTAATTATAT
1 TTTTTTATATATTTAA-TAT-T
19100330 TTCTTTTATAT
1 TT-TTTTATAT
19100341 TAATATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
20 7 0.16
21 21 0.48
22 15 0.34
23 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTATATATTTAATATT
Found at i:19100403 original size:17 final size:17
Alignment explanation
Indices: 19100381--19100419 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19100371 CTGACTCCAT
*
19100381 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
19100398 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
19100415 TTTTA
1 TTTTA
19100420 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:19100579 original size:15 final size:17
Alignment explanation
Indices: 19100549--19100580 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
19100539 GTCAAAATCT
19100549 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
19100566 TTTTATG-A-TTATATA
1 TTTTATGCATTTATATA
19100581 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:19101273 original size:11 final size:11
Alignment explanation
Indices: 19101236--19101273 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19101226 ATAAACAAAT
*
19101236 GAAAGAAGGGG
1 GAAAGGAGGGG
19101247 GAAA-GAGGGG
1 GAAAGGAGGGG
*
19101257 GAAAGGAGGGA
1 GAAAGGAGGGG
19101268 GAAAGG
1 GAAAGG
19101274 GGAAAGGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (11 bp):
GAAAGGAGGGG
Found at i:19102166 original size:10 final size:10
Alignment explanation
Indices: 19102136--19102176 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
19102126 ATCACAAGTC
19102136 TTGTGATATA
1 TTGTGATATA
*
19102146 GTGTGATATA
1 TTGTGATATA
19102156 TTGTGATATA
1 TTGTGATATA
*
19102166 TATATGATATA
1 T-TGTGATATA
19102177 CGTAGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (10 bp):
TTGTGATATA
Found at i:19105089 original size:15 final size:16
Alignment explanation
Indices: 19105064--19105093 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19105054 TCAATTTCAT
19105064 TTTGATATAGTACTAA
1 TTTGATATAGTACTAA
19105080 TTTG-TATAGTACTA
1 TTTGATATAGTACTA
19105094 GTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (16 bp):
TTTGATATAGTACTAA
Found at i:19105722 original size:17 final size:17
Alignment explanation
Indices: 19105700--19105738 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
19105690 TTTTTTTCTA
19105700 GTATTTTATTTACTAGC
1 GTATTTTATTTACTAGC
19105717 GTA-TTTATTTACTAGC
1 GTATTTTATTTACTAGC
19105733 GTATTT
1 GTATTT
19105739 GCTCTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (17 bp):
GTATTTTATTTACTAGC
Found at i:19106108 original size:24 final size:22
Alignment explanation
Indices: 19106067--19106110 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
19106057 CATTATTCAA
*
19106067 ATTTCATATACATGTATCATAG
1 ATTTCATATACATATATCATAG
19106089 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
19106111 GTAACAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTTCATATACATATATCATAG
Found at i:19106327 original size:24 final size:25
Alignment explanation
Indices: 19106270--19106332 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
19106260 GTACTTGCAT
* * * *
19106270 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTGTGAAGCGGGAA
*
19106295 GCTCTTACGAGCTGT-AAGCGGGAA
1 GCTCATACGAGCTGTGAAGCGGGAA
19106319 GCTCATACGAGCTG
1 GCTCATACGAGCTG
19106333 AATATTAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGTGAAGCGGGAA
Found at i:19110131 original size:14 final size:14
Alignment explanation
Indices: 19110112--19110142 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
19110102 TGTATTAAAG
19110112 TTTCATTGAAAATT
1 TTTCATTGAAAATT
19110126 TTTCATTGAAAATT
1 TTTCATTGAAAATT
19110140 TTT
1 TTT
19110143 AATGATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (14 bp):
TTTCATTGAAAATT
Found at i:19113771 original size:26 final size:26
Alignment explanation
Indices: 19113740--19113842 Score: 170
Period size: 26 Copynumber: 4.0 Consensus size: 26
19113730 TCTAAATTAA
* *
19113740 TAAATTAAATAAAAGTATTAATTTAG
1 TAAATTGAATAAAATTATTAATTTAG
19113766 TAAATTGAATAAAATTATTAATTTAG
1 TAAATTGAATAAAATTATTAATTTAG
*
19113792 TAAATTGAATAAAATTATTAATCTAG
1 TAAATTGAATAAAATTATTAATTTAG
*
19113818 TAAATTGAATAAAACTATTAATTTA
1 TAAATTGAATAAAATTATTAATTTA
19113843 TATTAAGATC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (26 bp):
TAAATTGAATAAAATTATTAATTTAG
Found at i:19114251 original size:40 final size:40
Alignment explanation
Indices: 19114202--19114283 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
19114192 GCGTTATACT
* * *
19114202 TTCTGTTTGGCGTGTTTCGGCTGGA-CTAGCTCTTATAAGC
1 TTCTATTTGGCGTATTTCAGCTGGATC-AGCTCTTATAAGC
* *
19114242 TTCTATTTGGCGTATTTCAGTTGGATCAGCTCTTATGAGC
1 TTCTATTTGGCGTATTTCAGCTGGATCAGCTCTTATAAGC
19114282 TT
1 TT
19114284 TTTGTCTGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.43
Consensus pattern (40 bp):
TTCTATTTGGCGTATTTCAGCTGGATCAGCTCTTATAAGC
Found at i:19118096 original size:104 final size:103
Alignment explanation
Indices: 19117916--19118125 Score: 384
Period size: 104 Copynumber: 2.0 Consensus size: 103
19117906 CTTATTTTCA
19117916 TGAACATTTAATTTCTCACGTACCTGAACCATATATCTCAATTTCACATTCGATCTTGACTTGAC
1 TGAACATTTAATTTCTCACGTACCTGAACCATATATCTCAATTTCACATTCGATCTTGACTTGAC
*
19117981 ATTGCCCGTTGAACTATTTCAAAATTTATAAGGATACTC
66 ATTGCCCGTTGAACTA-TTCAAAATTTATAAAGATACTC
*
19118020 TGAACATTTAATTTCTCACGTACCTGAACCATTTATCTCAATTTCACATTCGATCTTGACTTGAC
1 TGAACATTTAATTTCTCACGTACCTGAACCATATATCTCAATTTCACATTCGATCTTGACTTGAC
*
19118085 ATTTCCCGTTGAACTATTCAAAATTTATAAAGATACTC
66 ATTGCCCGTTGAACTATTCAAAATTTATAAAGATACTC
19118123 TGA
1 TGA
19118126 TTGTTAGATA
Statistics
Matches: 103, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
103 24 0.23
104 79 0.77
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (103 bp):
TGAACATTTAATTTCTCACGTACCTGAACCATATATCTCAATTTCACATTCGATCTTGACTTGAC
ATTGCCCGTTGAACTATTCAAAATTTATAAAGATACTC
Found at i:19118214 original size:43 final size:42
Alignment explanation
Indices: 19118150--19118302 Score: 123
Period size: 42 Copynumber: 3.6 Consensus size: 42
19118140 CGTACAATGT
* * *
19118150 CAATGTCCTAGAC-GAGGTCTTACATGTAATCAAATATCGACGC
1 CAATGTCCCAGACAG-GGTCTTACATGTAAACAAATA-CAACGC
* * * *
19118193 CACTGTCCCAGACAGGGTCTTACATGAAAACATATACAATGC
1 CAATGTCCCAGACAGGGTCTTACATGTAAACAAATACAACGC
* * * *
19118235 GAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CAATGC
1 CAATGTCCCAGACAGGGTCTTACATGTAAA---CAAATACAACGC
*
19118279 CAACGTCCCAGAC-GTGGTCTTACA
1 CAATGTCCCAGACAG-GGTCTTACA
19118303 CGAAATCACA
Statistics
Matches: 89, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 29 0.33
43 29 0.33
44 27 0.30
45 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
CAATGTCCCAGACAGGGTCTTACATGTAAACAAATACAACGC
Found at i:19130003 original size:21 final size:20
Alignment explanation
Indices: 19129956--19130005 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
19129946 GAACAAAAAT
19129956 AACTAAAAAAATAAATCTAA
1 AACTAAAAAAATAAATCTAA
*
19129976 AGCCTAAAGAAAATAACA-CTAA
1 A-ACTAAA-AAAATAA-ATCTAA
19129998 AACTAAAA
1 AACTAAAA
19130006 TTACAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 10 0.40
22 12 0.48
23 1 0.04
ACGTcount: A:0.66, C:0.14, G:0.04, T:0.16
Consensus pattern (20 bp):
AACTAAAAAAATAAATCTAA
Found at i:19135932 original size:10 final size:10
Alignment explanation
Indices: 19135917--19135946 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
19135907 AATAGTGGAG
19135917 GAAAAGAGAA
1 GAAAAGAGAA
19135927 GAAAAGAGAA
1 GAAAAGAGAA
19135937 GAAAAGAGAA
1 GAAAAGAGAA
19135947 AATGGGAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:19137387 original size:5 final size:6
Alignment explanation
Indices: 19137357--19137384 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19137347 TGCGAAATTT
19137357 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
19137385 GAACTAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:19138932 original size:142 final size:142
Alignment explanation
Indices: 19138766--19139047 Score: 564
Period size: 142 Copynumber: 2.0 Consensus size: 142
19138756 TCTAAAGAGG
19138766 AATCCTATACGATATTTAAATTTAGTTTAAAACCCTAAAAAAATATCTTACATATTATTTATAAT
1 AATCCTATACGATATTTAAATTTAGTTTAAAACCCTAAAAAAATATCTTACATATTATTTATAAT
19138831 TTTTTCTAGTGTAAATGGTAAATAAGATCTTAAAGACTAAGATGAATCCAAATGTAAAAACCTTA
66 TTTTTCTAGTGTAAATGGTAAATAAGATCTTAAAGACTAAGATGAATCCAAATGTAAAAACCTTA
19138896 TGGCTTCATTTT
131 TGGCTTCATTTT
19138908 AATCCTATACGATATTTAAATTTAGTTTAAAACCCTAAAAAAATATCTTACATATTATTTATAAT
1 AATCCTATACGATATTTAAATTTAGTTTAAAACCCTAAAAAAATATCTTACATATTATTTATAAT
19138973 TTTTTCTAGTGTAAATGGTAAATAAGATCTTAAAGACTAAGATGAATCCAAATGTAAAAACCTTA
66 TTTTTCTAGTGTAAATGGTAAATAAGATCTTAAAGACTAAGATGAATCCAAATGTAAAAACCTTA
19139038 TGGCTTCATT
131 TGGCTTCATT
19139048 AAAATGTAAA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 140 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (142 bp):
AATCCTATACGATATTTAAATTTAGTTTAAAACCCTAAAAAAATATCTTACATATTATTTATAAT
TTTTTCTAGTGTAAATGGTAAATAAGATCTTAAAGACTAAGATGAATCCAAATGTAAAAACCTTA
TGGCTTCATTTT
Found at i:19139052 original size:27 final size:27
Alignment explanation
Indices: 19139022--19139109 Score: 167
Period size: 27 Copynumber: 3.3 Consensus size: 27
19139012 AGATGAATCC
19139022 AAATGTAAAAACCTTATGGCTTCATTA
1 AAATGTAAAAACCTTATGGCTTCATTA
19139049 AAATGTAAAAACCTTATGGCTTCATTA
1 AAATGTAAAAACCTTATGGCTTCATTA
*
19139076 AAATGTAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGGCTTCATTA
19139103 AAATGTA
1 AAATGTA
19139110 CCACCTACTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTATGGCTTCATTA
Found at i:19141335 original size:22 final size:24
Alignment explanation
Indices: 19141301--19141344 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
19141291 CTTGGACCAA
19141301 GATTTCCAAGA-T-TTGAAATCTT
1 GATTTCCAAGATTCTTGAAATCTT
**
19141323 GATTTCCTTGATTCTTGAAATC
1 GATTTCCAAGATTCTTGAAATC
19141345 GCTCCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 1 0.06
24 8 0.44
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (24 bp):
GATTTCCAAGATTCTTGAAATCTT
Found at i:19142754 original size:13 final size:13
Alignment explanation
Indices: 19142736--19142778 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
19142726 AATTCAAAGT
19142736 AAATAATAATTTA
1 AAATAATAATTTA
19142749 AAATAAATAATTTA
1 AAAT-AATAATTTA
* * *
19142763 CAACAACAATTTA
1 AAATAATAATTTA
19142776 AAA
1 AAA
19142779 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAATAATTTA
Found at i:19142759 original size:14 final size:14
Alignment explanation
Indices: 19142736--19142785 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
19142726 AATTCAAAGT
19142736 AAAT-AATAATTTA
1 AAATAAATAATTTA
19142749 AAATAAATAATTTA
1 AAATAAATAATTTA
* * *
19142763 CAA-CAACAATTTA
1 AAATAAATAATTTA
*
19142776 AAAAAAATAA
1 AAATAAATAA
19142786 AAAATAATAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 14 0.48
14 15 0.52
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAAATAATTTA
Found at i:19144696 original size:30 final size:31
Alignment explanation
Indices: 19144656--19144722 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
19144646 ATATATATGG
* *
19144656 AAATAAATATATACATAAAAATAAAA-ATAA
1 AAATAAATATATACATAAAAAGAAAAGAAAA
* * *
19144686 AAATACATATATATATAGAAAGAAAAGAAAA
1 AAATAAATATATACATAAAAAGAAAAGAAAA
19144717 AAATAA
1 AAATAA
19144723 TTACATATGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (31 bp):
AAATAAATATATACATAAAAAGAAAAGAAAA
Found at i:19146485 original size:44 final size:44
Alignment explanation
Indices: 19146427--19146983 Score: 292
Period size: 44 Copynumber: 12.8 Consensus size: 44
19146417 ACTAGATGAG
* *
19146427 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATTTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
* * * * *
19146470 ATCCGCTCCACTGCAACTTCAGTGAGATAGGATTATAG-G-CTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-T-GTGATTTTA
* **** *
19146514 ATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACCATTTTGG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTT-A
* * * * * * *
19146559 GTTTGCCCCACTGCAACTTTAGTGG-GATAAGACTTGCTTA-TTCA
1 ATCTGCTCCACTGCAACTTCAG-GGAGATAAGATTTG-TGATTTTA
* * * * *
19146603 GTCTGCTCCACTGCAACTTCAGGGAGATAATACTAGATGA----G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGATTTTA
* * * *
19146644 ATCTGCT-CTCTGCAACTTTAGAGAGATAAGATCTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
* * * * *
19146687 ATCCGCTCCACTGCAACTTCAGGAAGATAGGATTATAG-G-CTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-T-GTGATTTTA
* ** *
19146731 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATTTTGG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTT-A
* * *
19146776 GTCTG-TCCCACTGCAACTTCA-GGAGGATAAG-TCTTGCTTA-CTTA
1 ATCTGCT-CCACTGCAACTTCAGGGA-GATAAGAT-TTG-TGATTTTA
* * * * * * ***
19146820 GTCTGCTTCACTGCAACTTCAAGAAGATAAGA-CT-AGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
* * * *
19146861 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
* * **
19146904 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT-TGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGTGATTTTA
* * *
19146948 GTCTGCTCTACTACAACTTCAGGGAGATAAGATTTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
19146984 CCATCTTTAG
Statistics
Matches: 384, Mismatches: 98, Indels: 63
0.70 0.18 0.12
Matches are distributed among these distances:
39 3 0.01
40 41 0.11
41 15 0.04
42 2 0.01
43 24 0.06
44 230 0.60
45 63 0.16
46 6 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
Found at i:19146694 original size:217 final size:215
Alignment explanation
Indices: 19146319--19146987 Score: 1007
Period size: 217 Copynumber: 3.1 Consensus size: 215
19146309 CTGCTCCACT
* * *
19146319 GGAAATAAGATTCGCCATTTTGAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATT
1 GGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCA-GGGGATAAGACTTGCTTATT
* * *
19146384 CAGTCTGCTCTACTGCAACTTTAGGGAAATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGA
65 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGA
*
19146449 GAGATAAGATTTGTGATTTTAATCCGCTCCACTGCAACTTCAGTGAGATAGGATTATAGGCTTAA
130 GAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAG-GAGATAGGATTATAGGCTTAA
19146514 ATCTGCTCCACTGCAACTTCAG
194 ATCTGCTCCACTGCAACTTCAG
* * *
19146536 GGAAATAAGATTCACCATTTTGGGTTTGCCCCACTGCAACTTTAGTGGGATAAGACTTGCTTATT
1 GGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCAG-GGGATAAGACTTGCTTATT
* *
19146601 CAGTCTGCTCCACTGCAACTTCAGGGAGATAATACTAGATGAGATCTGCTCTCTGCAACTTTAGA
65 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGA
19146666 GAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTATAGGCTTAA
130 GAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGG-AGATAGGATTATAGGCTTAA
*
19146731 ATCTGCTCCACTGTAACTTCAG
194 ATCTGCTCCACTGCAACTTCAG
* * * *
19146753 GGAGATAAGATTTGCCATTTTGGGTCTGTCCCACTGCAACTTCAGGAGGATAAGTCTTGCTTACT
1 GGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCAGG-GGATAAGACTTGCTTA-T
* * * *
19146818 T-AGTCTGCTTCACTGCAACTTCAAGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
64 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAG
* * *
19146882 AGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT
129 AGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCA-GGAGATAGGATTATAGGCTTA
* * *
19146947 AGTCTGCTCTACTACAACTTCAG
193 AATCTGCTCCACTGCAACTTCAG
* *
19146970 GGAGATAAGATTTGCCAT
1 GGAAATAAGATTCGCCAT
19146988 CTTTAGTCTT
Statistics
Matches: 414, Mismatches: 33, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
216 3 0.01
217 407 0.98
218 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (215 bp):
GGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCAGGGGATAAGACTTGCTTATTC
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGAGATAGGATTATAGGCTTAAAT
CTGCTCCACTGCAACTTCAG
Found at i:19147301 original size:44 final size:44
Alignment explanation
Indices: 19147238--19147322 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
19147228 AAAGTAAGAT
*
19147238 TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAC
1 TCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGAC
19147282 TCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAG
1 TCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAG
19147323 AATTATATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (44 bp):
TCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGAC
Found at i:19147442 original size:88 final size:88
Alignment explanation
Indices: 19147328--19147593 Score: 442
Period size: 88 Copynumber: 3.0 Consensus size: 88
19147318 GATAGAATTA
*
19147328 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTTAACCTGCTCCACT
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
*
19147393 ACAACCCAGGGAGGCAAGGCTGG
66 ACAACCCAAGGAGGCAAGGCTGG
* ** *
19147416 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAACTTGCTCCACT
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
19147481 ACAACCCAAGGAGGCAAGGCTGG
66 ACAACCCAAGGAGGCAAGGCTGG
* *
19147504 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGTAAGATCTGTTATCTTCAACCTGTTCCACT
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
* *
19147569 ACAACTCAAGGAGGTAAGGCTGG
66 ACAACCCAAGGAGGCAAGGCTGG
19147592 TA
1 TA
19147594 ATTTCACCGA
Statistics
Matches: 164, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 164 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
ACAACCCAAGGAGGCAAGGCTGG
Found at i:19147452 original size:44 final size:45
Alignment explanation
Indices: 19147328--19147555 Score: 171
Period size: 44 Copynumber: 5.2 Consensus size: 45
19147318 GATAGAATTA
* * *
19147328 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGT
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
** * * * * ** *
19147373 TATCTTTAACCTGCTCCACT-ACAACCCAGGGAGGCAAG-GCTGG
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
* **
19147416 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTAC
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
* * * * **
19147461 TATCTTC-AACTTGCTCCACT-ACAACCCAAGG-AGGCAAG-GCTGG
1 TATCTTCGATC-TGCTTCACTGTCGATGC-AGGAAGGCAAGAGCTGG
* * * *
19147504 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGTAAGATCTGT
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
19147549 TATCTTC
1 TATCTTC
19147556 AACCTGTTCC
Statistics
Matches: 132, Mismatches: 43, Indels: 16
0.69 0.23 0.08
Matches are distributed among these distances:
43 38 0.29
44 49 0.37
45 45 0.34
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (45 bp):
TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
Found at i:19155474 original size:87 final size:87
Alignment explanation
Indices: 19155375--19155533 Score: 275
Period size: 87 Copynumber: 1.8 Consensus size: 87
19155365 AAAAAAGCAT
*
19155375 ATATATACATACATATATAAATATAGAAAAATATTCGTTAGAA-AAAAATAAATATACATACATG
1 ATATATACATACATATAT-AATATAGAAAAATAGTCGTTAGAAGAAAAATAAATATACATACATG
19155439 TACATATAATTTTTAAAGAAAAC
65 TACATATAATTTTTAAAGAAAAC
*
19155462 ATATATATATACATATATAATATAGAAAAATAGTCGTTAGAAGAAAAATAAATATACATACATGT
1 ATATATACATACATATATAATATAGAAAAATAGTCGTTAGAAGAAAAATAAATATACATACATGT
*
19155527 ACGTATA
66 ACATATA
19155534 TAAATAAATA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
86 23 0.34
87 45 0.66
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (87 bp):
ATATATACATACATATATAATATAGAAAAATAGTCGTTAGAAGAAAAATAAATATACATACATGT
ACATATAATTTTTAAAGAAAAC
Found at i:19155610 original size:18 final size:18
Alignment explanation
Indices: 19155600--19155634 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19155590 ATATATATGG
19155600 AAATAAATATATACATAA
1 AAATAAATATATACATAA
*
19155618 AAATAAATATACACATA
1 AAATAAATATATACATA
19155635 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAATATATACATAA
Found at i:19157936 original size:18 final size:19
Alignment explanation
Indices: 19157887--19157936 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
19157877 CTAAACTCTC
19157887 TTTTTTTAAAAAAATCAAAA
1 TTTTTTT-AAAAAATCAAAA
* * *
19157907 CTTTTTT-CAAAATC-AAG
1 TTTTTTTAAAAAATCAAAA
19157924 TTTTTTTAAAAAA
1 TTTTTTTAAAAAA
19157937 CTTTTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
17 8 0.33
18 10 0.42
20 6 0.25
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTTTTTAAAAAATCAAAA
Found at i:19159526 original size:51 final size:51
Alignment explanation
Indices: 19159438--19159563 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 51
19159428 ATGAGATACT
** * *
19159438 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGG
* * * * **
19159489 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGG
19159540 AATCTTAGAAGATATGATATTATA
1 AATCTTAGAAGATATGATATTATA
19159564 TTCTTAGAGA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGG
Found at i:19162295 original size:51 final size:51
Alignment explanation
Indices: 19162240--19162376 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
19162230 TATGGTAACT
* *
19162240 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAAAGATCTTAGATAAGATATGG
* * * ** * * **
19162291 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAAAGATCTTAGATAAGATATGG
*
19162342 AATCTTAGAAGATATGATATTATATTCTTAAAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAAAGAT
19162377 TTGATGGTAG
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAAAGATCTTAGATAAGATATGG
Found at i:19165259 original size:12 final size:12
Alignment explanation
Indices: 19165226--19165260 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
19165216 TGAGACAAGA
19165226 TATTCTTTAAAT
1 TATTCTTTAAAT
*
19165238 TACTCTTTTAAAT
1 TATTC-TTTAAAT
19165251 TATTCTTTAA
1 TATTCTTTAA
19165261 GTAACCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:19165680 original size:39 final size:40
Alignment explanation
Indices: 19165627--19165727 Score: 98
Period size: 44 Copynumber: 2.4 Consensus size: 40
19165617 TTTTCTTATG
**
19165627 CTATTACAACTCTATTCCATTCAACCAAACACA-AGAA-TA
1 CTATTACAGTTCTATTCCATTCAACCAAACA-ATAGAATTA
* *
19165666 CTATTACAGTTCTATGCCATTCCATTCAACCAAACAATTGAATTG
1 CTATTACAGTTC--T---ATTCCATTCAACCAAACAATAGAATTA
19165711 CTATTACAGTTCTATTC
1 CTATTACAGTTCTATTC
19165728 TATTATAACT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
39 10 0.20
40 4 0.08
41 1 0.02
43 2 0.04
44 21 0.41
45 13 0.25
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.33
Consensus pattern (40 bp):
CTATTACAGTTCTATTCCATTCAACCAAACAATAGAATTA
Found at i:19165732 original size:16 final size:16
Alignment explanation
Indices: 19165711--19165780 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
19165701 AATTGAATTG
**
19165711 CTATTACAGTTCTATT
1 CTATTACAACTCTATT
*
19165727 CTATTATAACTCTATT
1 CTATTACAACTCTATT
* *
19165743 CTATTACAATTCTTTT
1 CTATTACAACTCTATT
* * *
19165759 CCATTACAGCTCTATC
1 CTATTACAACTCTATT
19165775 CTATTA
1 CTATTA
19165781 TACTGAACCA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.03, T:0.47
Consensus pattern (16 bp):
CTATTACAACTCTATT
Found at i:19165772 original size:32 final size:32
Alignment explanation
Indices: 19165711--19165780 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
19165701 AATTGAATTG
* * * *
19165711 CTATTACAGTTCTATTCTATTATAACTCTATT
1 CTATTACAATTCTATTCCATTACAACTCTATC
* *
19165743 CTATTACAATTCTTTTCCATTACAGCTCTATC
1 CTATTACAATTCTATTCCATTACAACTCTATC
19165775 CTATTA
1 CTATTA
19165781 TACTGAACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.03, T:0.47
Consensus pattern (32 bp):
CTATTACAATTCTATTCCATTACAACTCTATC
Found at i:19167199 original size:24 final size:24
Alignment explanation
Indices: 19167172--19167227 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
19167162 TATATATATT
19167172 TGAAAAAAATTTCAAAGCAAAATA
1 TGAAAAAAATTTCAAAGCAAAATA
19167196 TGAAAAAAATTTCAAAGCAAAATA
1 TGAAAAAAATTTCAAAGCAAAATA
*
19167220 AGAAAAAA
1 TGAAAAAA
19167228 TACTTTAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.18
Consensus pattern (24 bp):
TGAAAAAAATTTCAAAGCAAAATA
Found at i:19167379 original size:19 final size:20
Alignment explanation
Indices: 19167334--19167400 Score: 84
Period size: 19 Copynumber: 3.4 Consensus size: 20
19167324 ATTCTTTAGA
*
19167334 ATTTTTTTAAAATATTTTAT
1 ATTTTTTAAAAATATTTTAT
19167354 ATATTTTTAAAAATATTTT-T
1 AT-TTTTTAAAAATATTTTAT
*
19167374 ATTTTTTAAAATTATTTTGA-
1 ATTTTTTAAAAATATTTT-AT
19167394 ATTTTTT
1 ATTTTTT
19167401 TTTGTAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 15 0.36
20 12 0.29
21 15 0.36
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (20 bp):
ATTTTTTAAAAATATTTTAT
Found at i:19167397 original size:20 final size:18
Alignment explanation
Indices: 19167336--19167400 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 18
19167326 TCTTTAGAAT
19167336 TTTTTTAAAATATTTTATA
1 TTTTTTAAAATATTTTA-A
*
19167355 TATTTTTAAAAATATTTTTA
1 T-TTTTT-AAAATATTTTAA
19167375 TTTTTTAAAATTATTTTGAA
1 TTTTTTAAAA-TATTTT-AA
19167395 TTTTTT
1 TTTTTT
19167401 TTTGTAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.10
19 12 0.30
20 14 0.35
21 10 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTTAAAATATTTTAA
Found at i:19174931 original size:27 final size:27
Alignment explanation
Indices: 19174893--19174949 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
19174883 GAAATATATA
19174893 AAAGGTTAAACATTCTGACCACCTTTT
1 AAAGGTTAAACATTCTGACCACCTTTT
*
19174920 AAAGGTTGAACATTCTGACCACCTTTT
1 AAAGGTTAAACATTCTGACCACCTTTT
19174947 AAA
1 AAA
19174950 CTTTTAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (27 bp):
AAAGGTTAAACATTCTGACCACCTTTT
Found at i:19179469 original size:18 final size:18
Alignment explanation
Indices: 19179438--19179475 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19179428 AGTTGAGACT
*
19179438 AGGATCATGTTGTTAAAG
1 AGGATCATGATGTTAAAG
*
19179456 AGGATGATGATGTTAAAG
1 AGGATCATGATGTTAAAG
19179474 AG
1 AG
19179476 TTAATGTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (18 bp):
AGGATCATGATGTTAAAG
Found at i:19179515 original size:35 final size:35
Alignment explanation
Indices: 19179476--19179545 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
19179466 TGTTAAAGAG
19179476 TTAATGTTGGGATATGGTTGAAGTTTGAAGTAGGT
1 TTAATGTTGGGATATGGTTGAAGTTTGAAGTAGGT
19179511 TTAATGTTGGGATATGGTTGAAGTTTGAAGTAGGT
1 TTAATGTTGGGATATGGTTGAAGTTTGAAGTAGGT
19179546 GATACCACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (35 bp):
TTAATGTTGGGATATGGTTGAAGTTTGAAGTAGGT
Found at i:19184117 original size:13 final size:14
Alignment explanation
Indices: 19184091--19184124 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
19184081 AAATTATAGA
19184091 TTATTATTATAATT
1 TTATTATTATAATT
19184105 TTATTATTA-AATT
1 TTATTATTATAATT
*
19184118 TTTTTAT
1 TTATTAT
19184125 ACCTATGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTATTATAATT
Found at i:19190211 original size:62 final size:59
Alignment explanation
Indices: 19190101--19190300 Score: 188
Period size: 62 Copynumber: 3.2 Consensus size: 59
19190091 TCAATTTAAC
* * * *
19190101 ATTAAATTAATATAATATTTATTAAGATAAATATTAGATTAAATTTAATATTAAATATT
1 ATTAAAATAATAAAATATTTATTAAGATAAACATTAAATTAAATTTAATATTAAATATT
19190160 ATTAAAATAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAGATAACCA
1 ATTAAAATAATAAAATATTTAT-T--AAGATAAACATTAAATTAAATTTAATATTAA-AT----A
19190225 TTTTAAT
58 ---T--T
* * **
19190232 ATTAAATTAATAAAATA-CTATTAAGATATGCATTAAATTAAATTTAATATTAAA-ATT
1 ATTAAAATAATAAAATATTTATTAAGATAAACATTAAATTAAATTTAATATTAAATATT
*
19190289 ATTAAGATAATA
1 ATTAAAATAATA
19190301 TTATTTTTGG
Statistics
Matches: 118, Mismatches: 10, Indels: 28
0.76 0.06 0.18
Matches are distributed among these distances:
57 11 0.09
59 21 0.18
60 1 0.01
62 30 0.25
63 2 0.02
67 2 0.02
68 29 0.25
70 2 0.02
71 3 0.03
72 17 0.14
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.41
Consensus pattern (59 bp):
ATTAAAATAATAAAATATTTATTAAGATAAACATTAAATTAAATTTAATATTAAATATT
Found at i:19190300 original size:68 final size:70
Alignment explanation
Indices: 19190149--19190303 Score: 163
Period size: 68 Copynumber: 2.2 Consensus size: 70
19190139 TTAAATTTAA
* *
19190149 TATTAAATATTATTAAAATAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTTAATAT
1 TATTAAATAATATTAAAATAATAAAATATCTATCTA-AAGATAAACATTAAATTAAATTTAATAT
*
19190214 TAAGAT
65 TAAAAT
* ** ** * **
19190220 AACCATTTTAATATTAAATTAATAAAATA-CTAT-T-AAGATATGCATTAAATTAAATTTAATAT
1 TATTA-AATAATATTAAAATAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATAT
19190282 TAAAAT
65 TAAAAT
19190288 TATTAAGATAATATTA
1 TATTAA-ATAATATTA
19190304 TTTTTGGAAT
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
68 41 0.62
70 1 0.02
71 5 0.08
72 19 0.29
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (70 bp):
TATTAAATAATATTAAAATAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATATT
AAAAT
Found at i:19192191 original size:43 final size:43
Alignment explanation
Indices: 19192022--19192192 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
19192012 ATAAGATTCT
* * * *
19192022 GATATGTGATTTCGTGTAAGACCACGTTTGGGACGTTGGCATC
1 GATATTTGATTACGTGTAAGACCTCGTCTGGGACGTTGGCATC
* * *
19192065 GAT-TTGAGATTTACGTGTAAGACCAT-GTCTGGGACATTGGCACC
1 GATATT-TGA-TTACGTGTAAGACC-TCGTCTGGGACGTTGGCATC
* ** * *
19192109 G-TATATGATTTTGTGTAATACC-CTGTCTGGGATAG-TGGCATC
1 GATATTTGATTACGTGTAAGACCTC-GTCTGGGA-CGTTGGCATC
*
19192151 GATATTTGATTACATGTAAGACCTCGTCTGGGACGTTGGCAT
1 GATATTTGATTACGTGTAAGACCTCGTCTGGGACGTTGGCAT
19192193 TGTTCGAGCT
Statistics
Matches: 97, Mismatches: 21, Indels: 20
0.70 0.15 0.14
Matches are distributed among these distances:
42 28 0.29
43 38 0.39
44 31 0.32
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
GATATTTGATTACGTGTAAGACCTCGTCTGGGACGTTGGCATC
Found at i:19192764 original size:2 final size:2
Alignment explanation
Indices: 19192759--19192790 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19192749 GGTATATATA
19192759 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
19192791 GTGAGATTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:19200272 original size:23 final size:23
Alignment explanation
Indices: 19200229--19200277 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
19200219 GAGACGTGGC
* *
19200229 ATCGCGTCGTCGAGACAAGGGGT
1 ATCGCGTCATCGAGACAAGGGCT
**
19200252 ATCGCGTCATCGAGATGAGGGCT
1 ATCGCGTCATCGAGACAAGGGCT
19200275 ATC
1 ATC
19200278 TTCTCGTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.20
Consensus pattern (23 bp):
ATCGCGTCATCGAGACAAGGGCT
Found at i:19200728 original size:19 final size:19
Alignment explanation
Indices: 19200700--19200736 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19200690 ATATATTAAA
*
19200700 AAATATTTTTATAATTTTT
1 AAATAATTTTATAATTTTT
*
19200719 AAATAATTTTATGATTTT
1 AAATAATTTTATAATTTT
19200737 ATTTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
AAATAATTTTATAATTTTT
Found at i:19201115 original size:64 final size:64
Alignment explanation
Indices: 19201042--19201167 Score: 252
Period size: 64 Copynumber: 2.0 Consensus size: 64
19201032 TAAACTTTAT
19201042 TAAACCTCCATTTGTTAGTGTAATTAAACTTTAAAAAAAATTATTAACTTTATTAATTAACCAA
1 TAAACCTCCATTTGTTAGTGTAATTAAACTTTAAAAAAAATTATTAACTTTATTAATTAACCAA
19201106 TAAACCTCCATTTGTTAGTGTAATTAAACTTTAAAAAAAATTATTAACTTTATTAATTAACC
1 TAAACCTCCATTTGTTAGTGTAATTAAACTTTAAAAAAAATTATTAACTTTATTAATTAACC
19201168 TCATAACAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.40
Consensus pattern (64 bp):
TAAACCTCCATTTGTTAGTGTAATTAAACTTTAAAAAAAATTATTAACTTTATTAATTAACCAA
Found at i:19201163 original size:33 final size:33
Alignment explanation
Indices: 19201062--19201165 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
19201052 TTTGTTAGTG
19201062 TAATTAAACTTTAAAAAAAATTATTAACTTTAT
1 TAATTAAACTTTAAAAAAAATTATTAACTTTAT
* * ** *
19201095 TAATT-AAC--CAATAAACCTCCATT---TGTTAGT
1 TAATTAAACTTTAAAAAAAAT-TATTAACT-TTA-T
19201125 GTAATTAAACTTTAAAAAAAATTATTAACTTTAT
1 -TAATTAAACTTTAAAAAAAATTATTAACTTTAT
19201159 TAATTAA
1 TAATTAA
19201166 CCTCATAACA
Statistics
Matches: 51, Mismatches: 10, Indels: 20
0.63 0.12 0.25
Matches are distributed among these distances:
28 1 0.02
29 3 0.06
30 7 0.14
31 8 0.16
32 6 0.12
33 15 0.29
34 7 0.14
35 3 0.06
36 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (33 bp):
TAATTAAACTTTAAAAAAAATTATTAACTTTAT
Found at i:19203412 original size:20 final size:20
Alignment explanation
Indices: 19203387--19203439 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
19203377 ACCAATTTAT
*
19203387 AGACAAGCCACCAG-ATTCAC
1 AGACAAGCTACCAGAATT-AC
*
19203407 AGACAAGCTACCAGAATTGC
1 AGACAAGCTACCAGAATTAC
19203427 AGACAAGCTACCA
1 AGACAAGCTACCA
19203440 TAAATGTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.42, C:0.30, G:0.17, T:0.11
Consensus pattern (20 bp):
AGACAAGCTACCAGAATTAC
Found at i:19204103 original size:13 final size:13
Alignment explanation
Indices: 19204085--19204112 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19204075 TTGAATTTAA
19204085 AATACACGAATTC
1 AATACACGAATTC
19204098 AATACACGAATTC
1 AATACACGAATTC
19204111 AA
1 AA
19204113 ACTTATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (13 bp):
AATACACGAATTC
Found at i:19206869 original size:14 final size:14
Alignment explanation
Indices: 19206850--19206876 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19206840 TTTGGAAATT
19206850 AATTAATTTATTAA
1 AATTAATTTATTAA
19206864 AATTAATTTATTA
1 AATTAATTTATTA
19206877 TGTTTATTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATTAATTTATTAA
Found at i:19210573 original size:17 final size:17
Alignment explanation
Indices: 19210551--19210583 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19210541 ACTGCAGGGG
*
19210551 TCACACGGTCATGTGAA
1 TCACACGGTCAAGTGAA
19210568 TCACACGGTCAAGTGA
1 TCACACGGTCAAGTGA
19210584 CACGCTCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (17 bp):
TCACACGGTCAAGTGAA
Found at i:19211972 original size:25 final size:25
Alignment explanation
Indices: 19211941--19212025 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 25
19211931 GTTATAAACA
*
19211941 GTAAGCTCATCCGAGCTGAATAACG
1 GTAAGCTCATCCGAGCTGAATAATG
* *
19211966 GTAAGCTCCTCCGAGATGAATAATG
1 GTAAGCTCATCCGAGCTGAATAATG
* * *
19211991 GTAAGCTCATGCGAGCTGAGTATTG
1 GTAAGCTCATCCGAGCTGAATAATG
19212016 GTAAGCTCAT
1 GTAAGCTCAT
19212026 TTGTATCCTA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (25 bp):
GTAAGCTCATCCGAGCTGAATAATG
Found at i:19213715 original size:21 final size:21
Alignment explanation
Indices: 19213665--19213715 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
19213655 TAGATAGTTA
*
19213665 TTTTATTTTTGTATATTGTTG
1 TTTTATTTTTGTAAATTGTTG
*
19213686 TTTTCTTTTTGTGAAATT-TT-
1 TTTTATTTTTGT-AAATTGTTG
19213706 TATTTATTTT
1 T-TTTATTTT
19213716 CCTTGTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.16, C:0.02, G:0.10, T:0.73
Consensus pattern (21 bp):
TTTTATTTTTGTAAATTGTTG
Found at i:19221312 original size:44 final size:43
Alignment explanation
Indices: 19221236--19221335 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 43
19221226 CGATATGTAA
* * * * * * *
19221236 TTACGTGTAAGAACACGTCTGGGACGTTGGCATCGATTTGTGAT
1 TTACGTGTAAGACCACGTCTAGGACATCGGCATCG-TATATGAG
* *
19221280 TTACGTGTAAGACCATGTCTAGGATATCGGCATCGTATATGAG
1 TTACGTGTAAGACCACGTCTAGGACATCGGCATCGTATATGAG
19221323 TT-CGTGTAAGACC
1 TTACGTGTAAGACC
19221336 CTTTCGGGGA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 11 0.23
43 7 0.15
44 29 0.62
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TTACGTGTAAGACCACGTCTAGGACATCGGCATCGTATATGAG
Found at i:19226111 original size:20 final size:20
Alignment explanation
Indices: 19226088--19226144 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
19226078 GTGTATAGAA
19226088 AGGCACCGAAGTGCAAACAG
1 AGGCACCGAAGTGCAAACAG
19226108 AGGCACCGAAGTGCAAACAG
1 AGGCACCGAAGTGCAAACAG
* *
19226128 AGGCACTGAAGTACAAA
1 AGGCACCGAAGTGCAAA
19226145 TCCCGTACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.42, C:0.23, G:0.28, T:0.07
Consensus pattern (20 bp):
AGGCACCGAAGTGCAAACAG
Found at i:19229537 original size:232 final size:232
Alignment explanation
Indices: 19229131--19229598 Score: 909
Period size: 232 Copynumber: 2.0 Consensus size: 232
19229121 TTCTATAAAT
*
19229131 AAACAATAAATAAGACTTCTTATTTATATGAATAACTAAATAAGTAGGACAAAGTTCTTACAATC
1 AAACAATAAATAAGACTTCTTATTTATATGAATAACTAAATAAGTAGGACAAAGTTCTTACAATA
*
19229196 ATTTCATTTTACTAGATATATAAATCAAATAAATCCCGAACACGAATTATTTTTAAATACACTTA
66 ATTGCATTTTACTAGATATATAAATCAAATAAATCCCGAACACGAATTATTTTTAAATACACTTA
19229261 TTCTAACCCTGAGGCAGCCTTGAAAGGTTCCCTTCTATATGGATGGTACTGTAACTTTAACTTCC
131 TTCTAACCCTGAGGCAGCCTTGAAAGGTTCCCTTCTATATGGATGGTACTGTAACTTTAACTTCC
19229326 ACTAGGGTTCCGTGAGGTTTGGCTTGGTCCCCTACCA
196 ACTAGGGTTCCGTGAGGTTTGGCTTGGTCCCCTACCA
19229363 AAACAATAAATAAGACTTCTTATTTATATGAATAACTAAATAAGTAGGACAAAGTTCTTACAATA
1 AAACAATAAATAAGACTTCTTATTTATATGAATAACTAAATAAGTAGGACAAAGTTCTTACAATA
19229428 ATTGCATTTTACTAGATATATAAATCAAATAAATCCCGAACACGAATTATTTTTAAATACACTTA
66 ATTGCATTTTACTAGATATATAAATCAAATAAATCCCGAACACGAATTATTTTTAAATACACTTA
19229493 TTCTAACCCTGAGGCAGCCTTGAAAGGTTCCCTTCTATATGGATGGTACTGTAACTTTAACTTCC
131 TTCTAACCCTGAGGCAGCCTTGAAAGGTTCCCTTCTATATGGATGGTACTGTAACTTTAACTTCC
*
19229558 ACTAGGGTTCTGTGAGGTTTGGCTTGGTCCCCTACCA
196 ACTAGGGTTCCGTGAGGTTTGGCTTGGTCCCCTACCA
19229595 AAAC
1 AAAC
19229599 TCCTATTTCA
Statistics
Matches: 233, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
232 233 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (232 bp):
AAACAATAAATAAGACTTCTTATTTATATGAATAACTAAATAAGTAGGACAAAGTTCTTACAATA
ATTGCATTTTACTAGATATATAAATCAAATAAATCCCGAACACGAATTATTTTTAAATACACTTA
TTCTAACCCTGAGGCAGCCTTGAAAGGTTCCCTTCTATATGGATGGTACTGTAACTTTAACTTCC
ACTAGGGTTCCGTGAGGTTTGGCTTGGTCCCCTACCA
Found at i:19259479 original size:22 final size:22
Alignment explanation
Indices: 19259452--19259503 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
19259442 GCTAGAAAAC
19259452 AATTTTGAA-CAAAATTGTTTTT
1 AATTTT-AATCAAAATTGTTTTT
*
19259474 AATTTTAATCCAAATTGTTTTT
1 AATTTTAATCAAAATTGTTTTT
*
19259496 -TTTTTAAT
1 AATTTTAAT
19259504 TCTATTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (22 bp):
AATTTTAATCAAAATTGTTTTT
Found at i:19259500 original size:21 final size:21
Alignment explanation
Indices: 19259463--19259519 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
19259453 ATTTTGAACA
*
19259463 AAATTGTTTTTAATTTTAATCC
1 AAATTGTTTTT-TTTTTAATCC
*
19259485 AAATTGTTTTTTTTTTAATTC
1 AAATTGTTTTTTTTTTAATCC
* *
19259506 TATTTGTTTTTTTT
1 AAATTGTTTTTTTT
19259520 ACATAGTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (21 bp):
AAATTGTTTTTTTTTTAATCC
Found at i:19260212 original size:16 final size:16
Alignment explanation
Indices: 19260186--19260225 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 16
19260176 TTAATCATGC
19260186 AATAAATTATTA--AT
1 AATAAATTATTATTAT
*
19260200 -ATAAATTATTATTTT
1 AATAAATTATTATTAT
19260215 AATAAATTATT
1 AATAAATTATT
19260226 TAATATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATAAATTATTATTAT
Found at i:19260219 original size:29 final size:30
Alignment explanation
Indices: 19260186--19260250 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
19260176 TTAATCATGC
19260186 AATAAATTA-TTAATA-TAAATTATTATTTT
1 AATAAATTATTTAATATTAAATT-TTATTTT
*
19260215 AATAAATTATTTAATATTTTAATTTTATTTT
1 AATAAATTATTTAATA-TTAAATTTTATTTT
19260246 AATAA
1 AATAA
19260251 TAAATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 9 0.28
30 6 0.19
31 12 0.38
32 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
AATAAATTATTTAATATTAAATTTTATTTT
Found at i:19264735 original size:9 final size:9
Alignment explanation
Indices: 19264721--19264769 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
19264711 TATGGTTAAA
19264721 AATTAACCG
1 AATTAACCG
*
19264730 AATTAATCG
1 AATTAACCG
*
19264739 AATTACCCG
1 AATTAACCG
*
19264748 AATT-ACTCA
1 AATTAAC-CG
19264757 AATTAACCG
1 AATTAACCG
19264766 AATT
1 AATT
19264770 GAATCACTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
8 1 0.03
9 29 0.91
10 2 0.06
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:19264748 original size:18 final size:18
Alignment explanation
Indices: 19264720--19264775 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
19264710 TTATGGTTAA
19264720 AAATTAACCGAATTAATC
1 AAATTAACCGAATTAATC
* * *
19264738 GAATTACCCGAATTACTC
1 AAATTAACCGAATTAATC
19264756 AAATTAACCGAATTGAATC
1 AAATTAACCGAATT-AATC
19264775 A
1 A
19264776 CTACATAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
18 27 0.87
19 4 0.13
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.27
Consensus pattern (18 bp):
AAATTAACCGAATTAATC
Found at i:19264839 original size:8 final size:7
Alignment explanation
Indices: 19264828--19264872 Score: 51
Period size: 6 Copynumber: 6.6 Consensus size: 7
19264818 AAATTATTTA
19264828 TTTAGACT
1 TTTAGA-T
19264836 TTTAGAT
1 TTTAGAT
19264843 TTTAG-T
1 TTTAGAT
19264849 TTTAG-T
1 TTTAGAT
19264855 TTTAG-T
1 TTTAGAT
19264861 TTTAGAAT
1 TTTAG-AT
19264869 TTTA
1 TTTA
19264873 TTTTTATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.51
7 6 0.17
8 11 0.31
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.60
Consensus pattern (7 bp):
TTTAGAT
Found at i:19264853 original size:6 final size:6
Alignment explanation
Indices: 19264835--19264865 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
19264825 TTATTTAGAC
19264835 TTTTAG ATTTTAG TTTTAG TTTTAG TTTTAG
1 TTTTAG -TTTTAG TTTTAG TTTTAG TTTTAG
19264866 AATTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (6 bp):
TTTTAG
Found at i:19264857 original size:12 final size:13
Alignment explanation
Indices: 19264835--19264878 Score: 63
Period size: 12 Copynumber: 3.4 Consensus size: 13
19264825 TTATTTAGAC
19264835 TTTTAGATTTTAG
1 TTTTAGATTTTAG
19264848 TTTTAG-TTTTAG
1 TTTTAGATTTTAG
*
19264860 TTTTAGAATTTTAT
1 TTTTAG-ATTTTAG
19264874 TTTTA
1 TTTTA
19264879 TATATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 12 0.43
13 6 0.21
14 10 0.36
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (13 bp):
TTTTAGATTTTAG
Found at i:19267413 original size:28 final size:28
Alignment explanation
Indices: 19267381--19267452 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
19267371 TAATGAGATT
*
19267381 AGCACTAAGTGTGCGAGATTAATGGTAA
1 AGCACTAAGTGTGCGAGATTAATGATAA
* * * * *
19267409 AGCACTAAGTGTGTGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGATTAATGATAA
19267437 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
19267453 ACTTATTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTAATGATAA
Found at i:19277991 original size:15 final size:14
Alignment explanation
Indices: 19277971--19278011 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
19277961 GAAAGTTTTG
*
19277971 AAAATTTTCAAAAA
1 AAAAATTTCAAAAA
19277985 AAAAA-TTCAAAAA
1 AAAAATTTCAAAAA
19277998 AAAAATCTTCAAAA
1 AAAAAT-TTCAAAA
19278012 TTTAAAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 13 0.54
14 4 0.17
15 7 0.29
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATTTCAAAAA
Found at i:19278467 original size:17 final size:17
Alignment explanation
Indices: 19278447--19278484 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
19278437 ATTTTCAATT
19278447 TTTATAATATTCTAAAA
1 TTTATAATATTCTAAAA
19278464 TTTATAATATTCTAAAA
1 TTTATAATATTCTAAAA
19278481 TTTA
1 TTTA
19278485 ATTCAACGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATAATATTCTAAAA
Found at i:19287957 original size:21 final size:21
Alignment explanation
Indices: 19287933--19287986 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 21
19287923 CATTTTCTAA
19287933 AACCATTTGACTTTTGGAATT
1 AACCATTTGACTTTTGGAATT
*
19287954 AACCACTTG---TTTGGAATT
1 AACCATTTGACTTTTGGAATT
*
19287972 AACCACTTTAACTTT
1 AACCA-TTTGACTTT
19287987 ATTATACGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
18 14 0.54
19 2 0.08
21 8 0.31
22 2 0.08
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (21 bp):
AACCATTTGACTTTTGGAATT
Found at i:19287968 original size:18 final size:18
Alignment explanation
Indices: 19287945--19287979 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19287935 CCATTTGACT
19287945 TTTGGAATTAACCACTTG
1 TTTGGAATTAACCACTTG
19287963 TTTGGAATTAACCACTT
1 TTTGGAATTAACCACTT
19287980 TAACTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (18 bp):
TTTGGAATTAACCACTTG
Found at i:19294270 original size:14 final size:14
Alignment explanation
Indices: 19294251--19294278 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19294241 GTTTAAAGAT
19294251 GGTTAAAAACTAAG
1 GGTTAAAAACTAAG
19294265 GGTTAAAAACTAAG
1 GGTTAAAAACTAAG
19294279 TAAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
GGTTAAAAACTAAG
Found at i:19296762 original size:15 final size:16
Alignment explanation
Indices: 19296739--19296768 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19296729 AAAAATTAAT
19296739 ATATAAATTATAAATA
1 ATATAAATTATAAATA
19296755 ATAT-AATTATAAAT
1 ATATAAATTATAAAT
19296769 TAAAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAAATTATAAATA
Found at i:19296766 original size:22 final size:21
Alignment explanation
Indices: 19296727--19296770 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
19296717 AGCTAAGTTG
19296727 ATAAAAATTAATATATAAATT
1 ATAAAAATTAATATATAAATT
19296748 ATAAATAATATAAT-TATAAATT
1 ATAAA-AAT-TAATATATAAATT
19296770 A
1 A
19296771 AAGTTTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAAAATTAATATATAAATT
Found at i:19302881 original size:14 final size:14
Alignment explanation
Indices: 19302862--19302889 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19302852 TTTTAAAGAT
19302862 GGTTAAAAACTAAG
1 GGTTAAAAACTAAG
19302876 GGTTAAAAACTAAG
1 GGTTAAAAACTAAG
19302890 TAAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
GGTTAAAAACTAAG
Found at i:19304435 original size:19 final size:20
Alignment explanation
Indices: 19304391--19304435 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
19304381 ATCATGTTCA
19304391 TATTTTTAACATAGTTTAAT
1 TATTTTTAACATAGTTTAAT
19304411 TA-TTTTATA-ATA-TTTAAT
1 TATTTTTA-ACATAGTTTAAT
19304429 TATTTTT
1 TATTTTT
19304436 CGACAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 8 0.35
19 12 0.52
20 3 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTTTTAACATAGTTTAAT
Found at i:19310269 original size:29 final size:29
Alignment explanation
Indices: 19310232--19310406 Score: 104
Period size: 30 Copynumber: 5.9 Consensus size: 29
19310222 AGTGGGATCA
* *
19310232 TGATGGTCGTCACCGTCCCTTTTCATAGT
1 TGATAGTCGTCACCATCCCTTTTCATAGT
*
19310261 TGATAGTCGTCACCATCCCTTTTCATAAT
1 TGATAGTCGTCACCATCCCTTTTCATAGT
* * * * * *
19310290 CGATAG-C-TGAAGCTATTCATTTTCATAATT
1 TGATAGTCGT-CA-CCATCCCTTTTCAT-AGT
* * *
19310320 TGATGGTCGTCACCATCCTTTTTCAATATT
1 TGATAGTCGTCACCATCCCTTTTC-ATAGT
* * * * *
19310350 TGATAGCCG-AAGCTATACCTTTTCATAAT
1 TGATAGTCGTCA-CCATCCCTTTTCATAGT
* *
19310379 TCAATGGTCGTCACCATCCCTTTTCATA
1 T-GATAGTCGTCACCATCCCTTTTCATA
19310407 ATCGATAGCC
Statistics
Matches: 109, Mismatches: 28, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
27 1 0.01
28 2 0.02
29 48 0.44
30 52 0.48
31 5 0.05
32 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (29 bp):
TGATAGTCGTCACCATCCCTTTTCATAGT
Found at i:19310401 original size:30 final size:30
Alignment explanation
Indices: 19310237--19310440 Score: 136
Period size: 29 Copynumber: 6.9 Consensus size: 30
19310227 GATCATGATG
* *
19310237 GTCGTCACCGTCCCTTTTCATAGTT-GATA
1 GTCGTCACCATCCCTTTTCATAATTCGATA
19310266 GTCGTCACCATCCCTTTTCATAA-TCGATA
1 GTCGTCACCATCCCTTTTCATAATTCGATA
* * * * * *
19310295 G-C-TGAAGCTATTCATTTTCATAATTTGATG
1 GTCGT-CA-CCATCCCTTTTCATAATTCGATA
* *
19310325 GTCGTCACCATCCTTTTTCA-ATATTTGATA
1 GTCGTCACCATCCCTTTTCATA-ATTCGATA
* * * * * *
19310355 GCCG-AAGCTATACCTTTTCATAATTCAATG
1 GTCGTCA-CCATCCCTTTTCATAATTCGATA
19310385 GTCGTCACCATCCCTTTTCATAA-TCGATA
1 GTCGTCACCATCCCTTTTCATAATTCGATA
* * *
19310414 GCCG-AAGCTATCCCTTTTCATAATTCG
1 GTCGTCA-CCATCCCTTTTCATAATTCG
19310441 GTGATCATCG
Statistics
Matches: 133, Mismatches: 30, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
27 1 0.01
28 4 0.03
29 63 0.47
30 60 0.45
31 4 0.03
32 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (30 bp):
GTCGTCACCATCCCTTTTCATAATTCGATA
Found at i:19310439 original size:59 final size:59
Alignment explanation
Indices: 19310247--19310440 Score: 273
Period size: 59 Copynumber: 3.3 Consensus size: 59
19310237 GTCGTCACCG
* * *
19310247 TCCCTTTTCATAGTT-GATAGTCGTCACCATCCCTTTTCATAATCGATAGCTGAAGCTA
1 TCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTA
* * * * * *
19310305 TTCATTTTCATAATTTGATGGTCGTCACCATCCTTTTTCAATATTTGATAGCCGAAGCTA
1 TCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTC-ATAATCGATAGCCGAAGCTA
* *
19310365 TACCTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTA
1 TCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTA
19310424 TCCCTTTTCATAATTCG
1 TCCCTTTTCATAATTCG
19310441 GTGATCATCG
Statistics
Matches: 117, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
58 12 0.10
59 54 0.46
60 51 0.44
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (59 bp):
TCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTA
Found at i:19322985 original size:19 final size:17
Alignment explanation
Indices: 19322950--19322985 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
19322940 TACGAAATAA
19322950 AATAATTACAATTAATT
1 AATAATTACAATTAATT
19322967 AATAATATACAACTTAATT
1 AATAAT-TACAA-TTAATT
19322986 TCATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATTACAATTAATT
Found at i:19325843 original size:40 final size:39
Alignment explanation
Indices: 19325812--19326021 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
19325802 GGACTAAGGT
* *
19325812 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
19325852 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
19325892 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
19325932 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
19325972 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
19326011 CCGAAGGCATT
1 CCGAAGGCATT
19326022 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Done.