Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 199 of 226
Found at i:59833082 original size:69 final size:69
Alignment explanation
Indices: 59833002--59833440 Score: 340
Period size: 69 Copynumber: 6.6 Consensus size: 69
59832992 CTTGCAACTT
* * *
59833002 CAAAATAGCTCGTGGACCTACGCTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
1 CAAAACAGCTCGCGGACCTACGTTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
*
59833067 CCTT
66 CCTC
** * * * *
59833071 CAAAACAGCTCGCAAACTTACATTCCCAACTGATATTATAAAGGCTCACCAGTTTAAGATCACAG
1 CAAAACAGCTCGCGGACCTACGTTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
59833136 CCTC
66 CCTC
* * * * * * * * *
59833140 CAAAACAGTTCACGGACCTATGCTCCCAGCTAATATTATAAAAGCTCACTGGTTTAAGATCGCAA
1 CAAAACAGCTCGCGGACCTACGTTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
59833205 CCTC
66 CCTC
* ** * * *
59833209 CAAAACA--------A-C-AC--TCCTAGTTGATATTATAAAGACTCGCCGGTCTAAGATCGCAG
1 CAAAACAGCTCGCGGACCTACGTTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
59833262 CCTC
66 CCTC
* * * *
59833266 CAAAACAACTCGCGGACCTACGTTCCCAATTGATATTATAAAGGCTCGCTGGTTT---A----AG
1 CAAAACAGCTCGCGGACCTACGTTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
59833324 CCTC
66 CCTC
* * * * * * *
59833328 CAAAACAGCTCACGGACCTACGTTCCTAGCTAATATTATAAAGGCTAACCGGTTTAAGATCGTAA
1 CAAAACAGCTCGCGGACCTACGTTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
59833393 CCTC
66 CCTC
* ** ** * ** *
59833397 TAAAGTAGCTCGCAAACCTGCGTTCTTAGCTGATATTATAAAGG
1 CAAAACAGCTCGCGGACCTACGTTCCCAACTGATATTATAAAGG
59833441 TTTAGTTGAT
Statistics
Matches: 292, Mismatches: 59, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
57 44 0.15
59 1 0.00
60 1 0.00
61 1 0.00
62 52 0.18
65 2 0.01
66 2 0.01
67 2 0.01
69 187 0.64
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (69 bp):
CAAAACAGCTCGCGGACCTACGTTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
CCTC
Found at i:59833382 original size:62 final size:62
Alignment explanation
Indices: 59833260--59833385 Score: 171
Period size: 62 Copynumber: 2.0 Consensus size: 62
59833250 CTAAGATCGC
* * * ** *
59833260 AGCCTCCAAAACAACTCGCGGACCTACGTTCCCAATTGATATTATAAAGGCTCGCTGGTTTA
1 AGCCTCCAAAACAACTCACGGACCTACGTTCCCAACTAATATTATAAAGGCTAACCGGTTTA
* * *
59833322 AGCCTCCAAAACAGCTCACGGACCTACGTTCCTAGCTAATATTATAAAGGCTAACCGGTTTA
1 AGCCTCCAAAACAACTCACGGACCTACGTTCCCAACTAATATTATAAAGGCTAACCGGTTTA
59833384 AG
1 AG
59833386 ATCGTAACCT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (62 bp):
AGCCTCCAAAACAACTCACGGACCTACGTTCCCAACTAATATTATAAAGGCTAACCGGTTTA
Found at i:59835722 original size:22 final size:22
Alignment explanation
Indices: 59835680--59835724 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
59835670 TATAATAAGA
**
59835680 TTTTAATTTAACATGCTTAATT
1 TTTTAATTTAACATGAATAATT
*
59835702 TTTTAATTTAACTTGAATAATT
1 TTTTAATTTAACATGAATAATT
59835724 T
1 T
59835725 CACTCGATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTAATTTAACATGAATAATT
Found at i:59839715 original size:280 final size:280
Alignment explanation
Indices: 59839214--59839758 Score: 1090
Period size: 280 Copynumber: 1.9 Consensus size: 280
59839204 AATACACGCA
59839214 AAATGATCATTTATATAACAATTGAAGGAAAAAAAAACAGTTAGTTTTATGAGGTGGAATTAATT
1 AAATGATCATTTATATAACAATTGAAGGAAAAAAAAACAGTTAGTTTTATGAGGTGGAATTAATT
59839279 AAATGATGTGGTATTAATTTAAGATATGACTGAGTTGTTCACTTTTATCTTTTGTACCTTAATTC
66 AAATGATGTGGTATTAATTTAAGATATGACTGAGTTGTTCACTTTTATCTTTTGTACCTTAATTC
59839344 TGACTATTACATTTATCCTAGCTCGACGGTCCGCCCAAAATATGGGAGGGTTTGGGTAAAAATAT
131 TGACTATTACATTTATCCTAGCTCGACGGTCCGCCCAAAATATGGGAGGGTTTGGGTAAAAATAT
59839409 AGGTCCGAAATATGAGTTTGGGCAAAAAAAGAGGCCTGTTTTTTTGGCCTGAGCTCGTCCCGACC
196 AGGTCCGAAATATGAGTTTGGGCAAAAAAAGAGGCCTGTTTTTTTGGCCTGAGCTCGTCCCGACC
59839474 CGAATGATGTGGAATTAATT
261 CGAATGATGTGGAATTAATT
59839494 AAATGATCATTTATATAACAATTGAAGGAAAAAAAAACAGTTAGTTTTATGAGGTGGAATTAATT
1 AAATGATCATTTATATAACAATTGAAGGAAAAAAAAACAGTTAGTTTTATGAGGTGGAATTAATT
59839559 AAATGATGTGGTATTAATTTAAGATATGACTGAGTTGTTCACTTTTATCTTTTGTACCTTAATTC
66 AAATGATGTGGTATTAATTTAAGATATGACTGAGTTGTTCACTTTTATCTTTTGTACCTTAATTC
59839624 TGACTATTACATTTATCCTAGCTCGACGGTCCGCCCAAAATATGGGAGGGTTTGGGTAAAAATAT
131 TGACTATTACATTTATCCTAGCTCGACGGTCCGCCCAAAATATGGGAGGGTTTGGGTAAAAATAT
59839689 AGGTCCGAAATATGAGTTTGGGCAAAAAAAGAGGCCTGTTTTTTTGGCCTGAGCTCGTCCCGACC
196 AGGTCCGAAATATGAGTTTGGGCAAAAAAAGAGGCCTGTTTTTTTGGCCTGAGCTCGTCCCGACC
59839754 CGAAT
261 CGAAT
59839759 ATAATAAATT
Statistics
Matches: 265, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
280 265 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (280 bp):
AAATGATCATTTATATAACAATTGAAGGAAAAAAAAACAGTTAGTTTTATGAGGTGGAATTAATT
AAATGATGTGGTATTAATTTAAGATATGACTGAGTTGTTCACTTTTATCTTTTGTACCTTAATTC
TGACTATTACATTTATCCTAGCTCGACGGTCCGCCCAAAATATGGGAGGGTTTGGGTAAAAATAT
AGGTCCGAAATATGAGTTTGGGCAAAAAAAGAGGCCTGTTTTTTTGGCCTGAGCTCGTCCCGACC
CGAATGATGTGGAATTAATT
Found at i:59839817 original size:21 final size:21
Alignment explanation
Indices: 59839793--59839834 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59839783 AATTTTAAAA
* *
59839793 TATTTCTATAATACTTTTTTT
1 TATTTCTAAAATAATTTTTTT
*
59839814 TATTTTTAAAATAATTTTTTT
1 TATTTCTAAAATAATTTTTTT
59839835 GTGTTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTCTAAAATAATTTTTTT
Found at i:59842352 original size:31 final size:32
Alignment explanation
Indices: 59842314--59842383 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
59842304 TCTTTTTTAA
* *
59842314 AATTAAATTTAGTTCTTAATATTTT-AAAAAG
1 AATTAAATTTAATTATTAATATTTTGAAAAAG
* *
59842345 AATTAAATTTAATTATTAATCTTTTGAAAGAG
1 AATTAAATTTAATTATTAATATTTTGAAAAAG
*
59842377 AGTTAAA
1 AATTAAA
59842384 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 22 0.67
32 11 0.33
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.43
Consensus pattern (32 bp):
AATTAAATTTAATTATTAATATTTTGAAAAAG
Found at i:59842695 original size:7 final size:7
Alignment explanation
Indices: 59842683--59842722 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
59842673 AAAGTATTTT
59842683 AAAATTA
1 AAAATTA
59842690 AAAATTA
1 AAAATTA
59842697 AAAATTA
1 AAAATTA
*
59842704 AAAAATA
1 AAAATTA
*
59842711 AAAATAA
1 AAAATTA
59842718 AAAAT
1 AAAAT
59842723 ATATATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATTA
Found at i:59842721 original size:13 final size:13
Alignment explanation
Indices: 59842682--59842723 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
59842672 TAAAGTATTT
* *
59842682 TAAAATTAAAAAT
1 TAAAAATAAAAAA
59842695 TAAAAATTAAAAAA
1 TAAAAA-TAAAAAA
59842709 TAAAAATAAAAAA
1 TAAAAATAAAAAA
59842722 TA
1 TA
59842724 TATATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:59843922 original size:29 final size:29
Alignment explanation
Indices: 59843877--59843955 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
59843867 ATCACATTTG
* **
59843877 AAATTT-TAAAATTTAAAAATAGAGGGATT
1 AAATTTCTAAAA-ATAAAAATAGAAAGATT
*
59843906 AAATTTCTAAAAATAAAAATATAAAGATT
1 AAATTTCTAAAAATAAAAATAGAAAGATT
* *
59843935 AAATTTC-AAATATACAAATAG
1 AAATTTCTAAAAATAAAAATAG
59843956 TACAAGAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 11 0.26
29 26 0.62
30 5 0.12
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (29 bp):
AAATTTCTAAAAATAAAAATAGAAAGATT
Found at i:59844613 original size:13 final size:14
Alignment explanation
Indices: 59844590--59844633 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
59844580 TTTTAGATTA
59844590 AAATATTATTTTTT
1 AAATATTATTTTTT
59844604 AAAT-TTATTTTTATT
1 AAATATTA-TTTT-TT
59844619 GAAATATTATTTTTT
1 -AAATATTATTTTTT
59844634 TTATAAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.12
14 8 0.31
15 4 0.15
16 8 0.31
17 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
AAATATTATTTTTT
Found at i:59855697 original size:22 final size:20
Alignment explanation
Indices: 59855643--59855701 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
59855633 CGACCATGAT
* * *
59855643 TATTTGTTTTTATGTATTAT
1 TATTTTTTTTTATTTATTAC
59855663 TATTTTTTATTTATTTACTTAC
1 TATTTTTT-TTTATTTA-TTAC
59855685 TATTTCTTTTTTATTTA
1 TATTT-TTTTTTATTTA
59855702 AAATTGGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 7 0.21
21 7 0.21
22 16 0.48
23 3 0.09
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.71
Consensus pattern (20 bp):
TATTTTTTTTTATTTATTAC
Found at i:59858409 original size:18 final size:18
Alignment explanation
Indices: 59858383--59858417 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59858373 AGTTAGTTTT
59858383 ATGAGGTGGAATTAATTA
1 ATGAGGTGGAATTAATTA
* *
59858401 ATGATGTGGTATTAATT
1 ATGAGGTGGAATTAATT
59858418 TAAGATATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
ATGAGGTGGAATTAATTA
Found at i:59860460 original size:33 final size:33
Alignment explanation
Indices: 59860380--59860466 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 33
59860370 AATTCAATTA
* *
59860380 TTTGGTTGAATGAAATGGAATAATATTCTTGCG
1 TTTGGTTGAATGGAATGAAATAATATTCTTGCG
* * *
59860413 TTAGGTT-AATTGGAATGAAATAGTATTCTTGTG
1 TTTGGTTGAA-TGGAATGAAATAATATTCTTGCG
59860446 TTTGGTTGAATGGAAT-AAATA
1 TTTGGTTGAATGGAATGAAATA
59860467 TTGTAATAGC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
32 7 0.15
33 37 0.80
34 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.40
Consensus pattern (33 bp):
TTTGGTTGAATGGAATGAAATAATATTCTTGCG
Found at i:59860676 original size:19 final size:19
Alignment explanation
Indices: 59860652--59860724 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
59860642 AATTTTTGAG
59860652 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59860671 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
59860690 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59860709 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
59860725 ATATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:59861919 original size:98 final size:98
Alignment explanation
Indices: 59861799--59861990 Score: 357
Period size: 98 Copynumber: 2.0 Consensus size: 98
59861789 AATCATGAAG
*
59861799 GAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
59861864 TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAT
66 TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAT
*
59861897 GAAATATTCCGAGTTTGAGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
*
59861962 TCTTGGATGAGTGGATGTTCTTTTAAAGT
66 TCTTGGATAAGTGGATGTTCTTTTAAAGT
59861991 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.38
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAT
Found at i:59865531 original size:19 final size:18
Alignment explanation
Indices: 59865503--59865539 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
59865493 AGTTCAGATT
59865503 CAAAAAAAAAACAAAAAA
1 CAAAAAAAAAACAAAAAA
59865521 CAAAAACAAAAACAAAAAA
1 CAAAAA-AAAAACAAAAAA
59865540 TGAAAGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (18 bp):
CAAAAAAAAAACAAAAAA
Found at i:59865538 original size:12 final size:12
Alignment explanation
Indices: 59865503--59865538 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
59865493 AGTTCAGATT
59865503 CAAAAA-AAAAA
1 CAAAAACAAAAA
59865514 CAAAAAACAAAAA
1 C-AAAAACAAAAA
59865527 CAAAAACAAAAA
1 CAAAAACAAAAA
59865539 ATGAAAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.04
12 16 0.70
13 6 0.26
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAACAAAAA
Found at i:59867034 original size:132 final size:132
Alignment explanation
Indices: 59866794--59867714 Score: 1418
Period size: 132 Copynumber: 7.0 Consensus size: 132
59866784 TTCCTCGTTT
* *
59866794 GTAGTCGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
59866859 CAGTAATTCTACTTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
59866924 CA
131 CA
* * *
59866926 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* ** * *
59866991 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAGCAGATCTTACCTTCCT--G
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
59867054 CA
131 CA
* * *
59867056 TTGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
1 --G-TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
*
59867121 AGCCAATAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
63 AGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
59867186 AAGCA
128 AAGCA
* * *
59867191 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCTTGTGGTTATAGTGGAGTACATTAAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
59867256 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
59867321 CA
131 CA
* *
59867323 GTAGTGGAGCAGATCGAAGATGACGGATTTTACCTCCATGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* *
59867388 CAGTAATTCTACTTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
59867453 CA
131 CA
* * *
59867455 GTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * **
59867520 TAGTAATTCTACTTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
59867585 CA
131 CA
* * * * * *
59867587 GTAGTGGAGTAGATCGAATATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAGT
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * *
59867652 CAGTAATTCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCTA
66 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCTA
59867715 CAGTTGCAGT
Statistics
Matches: 719, Mismatches: 63, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
130 3 0.00
131 1 0.00
132 594 0.83
133 118 0.16
135 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (132 bp):
GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
CA
Found at i:59867461 original size:44 final size:44
Alignment explanation
Indices: 59867144--59867600 Score: 154
Period size: 44 Copynumber: 10.4 Consensus size: 44
59867134 ACTTCCCTGG
* * *
59867144 GCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
1 GCAGTAGTGGAGTAGATTGAAGATTTCAGATATTATCTCCCTAA
* * ** * * * **
59867188 GCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCTTGTG
1 GCAGTAGTGGAGTAGATTGAAGATTTCAGATATTATCTCCCT-AA
* * ** * **
59867233 GTTA-TAGTGGAGTACATT-AA-A-GCCAG-TAATTCTACTTCCCTGG
1 G-CAGTAGTGGAGTAGATTGAAGATTTCAGAT-ATTAT-C-TCCCTAA
** * *
59867276 GCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
1 GCAGTAGTGGAGTAGATTGAAGATTTCAGATATTATCTCCCTAA
* * ** * * * * **
59867320 GCAGTAGTGGAGCAGATCGAAGATGACGGATTTTACCTCCATGTG
1 GCAGTAGTGGAGTAGATTGAAGATTTCAGATATTATCTCCCT-AA
* * * * **
59867365 GTTA-TAGTGGAGTACATTGAAG---CCAG-TAATTCTACTTCCCTGG
1 G-CAGTAGTGGAGTAGATTGAAGATTTCAGAT-ATTAT-C-TCCCTAA
* * *
59867408 GTAGCAGTGGAATAGATTGAAGATTTCAGATATTATCTCCCTAA
1 GCAGTAGTGGAGTAGATTGAAGATTTCAGATATTATCTCCCTAA
* * * * *
59867452 GCAGTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCT--
1 GCAGTAGTGGAGTAGATTGAAGATTTCAGATATTATCTCCCTAA
** * * * *
59867494 GTGGTTACAGTGGAGTACATTGAAG--CT-AG-TAATTCTACTTCCCTAG
1 GCAG-T--AGTGGAGTAGATTGAAGATTTCAGAT-ATTAT-C-TCCCTAA
* * *
59867540 GCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
1 GCAGTAGTGGAGTAGATTGAAGATTTCAGATATTATCTCCCTAA
59867584 GCAGTAGTGGAGTAGAT
1 GCAGTAGTGGAGTAGAT
59867601 CGAATATGGT
Statistics
Matches: 290, Mismatches: 91, Indels: 64
0.65 0.20 0.14
Matches are distributed among these distances:
41 3 0.01
42 18 0.06
43 50 0.17
44 146 0.50
45 49 0.17
46 21 0.07
47 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (44 bp):
GCAGTAGTGGAGTAGATTGAAGATTTCAGATATTATCTCCCTAA
Found at i:59867966 original size:19 final size:19
Alignment explanation
Indices: 59867942--59868033 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
59867932 AATTTTTGAG
*
59867942 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
*
59867961 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
59867980 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
59867999 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
59868018 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
59868034 ATATATGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:59868051 original size:23 final size:22
Alignment explanation
Indices: 59867976--59868056 Score: 84
Period size: 19 Copynumber: 3.9 Consensus size: 22
59867966 GCAATCCTAG
*
59867976 ATATGATATGCAATCTTAG---
1 ATATGATATGTAATCTTAGAAT
*
59867995 ATATGATATATAATCTTAG---
1 ATATGATATGTAATCTTAGAAT
59868014 ATATGATATGTAATCTTAGAAT
1 ATATGATATGTAATCTTAGAAT
*
59868036 ATATGATTTTGTAATCTTAGA
1 ATATGA-TATGTAATCTTAGA
59868057 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
19 35 0.65
22 6 0.11
23 13 0.24
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (22 bp):
ATATGATATGTAATCTTAGAAT
Found at i:59869229 original size:98 final size:98
Alignment explanation
Indices: 59869106--59869300 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
59869096 AAAAATCATG
* *
59869106 AAGGAAATATTCCGAATTTGAGATTCTAAAGGAATTGTGCCCTGACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAATTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
59869171 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* * *
59869204 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAATTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
59869269 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
59869301 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAATTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:59870414 original size:24 final size:23
Alignment explanation
Indices: 59870339--59870417 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 23
59870329 TACTGTTGGC
* *
59870339 AAATTTATAAAATATTTTATATT
1 AAATTTAAAAAATATTTTTTATT
*
59870362 AATATTTAAAAAAT-TTTATAATAAATT
1 AA-ATTTAAAAAATATTT-T--T-TATT
59870389 AAATTTAAAAAATATTTTTTATTT
1 AAATTTAAAAAATATTTTTTA-TT
59870413 AAATT
1 AAATT
59870418 AAATTTAGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
23 6 0.13
24 19 0.42
26 12 0.27
27 8 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATTTAAAAAATATTTTTTATT
Found at i:59870828 original size:13 final size:14
Alignment explanation
Indices: 59870804--59870833 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
59870794 GTGAATTGAC
59870804 TTTCTCTTTTCTTT
1 TTTCTCTTTTCTTT
59870818 TTTCT-TTTTCTTT
1 TTTCTCTTTTCTTT
59870831 TTT
1 TTT
59870834 GCCGTATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTCTTTTCTTT
Found at i:59871729 original size:18 final size:15
Alignment explanation
Indices: 59871680--59871726 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
59871670 CTTTTTTTAG
*
59871680 ATTAAA-TTATTAATT
1 ATTAAATTTATT-TTT
59871695 ATTAAATTTATTTTT
1 ATTAAATTTATTTTT
59871710 ATTGAAATATTATTTTT
1 ATT-AAAT-TTATTTTT
59871727 TATAAGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 11 0.39
16 9 0.32
17 8 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
ATTAAATTTATTTTT
Found at i:59880166 original size:20 final size:21
Alignment explanation
Indices: 59880126--59880178 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
59880116 AAATACAAAT
*
59880126 ATAATCATAATATATATTCAA
1 ATAATCATAATATATAATCAA
*
59880147 ATAATTATAA-ATATAATCAA
1 ATAATCATAATATATAATCAA
59880167 ATCAAT-ATAATA
1 AT-AATCATAATA
59880179 CACAATTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATCATAATATATAATCAA
Found at i:59889796 original size:16 final size:16
Alignment explanation
Indices: 59889775--59889816 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
59889765 AATAATTTGA
*
59889775 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
59889791 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
59889807 TAGTTTTAAT
1 TAATTTTAAT
59889817 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:59889833 original size:31 final size:31
Alignment explanation
Indices: 59889798--59889858 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
59889788 AATTAATTTT
*
59889798 AATAACAATTAGTTTTAATTTT-ATTAAAAAA
1 AATAA-AATTAATTTTAATTTTAATTAAAAAA
**
59889829 AATAATTTTAATTTTAATTTTAATTAAAAA
1 AATAAAATTAATTTTAATTTTAATTAAAAA
59889859 CGGGCCGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (31 bp):
AATAAAATTAATTTTAATTTTAATTAAAAAA
Found at i:59891174 original size:23 final size:23
Alignment explanation
Indices: 59891147--59891202 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
59891137 ATAATTTCTT
59891147 TAATAAATATATTTATTT-TTAAA-
1 TAATAAAT-TA-TTATTTATTAAAG
59891170 TAATATAATTATTATTTATTAAAG
1 TAATA-AATTATTATTTATTAAAG
*
59891194 TACTAAATT
1 TAATAAATT
59891203 TTGAAATGCG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 6 0.21
23 16 0.55
24 7 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TAATAAATTATTATTTATTAAAG
Found at i:59892421 original size:42 final size:42
Alignment explanation
Indices: 59892328--59892421 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
59892318 TAAAATAGCC
* * *
59892328 CTCCCTTCTTCACCTGTAAGTATCTCTAAGAATCCTATGTTG
1 CTCCCTTCTTCACCTGCAAGCATCTCTAAGAATCCTATGTTA
** * *
59892370 CTCTTTTCTTCACCTGCAAGCATCTCTAAGGATCCTGTGTTA
1 CTCCCTTCTTCACCTGCAAGCATCTCTAAGAATCCTATGTTA
59892412 CTCCCTTCTT
1 CTCCCTTCTT
59892422 TTCTTTTCGT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.18, C:0.31, G:0.12, T:0.39
Consensus pattern (42 bp):
CTCCCTTCTTCACCTGCAAGCATCTCTAAGAATCCTATGTTA
Found at i:59892919 original size:23 final size:23
Alignment explanation
Indices: 59892874--59892928 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
59892864 GCATGTCAAA
*
59892874 ATTTAGTACTTTAATAAATAATA-
1 ATTTATTA-TTTAATAAATAATAT
59892897 ATTATATTATTTAA-AAATAAATAT
1 ATT-TATTATTTAATAAAT-AATAT
59892921 ATTTATTA
1 ATTTATTA
59892929 AATAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 4 0.14
23 17 0.61
24 7 0.25
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTTATTATTTAATAAATAATAT
Found at i:59892925 original size:16 final size:15
Alignment explanation
Indices: 59892902--59892944 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
59892892 TAATAATTAT
59892902 ATTATTTAAAAATAA
1 ATTATTTAAAAATAA
*
59892917 ATATATTTATTAAATAA
1 AT-TATTTA-AAAATAA
*
59892934 ATTATGTAAAA
1 ATTATTTAAAA
59892945 TGATAAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
ATTATTTAAAAATAA
Found at i:59892929 original size:19 final size:20
Alignment explanation
Indices: 59892883--59892933 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
59892873 AATTTAGTAC
* *
59892883 TTTAATAAATAATAATTATA
1 TTTATTAAATAATAAATATA
59892903 -TTATTTAAA-AATAAATATA
1 TTTA-TTAAATAATAAATATA
59892922 TTTATTAAATAA
1 TTTATTAAATAA
59892934 ATTATGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTATTAAATAATAAATATA
Found at i:59894978 original size:44 final size:44
Alignment explanation
Indices: 59894920--59895034 Score: 137
Period size: 43 Copynumber: 2.6 Consensus size: 44
59894910 ATCAAATTTT
* *
59894920 TTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAGAAAAAC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA-AAAAAC
* * * *
59894964 TTATC-CCCATGAAGTT-CAGTGGCGCAAGTTGAAGATACAAATC
1 TTATCTCCC-TGAAGTTGCAGTGGAGCAGGTTGAAGATAAAAAAC
59895007 TTATCTCCCTGAAGTTGCAGTGGAGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAG
59895035 ATAGAAGTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
43 32 0.54
44 27 0.46
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAAAAAAC
Found at i:59897299 original size:16 final size:16
Alignment explanation
Indices: 59897278--59897319 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
59897268 AATAATTTGA
*
59897278 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
59897294 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
59897310 TAGTTTTAAT
1 TAATTTTAAT
59897320 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:59898876 original size:104 final size:102
Alignment explanation
Indices: 59898649--59898911 Score: 415
Period size: 104 Copynumber: 2.6 Consensus size: 102
59898639 TAACCGTTAT
*
59898649 TGGTGGATC-CGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAA-CCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
59898712 AATCAGCACATAGCAACCCCCTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
59898749 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
59898813 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
* * * **
59898853 TGGTGGATCACGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
59898912 TTTATATACA
Statistics
Matches: 150, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
100 8 0.05
101 43 0.29
102 34 0.23
104 64 0.43
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (102 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
Found at i:59899272 original size:29 final size:29
Alignment explanation
Indices: 59899239--59899302 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
59899229 TAATCCACCA
59899239 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
59899268 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
59899298 CCCAA
1 CCCAA
59899303 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:59899276 original size:30 final size:30
Alignment explanation
Indices: 59899246--59899302 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59899236 CCACCCAACT
59899246 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
59899275 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
59899303 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:59906283 original size:99 final size:102
Alignment explanation
Indices: 59906108--59906368 Score: 386
Period size: 99 Copynumber: 2.6 Consensus size: 102
59906098 TAACCGTTAT
* *
59906108 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCA-CAATG-ATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
59906173 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
64 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
59906211 TGGTGGATATCGCACTTAGCACCA-AATGAT-GGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
1 TGGTGGATATCGCACTTAGCACCACAATGATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
59906274 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * **
59906311 TGGTGGATCA-CGCACATAGCACCACCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACAAT-GATCGGGGAATCAGCACTTAGCAACCCCT
59906369 TTTATACAAC
Statistics
Matches: 145, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
99 55 0.38
100 36 0.25
101 6 0.04
102 2 0.01
103 46 0.32
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACAATGATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:59906725 original size:29 final size:29
Alignment explanation
Indices: 59906692--59906755 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
59906682 TAATCCACCA
59906692 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
59906721 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
59906751 CCCAA
1 CCCAA
59906756 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:59906729 original size:30 final size:30
Alignment explanation
Indices: 59906699--59906755 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59906689 CCACCCAACT
59906699 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
59906728 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
59906756 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:59919865 original size:26 final size:26
Alignment explanation
Indices: 59919835--59919885 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
59919825 ACCAATGAAC
*
59919835 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
59919861 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
59919886 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:59919930 original size:103 final size:102
Alignment explanation
Indices: 59919701--59919963 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 102
59919691 TAACCGTTAT
*
59919701 TGGTGGATC-CGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
59919765 AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
*
59919802 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
59919865 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
* * * **
59919905 TGGTGGATCACGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
59919964 TTTATATACA
Statistics
Matches: 149, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
101 36 0.24
102 48 0.32
103 64 0.43
104 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.18
Consensus pattern (102 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
Found at i:59920324 original size:29 final size:29
Alignment explanation
Indices: 59920291--59920354 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
59920281 TAATCCACCA
59920291 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
59920320 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
59920350 CCCAA
1 CCCAA
59920355 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:59920328 original size:30 final size:30
Alignment explanation
Indices: 59920298--59920354 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59920288 CCACCCAACT
59920298 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
59920327 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
59920355 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:59924937 original size:17 final size:17
Alignment explanation
Indices: 59924912--59924950 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
59924902 GTGGTTCAGG
59924912 AAATCAGTCGTCATACT
1 AAATCAGTCGTCATACT
* *
59924929 AAATTAGTCGTCGTACT
1 AAATCAGTCGTCATACT
59924946 AAATC
1 AAATC
59924951 TCGAGTGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (17 bp):
AAATCAGTCGTCATACT
Found at i:59930519 original size:4 final size:4
Alignment explanation
Indices: 59930510--59930578 Score: 57
Period size: 4 Copynumber: 15.8 Consensus size: 4
59930500 AATACAAGAA
* * *
59930510 AAAT AAAT AAAT AAATGT AAAA AAAT AAAG AAAT AAAG AAATGT AAGGAT
1 AAAT AAAT AAAT AAA--T AAAT AAAT AAAT AAAT AAAT AAA--T AA--AT
59930560 AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAA
59930579 ACAGAACAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 43 0.81
6 9 0.17
8 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:59947023 original size:42 final size:42
Alignment explanation
Indices: 59946977--59947058 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
59946967 ATGAGTTTCC
* * *
59946977 GTTCAGCT-TTATTGAACTTCTATTTAACCCTTATGGGTTTTT
1 GTTCAGCTCTTA-CGAACTTCCATTCAACCCTTATGGGTTTTT
* *
59947019 GTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTT
1 GTTCAGCTCTTACGAACTTCCATTCAACCCTTATGGGTTT
59947059 CTATTTAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (42 bp):
GTTCAGCTCTTACGAACTTCCATTCAACCCTTATGGGTTTTT
Found at i:59947078 original size:42 final size:42
Alignment explanation
Indices: 59947002--59947086 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
59946992 ACTTCTATTT
* * *
59947002 AACCCTTATGGGTTTTTGTTCAGCTCTTACGAGCTTCC-GTTC
1 AACCCTTATGGGTTTCTATTCAGCTCTCACGAGC-TCCTGTTC
* *
59947044 AACCCTTATGGGTTTCTATTTAGCTCTCATGAGCTCCTGTTC
1 AACCCTTATGGGTTTCTATTCAGCTCTCACGAGCTCCTGTTC
59947086 A
1 A
59947087 GCCTTCGGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.08
42 34 0.92
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (42 bp):
AACCCTTATGGGTTTCTATTCAGCTCTCACGAGCTCCTGTTC
Found at i:59955580 original size:34 final size:34
Alignment explanation
Indices: 59955542--59955610 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
59955532 AAATATCTAA
59955542 TACAATTTTTCTTTTGGTAAGAATGGAAATTTAG
1 TACAATTTTTCTTTTGGTAAGAATGGAAATTTAG
59955576 TACAATTTTTCTTTTGGTAAGAATGGAAATTTAG
1 TACAATTTTTCTTTTGGTAAGAATGGAAATTTAG
59955610 T
1 T
59955611 TCAAGACTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (34 bp):
TACAATTTTTCTTTTGGTAAGAATGGAAATTTAG
Found at i:59959458 original size:14 final size:14
Alignment explanation
Indices: 59959439--59959467 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59959429 CTATCATTTC
59959439 ACTATTATGTTGTT
1 ACTATTATGTTGTT
59959453 ACTATTATGTTGTT
1 ACTATTATGTTGTT
59959467 A
1 A
59959468 TTGTATAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (14 bp):
ACTATTATGTTGTT
Found at i:59959625 original size:18 final size:22
Alignment explanation
Indices: 59959604--59959649 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
59959594 GAAATATTTA
59959604 TTTTAATGT-TT-T-TA-ATAT
1 TTTTAATGTATTATATATATAT
*
59959622 TTTTGATGTATTATATATATAT
1 TTTTAATGTATTATATATATAT
59959644 TTTTAA
1 TTTTAA
59959650 AATTATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.36
19 2 0.09
20 1 0.05
21 2 0.09
22 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TTTTAATGTATTATATATATAT
Found at i:59960646 original size:27 final size:28
Alignment explanation
Indices: 59960609--59960665 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
59960599 TTGACTGGAT
* *
59960609 TTTAATAATTTTTATTTTTAATATTTCA
1 TTTAATAATTTTTAGTATTAATATTTCA
*
59960637 TTTAAT-ATTTTTGGTATTAATATTTCA
1 TTTAATAATTTTTAGTATTAATATTTCA
59960664 TT
1 TT
59960666 AAAGTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTAATAATTTTTAGTATTAATATTTCA
Found at i:59961048 original size:18 final size:18
Alignment explanation
Indices: 59960997--59961048 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
59960987 TATACTGCTA
* *
59960997 TTATTTTGTTGTTAATAT
1 TTATTTTATTGTTAATAC
**
59961015 TTA-GATATTGTATAATAC
1 TTATTTTATTGT-TAATAC
59961033 TTATTTTATTGTTAAT
1 TTATTTTATTGTTAAT
59961049 TTTGTTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 5 0.19
18 15 0.58
19 6 0.23
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (18 bp):
TTATTTTATTGTTAATAC
Found at i:59961217 original size:18 final size:16
Alignment explanation
Indices: 59961194--59961231 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
59961184 TTATATATAT
59961194 TTAAAAATTATACAAAAA
1 TTAAAAATTA-A-AAAAA
59961212 TTAAAAATTAAAAAAA
1 TTAAAAATTAAAAAAA
59961228 TTAA
1 TTAA
59961232 TACGGACGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.45
17 1 0.05
18 10 0.50
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAAAATTAAAAAAA
Found at i:59961616 original size:29 final size:30
Alignment explanation
Indices: 59961558--59961619 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
59961548 ATCTTAAAAT
* *
59961558 TATACATGAATTTTAATTTAATGTACAATTA
1 TATACATGAATTTTAATTT-AGGTAAAATTA
59961589 TATACATGAATTTTAATTT-GGTAAAATTA
1 TATACATGAATTTTAATTTAGGTAAAATTA
59961618 TA
1 TA
59961620 CACGTGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.34
31 19 0.66
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (30 bp):
TATACATGAATTTTAATTTAGGTAAAATTA
Found at i:59961627 original size:29 final size:29
Alignment explanation
Indices: 59961552--59961627 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
59961542 AGATAAATCT
*
59961552 TAAAATTATACA-TGAATTTTAATTTAATG
1 TAAAATTATACACTGAATTTTAATTT-AGG
* *
59961581 TACAATTATATACATGAATTTTAATTT-GG
1 TAAAATTATACAC-TGAATTTTAATTTAGG
59961610 TAAAATTATACACGTGAA
1 TAAAATTATACAC-TGAA
59961628 ACTCTAATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 26 0.67
31 13 0.33
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (29 bp):
TAAAATTATACACTGAATTTTAATTTAGG
Found at i:59962685 original size:125 final size:125
Alignment explanation
Indices: 59962494--59963027 Score: 730
Period size: 125 Copynumber: 4.3 Consensus size: 125
59962484 ATTTTTGCAG
* * *
59962494 TCGCGCCCACGTGTACGCGCTTTTGCTACAGTCGGTCCT-GAAAAAATAATTTTGAGTTGACGTT
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTT
*
59962558 TCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATATGCGAAGAATTTGTGAAA
66 TCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAA
* * * * * *
59962619 TCGCGCCCTCCTGGACGCGCTTTTGCTACAGT-TGTCCTGGAAGAAATAATTTTGAGTTGACATT
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTT
* * * * *
59962683 TCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGCTTTATGAGAAGAATTTGTGAAA
66 TCTGAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAA
* * * *
59962743 TCGCGCCCACGTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAAATTATTTCAAGTTGACGTT
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTT
* * * *
59962808 TCTGAGCAAATAGTATAAAAAACGCTTTAAGTAGGATGCTATTTGAGAAGAATTTCTGAAA
66 TCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAA
* * * * * *
59962869 TCACGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGTAGAATTAATTTCGAGTTGACGTT
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTT
* * *
59962934 TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAA
66 TCTGAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAA
* *
59962994 TCGCACCCACGTGGACGCGCTTTTGCTATAGTAG
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
59963028 CATGTATGGG
Statistics
Matches: 353, Mismatches: 53, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
124 72 0.20
125 175 0.50
126 106 0.30
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (125 bp):
TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTT
TCTGAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAA
Found at i:59966210 original size:28 final size:28
Alignment explanation
Indices: 59966178--59966240 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
59966168 GTTTAGGGTA
59966178 TAGGGTTAG-GGTTTTTAAGTTAAA-GGTT
1 TAGGGTTAGAGG-TTTTAAG-TAAATGGTT
*
59966206 TAGGGTTTGAGGTTTTAAGTAAATGGTT
1 TAGGGTTAGAGGTTTTAAGTAAATGGTT
*
59966234 TAAGGTT
1 TAGGGTT
59966241 TTTAGGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.13
28 25 0.81
29 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (28 bp):
TAGGGTTAGAGGTTTTAAGTAAATGGTT
Found at i:59966234 original size:43 final size:45
Alignment explanation
Indices: 59966187--59966276 Score: 100
Period size: 43 Copynumber: 2.1 Consensus size: 45
59966177 ATAGGGTTAG
*
59966187 GGTTTTTAA-G-TTAAAGGTTTAGGGTTTGAGGTTTTAAG-TAAA
1 GGTTTTTAAGGTTTAAAGGTTTAGAGTTTGAGGTTTTAAGTTAAA
** *
59966229 TGG--TTTAAGGTTTTTAGGTTTAGAGTTTGGGGTTTTAAGTTAAA
1 -GGTTTTTAAGGTTTAAAGGTTTAGAGTTTGAGGTTTTAAGTTAAA
59966273 GGTT
1 GGTT
59966277 ATAGTTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
41 5 0.13
42 1 0.03
43 28 0.74
44 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (45 bp):
GGTTTTTAAGGTTTAAAGGTTTAGAGTTTGAGGTTTTAAGTTAAA
Found at i:59966308 original size:43 final size:42
Alignment explanation
Indices: 59966201--59966328 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 42
59966191 TTTAAGTTAA
59966201 AGGTTTAGGGTTTGAGGTTTTAAG-TAAATGGTTTAAGGTTTTT
1 AGGTTTAGGGTTTG-GGTTTTAAGTTAAA-GGTTTAAGGTTTTT
*
59966244 AGGTTTAGAGTTTGGGGTTTTAAGTTAAAGG-TTATA-GTTTTT
1 AGGTTTAGGGTTT-GGGTTTTAAGTTAAAGGTTTA-AGGTTTTT
* * * *
59966286 AGGTTTAGGGTTAATGGTTTTTAATTTTAAGGTTTAGGGTTTT
1 AGGTTTAGGGTT--TGGGTTTTAAGTTAAAGGTTTAAGGTTTT
59966329 AGGGTTTTAA
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
42 20 0.28
43 38 0.53
44 14 0.19
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (42 bp):
AGGTTTAGGGTTTGGGTTTTAAGTTAAAGGTTTAAGGTTTTT
Found at i:59966343 original size:23 final size:23
Alignment explanation
Indices: 59966310--59966402 Score: 86
Period size: 23 Copynumber: 4.2 Consensus size: 23
59966300 TGGTTTTTAA
*
59966310 TTTTAAGGTTTAGGGTTTTAGGG
1 TTTTAAGGTTTAGAGTTTTAGGG
* **
59966333 TTTTAAAGTTTAGTA-TTTTAAAG
1 TTTTAAGGTTTAG-AGTTTTAGGG
*
59966356 TTTTTAGGTTTAGAG-TTTAGGG
1 TTTTAAGGTTTAGAGTTTTAGGG
* *
59966378 -TTTAGGGTTTA-AATTTTAGGG
1 TTTTAAGGTTTAGAGTTTTAGGG
59966399 TTTT
1 TTTT
59966403 TAAGTTAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.02
21 16 0.29
22 9 0.16
23 29 0.53
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (23 bp):
TTTTAAGGTTTAGAGTTTTAGGG
Found at i:59966344 original size:15 final size:15
Alignment explanation
Indices: 59966326--59966380 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
59966316 GGTTTAGGGT
59966326 TTTAGGGTTTTAAAG
1 TTTAGGGTTTTAAAG
**
59966341 TTTAGTATTTTAAAG
1 TTTAGGGTTTTAAAG
*
59966356 TTTTTA-GG-TTTAGAG
1 --TTTAGGGTTTTAAAG
59966371 TTTAGGGTTT
1 TTTAGGGTTT
59966381 AGGGTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
13 4 0.13
14 2 0.06
15 21 0.68
17 4 0.13
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTTAAAG
Found at i:59966388 original size:21 final size:21
Alignment explanation
Indices: 59966358--59966603 Score: 67
Period size: 21 Copynumber: 12.1 Consensus size: 21
59966348 TTTTAAAGTT
59966358 TTTA-GGTTTAGAGTTTAGGG
1 TTTAGGGTTTAGAGTTTAGGG
* *
59966378 TTTAGGGTTTAAATTTTAGGG
1 TTTAGGGTTTAGAGTTTAGGG
* **
59966399 -TT----TTTA-AGTTAATAG
1 TTTAGGGTTTAGAGTTTAGGG
*
59966414 TTATA--GTTTAAAGTTTAGTGG
1 TT-TAGGGTTTAGAGTTTAG-GG
* *
59966435 TTTTA-AGTTAAG-GTTTAGGGG
1 -TTTAGGGTTTAGAGTTTA-GGG
** * * *
59966456 TTTAATGTTTAGGGCTTAAGG
1 TTTAGGGTTTAGAGTTTAGGG
* *
59966477 CTTAGGGTTTAGTGTTTAGGG
1 TTTAGGGTTTAGAGTTTAGGG
59966498 TTT----TTTA-AGTTTAGGG
1 TTTAGGGTTTAGAGTTTAGGG
* *
59966514 TTTAGGGGTTTAAAGTTTAAAGG
1 TTTA-GGGTTTAGAGTTT-AGGG
* * **
59966537 TTTAGGATTTAGGGTTTAATG
1 TTTAGGGTTTAGAGTTTAGGG
* * *
59966558 CTTAGTGTTTTAGAGTTTAGTG
1 TTTAG-GGTTTAGAGTTTAGGG
* *
59966580 TTTAGAGTTTA-AGGTTTAAGG
1 TTTAGGGTTTAGA-GTTTAGGG
59966601 TTT
1 TTT
59966604 TTAAGTTAAG
Statistics
Matches: 168, Mismatches: 37, Indels: 41
0.68 0.15 0.17
Matches are distributed among these distances:
15 5 0.03
16 16 0.10
17 5 0.03
19 4 0.02
20 16 0.10
21 72 0.43
22 43 0.26
23 7 0.04
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (21 bp):
TTTAGGGTTTAGAGTTTAGGG
Found at i:59966516 original size:23 final size:22
Alignment explanation
Indices: 59966426--59966542 Score: 85
Period size: 21 Copynumber: 5.3 Consensus size: 22
59966416 ATAGTTTAAA
* * *
59966426 GTTTAGTGGTTTTAAG-TTAAG
1 GTTTAGGGGTTTAAAGTTTAGG
*
59966447 GTTTAGGGGTTTAATGTTTAGG
1 GTTTAGGGGTTTAAAGTTTAGG
* * * ** *
59966469 GCTTA-AGGCTTAGGGTTTAGT
1 GTTTAGGGGTTTAAAGTTTAGG
* *
59966490 GTTTAGGGTTTTTTAAGTTTAGG
1 GTTTAGGG-GTTTAAAGTTTAGG
*
59966513 GTTTAGGGGTTTAAAGTTTAAAG
1 GTTTAGGGGTTTAAAGTTT-AGG
59966536 GTTTAGG
1 GTTTAGG
59966543 ATTTAGGGTT
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
21 28 0.39
22 18 0.25
23 25 0.35
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.44
Consensus pattern (22 bp):
GTTTAGGGGTTTAAAGTTTAGG
Found at i:59966524 original size:8 final size:7
Alignment explanation
Indices: 59966446--59966603 Score: 66
Period size: 7 Copynumber: 21.7 Consensus size: 7
59966436 TTTAAGTTAA
59966446 GGTTTAGG
1 GGTTTA-G
*
59966454 GGTTTAA
1 GGTTTAG
*
59966461 TGTTTAG
1 GGTTTAG
* *
59966468 GGCTTAA
1 GGTTTAG
*
59966475 GGCTTAG
1 GGTTTAG
59966482 GGTTTAG
1 GGTTTAG
*
59966489 TGTTTAG
1 GGTTTAG
59966496 GGTTTTTTA-
1 GG---TTTAG
*
59966505 AGTTTAG
1 GGTTTAG
59966512 GGTTTAGG
1 GGTTTA-G
*
59966520 GGTTTAA
1 GGTTTAG
* *
59966527 AGTTTAAA
1 GGTTT-AG
59966535 GGTTTAG
1 GGTTTAG
*
59966542 GATTTAG
1 GGTTTAG
*
59966549 GGTTTAA
1 GGTTTAG
* *
59966556 TGCTTAG
1 GGTTTAG
*
59966563 TGTTTTAG
1 -GGTTTAG
*
59966571 AGTTTAG
1 GGTTTAG
*
59966578 TGTTTAG
1 GGTTTAG
* *
59966585 AGTTTAA
1 GGTTTAG
*
59966592 GGTTTAA
1 GGTTTAG
59966599 GGTTT
1 GGTTT
59966604 TTAAGTTAAG
Statistics
Matches: 112, Mismatches: 31, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
6 4 0.04
7 80 0.71
8 23 0.21
9 1 0.01
10 4 0.04
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:59966531 original size:15 final size:14
Alignment explanation
Indices: 59966442--59966603 Score: 88
Period size: 14 Copynumber: 11.6 Consensus size: 14
59966432 TGGTTTTAAG
59966442 TTAAGGTTTAGGGGT
1 TTAAGGTTTA-GGGT
* *
59966457 TTAATGTTTAGGGC
1 TTAAGGTTTAGGGT
*
59966471 TTAAGGCTTAGGGT
1 TTAAGGTTTAGGGT
59966485 TT-AGTGTTTAGGGT
1 TTAAG-GTTTAGGGT
*
59966499 TT----TTTA-AGT
1 TTAAGGTTTAGGGT
*
59966508 TTAGGGTTTAGGGGT
1 TTAAGGTTTA-GGGT
* *
59966523 TTAAAGTTTAAAGGT
1 TTAAGGTTT-AGGGT
59966538 TT-AGGATTTAGGGT
1 TTAAGG-TTTAGGGT
* * *
59966552 TTAATGCTTAGTGT
1 TTAAGGTTTAGGGT
* *
59966566 TTTAGAGTTTAGTGT
1 TTAAG-GTTTAGGGT
*
59966581 TT-AGAGTTTAAGGT
1 TTAAG-GTTTAGGGT
59966595 TTAAGGTTT
1 TTAAGGTTT
59966604 TTAAGTTAAG
Statistics
Matches: 114, Mismatches: 21, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
9 4 0.04
10 4 0.04
13 6 0.05
14 59 0.52
15 40 0.35
16 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (14 bp):
TTAAGGTTTAGGGT
Found at i:59966569 original size:22 final size:21
Alignment explanation
Indices: 59966544--59966598 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
59966534 AGGTTTAGGA
*
59966544 TTTAGGGTTTAATGCTTAGTG
1 TTTAGGGTTTAATGCTTAGAG
* * *
59966565 TTTTAGAGTTTAGTGTTTAGAG
1 -TTTAGGGTTTAATGCTTAGAG
*
59966587 TTTAAGGTTTAA
1 TTTAGGGTTTAA
59966599 GGTTTTTAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.24, C:0.02, G:0.25, T:0.49
Consensus pattern (21 bp):
TTTAGGGTTTAATGCTTAGAG
Found at i:59966596 original size:29 final size:28
Alignment explanation
Indices: 59966426--59966603 Score: 114
Period size: 29 Copynumber: 6.1 Consensus size: 28
59966416 ATAGTTTAAA
59966426 GTTTAGTGGTTTTA-AG-TTAAGGTTTAGGG
1 GTTTAGT-G-TTTAGAGTTTAAGGTTTA-GG
* * * *
59966455 GTTTAATGTTTAGGGCTTAAGGCTTAGG
1 GTTTAGTGTTTAGAGTTTAAGGTTTAGG
*
59966483 GTTTAGTGTTTAGGGTTTTTTAA-GTTTAGG
1 GTTTAGTGTTTAGAG---TTTAAGGTTTAGG
* *
59966513 GTTTAGGGGTTTAAAGTTTAAAGGTTTAGG
1 GTTTA-GTGTTTAGAGTTT-AAGGTTTAGG
* * * *
59966543 ATTTAGGGTTTA-ATGCTT-AGTGTTTTAGA
1 GTTTAGTGTTTAGA-GTTTAAG-G-TTTAGG
*
59966572 GTTTAGTGTTTAGAGTTTAAGGTTTAAG
1 GTTTAGTGTTTAGAGTTTAAGGTTTAGG
59966600 GTTT
1 GTTT
59966604 TTAAGTTAAG
Statistics
Matches: 119, Mismatches: 17, Indels: 27
0.73 0.10 0.17
Matches are distributed among these distances:
27 6 0.05
28 31 0.26
29 46 0.39
30 25 0.21
31 11 0.09
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (28 bp):
GTTTAGTGTTTAGAGTTTAAGGTTTAGG
Found at i:59966639 original size:33 final size:34
Alignment explanation
Indices: 59966588--59966681 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 34
59966578 TGTTTAGAGT
* *
59966588 TTAAGGTTTAAGGTTTTTAAGTTAAGGGTTAGGA
1 TTAAGGATTAGGGTTTTTAAGTTAAGGGTTAGGA
*
59966622 TTAAGG-TTAGGGTTTTTAAGTTAATGGTTAGGA
1 TTAAGGATTAGGGTTTTTAAGTTAAGGGTTAGGA
**
59966655 TT-AGGATTAGATTTTTTAAGTTAAGGG
1 TTAAGGATTAGGGTTTTTAAGTTAAGGG
59966682 GTATGGTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 3 0.06
33 45 0.83
34 6 0.11
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (34 bp):
TTAAGGATTAGGGTTTTTAAGTTAAGGGTTAGGA
Found at i:59966850 original size:32 final size:31
Alignment explanation
Indices: 59966814--59966883 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
59966804 GGTTTAAAGT
* *
59966814 TTAAGGTTAAGATTATGGTTATAGATTTTAAG
1 TTAAGGTTAAGATTAAGATTAT-GATTTTAAG
* *
59966846 TTAAGGGTTAGGATTAAGATTATGGTTTTAAG
1 TTAA-GGTTAAGATTAAGATTATGATTTTAAG
59966878 TTAAGG
1 TTAAGG
59966884 GTTATAGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 2 0.06
32 16 0.48
33 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (31 bp):
TTAAGGTTAAGATTAAGATTATGATTTTAAG
Found at i:59966884 original size:32 final size:32
Alignment explanation
Indices: 59966793--59966887 Score: 102
Period size: 33 Copynumber: 2.9 Consensus size: 32
59966783 ATTCAAATGT
* *
59966793 TTAAGATTTAGGGTTTAAAGTTTAA-GGTTAAGA
1 TTAAGA-TTATGGTTTTAAG-TTAAGGGTTAAGA
* * * *
59966826 TTATGGTTATAGATTTTAAGTTAAGGGTTAGGA
1 TTAAGATTAT-GGTTTTAAGTTAAGGGTTAAGA
59966859 TTAAGATTATGGTTTTAAGTTAAGGGTTA
1 TTAAGATTATGGTTTTAAGTTAAGGGTTA
59966888 TAGTTTTTAG
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
32 25 0.49
33 26 0.51
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (32 bp):
TTAAGATTATGGTTTTAAGTTAAGGGTTAAGA
Found at i:59966916 original size:22 final size:22
Alignment explanation
Indices: 59966891--59966975 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 22
59966881 AGGGTTATAG
59966891 TTTTTAGGTTTAAGGTTTTTAA
1 TTTTTAGGTTTAAGGTTTTTAA
*
59966913 -TTTTATGGTTTAGGGTTTTTAA
1 TTTTTA-GGTTTAAGGTTTTTAA
* *
59966935 TGTTTAGTGTTTAAAG--TTTAA
1 TTTTTAG-GTTTAAGGTTTTTAA
*
59966956 GGTTTTTAGGTTTAGGGTTT
1 --TTTTTAGGTTTAAGGTTT
59966976 AGTATTTGGA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
21 10 0.20
22 22 0.45
23 16 0.33
24 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (22 bp):
TTTTTAGGTTTAAGGTTTTTAA
Found at i:59967026 original size:14 final size:14
Alignment explanation
Indices: 59966914--59967032 Score: 59
Period size: 14 Copynumber: 8.3 Consensus size: 14
59966904 GGTTTTTAAT
*
59966914 TTTATGGTTTAGGG
1 TTTAAGGTTTAGGG
* *
59966928 TTTTTAATGTTTAGTG
1 --TTTAAGGTTTAGGG
* *
59966944 TTTAAAGTTTAAGGT
1 TTTAAGGTTT-AGGG
*
59966959 TTTTAGGTTTAGGG
1 TTTAAGGTTTAGGG
*
59966973 TTT-A-GTATTTGGAG
1 TTTAAGGT-TTAGG-G
*
59966987 TTT-AGAGTTTATGGTT
1 TTTAAG-GTTTA-GG-G
59967003 TTTAA-G-TTAGGG
1 TTTAAGGTTTAGGG
59967015 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
59967029 TTTA
1 TTTA
59967033 GTAGTTATAT
Statistics
Matches: 80, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
12 7 0.09
13 8 0.10
14 33 0.41
15 13 0.16
16 18 0.22
17 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:59967033 original size:21 final size:21
Alignment explanation
Indices: 59966930--59967146 Score: 67
Period size: 21 Copynumber: 10.1 Consensus size: 21
59966920 GTTTAGGGTT
* * *
59966930 TTTAATGTTTAGTGTTTAAAG
1 TTTAAGGTTTAGGGTTTAGAG
*
59966951 TTTAAGGTTTTTA-GGTTTAGGG
1 TTTAAGG--TTTAGGGTTTAGAG
*
59966973 TTT-A-GTATTTGGAGTTTAGAG
1 TTTAAGGT-TTAGG-GTTTAGAG
* * *
59966994 TTTATGGTTTTTA-AG-TTAGGG
1 TTTAAGG--TTTAGGGTTTAGAG
59967015 TTTAAGGTTTAGGGTTTAGTAG
1 TTTAAGGTTTAGGGTTTAG-AG
** *
59967037 -TTATATTTTTA-GGTTTAGGG
1 TTTA-AGGTTTAGGGTTTAGAG
** *
59967057 TTT-AGGATTTTAAAGTTTAATAG
1 TTTAAGG--TTTAGGGTTT-AGAG
*
59967080 TTTAAGATTTAGGGTTTA-AG
1 TTTAAGGTTTAGGGTTTAGAG
* *
59967100 ATTTATGGTTTTAAGGTTTAGAG
1 -TTTAAGG-TTTAGGGTTTAGAG
* *
59967123 TTT-AGAGTTTAAGGTTTAGTG
1 TTTAAG-GTTTAGGGTTTAGAG
59967144 TTT
1 TTT
59967147 TTAAGTTAAG
Statistics
Matches: 144, Mismatches: 29, Indels: 46
0.66 0.13 0.21
Matches are distributed among these distances:
18 1 0.01
19 7 0.05
20 6 0.04
21 71 0.49
22 42 0.29
23 12 0.08
24 4 0.03
25 1 0.01
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (21 bp):
TTTAAGGTTTAGGGTTTAGAG
Found at i:59967038 original size:28 final size:27
Alignment explanation
Indices: 59966960--59967061 Score: 91
Period size: 28 Copynumber: 3.7 Consensus size: 27
59966950 GTTTAAGGTT
*
59966960 TTTAGGTTTAGGGTTTAGTA-TTTGGAG
1 TTTAGGTTTAGGGTTTAGTAGTTAGG-G
* *
59966987 TTTAGAGTTTATGGTTT-TTAAGTTAGGG
1 TTTAG-GTTTAGGGTTTAGT-AGTTAGGG
***
59967015 TTTAAGGTTTAGGGTTTAGTAGTTATATT
1 TTT-AGGTTTAGGGTTTAGTAGTTA-GGG
59967044 TTTAGGTTTAGGGTTTAG
1 TTTAGGTTTAGGGTTTAG
59967062 GATTTTAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
27 6 0.10
28 45 0.74
29 10 0.16
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (27 bp):
TTTAGGTTTAGGGTTTAGTAGTTAGGG
Found at i:59967112 original size:29 final size:29
Alignment explanation
Indices: 59967080--59967139 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
59967070 AGTTTAATAG
* *
59967080 TTTAAGATTTAGGGTTTA-AGATTTATGGT
1 TTTAAGATTTAGAGTTTAGAG-TTTAAGGT
*
59967109 TTTAAGGTTTAGAGTTTAGAGTTTAAGGT
1 TTTAAGATTTAGAGTTTAGAGTTTAAGGT
59967138 TT
1 TT
59967140 AGTGTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (29 bp):
TTTAAGATTTAGAGTTTAGAGTTTAAGGT
Found at i:59967114 original size:15 final size:14
Alignment explanation
Indices: 59967079--59967140 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
59967069 AAGTTTAATA
59967079 GTTTAAGATTTAGG
1 GTTTAAGATTTAGG
59967093 GTTTAAGATTTATGG
1 GTTTAAGATTTA-GG
* * *
59967108 TTTTAAGGTTTAGA
1 GTTTAAGATTTAGG
*
59967122 GTTT-AGAGTTTAAG
1 GTTTAAGA-TTTAGG
59967136 GTTTA
1 GTTTA
59967141 GTGTTTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 2 0.05
14 24 0.63
15 12 0.32
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (14 bp):
GTTTAAGATTTAGG
Found at i:59967127 original size:36 final size:36
Alignment explanation
Indices: 59967044--59967151 Score: 96
Period size: 36 Copynumber: 3.0 Consensus size: 36
59967034 TAGTTATATT
* ** *
59967044 TTTAG-GTTTAGGGTTTAGGATTTTAAAG-TTTAATAG
1 TTTAGAGTTTAGGGTTTAAGA-TTTATGGTTTTAA-GG
59967080 TTTA-AGATTTAGGGTTTAAGATTTATGGTTTTAAGG
1 TTTAGAG-TTTAGGGTTTAAGATTTATGGTTTTAAGG
* * *
59967116 TTTAGAGTTTAGAGTTTAAGGTTTAGTGTTTTTAAG
1 TTTAGAGTTTAGGGTTTAAGATTTA-TGGTTTTAAG
59967152 TTAAGGGTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
36 31 0.52
37 29 0.48
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (36 bp):
TTTAGAGTTTAGGGTTTAAGATTTATGGTTTTAAGG
Found at i:59967201 original size:21 final size:22
Alignment explanation
Indices: 59967177--59967226 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
59967167 AGGGTTAGTA
59967177 TTTTTAAGTCAACGG-TTATGG
1 TTTTTAAGTCAACGGTTTATGG
* ** *
59967198 TTTTTAGGTTTAGGGTTTATGG
1 TTTTTAAGTCAACGGTTTATGG
59967220 TTTTTAA
1 TTTTTAA
59967227 TATTTAAGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.20, C:0.04, G:0.24, T:0.52
Consensus pattern (22 bp):
TTTTTAAGTCAACGGTTTATGG
Found at i:59967217 original size:22 final size:22
Alignment explanation
Indices: 59967192--59967397 Score: 99
Period size: 22 Copynumber: 9.5 Consensus size: 22
59967182 AAGTCAACGG
59967192 TTATGGTTTTTAGGTTTAGGGT
1 TTATGGTTTTTAGGTTTAGGGT
** *
59967214 TTATGGTTTTTAATATTTAAGGT
1 TTATGGTTTTT-AGGTTTAGGGT
*
59967237 TTATGGTTTAT-GGTTTTTA-GGT
1 TTATGGTTTTTAGG--TTTAGGGT
* *
59967259 TTA--GTGTTTAGTGTTTAGTGT
1 TTATGGTTTTTAG-GTTTAGGGT
* * * *
59967280 TTAGGGGTTTTAAG-TTATGAG-
1 TTATGGTTTTTAGGTTTA-GGGT
* *
59967301 TTATGATTTAT-GGTTTAGGGT
1 TTATGGTTTTTAGGTTTAGGGT
*
59967322 TTA-GGTTTTTTAGGTTTAAGGT
1 TTATGG-TTTTTAGGTTTAGGGT
* * **
59967344 TTGTGGTTTTTAAGTTTAAAGT
1 TTATGGTTTTTAGGTTTAGGGT
*
59967366 TTA-GAGTTTTATA-TTTTAGGGT
1 TTATG-GTTTT-TAGGTTTAGGGT
*
59967388 TTAAGGTTTT
1 TTATGGTTTT
59967398 AAGTTAATGG
Statistics
Matches: 138, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
20 12 0.09
21 27 0.20
22 67 0.49
23 32 0.23
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.54
Consensus pattern (22 bp):
TTATGGTTTTTAGGTTTAGGGT
Found at i:59967232 original size:23 final size:22
Alignment explanation
Indices: 59967192--59967245 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
59967182 AAGTCAACGG
* *
59967192 TTATGGTTTTTAGGTTTAGGGT
1 TTATGGTTTTTAGATTTAAGGT
*
59967214 TTATGGTTTTTAATATTTAAGGT
1 TTATGGTTTTT-AGATTTAAGGT
59967237 TTATGGTTT
1 TTATGGTTT
59967246 ATGGTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (22 bp):
TTATGGTTTTTAGATTTAAGGT
Found at i:59967267 original size:7 final size:7
Alignment explanation
Indices: 59967252--59967283 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
59967242 GTTTATGGTT
59967252 TTTAG-G
1 TTTAGTG
59967258 TTTAGTG
1 TTTAGTG
59967265 TTTAGTG
1 TTTAGTG
59967272 TTTAGTG
1 TTTAGTG
59967279 TTTAG
1 TTTAG
59967284 GGGTTTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (7 bp):
TTTAGTG
Found at i:59967339 original size:15 final size:17
Alignment explanation
Indices: 59967314--59967345 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
59967304 TGATTTATGG
59967314 TTTAGGGTTT-AGGTTT
1 TTTAGGGTTTAAGGTTT
59967330 TTTA-GGTTTAAGGTTT
1 TTTAGGGTTTAAGGTTT
59967346 GTGGTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (17 bp):
TTTAGGGTTTAAGGTTT
Found at i:59967459 original size:7 final size:7
Alignment explanation
Indices: 59967447--59967604 Score: 86
Period size: 7 Copynumber: 21.7 Consensus size: 7
59967437 AGGGTCAGAA
59967447 TTAGGGT
1 TTAGGGT
59967454 TTAGGGT
1 TTAGGGT
*
59967461 TTATGGT
1 TTAGGGT
59967468 TTAGGGTTT
1 TTAGGG--T
59967477 TTA-GGT
1 TTAGGGT
59967483 TTAGGGT
1 TTAGGGT
*
59967490 TTATGGTT
1 TTA-GGGT
**
59967498 TTAAAGT
1 TTAGGGT
* *
59967505 TTAAAGAT
1 TT-AGGGT
*
59967513 TTAGTGT
1 TTAGGGT
59967520 TTA-GGT
1 TTAGGGT
*
59967526 TTATGGTT
1 TTA-GGGT
**
59967534 TTAAAGT
1 TTAGGGT
59967541 TTAGGGT
1 TTAGGGT
59967548 TTAGGGTT
1 TTAGGG-T
**
59967556 TTAAAAGT
1 TT-AGGGT
*
59967564 TTAGGATT
1 TTAGG-GT
59967572 TTAGGGT
1 TTAGGGT
*
59967579 TTAGGAT
1 TTAGGGT
*
59967586 TTAGAGT
1 TTAGGGT
*
59967593 TTAAGGT
1 TTAGGGT
59967600 TTAGG
1 TTAGG
59967605 ATTTTTAAGT
Statistics
Matches: 111, Mismatches: 30, Indels: 20
0.69 0.19 0.12
Matches are distributed among these distances:
6 9 0.08
7 66 0.59
8 30 0.27
9 6 0.05
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:59967485 original size:15 final size:14
Alignment explanation
Indices: 59967451--59967604 Score: 80
Period size: 15 Copynumber: 10.6 Consensus size: 14
59967441 TCAGAATTAG
59967451 GGTTTAGGGTTTAT
1 GGTTTAGGGTTTAT
*
59967465 GGTTTAGGGTTTTT
1 GGTTTAGGGTTTAT
59967479 AGGTTTAGGGTTTAT
1 -GGTTTAGGGTTTAT
** *
59967494 GGTTTTAAAGTTTAAA
1 GG-TTTAGGGTTT-AT
* *
59967510 GATTTAGTGTTTA-
1 GGTTTAGGGTTTAT
* *
59967523 GGTTTATGGTTTTAA
1 GGTTTA-GGGTTTAT
* *
59967538 AGTTTAGGGTTTAG
1 GGTTTAGGGTTTAT
**
59967552 GGTTTTAAAAGTTTA-
1 GG-TTT-AGGGTTTAT
59967567 GGATTTTAGGGTTTA-
1 GG--TTTAGGGTTTAT
* *
59967582 GGATTTAGAGTTTAA
1 GG-TTTAGGGTTTAT
59967597 GGTTTAGG
1 GGTTTAGG
59967605 ATTTTTAAGT
Statistics
Matches: 109, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
13 5 0.05
14 43 0.39
15 49 0.45
16 12 0.11
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
GGTTTAGGGTTTAT
Found at i:59967490 original size:22 final size:23
Alignment explanation
Indices: 59967453--59967499 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
59967443 AGAATTAGGG
*
59967453 TTTAGGGTTTATGGTTTAGGGTT
1 TTTAGGGTTTAGGGTTTAGGGTT
*
59967476 TTTA-GGTTTAGGGTTTATGGTT
1 TTTAGGGTTTAGGGTTTAGGGTT
59967498 TT
1 TT
59967500 AAAGTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.32, T:0.55
Consensus pattern (23 bp):
TTTAGGGTTTAGGGTTTAGGGTT
Found at i:59967490 original size:29 final size:29
Alignment explanation
Indices: 59967451--59967556 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
59967441 TCAGAATTAG
* *
59967451 GGTTTAGGGTTTATGGTTTAGGGTTTTTA
1 GGTTTAGGGTTTATGGTTTAAGGTTTTAA
* *
59967480 GGTTTAGGGTTTATGGTTTTAAAGTTTAAA
1 GGTTTAGGGTTTATGG-TTTAAGGTTTTAA
* * *
59967510 GATTTAGTGTTTA-GGTTTATGGTTTTAA
1 GGTTTAGGGTTTATGGTTTAAGGTTTTAA
* *
59967538 AGTTTAGGGTTTAGGGTTT
1 GGTTTAGGGTTTATGGTTT
59967557 TAAAAGTTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 20 0.32
29 23 0.37
30 20 0.32
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (29 bp):
GGTTTAGGGTTTATGGTTTAAGGTTTTAA
Found at i:59967506 original size:22 final size:22
Alignment explanation
Indices: 59967459--59967580 Score: 73
Period size: 22 Copynumber: 5.8 Consensus size: 22
59967449 AGGGTTTAGG
* * *
59967459 GTTTATGGTTTAGGGTTTTTAG
1 GTTTAGGGTTTAGGGTTTTAAA
*
59967481 GTTTAGGGTTTATGGTTTTAAA
1 GTTTAGGGTTTAGGGTTTTAAA
* * * *
59967503 GTTTAAAGATTTAGTG-TTT-AG
1 GTTT-AGGGTTTAGGGTTTTAAA
59967524 GTTTA-----T-GG-TTTTAAA
1 GTTTAGGGTTTAGGGTTTTAAA
59967539 GTTTAGGGTTTAGGGTTTTAAAA
1 GTTTAGGGTTTAGGGTTTT-AAA
*
59967562 GTTTAGGATTTTAGGGTTT
1 GTTTAGG-GTTTAGGGTTT
59967581 AGGATTTAGA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
14 4 0.05
15 7 0.09
20 2 0.03
21 7 0.09
22 29 0.38
23 17 0.22
24 10 0.13
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (22 bp):
GTTTAGGGTTTAGGGTTTTAAA
Found at i:59967617 original size:21 final size:24
Alignment explanation
Indices: 59967576--59967628 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 24
59967566 AGGATTTTAG
59967576 GGTTTAGGA--TTTAGAGTTT-AA
1 GGTTTAGGATTTTTAGAGTTTAAA
59967597 GGTTTAGGATTTTTA-AG-TTAAA
1 GGTTTAGGATTTTTAGAGTTTAAA
59967619 GG-TTAGGATT
1 GGTTTAGGATT
59967629 AAGGTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 19 0.66
22 6 0.21
23 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (24 bp):
GGTTTAGGATTTTTAGAGTTTAAA
Found at i:59967662 original size:21 final size:22
Alignment explanation
Indices: 59967638--59967700 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
59967628 TAAGGTTAGT
59967638 GTTTTTAAG-TTAGTGG-TTATG
1 GTTTTTAAGTTTAG-GGTTTATG
*
59967659 GTTTTTTAGTTTAGGGTTTATG
1 GTTTTTAAGTTTAGGGTTTATG
59967681 GTTTTTAA-TTATAGGGTTTA
1 GTTTTTAAGTT-TAGGGTTTA
59967701 GTGTTTAGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 12 0.32
22 25 0.68
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (22 bp):
GTTTTTAAGTTTAGGGTTTATG
Found at i:59967700 original size:29 final size:27
Alignment explanation
Indices: 59967667--59967770 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 27
59967657 TGGTTTTTTA
59967667 GTTTAGGGTTTATGGTTTTTAATTATAGG
1 GTTTAGGGTTTA-GGTTTTTAATTATA-G
* * *
59967696 GTTTAGTGTTTAGTGTTTAATT-TTTTTAG
1 GTTTAGGGTTTAG-GTTT--TTAATTATAG
* *
59967725 GTTTAGGGTTTAGGTTTTAAAATCTAAAG
1 GTTTAGGGTTTAGGTTTT-TAAT-TATAG
59967754 GTTTAGGGTTTAAGGTT
1 GTTTAGGGTTT-AGGTT
59967771 CAGAGTTTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
26 1 0.02
28 6 0.10
29 42 0.70
30 9 0.15
31 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.26, T:0.51
Consensus pattern (27 bp):
GTTTAGGGTTTAGGTTTTTAATTATAG
Found at i:59967706 original size:22 final size:21
Alignment explanation
Indices: 59967633--59967706 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
59967623 AGGATTAAGG
*
59967633 TTAGTGTTTTTAAGTTAGTGGT
1 TTAGTGTTTTTAATTTAG-GGT
* *
59967655 TATGGT-TTTTTAGTTTAGGGT
1 T-TAGTGTTTTTAATTTAGGGT
59967676 TTA-TGGTTTTTAATTATAGGGT
1 TTAGT-GTTTTTAATT-TAGGGT
59967698 TTAGTGTTT
1 TTAGTGTTT
59967707 AGTGTTTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 12 0.29
22 24 0.57
23 4 0.10
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.57
Consensus pattern (21 bp):
TTAGTGTTTTTAATTTAGGGT
Found at i:59967742 original size:22 final size:23
Alignment explanation
Indices: 59967697--59967742 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
59967687 AATTATAGGG
* *
59967697 TTTAGTGTTTAGTGTTTAATTTT
1 TTTAGTGTTTAGGGTTTAAGTTT
*
59967720 TTTAG-GTTTAGGGTTTAGGTTT
1 TTTAGTGTTTAGGGTTTAAGTTT
59967742 T
1 T
59967743 AAAATCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.61
Consensus pattern (23 bp):
TTTAGTGTTTAGGGTTTAAGTTT
Found at i:59967833 original size:33 final size:33
Alignment explanation
Indices: 59967797--59967939 Score: 153
Period size: 33 Copynumber: 4.2 Consensus size: 33
59967787 ATGATTTAAT
* *
59967797 GTTTTTAAAG-TAAAGGTTAGGATTAGGGTTAGT
1 GTTTTT-AAGTTAAAGGTTAGGATTAGGATTAGG
* **
59967830 GTTTTTAAGTTAAGGGTTAAAATTAGGATTAGG
1 GTTTTTAAGTTAAAGGTTAGGATTAGGATTAGG
*
59967863 GTTTTTAAGTTAACGGTTAGGATTAGGATTAGG
1 GTTTTTAAGTTAAAGGTTAGGATTAGGATTAGG
* * * *
59967896 GTTTTTATGTTAAGGGTTATGTGTTTTAGGTTTAGG
1 GTTTTTAAGTTAAAGGTTA-G-G-ATTAGGATTAGG
59967932 GTTTTTAA
1 GTTTTTAA
59967940 TGTTTAGTGT
Statistics
Matches: 93, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
32 3 0.03
33 71 0.76
34 1 0.01
35 1 0.01
36 17 0.18
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.44
Consensus pattern (33 bp):
GTTTTTAAGTTAAAGGTTAGGATTAGGATTAGG
Found at i:59967976 original size:22 final size:21
Alignment explanation
Indices: 59967919--59968001 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 21
59967909 GGGTTATGTG
* *
59967919 TTTTAGGTTTAGGGTTTTTAAT
1 TTTTAGGTTTAAGG-TTTAAAT
*
59967941 GTTTAGTGTTTAAGGTTTAAGAT
1 TTTTAG-GTTTAAGGTTTAA-AT
59967964 TTTTAGGTTTAAGGTTT-AAT
1 TTTTAGGTTTAAGGTTTAAAT
* *
59967984 GTTTAGTGTTTAGGGTTT
1 TTTTAG-GTTTAAGGTTT
59968002 TTAAGTTAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
20 7 0.13
21 11 0.21
22 20 0.38
23 14 0.27
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.54
Consensus pattern (21 bp):
TTTTAGGTTTAAGGTTTAAAT
Found at i:59967981 original size:36 final size:35
Alignment explanation
Indices: 59967941--59968138 Score: 109
Period size: 36 Copynumber: 5.5 Consensus size: 35
59967931 GGTTTTTAAT
*
59967941 GTTTAGTGTTTAAGGTTTAAGATTTTTAGGTTTAAG
1 GTTTA-TGTTTAAGGTTTAAGATTTTTAGGTTTAGG
* * *
59967977 GTTTAATGTTT-AGTGTTTAGGGTTTTTAAG-TTAGG
1 GTTT-ATGTTTAAG-GTTTAAGATTTTTAGGTTTAGG
* * * * * *
59968012 GTTTAAGGTTTAGAGG-CTATGTTTTTTAAGTTTGGG
1 GTTT-ATGTTTA-AGGTTTAAGATTTTTAGGTTTAGG
* * *
59968048 GTTTATGGTTTTAAAGTTTAAG-TGTTTAAGATTTAGG
1 GTTTAT-G-TTTAAGGTTTAAGAT-TTTTAGGTTTAGG
* * * *
59968085 GTTTATGATTTATGGTTTTAGA-GTTTAGAGTTTATG
1 GTTTATG-TTTAAGGTTTAAGATTTTTAG-GTTTAGG
59968121 GTTTAATGTTTAAGGTTT
1 GTTT-ATGTTTAAGGTTT
59968139 TTTAGTTAAG
Statistics
Matches: 124, Mismatches: 26, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
35 32 0.26
36 64 0.52
37 28 0.23
ACGTcount: A:0.23, C:0.01, G:0.26, T:0.51
Consensus pattern (35 bp):
GTTTATGTTTAAGGTTTAAGATTTTTAGGTTTAGG
Found at i:59967995 original size:14 final size:15
Alignment explanation
Indices: 59967905--59968001 Score: 67
Period size: 14 Copynumber: 6.6 Consensus size: 15
59967895 GGTTTTTATG
* *
59967905 TTAAGGGTTATGTGT
1 TTAAGGTTTAAGTGT
* * *
59967920 TTTAGGTTTAGGGTTT
1 TTAAGGTTTA-AGTGT
*
59967936 TTAATGTTT-AGTGT
1 TTAAGGTTTAAGTGT
59967950 TTAAGGTTTAAGAT-T
1 TTAAGGTTTAAG-TGT
*
59967965 TTTAGGTTTAAG-GT
1 TTAAGGTTTAAGTGT
*
59967979 TTAATGTTT-AGTGT
1 TTAAGGTTTAAGTGT
*
59967993 TTAGGGTTT
1 TTAAGGTTT
59968002 TTAAGTTAGG
Statistics
Matches: 63, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
13 2 0.03
14 28 0.44
15 22 0.35
16 11 0.17
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.53
Consensus pattern (15 bp):
TTAAGGTTTAAGTGT
Found at i:59968023 original size:7 final size:7
Alignment explanation
Indices: 59967935--59968138 Score: 62
Period size: 7 Copynumber: 28.4 Consensus size: 7
59967925 GTTTAGGGTT
*
59967935 TTTAATG
1 TTTAAGG
59967942 TTT-AGTG
1 TTTAAG-G
59967949 TTTAAGG
1 TTTAAGG
*
59967956 TTTAAGAT
1 TTTAAG-G
*
59967964 TTTTAGG
1 TTTAAGG
59967971 TTTAAGG
1 TTTAAGG
*
59967978 TTTAATG
1 TTTAAGG
59967985 TTT-AGTG
1 TTTAAG-G
*
59967992 TTTAGGG
1 TTTAAGG
59967999 TTTTTAA-G
1 --TTTAAGG
*
59968007 -TTAGGG
1 TTTAAGG
59968013 TTTAAGG
1 TTTAAGG
59968020 TTTAGAGG
1 TTTA-AGG
* * *
59968028 -CTATGTTT
1 TTTAAG--G
59968036 TTTAA-G
1 TTTAAGG
**
59968042 TTTGGGG
1 TTTAAGG
*
59968049 TTTATGG
1 TTTAAGG
*
59968056 TTTTAAAG
1 -TTTAAGG
59968064 TTTAAGTG
1 TTTAAG-G
*
59968072 TTTAAGA
1 TTTAAGG
*
59968079 TTTAGGG
1 TTTAAGG
* *
59968086 TTTATGA
1 TTTAAGG
*
59968093 TTTATGG
1 TTTAAGG
*
59968100 TTTTAGAG
1 TTTAAG-G
59968108 TTT-AGAG
1 TTTAAG-G
*
59968115 TTTATGG
1 TTTAAGG
*
59968122 TTTAATG
1 TTTAAGG
59968129 TTTAAGG
1 TTTAAGG
59968136 TTT
1 TTT
59968139 TTTAGTTAAG
Statistics
Matches: 143, Mismatches: 36, Indels: 36
0.67 0.17 0.17
Matches are distributed among these distances:
5 3 0.02
6 7 0.05
7 98 0.69
8 29 0.20
9 6 0.04
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.51
Consensus pattern (7 bp):
TTTAAGG
Found at i:59968096 original size:29 final size:30
Alignment explanation
Indices: 59968064--59968138 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
59968054 GGTTTTAAAG
*
59968064 TTTAAGTGTTTAAGA-TTTAGGGTTTATGA
1 TTTAAGTGTTTAAGAGTTTAGAGTTTATGA
* * *
59968093 TTTATG-GTTTTAGAGTTTAGAGTTTATGG
1 TTTAAGTGTTTAAGAGTTTAGAGTTTATGA
59968122 TTTAA-TGTTTAAG-GTTT
1 TTTAAGTGTTTAAGAGTTT
59968139 TTTAGTTAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 11 0.29
29 27 0.71
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (30 bp):
TTTAAGTGTTTAAGAGTTTAGAGTTTATGA
Found at i:59968104 original size:22 final size:22
Alignment explanation
Indices: 59968035--59968124 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 22
59968025 AGGCTATGTT
* *
59968035 TTTTA-AGTTTGGGGTTTATGG
1 TTTTAGAGTTTAGAGTTTATGG
* * *
59968056 TTTTAAAGTTTAAGTGTTTA-AG
1 TTTTAGAGTTT-AGAGTTTATGG
* *
59968078 ATTTAGGGTTTATGA-TTTATGG
1 TTTTAGAGTTTA-GAGTTTATGG
59968100 TTTTAGAGTTTAGAGTTTATGG
1 TTTTAGAGTTTAGAGTTTATGG
59968122 TTT
1 TTT
59968125 AATGTTTAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
21 12 0.22
22 36 0.67
23 6 0.11
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (22 bp):
TTTTAGAGTTTAGAGTTTATGG
Found at i:59968179 original size:33 final size:33
Alignment explanation
Indices: 59968135--59968219 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
59968125 AATGTTTAAG
*
59968135 GTTTTTTAGTTAAGGGTTAAGATTATG-GTTAGT
1 GTTTTTAAGTTAAGGGTTAAGATTA-GAGTTAGT
*
59968168 GTTTTTAAGTTAAGGGTTAGGATTAGAGTTAGT
1 GTTTTTAAGTTAAGGGTTAAGATTAGAGTTAGT
59968201 GTTTTTAAGTTAAGGGTTA
1 GTTTTTAAGTTAAGGGTTA
59968220 TGGTTTTTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 1 0.02
33 48 0.98
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (33 bp):
GTTTTTAAGTTAAGGGTTAAGATTAGAGTTAGT
Found at i:59968242 original size:22 final size:22
Alignment explanation
Indices: 59968201--59968286 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
59968191 TAGAGTTAGT
*
59968201 GTTTTTAAGTTAAGGG-TTATG
1 GTTTTTAAGTTTAGGGTTTATG
* *
59968222 GTTTTTAGGTTTATGGTTTATG
1 GTTTTTAAGTTTAGGGTTTATG
* * *
59968244 GCTTTTAATTTTAGGGTTTAAG
1 GTTTTTAAGTTTAGGGTTTATG
*
59968266 GTTTTTAATATTTAGGGTTTA
1 GTTTTTAA-GTTTAGGGTTTA
59968287 CAATTTAGGG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 13 0.25
22 29 0.55
23 11 0.21
ACGTcount: A:0.21, C:0.01, G:0.24, T:0.53
Consensus pattern (22 bp):
GTTTTTAAGTTTAGGGTTTATG
Found at i:59968286 original size:7 final size:7
Alignment explanation
Indices: 59968276--59968327 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
59968266 GTTTTTAATA
59968276 TTTAGGG
1 TTTAGGG
***
59968283 TTTACAA
1 TTTAGGG
59968290 TTTAGGG
1 TTTAGGG
59968297 TTTAGGG
1 TTTAGGG
* *
59968304 TTTAAGA
1 TTTAGGG
*
59968311 TTTAGAG
1 TTTAGGG
59968318 TTTAGGG
1 TTTAGGG
59968325 TTT
1 TTT
59968328 TTAAGTTAAG
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:59968300 original size:21 final size:21
Alignment explanation
Indices: 59968276--59968327 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
59968266 GTTTTTAATA
*
59968276 TTTAGGGTTTACA-ATTTAGGG
1 TTTAGGGTTTA-AGATTTAGAG
59968297 TTTAGGGTTTAAGATTTAGAG
1 TTTAGGGTTTAAGATTTAGAG
59968318 TTTAGGGTTT
1 TTTAGGGTTT
59968328 TTAAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (21 bp):
TTTAGGGTTTAAGATTTAGAG
Found at i:59968307 original size:14 final size:14
Alignment explanation
Indices: 59968276--59968363 Score: 65
Period size: 14 Copynumber: 6.3 Consensus size: 14
59968266 GTTTTTAATA
* *
59968276 TTTAGGGTTTACAA
1 TTTAGGGTTTAGAG
*
59968290 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGAG
* *
59968304 TTTAAGATTTAGAG
1 TTTAGGGTTTAGAG
59968318 TTTAGGGTTTTTA-AG
1 TTTAGGG--TTTAGAG
*
59968333 TTAAGGG-TTATG-G
1 TTTAGGGTTTA-GAG
*
59968346 TTTATGGTTTAGAG
1 TTTAGGGTTTAGAG
59968360 TTTA
1 TTTA
59968364 TAGTTTTTAA
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
12 3 0.05
13 7 0.12
14 35 0.61
15 8 0.14
16 4 0.07
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAGAG
Found at i:59968409 original size:45 final size:43
Alignment explanation
Indices: 59968290--59968440 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 43
59968280 GGGTTTACAA
* * * * **
59968290 TTTAGGGTTTAGGGTTTAAGATTTAGAGTTTAGGGTTTTTAAG
1 TTTAAGGTTTAAGGTTTAGGGTTTAGAGTTTATAGTTTTTAAG
* * *
59968333 -TTAAGGGTTATGGTTTATGGTTTAGAGTTTATAGTTTTTAAG
1 TTTAAGGTTTAAGGTTTAGGGTTTAGAGTTTATAGTTTTTAAG
* *
59968375 TTTAAGGTTTAAGGTTTTAGGGTTTTAGGGTTTATGGTTTTTAAG
1 TTTAAGGTTTAAGG-TTTAGGG-TTTAGAGTTTATAGTTTTTAAG
* *
59968420 TTAAAGG-TTAA-GATTAGGGTT
1 TTTAAGGTTTAAGGTTTAGGGTT
59968441 AAGATTTTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.02
42 41 0.45
43 12 0.13
44 10 0.11
45 26 0.29
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (43 bp):
TTTAAGGTTTAAGGTTTAGGGTTTAGAGTTTATAGTTTTTAAG
Found at i:59968488 original size:13 final size:13
Alignment explanation
Indices: 59968470--59968786 Score: 62
Period size: 14 Copynumber: 23.0 Consensus size: 13
59968460 TTAGAATTAG
*
59968470 GGTTTATGGTTTA
1 GGTTTAAGGTTTA
*
59968483 GGTTTAAGGTTTG
1 GGTTTAAGGTTTA
59968496 GGTTTTAA-GTTTA
1 GG-TTTAAGGTTTA
*
59968509 TGGTTTTAGGTTTTA
1 -GGTTTAAGG-TTTA
*
59968524 GGGTTTTAA-GTTAA
1 -GG-TTTAAGGTTTA
* *
59968538 GGGTT-AGGATTA
1 GGTTTAAGGTTTA
* *
59968550 GGGTTATGGTTTTTA
1 GGTTTAAGG--TTTA
* *
59968565 AG-TTAAGGGTTA
1 GGTTTAAGGTTTA
*
59968577 TGGTTTTTAGGTTTA
1 -GG-TTTAAGGTTTA
59968592 GGTTT----TTTA
1 GGTTTAAGGTTTA
** *
59968601 ATTTTATGGTTTA
1 GGTTTAAGGTTTA
59968614 TGGTTTTTAATGG-TTA
1 -GG--TTTAA-GGTTTA
59968630 GTGTTTAAGGTTTAA
1 G-GTTTAAGGTTT-A
* *
59968645 GGGTTTTATGTTTA
1 -GGTTTAAGGTTTA
*
59968659 GGGTTTATGGTTTA
1 -GGTTTAAGGTTTA
*
59968673 TAGTTTAAGGTTTAA
1 -GGTTTAAGGTTT-A
*
59968688 GGTTTATGGTTTTTA
1 GGTTTAAGG--TTTA
*
59968703 AG-TTAAGGTTTAA
1 GGTTTAAGGTTT-A
*
59968716 GGTTTTGAGG-TTA
1 GG-TTTAAGGTTTA
* * *
59968729 TGTTTTTAGGTTTGG
1 -GGTTTAAGGTTT-A
59968744 GGTTTAAGGTTTTAA
1 GGTTTAAGG-TTT-A
*
59968759 AGTTTAAGGGTTTA
1 GGTTTAA-GGTTTA
*
59968773 GGATTTAGGGTTTA
1 GG-TTTAAGGTTTA
59968787 TGATTTAGAA
Statistics
Matches: 221, Mismatches: 47, Indels: 71
0.65 0.14 0.21
Matches are distributed among these distances:
9 7 0.03
11 1 0.00
12 16 0.07
13 44 0.20
14 79 0.36
15 54 0.24
16 18 0.08
17 2 0.01
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (13 bp):
GGTTTAAGGTTTA
Found at i:59968502 original size:14 final size:15
Alignment explanation
Indices: 59968466--59968542 Score: 69
Period size: 14 Copynumber: 5.5 Consensus size: 15
59968456 AGGGTTAGAA
*
59968466 TTAGGG-TTTATGGT
1 TTAGGGTTTTAAGGT
59968480 TTA-GG-TTTAAGGT
1 TTAGGGTTTTAAGGT
59968493 TT-GGGTTTTAA-GT
1 TTAGGGTTTTAAGGT
*
59968506 TTATGGTTTT-AGGTT
1 TTAGGGTTTTAAGG-T
59968521 TTAGGGTTTTAA-GT
1 TTAGGGTTTTAAGGT
*
59968535 TAAGGGTT
1 TTAGGGTT
59968543 AGGATTAGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
13 18 0.34
14 23 0.43
15 11 0.21
16 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (15 bp):
TTAGGGTTTTAAGGT
Found at i:59968542 original size:29 final size:27
Alignment explanation
Indices: 59968483--59968542 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
59968473 TTATGGTTTA
* *
59968483 GGTTTAAGGTTTGGGTTTTAAGTTTAT
1 GGTTTAAGGTTTGGGTTTTAAGTTAAG
*
59968510 GGTTTTAGGTTTTAGGGTTTTAAGTTAAG
1 GGTTTAAGG-TTT-GGGTTTTAAGTTAAG
59968539 GGTT
1 GGTT
59968543 AGGATTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.29
28 3 0.11
29 17 0.61
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (27 bp):
GGTTTAAGGTTTGGGTTTTAAGTTAAG
Found at i:59968571 original size:81 final size:82
Alignment explanation
Indices: 59968446--59968597 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 82
59968436 GGGTTAAGAT
*
59968446 TTTTAAGTTAAGGGTTAGAATTAGGGTTTATGGTTTAGGTTTAA-GGTT-TGGGTTTTAAGTTTA
1 TTTTAAGTTAAGGGTTAGAATTAGGGTTTATGGTTTAAGTTTAAGGGTTATGGGTTTTAAGTTTA
59968509 TGGTTTTAGGTTTTAGGG
66 -GGTTTTAGGTTTTAGGG
* * *
59968527 TTTTAAGTTAAGGGTTAGGATTAGGG-TTATGGTTTTTAAG-TTAAGGGTTATGGTTTTTAGGTT
1 TTTTAAGTTAAGGGTTAGAATTAGGGTTTATGG--TTTAAGTTTAAGGGTTATGGGTTTTAAGTT
59968590 TAGGTTTT
64 TAGGTTTT
59968598 TTAATTTTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
80 6 0.10
81 29 0.46
82 15 0.24
83 13 0.21
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (82 bp):
TTTTAAGTTAAGGGTTAGAATTAGGGTTTATGGTTTAAGTTTAAGGGTTATGGGTTTTAAGTTTA
GGTTTTAGGTTTTAGGG
Found at i:59968613 original size:7 final size:7
Alignment explanation
Indices: 59968603--59968699 Score: 65
Period size: 7 Copynumber: 13.4 Consensus size: 7
59968593 GTTTTTTAAT
59968603 TTTATGG
1 TTTATGG
59968610 TTTATGG
1 TTTATGG
59968617 TTTTTAATGG
1 --TTT-ATGG
59968627 -TTA-GTG
1 TTTATG-G
*
59968633 TTTAAGG
1 TTTATGG
*
59968640 TTTAAGGG
1 TTT-ATGG
59968648 TTTTAT-G
1 -TTTATGG
*
59968655 TTTAGGG
1 TTTATGG
59968662 TTTATGG
1 TTTATGG
*
59968669 TTTATAG
1 TTTATGG
*
59968676 TTTAAGG
1 TTTATGG
*
59968683 TTTAAGG
1 TTTATGG
59968690 TTTATGG
1 TTTATGG
59968697 TTT
1 TTT
59968700 TTAAGTTAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
5 1 0.01
6 6 0.08
7 51 0.70
8 5 0.07
9 6 0.08
10 4 0.05
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.54
Consensus pattern (7 bp):
TTTATGG
Found at i:59968671 original size:14 final size:14
Alignment explanation
Indices: 59968603--59968699 Score: 72
Period size: 14 Copynumber: 6.7 Consensus size: 14
59968593 GTTTTTTAAT
*
59968603 TTTATGGTTTATGGTT
1 TTTATGGTTTA-GG-G
*
59968619 TTTAATGG-TTAGTG
1 TTT-ATGGTTTAGGG
*
59968633 TTTAAGGTTTAAGGG
1 TTTATGGTTT-AGGG
59968648 TTTTAT-GTTTAGGG
1 -TTTATGGTTTAGGG
**
59968662 TTTATGGTTTATAG
1 TTTATGGTTTAGGG
* *
59968676 TTTAAGGTTTAAGG
1 TTTATGGTTTAGGG
59968690 TTTATGGTTT
1 TTTATGGTTT
59968700 TTAAGTTAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
13 8 0.12
14 35 0.54
15 8 0.12
16 10 0.15
17 4 0.06
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.54
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:59968715 original size:7 final size:7
Alignment explanation
Indices: 59968632--59968786 Score: 86
Period size: 7 Copynumber: 21.7 Consensus size: 7
59968622 AATGGTTAGT
59968632 GTTTAAG
1 GTTTAAG
59968639 GTTTAAGG
1 GTTTAA-G
* *
59968647 GTTTTAT
1 GTTTAAG
*
59968654 GTTTAGG
1 GTTTAAG
*
59968661 GTTTATG
1 GTTTAAG
59968668 GTTTATA-
1 GTTTA-AG
59968675 GTTTAAG
1 GTTTAAG
59968682 GTTTAAG
1 GTTTAAG
*
59968689 GTTTATG
1 GTTTAAG
59968696 GTTTTTAA-
1 G--TTTAAG
59968704 G-TTAAG
1 GTTTAAG
59968710 GTTTAAG
1 GTTTAAG
*
59968717 GTTTTGAG
1 G-TTTAAG
*
59968725 G-TTATG
1 GTTTAAG
* *
59968731 TTTTTAG
1 GTTTAAG
**
59968738 GTTTGGG
1 GTTTAAG
59968745 GTTTAAG
1 GTTTAAG
*
59968752 GTTTTAAA
1 G-TTTAAG
59968760 GTTTAAGG
1 GTTTAA-G
59968768 GTTT-AG
1 GTTTAAG
*
59968774 GATTTAGG
1 G-TTTAAG
59968782 GTTTA
1 GTTTA
59968787 TGATTTAGAA
Statistics
Matches: 112, Mismatches: 23, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
5 4 0.04
6 7 0.06
7 72 0.64
8 25 0.22
9 4 0.04
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (7 bp):
GTTTAAG
Found at i:59968756 original size:21 final size:21
Alignment explanation
Indices: 59968470--59968786 Score: 103
Period size: 21 Copynumber: 15.0 Consensus size: 21
59968460 TTAGAATTAG
*
59968470 GGTTTATGG-TTTAGGTTTAA
1 GGTTTAAGGTTTTAGGTTTAA
* * *
59968490 GGTTT-GGGTTTTAAGTTTAT
1 GGTTTAAGGTTTTAGGTTTAA
*
59968510 GGTTTTAGGTTTTAGGGTTTTAA
1 GGTTTAAGGTTTTA-GG-TTTAA
* *
59968533 -G-TTAAGG-GTTAGGATT-A
1 GGTTTAAGGTTTTAGGTTTAA
* * *
59968550 GGGTTATGGTTTTTAAG-TTAA
1 GGTTTAAGG-TTTTAGGTTTAA
* *
59968571 GGGTTATGGTTTTTAGGTTT-A
1 GGTTTAAGG-TTTTAGGTTTAA
*
59968592 GGTTTTTTAA--TTTTATGGTTTAT
1 GG---TTTAAGGTTTTA-GGTTTAA
59968615 GGTTTTTAATGG--TTAGTGTTTAA
1 GG--TTTAA-GGTTTTAG-GTTTAA
* *
59968638 GGTTTAAGGGTTTTATGTTTAG
1 GGTTTAA-GGTTTTAGGTTTAA
*
59968660 GGTTTATGGTTTATA-GTTTAA
1 GGTTTAAGGTTT-TAGGTTTAA
59968681 GGTTTAAGG-TTTATGGTTTTTAA
1 GGTTTAAGGTTTTA-GG--TTTAA
* *
59968704 -G-TTAAGGTTTAAGGTTTTGA
1 GGTTTAAGGTTTTAGG-TTTAA
* * **
59968724 GG-TTATGTTTTTAGGTTTGG
1 GGTTTAAGGTTTTAGGTTTAA
*
59968744 GGTTTAAGGTTTTAAAGTTTAA
1 GGTTTAAGGTTTT-AGGTTTAA
*
59968766 GGGTTT-AGGATTTAGGGTTTA
1 -GGTTTAAGGTTTTA-GGTTTA
59968787 TGATTTAGAA
Statistics
Matches: 229, Mismatches: 36, Indels: 62
0.70 0.11 0.19
Matches are distributed among these distances:
17 1 0.00
18 3 0.01
19 11 0.05
20 37 0.16
21 95 0.41
22 50 0.22
23 29 0.13
24 3 0.01
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (21 bp):
GGTTTAAGGTTTTAGGTTTAA
Found at i:59968779 original size:22 final size:21
Alignment explanation
Indices: 59968738--59968822 Score: 62
Period size: 22 Copynumber: 3.9 Consensus size: 21
59968728 ATGTTTTTAG
* *
59968738 GTTTGGGGTTTAAGGTTTTAAA
1 GTTTAGGGTTT-AGGATTTAAA
**
59968760 GTTTAAGGGTTTAGGATTTAGG
1 GTTT-AGGGTTTAGGATTTAAA
* * *
59968782 GTTTATGATTTAGAATTTTAAA
1 GTTTAGGGTTTAGGA-TTTAAA
* *
59968804 GTTTAGAGTTTAGGGTTTA
1 GTTTAGGGTTTAGGATTTA
59968823 TGGTTTTTTA
Statistics
Matches: 47, Mismatches: 14, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
21 12 0.26
22 29 0.62
23 6 0.13
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
GTTTAGGGTTTAGGATTTAAA
Found at i:59968784 original size:14 final size:14
Alignment explanation
Indices: 59968765--59968794 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59968755 TTAAAGTTTA
59968765 AGGGTTTAGGATTT
1 AGGGTTTAGGATTT
*
59968779 AGGGTTTATGATTT
1 AGGGTTTAGGATTT
59968793 AG
1 AG
59968795 AATTTTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (14 bp):
AGGGTTTAGGATTT
Found at i:59968863 original size:33 final size:33
Alignment explanation
Indices: 59968825--59968909 Score: 134
Period size: 33 Copynumber: 2.6 Consensus size: 33
59968815 AGGGTTTATG
*
59968825 GTTTTTTAGTTAAGGGTTAGGATGAGGGTTAGT
1 GTTTTTAAGTTAAGGGTTAGGATGAGGGTTAGT
* *
59968858 GTTTTTAAGTTAAGGATTAGGATTAGGGTTAGT
1 GTTTTTAAGTTAAGGGTTAGGATGAGGGTTAGT
*
59968891 ATTTTTAAGTTAAGGGTTA
1 GTTTTTAAGTTAAGGGTTA
59968910 TGGTTTTTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (33 bp):
GTTTTTAAGTTAAGGGTTAGGATGAGGGTTAGT
Found at i:59968936 original size:14 final size:14
Alignment explanation
Indices: 59968915--59969058 Score: 56
Period size: 14 Copynumber: 10.7 Consensus size: 14
59968905 GGTTATGGTT
59968915 TTTA-GGTTTAGGG
1 TTTATGGTTTAGGG
59968928 TTTATGGTTT----
1 TTTATGGTTTAGGG
* *
59968938 TTAAT-GTTTAAGG
1 TTTATGGTTTAGGG
* *
59968951 TTTATAGTTTATGG
1 TTTATGGTTTAGGG
*
59968965 CTTA-GTGTTTAGGG
1 TTTATG-GTTTAGGG
*
59968979 TTTA-GAGTTTGGGG
1 TTTATG-GTTTAGGG
* *
59968993 TTT-TAAGTTAAGGG
1 TTTAT-GGTTTAGGG
* *
59969007 -TTATGATTTATGG
1 TTTATGGTTTAGGG
* *
59969020 TTTAGGGTTTAGGT
1 TTTATGGTTTAGGG
* *
59969034 TTTTTAGGTTTAGAG
1 TTTAT-GGTTTAGGG
59969049 TTTATGGTTT
1 TTTATGGTTT
59969059 TTAAGTTTAA
Statistics
Matches: 94, Mismatches: 25, Indels: 23
0.66 0.18 0.16
Matches are distributed among these distances:
9 4 0.04
10 4 0.04
13 15 0.16
14 60 0.64
15 11 0.12
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.51
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:59968946 original size:23 final size:22
Alignment explanation
Indices: 59968892--59968960 Score: 86
Period size: 23 Copynumber: 3.1 Consensus size: 22
59968882 AGGGTTAGTA
*
59968892 TTTTTAAGTTAAGGG-TTATGG
1 TTTTTAAGTTTAGGGTTTATGG
*
59968913 TTTTTAGGTTTAGGGTTTATGG
1 TTTTTAAGTTTAGGGTTTATGG
* *
59968935 TTTTTAATGTTTAAGGTTTATAG
1 TTTTTAA-GTTTAGGGTTTATGG
59968958 TTT
1 TTT
59968961 ATGGCTTAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
21 13 0.32
22 12 0.29
23 16 0.39
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (22 bp):
TTTTTAAGTTTAGGGTTTATGG
Done.