Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 35 of 204
Found at i:9835732 original size:15 final size:15
Alignment explanation
Indices: 9835687--9835733 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
9835677 GAGATGATGT
*
9835687 GAAAAAATGAAAAT-
1 GAAAAAATAAAAATG
*
9835701 GAAAAATAAAAAAATG
1 GAAAAA-ATAAAAATG
9835717 GAAAAAATAAAAATG
1 GAAAAAATAAAAATG
9835732 GA
1 GA
9835734 GAGGCTAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.21
15 16 0.57
16 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (15 bp):
GAAAAAATAAAAATG
Found at i:9837151 original size:50 final size:50
Alignment explanation
Indices: 9837092--9837566 Score: 292
Period size: 50 Copynumber: 9.5 Consensus size: 50
9837082 CAGCGGAGCG
* *
9837092 GATTGAAGCCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
* * *** * * * * *
9837142 GATTGAAGCCACAACGACAGATCTTACTT-CCCTAGCGGTGCAGTTGAACA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGA-CAGTGCAATTAAAAA
* * * * * *
9837192 GATTTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTTCAATTAAGAA
1 GA-TTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
* * * * * ** *
9837243 GATTGAAGCCACAACGGCGGATC---TTACCTCCTTAGCGGTGTAGTGGAACA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCC-CC-GA-CAGTGCAATTAAAAA
* * * * * ***
9837293 GATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGTAATTTTTAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
**** * * * *** *
9837343 GATTGAAGCCACAACGGCGGATCTTACCTCCCTGGCAGTACAGCGAAACA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
* * * * * **
9837393 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTCGATTTTAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
*** * * * ** *
9837443 GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTGGAACA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
* * * *
9837493 GATTGAAGCTACGACGGTGGATCTGGTTTCCCCGACATTGCAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
9837543 GATTGAAGCCACAACGGCGGATCT
1 GATTGAAGCCACAACGGCGGATCT
9837567 TACTTCCTTA
Statistics
Matches: 298, Mismatches: 118, Indels: 18
0.69 0.27 0.04
Matches are distributed among these distances:
47 4 0.01
48 2 0.01
49 5 0.02
50 245 0.82
51 32 0.11
52 6 0.02
53 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (50 bp):
GATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTAAAAA
Found at i:9837616 original size:100 final size:100
Alignment explanation
Indices: 9837092--9837600 Score: 694
Period size: 100 Copynumber: 5.1 Consensus size: 100
9837082 CAGCGGAGCG
* * **
9837092 GATTGAAGCCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAAGATTGAAGCCACAAC
1 GATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
* * *
9837157 GACAGATCTTACTTCCCTAGCGGTGCAGTTGAACA
66 GGCGGATCTTACTTCCCTAGCGGTGCAGTGGAACA
* *
9837192 GATTTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTTCAATTAAGAAGATTGAAGCCACAA
1 GA-TTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAA
* * *
9837257 CGGCGGATCTTACCTCCTTAGCGGTGTAGTGGAACA
65 CGGCGGATCTTACTTCCCTAGCGGTGCAGTGGAACA
* ***
9837293 GATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGTAATTTTTAAGATTGAAGCCACAAC
1 GATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
* * * * * *
9837358 GGCGGATCTTACCTCCCTGGCAGTACAGCGAAACA
66 GGCGGATCTTACTTCCCTAGCGGTGCAGTGGAACA
* * * **
9837393 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTTCGATTTTAAAGATTGAAGCCACAAC
1 GATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
* *
9837458 GGCGGATCTTACTTCCCTGGCAGTGCAGTGGAACA
66 GGCGGATCTTACTTCCCTAGCGGTGCAGTGGAACA
**
9837493 GATTGAAGCTACGACGGTGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
1 GATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
* * *
9837558 GGCGGATCTTACTTCCTTAGCGGTGTAGTGGAATA
66 GGCGGATCTTACTTCCCTAGCGGTGCAGTGGAACA
*
9837593 TATTGAAG
1 GATTGAAG
9837601 TCACGGCGAG
Statistics
Matches: 364, Mismatches: 44, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
100 276 0.76
101 88 0.24
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (100 bp):
GATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
GGCGGATCTTACTTCCCTAGCGGTGCAGTGGAACA
Found at i:9841011 original size:40 final size:40
Alignment explanation
Indices: 9840967--9841048 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
9840957 ATGTCCCAAC
9840967 TGTATGAATTAGGGGAAAAAGCAAAAGAAATGTTGGACAT
1 TGTATGAATTAGGGGAAAAAGCAAAAGAAATGTTGGACAT
9841007 TGTATGAATTAGGGGAAAAAGCAAAAGAAATGTTGGACAT
1 TGTATGAATTAGGGGAAAAAGCAAAAGAAATGTTGGACAT
9841047 TG
1 TG
9841049 GCATAAAAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.44, C:0.05, G:0.28, T:0.23
Consensus pattern (40 bp):
TGTATGAATTAGGGGAAAAAGCAAAAGAAATGTTGGACAT
Found at i:9850847 original size:3 final size:3
Alignment explanation
Indices: 9850830--9850869 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
9850820 TTTTAAAAGC
* *
9850830 ATA ATA ACA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9850870 GAAGAAGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:9851026 original size:19 final size:20
Alignment explanation
Indices: 9850996--9851059 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
9850986 AAAAATACAA
*
9850996 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAATTTTTAAAAATT
9851016 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
* *
9851035 ATTTTCAATTTTTGAAAATT
1 ATTTTGAATTTTTAAAAATT
9851055 ATTTT
1 ATTTT
9851060 ATAATTTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 8 0.21
19 11 0.28
20 20 0.51
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:9851052 original size:20 final size:20
Alignment explanation
Indices: 9851003--9851069 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
9850993 CAAATTTTAG
*
9851003 AATTTTT-ATAAA-TATTTTG
1 AATTTTTGA-AAATTATTTTC
*
9851022 AA-TTTTAAAAATTATTTTC
1 AATTTTTGAAAATTATTTTC
*
9851041 AATTTTTGAAAATTATTTTAT
1 AATTTTTGAAAATTATTTT-C
9851062 AATTTTTG
1 AATTTTTG
9851070 TTAAGAGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.17
19 11 0.27
20 15 0.37
21 8 0.20
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (20 bp):
AATTTTTGAAAATTATTTTC
Found at i:9853684 original size:6 final size:6
Alignment explanation
Indices: 9853673--9853699 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9853663 CTTGTGTCTT
9853673 TTCATC TTCATC TTCATC TTCATC TTC
1 TTCATC TTCATC TTCATC TTCATC TTC
9853700 CTACAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCATC
Found at i:9854424 original size:3 final size:3
Alignment explanation
Indices: 9854405--9854443 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
9854395 ACATGACATG
* * *
9854405 TTA TCA TTA TCA TTA TTA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9854444 AGTACTTGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:9854444 original size:15 final size:15
Alignment explanation
Indices: 9854416--9854444 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9854406 TATCATTATC
9854416 ATTATTATTATTAAT
1 ATTATTATTATTAAT
9854431 ATTATTATTATTAA
1 ATTATTATTATTAA
9854445 GTACTTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTATTATTAAT
Found at i:9856637 original size:12 final size:11
Alignment explanation
Indices: 9856609--9856659 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 11
9856599 CAACATAGTG
9856609 AAAAAA-CAATA
1 AAAAAAGCAA-A
9856620 AGAAAATAGCAAA
1 A-AAAA-AGCAAA
*
9856633 AAAAAAGTAAAA
1 AAAAAAG-CAAA
9856645 AAAAAAGCAAA
1 AAAAAAGCAAA
9856656 AAAA
1 AAAA
9856660 GACCATTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 10 0.29
12 18 0.53
13 3 0.09
14 3 0.09
ACGTcount: A:0.80, C:0.06, G:0.08, T:0.06
Consensus pattern (11 bp):
AAAAAAGCAAA
Found at i:9857207 original size:77 final size:77
Alignment explanation
Indices: 9857115--9857262 Score: 224
Period size: 77 Copynumber: 1.9 Consensus size: 77
9857105 TTACACATAA
* * * * *
9857115 TTTACTTGAATGTAATATATAACTACTTTGAAATTTGACACATTTGTTTTATCTGTTCTACTTCT
1 TTTACTTCAATGTAATACATAACTACTTTGAAATTTGACACACTTGTCTTATCTATTCTACTTCT
9857180 AAATGGTTCATT
66 AAATGGTTCATT
* * *
9857192 TTTACTTCAATGTAATACATAGCTTCTTTGAAATTTGACACACTTGTCTTATCTATTCTACTTTT
1 TTTACTTCAATGTAATACATAACTACTTTGAAATTTGACACACTTGTCTTATCTATTCTACTTCT
9857257 AAATGG
66 AAATGG
9857263 GCTTCCAATC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (77 bp):
TTTACTTCAATGTAATACATAACTACTTTGAAATTTGACACACTTGTCTTATCTATTCTACTTCT
AAATGGTTCATT
Found at i:9861992 original size:30 final size:32
Alignment explanation
Indices: 9861931--9861992 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
9861921 GATAACTTAA
*
9861931 TATATATATGTTATAATAAATAACATGAAATG
1 TATATATATGTTATAATAAATAACATAAAATG
9861963 TATATATAT-TATATAAT-AATAA-ATAAAATG
1 TATATATATGT-TATAATAAATAACATAAAATG
9861993 AAACATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 7 0.25
31 6 0.21
32 15 0.54
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (32 bp):
TATATATATGTTATAATAAATAACATAAAATG
Found at i:9861994 original size:35 final size:34
Alignment explanation
Indices: 9861930--9861995 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 34
9861920 TGATAACTTA
* * *
9861930 ATATATATATGTTATAATAAATAACATGAAATGT
1 ATATATATATATAATAATAAATAAAATGAAATGT
9861964 ATATATATTATATAATAATAAATAAAATGAAA
1 ATATATA-TATATAATAATAAATAAAATGAAA
9861996 CATAAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 7 0.25
35 21 0.75
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (34 bp):
ATATATATATATAATAATAAATAAAATGAAATGT
Found at i:9865049 original size:41 final size:41
Alignment explanation
Indices: 9865004--9865101 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
9864994 CAACGGCGCT
* * *
9865004 TAGCCTGCTAGGCTTATAGCCTGATTCAGATCACTGGCACG
1 TAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCAAG
* *
9865045 TAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCAAT
1 TAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCAAG
*
9865086 TAGCCTGCTAGACTTA
1 TAGCCTGCTAGGCTTA
9865102 AAGTCTGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (41 bp):
TAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCAAG
Found at i:9872792 original size:41 final size:41
Alignment explanation
Indices: 9872731--9872844 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 41
9872721 TTAATTAAAA
* *
9872731 CAGATTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* *
9872773 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* * *
9872814 CAGATCACCGGCAATTAGCTTGCTAGACTTA
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA
9872845 AAGTCAGAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
41 59 0.94
42 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:9887359 original size:13 final size:13
Alignment explanation
Indices: 9887341--9887371 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9887331 GTCCCAAAAT
9887341 TCTTTTGTTAAAC
1 TCTTTTGTTAAAC
*
9887354 TCTTTTGTTAAAT
1 TCTTTTGTTAAAC
9887367 TCTTT
1 TCTTT
9887372 GAATTTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (13 bp):
TCTTTTGTTAAAC
Found at i:9887806 original size:8 final size:8
Alignment explanation
Indices: 9887793--9887827 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
9887783 TTACAGTTTC
9887793 AAAATCAT
1 AAAATCAT
9887801 AAAATCAT
1 AAAATCAT
9887809 AAAATCAT
1 AAAATCAT
*
9887817 AAAATAAT
1 AAAATCAT
9887825 AAA
1 AAA
9887828 CCTAAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATCAT
Found at i:9888303 original size:88 final size:90
Alignment explanation
Indices: 9888178--9888384 Score: 278
Period size: 91 Copynumber: 2.3 Consensus size: 90
9888168 TGGACACTCC
* * * * *
9888178 AATTTGTAGTTAAACCACCAGTG-TTGCAGGTTAATACGTTAT-TAGTAGCTT-GAATACACAAC
1 AATTTGTGGATAAATCACTAGTGTTTGCAGGTTAATACGTT-TCCAGTAGCTTGGAATACACAAC
9888240 GGGTTTGCAGAT-AAAGCTGCCAGTA
65 GGGTTTGCAGATAAAAGCTGCCAGTA
* *
9888265 AATTTGTGGATAAATCACTAGTGTTTGCAGGTTAATACGTTTCCAGTAGGTTGGGAATACACAAT
1 AATTTGTGGATAAATCACTAGTGTTTGCAGGTTAATACGTTTCCAGTAGCTT-GGAATACACAAC
* *
9888330 GTGTTTGCAGATAAAAGTTGCCAGTA
65 GGGTTTGCAGATAAAAGCTGCCAGTA
*
9888356 AATTTGTGGATAAATCACTGGTGTTTGCA
1 AATTTGTGGATAAATCACTAGTGTTTGCA
9888385 AATAAACTGC
Statistics
Matches: 105, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
87 20 0.19
88 24 0.23
90 21 0.20
91 40 0.38
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (90 bp):
AATTTGTGGATAAATCACTAGTGTTTGCAGGTTAATACGTTTCCAGTAGCTTGGAATACACAACG
GGTTTGCAGATAAAAGCTGCCAGTA
Found at i:9888384 original size:46 final size:45
Alignment explanation
Indices: 9888242--9888390 Score: 144
Period size: 45 Copynumber: 3.3 Consensus size: 45
9888232 TACACAACGG
*
9888242 GTTTGCAGAT-AAAGCTGCCAGTAAATTTGTGGATAAATCACTAGT
1 GTTTGCAGATAAAAGTTGCCAGTAAATTTGTGGATAAATCACT-GT
* * * ** * *
9888287 GTTTGCAGGTTAATACGTTTCCAGT-AGGTTG-GGAATACA-CAATGT
1 GTTTGCA-GATAA-AAGTTGCCAGTAAATTTGTGG-ATAAATCACTGT
9888332 GTTTGCAGATAAAAGTTGCCAGTAAATTTGTGGATAAATCACTGGT
1 GTTTGCAGATAAAAGTTGCCAGTAAATTTGTGGATAAATCACT-GT
*
9888378 GTTTGCAAATAAA
1 GTTTGCAGATAAA
9888391 CTGCCAGTAC
Statistics
Matches: 80, Mismatches: 16, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
43 9 0.11
44 12 0.15
45 21 0.26
46 21 0.26
47 9 0.11
48 8 0.10
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (45 bp):
GTTTGCAGATAAAAGTTGCCAGTAAATTTGTGGATAAATCACTGT
Found at i:9892218 original size:18 final size:18
Alignment explanation
Indices: 9892195--9892232 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9892185 ACCGTGTTAT
9892195 TTTGTGT-TCTATGCTATA
1 TTTGTGTAT-TATGCTATA
*
9892213 TTTGTGTATTATGTTATA
1 TTTGTGTATTATGCTATA
9892231 TT
1 TT
9892233 GTGACCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.18, C:0.05, G:0.16, T:0.61
Consensus pattern (18 bp):
TTTGTGTATTATGCTATA
Found at i:9893021 original size:17 final size:18
Alignment explanation
Indices: 9893007--9893066 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 18
9892997 TATGATGTGA
9893007 TATGAACTGTTATGT-AG
1 TATGAACTGTTATGTCAG
* *
9893024 TATGAATTGCTAT-TCAG
1 TATGAACTGTTATGTCAG
* *
9893041 TATGAATTGTTATCTCA-
1 TATGAACTGTTATGTCAG
9893058 TATGAACTG
1 TATGAACTG
9893067 ACATTTGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 1 0.03
17 33 0.89
18 3 0.08
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (18 bp):
TATGAACTGTTATGTCAG
Found at i:9893123 original size:18 final size:18
Alignment explanation
Indices: 9893096--9893146 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
9893086 ATCTTATTTG
*
9893096 ATTGCCTATTTTATGTGA
1 ATTGCTTATTTTATGTGA
* *
9893114 ATTGCTTATTATATGTGC
1 ATTGCTTATTTTATGTGA
* *
9893132 ACTACTTATTTTATG
1 ATTGCTTATTTTATG
9893147 AGTTCTATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.51
Consensus pattern (18 bp):
ATTGCTTATTTTATGTGA
Found at i:9906438 original size:7 final size:7
Alignment explanation
Indices: 9906426--9906450 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9906416 TTATACACAT
9906426 AATACTA
1 AATACTA
9906433 AATACTA
1 AATACTA
9906440 AATACTA
1 AATACTA
9906447 AATA
1 AATA
9906451 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:9907423 original size:19 final size:20
Alignment explanation
Indices: 9907401--9907439 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9907391 ATTAATTAAA
*
9907401 ATTATATAA-ATGAAAAAAT
1 ATTAAATAATATGAAAAAAT
*
9907420 ATTAAATAATATTAAAAAAT
1 ATTAAATAATATGAAAAAAT
9907440 TAAAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
ATTAAATAATATGAAAAAAT
Found at i:9907426 original size:24 final size:25
Alignment explanation
Indices: 9907374--9907425 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
9907364 ACTGTTATAA
*
9907374 AAAATTATA-AAATAAAAATTAATT
1 AAAATTATATAAATAAAAAATAATT
9907398 AAAATTATATAAATGAAAAAAT-ATT
1 AAAATTATATAAAT-AAAAAATAATT
9907423 AAA
1 AAA
9907426 TAATATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 10 0.40
26 6 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAATTATATAAATAAAAAATAATT
Found at i:9910679 original size:16 final size:17
Alignment explanation
Indices: 9910642--9910695 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
9910632 TTAAACATAC
*
9910642 ATATTTAATTATAT-AT
1 ATATTTAATCATATAAT
9910658 ATATTTAATCATATAAT
1 ATATTTAATCATATAAT
* *
9910675 A-ATTTATTGATATAAT
1 ATATTTAATCATATAAT
*
9910691 TTATT
1 ATATT
9910696 ATTTTAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 26 0.81
17 6 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
ATATTTAATCATATAAT
Found at i:9917499 original size:3 final size:3
Alignment explanation
Indices: 9917491--9917525 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9917481 TTTTTCGTAG
9917491 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
9917526 GTCTGGTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:9922047 original size:19 final size:18
Alignment explanation
Indices: 9922025--9922061 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
9922015 TTAATCACCC
9922025 TCTTCAAACAAAGTATTTT
1 TCTTC-AACAAAGTATTTT
*
9922044 TCTTCACCAAAGTATTTT
1 TCTTCAACAAAGTATTTT
9922062 AAATAGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (18 bp):
TCTTCAACAAAGTATTTT
Found at i:9928697 original size:22 final size:21
Alignment explanation
Indices: 9928658--9928701 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
9928648 AAAATTATAA
*
9928658 AATATAAAAATATATATATGT
1 AATATAAAAAAATATATATGT
9928679 AATATAAGAAAAATATATATGT
1 AATATAA-AAAAATATATATGT
9928701 A
1 A
9928702 TGTGAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
AATATAAAAAAATATATATGT
Found at i:9928703 original size:26 final size:25
Alignment explanation
Indices: 9928663--9928717 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
9928653 TATAAAATAT
9928663 AAAAATATATATATGT-AA-TATAA
1 AAAAATATATATATGTGAATTATAA
9928686 GAAAAATATATATGTATGTGAATTATAA
1 -AAAAATATATA--TATGTGAATTATAA
9928714 AAAA
1 AAAA
9928718 TAAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.41
26 5 0.19
27 6 0.22
28 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (25 bp):
AAAAATATATATATGTGAATTATAA
Found at i:9929453 original size:19 final size:19
Alignment explanation
Indices: 9929429--9929502 Score: 121
Period size: 19 Copynumber: 3.8 Consensus size: 19
9929419 AATCATATCT
*
9929429 TCTAAGAATGCATATCATA
1 TCTAAGATTGCATATCATA
9929448 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
9929469 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
9929488 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
9929503 TCTTGAAGAT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 33 0.63
21 19 0.37
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:9929466 original size:21 final size:21
Alignment explanation
Indices: 9929440--9929502 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
9929430 CTAAGAATGC
9929440 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
9929461 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
9929480 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
9929501 AT
1 AT
9929503 TCTTGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:9929798 original size:20 final size:17
Alignment explanation
Indices: 9929756--9929798 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
9929746 GCTGGGTTCT
9929756 GACTTCTTCGAGTGCTC
1 GACTTCTTCGAGTGCTC
9929773 GACTTCTTCGAGTGCTC
1 GACTTCTTCGAGTGCTC
*
9929790 GTCTTCTTC
1 GACTTCTTC
9929799 AAGTAGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.09, C:0.30, G:0.21, T:0.40
Consensus pattern (17 bp):
GACTTCTTCGAGTGCTC
Found at i:9930110 original size:44 final size:44
Alignment explanation
Indices: 9930061--9930264 Score: 141
Period size: 44 Copynumber: 4.7 Consensus size: 44
9930051 TTCTGATCCA
* * * * *
9930061 CTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCAACCTG
1 CTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAACCTG
* * *
9930105 TTCCACTACAACCTCAGGGAGATAAGATTGGCTTATTCAATCTG
1 CTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAACCTG
* * * * * *
9930149 CTCCACTGCAACCTCGGGGAGATGAGACTGG---ATACGATCTG
1 CTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAACCTG
* * * * *
9930190 CTCTACTGCAACTTCAGAGAGACAAGATCTGTTG-TT-TT-AACCCG
1 CTCCACTGCAACCTCAGGGAGATAAGAT-TG--GCTTATTCAACCTG
* * *
9930234 CTCCACTGAAACTTCAGGGAGATAGGATTGG
1 CTCCACTGCAACCTCAGGGAGATAAGATTGG
9930265 TTACTTCTGT
Statistics
Matches: 124, Mismatches: 31, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
41 30 0.24
42 2 0.02
43 2 0.02
44 89 0.72
45 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (44 bp):
CTCCACTGCAACCTCAGGGAGATAAGATTGGCTTATTCAACCTG
Found at i:9930385 original size:45 final size:45
Alignment explanation
Indices: 9930274--9931260 Score: 1192
Period size: 45 Copynumber: 21.9 Consensus size: 45
9930264 GTTACTTCTG
* ** *
9930274 TCTTCGATCTACTTCGCTGTCAATACAGGAAGATAAGATC---TA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* *
9930316 TTTTTGATCTACTTCACTACCAATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * *
9930361 TCTTCGATCTACTTTGCTACCAATATAGGAA-ACCCAA-ATCTGTTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGA--CAAGATCTGTTA
*
9930406 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * * *
9930451 TCTTCGATCTACTTTGCTACCAATATAGGAAGACAATATCTGCTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * *
9930496 TCTTTGATCTACTTCGCTGCCGATACAGGAAGACAAGATATGTTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* *
9930541 TCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGAAGATCTGCTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGAC---AAGATCTGTTA
* * *
9930589 TCTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATATGTTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * *
9930634 TCTTTGATCTACTTCACTGCCAATACAGGAAGACAATATCTGCTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * *
9930679 TCTTCGATCTACTTCGCTACCAATATAAGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * *
9930724 TATTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATATGTTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * *
9930769 TCTTCGATCTACTTCGCTACCGATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
** * *
9930814 TCTTTGATCTACTTCGCTGTCAGTACAGGAAGACAAGATTTGTTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * *
9930859 TCTTCGATCTACTTCGCTACCAATATAGAAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * *
9930904 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAAATATGTTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * * *
9930949 TCTTCGATCAACTTCACTACCAATATAGGAAGATAAGATCTGTTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * *
9930994 TCTTCGATCTATTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * *
9931039 TCTTTGATCTACTTTGCTGCCAATACAAGAAGACAAGATATGTTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * *
9931084 TCTTCGATCTACTTCGCTACCAATATAAGAAGACAAGATCTGTTG
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * *
9931129 TTTTTGATCTACTTTGCTACCAATACAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * * *
9931174 TTTTTGATCTGCTTCGCTGCTAATACAGGAAGACAAGATCTATTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
* * * *
9931219 TTTTTTATCTACTTCACTGCCAATACAGGAAGACAAGATCTG
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTG
9931261 CTGTTTTCAC
Statistics
Matches: 803, Mismatches: 132, Indels: 17
0.84 0.14 0.02
Matches are distributed among these distances:
42 34 0.04
44 4 0.00
45 721 0.90
46 4 0.00
48 40 0.05
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
Found at i:9933748 original size:25 final size:25
Alignment explanation
Indices: 9933694--9933760 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
9933684 GAAGAAAATA
*
9933694 AAAAAGAATGAAAGAATAATTATTC
1 AAAAAGAATGAAAGAATAATTACTC
* *
9933719 GAAAAGAATGAAAGAAT-ATTGGCTC
1 AAAAAGAATGAAAGAATAATT-ACTC
9933744 AAAAATGAATGCAAAGA
1 AAAAA-GAATG-AAAGA
9933761 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.57, C:0.06, G:0.18, T:0.19
Consensus pattern (25 bp):
AAAAAGAATGAAAGAATAATTACTC
Found at i:9936029 original size:16 final size:16
Alignment explanation
Indices: 9936008--9936042 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
9935998 TTCTATGATG
*
9936008 AAATGTCATGCAGTCA
1 AAATGTCATGCAGCCA
9936024 AAATGTCATGCAGCCA
1 AAATGTCATGCAGCCA
9936040 AAA
1 AAA
9936043 GAAAACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATGTCATGCAGCCA
Found at i:9937719 original size:23 final size:22
Alignment explanation
Indices: 9937679--9937722 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
9937669 AAATTATAAA
*
9937679 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
9937701 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
9937723 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:9938490 original size:19 final size:19
Alignment explanation
Indices: 9938445--9938498 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
9938435 AATCATATCT
*
9938445 TCTAAGAATGCATATCATA
1 TCTAAGATTGCATATCATA
9938464 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
9938483 TCTAAGATTGTATATC
1 TCTAAGATTGCATATC
9938499 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:9939307 original size:15 final size:15
Alignment explanation
Indices: 9939287--9939343 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
9939277 ATTCAATATT
9939287 AATATTTTAATAATA
1 AATATTTTAATAATA
*
9939302 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
9939321 AATATATTAATAATA
1 AATATTTTAATAATA
*
9939336 AATGTTTT
1 AATATTTT
9939344 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:9939881 original size:15 final size:15
Alignment explanation
Indices: 9939861--9939892 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9939851 CTCCTTAAAC
9939861 TTTAAAATATTTTAA
1 TTTAAAATATTTTAA
9939876 TTTAAAATATTTTAA
1 TTTAAAATATTTTAA
9939891 TT
1 TT
9939893 GAATCCCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAAATATTTTAA
Found at i:9941014 original size:43 final size:43
Alignment explanation
Indices: 9940950--9941135 Score: 248
Period size: 43 Copynumber: 4.3 Consensus size: 43
9940940 CGCTAAAGAA
* * * *
9940950 CACAAACGCTGCTAAATGTCATGTCCTTTAGCGGCG-TCTATCT
1 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCT-TCTCT
* * *
9940993 CACAAATGCCGCTAAAGGTCATGTTCTTTAACGGCGCTTTTCT
1 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTCT
* *
9941036 CACAAACGCCGCTAAAGTTCATGTTCTTTAGCGGTGCTTCTCT
1 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTCT
* * *
9941079 CACAAACGCTGCTAAAGTTCATGTTCTTTAGCGGTGCTTCTCT
1 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTCT
9941122 CACAAACGCCGCTA
1 CACAAACGCCGCTA
9941136 TTGTTTGATG
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 128 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (43 bp):
CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTCT
Found at i:9941512 original size:21 final size:21
Alignment explanation
Indices: 9941488--9941534 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
9941478 TGCTCTGCTT
9941488 TGCTTCCCTCGCTGCCGCCTC
1 TGCTTCCCTCGCTGCCGCCTC
*
9941509 TGCTTCCCTCGCTGCTGCCTC
1 TGCTTCCCTCGCTGCCGCCTC
9941530 TGCTT
1 TGCTT
9941535 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.47, G:0.19, T:0.34
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCCGCCTC
Found at i:9942829 original size:43 final size:43
Alignment explanation
Indices: 9942768--9942854 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
9942758 CAACAAGTTG
*
9942768 ACCAAAACTGTTTCGTCCAACTTTGACACGCTCGATTGGATCT
1 ACCAAAACTGTTTCGTCCAACTTTGACACGCTCGACTGGATCT
9942811 ACCAAAACTGTTTCGTCCAACTTTGACACGCTCGACTGGATCT
1 ACCAAAACTGTTTCGTCCAACTTTGACACGCTCGACTGGATCT
9942854 A
1 A
9942855 ACTCGTATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (43 bp):
ACCAAAACTGTTTCGTCCAACTTTGACACGCTCGACTGGATCT
Found at i:9943350 original size:26 final size:25
Alignment explanation
Indices: 9943314--9943378 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
9943304 TTTTACAATG
* *
9943314 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGTAAAT-ATATAACTT
* *
9943340 ATTAAGTTATGCATATATATAACTT
1 ATTAAGTTATGTAAATATATAACTT
9943365 ATTAAGTTATGTAA
1 ATTAAGTTATGTAA
9943379 GTTATTATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.43
Consensus pattern (25 bp):
ATTAAGTTATGTAAATATATAACTT
Found at i:9943458 original size:25 final size:25
Alignment explanation
Indices: 9943397--9943446 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
9943387 GTGAGTTATG
9943397 ATATAA-C-ATGTAAGTTATGTATT
1 ATATAAGCTATGTAAGTTATGTATT
*
9943420 ATATAAGCTATGTAAGTTGTGTATT
1 ATATAAGCTATGTAAGTTATGTATT
9943445 AT
1 AT
9943447 GTTATTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 6 0.25
24 1 0.04
25 17 0.71
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (25 bp):
ATATAAGCTATGTAAGTTATGTATT
Found at i:9943471 original size:25 final size:25
Alignment explanation
Indices: 9943443--9943497 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
9943433 AAGTTGTGTA
9943443 TTATGT-TATTTATGTACTATGTAAG
1 TTATGTGTA-TTATGTACTATGTAAG
* *
9943468 TTATGTGTATTATGTATTATGTATG
1 TTATGTGTATTATGTACTATGTAAG
9943493 TTATG
1 TTATG
9943498 CATAATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.25, C:0.02, G:0.18, T:0.55
Consensus pattern (25 bp):
TTATGTGTATTATGTACTATGTAAG
Found at i:9943488 original size:32 final size:31
Alignment explanation
Indices: 9943411--9943490 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 31
9943401 AACATGTAAG
*
9943411 TTATGTATTATATAAGCTATGTAAGTTGTGTA
1 TTATGTATTATGT-AGCTATGTAAGTTGTGTA
9943443 TTATGTTATTTATGTA-CTATGTAAGTTATGTGTA
1 TTATG-TA-TTATGTAGCTATGTAAG-T-TGTGTA
9943477 TTATGTATTATGTA
1 TTATGTATTATGTA
9943491 TGTTATGCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
32 21 0.49
33 6 0.14
34 16 0.37
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (31 bp):
TTATGTATTATGTAGCTATGTAAGTTGTGTA
Found at i:9943497 original size:16 final size:16
Alignment explanation
Indices: 9943428--9943491 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
9943418 TTATATAAGC
*
9943428 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
9943444 TATGTTATTTATGTAC
1 TATGTAAGTTATGTAT
9943460 TATGTAAGTTATGTGTAT
1 TATGTAAGTTA--TGTAT
9943478 TATGT-A-TTATGTAT
1 TATGTAAGTTATGTAT
9943492 GTTATGCATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
14 5 0.13
16 24 0.62
17 1 0.03
18 9 0.23
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:9943530 original size:44 final size:44
Alignment explanation
Indices: 9943471--9943809 Score: 379
Period size: 44 Copynumber: 7.5 Consensus size: 44
9943461 ATGTAAGTTA
*
9943471 TGTGTATTATGTATTATGTATGTTATGCATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
* *
9943515 TGTGTAATATGTATTATGTACGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
*
9943559 TGTGTATAATGTAAGAAATGTATTATGTATGTTATGTATAAAATTAATTAAG-
1 TGTG--T-AT-T-----ATGTATTATGTATGTTATGTATAATATTAATTAAGT
9943611 T-TG-----TGTATTATGTATGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
* * *
9943649 TGTGTATTATGTATTATGTACGCTATATATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
*
9943693 TGTGCATTATGTATTATGTATTATGTACGCTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATG---TATGT----TATGTATAATATTAATTAAGT
9943744 TGTGTATTATGTATTATGTACT-TTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTA-TGTTATGTATAATATTAATTAAGT
9943788 TGTGTATTATGTAAGTTATGTA
1 TGTGTATTATGT-A-TTATGTA
9943810 AGAAATGTAT
Statistics
Matches: 254, Mismatches: 15, Indels: 50
0.80 0.05 0.16
Matches are distributed among these distances:
37 33 0.13
38 1 0.00
39 2 0.01
44 127 0.50
45 1 0.00
46 8 0.03
47 4 0.02
48 4 0.02
49 1 0.00
51 39 0.15
52 1 0.00
53 33 0.13
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.48
Consensus pattern (44 bp):
TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
Found at i:9943542 original size:53 final size:50
Alignment explanation
Indices: 9943473--9943634 Score: 158
Period size: 53 Copynumber: 3.2 Consensus size: 50
9943463 GTAAGTTATG
9943473 TGTATTATGTATTATGTATGTTATGCATAATATTAATTAAGTTGTGTAATA
1 TGTATTATGTATTATGTATGTTATG-ATAATATTAATTAAGTTGTGTAATA
**
9943524 TGTATTATGTA-CGT-TATG---T-ATAATATTAATTAAGTTGTGT-ATAA
1 TGTATTATGTATTATGTATGTTATGATAATATTAATTAAGTTGTGTAAT-A
** * *
9943568 TGTAAGAAATGTATTATGTATGTTATGTATAAAATTAATTAAGTTGTGTATTA
1 TGT-A-TTATGTATTATGTATGTTATG-ATAATATTAATTAAGTTGTGTAATA
9943621 TGTATGTTATGTAT
1 TGTA--TTATGTAT
9943635 AATATTAATT
Statistics
Matches: 89, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
43 2 0.02
44 25 0.28
45 1 0.01
46 6 0.07
47 1 0.01
48 4 0.04
49 4 0.04
50 1 0.01
51 12 0.13
52 1 0.01
53 31 0.35
54 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (50 bp):
TGTATTATGTATTATGTATGTTATGATAATATTAATTAAGTTGTGTAATA
Found at i:9943627 original size:37 final size:37
Alignment explanation
Indices: 9943577--9943662 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
9943567 ATGTAAGAAA
9943577 TGTATTATGTATGTTATGTATAAAATTAATTAAGTTG
1 TGTATTATGTATGTTATGTATAAAATTAATTAAGTTG
*
9943614 TGTATTATGTATGTTATGTATAATATTAATTAAGTTG
1 TGTATTATGTATGTTATGTATAAAATTAATTAAGTTG
9943651 TGTATTATGTAT
1 TGTATTATGTAT
9943663 TATGTACGCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (37 bp):
TGTATTATGTATGTTATGTATAAAATTAATTAAGTTG
Found at i:9943711 original size:51 final size:51
Alignment explanation
Indices: 9943651--9943772 Score: 208
Period size: 51 Copynumber: 2.4 Consensus size: 51
9943641 AATTAAGTTG
9943651 TGTATTATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTA
1 TGTATTATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTA
* *
9943702 TGTATTATGTATTATGTACGCTATGTATAATATTAATTAAGTTGTGTATTA
1 TGTATTATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTA
9943753 TGTATTATGTACTTTATGTA
1 TGTATTATGTA--TTATGTA
9943773 TAATATTAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 60 0.90
53 7 0.10
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (51 bp):
TGTATTATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTA
Found at i:9943808 original size:9 final size:9
Alignment explanation
Indices: 9943794--9943936 Score: 52
Period size: 9 Copynumber: 16.2 Consensus size: 9
9943784 AAGTTGTGTA
9943794 TTATGTAAG
1 TTATGTAAG
9943803 TTATGTAAG
1 TTATGTAAG
**
9943812 AAATGT-A-
1 TTATGTAAG
*
9943819 TTATATAAG
1 TTATGTAAG
*
9943828 TTGTGT-A-
1 TTATGTAAG
* *
9943835 TAATGTTAG
1 TTATGTAAG
**
9943844 TTATCAAAG
1 TTATGTAAG
9943853 TTATGTACTATG
1 TTATGTA--A-G
*
9943865 TAAT-TAA-
1 TTATGTAAG
*
9943872 TTATTTAAG
1 TTATGTAAG
9943881 TTATGTAAG
1 TTATGTAAG
*
9943890 TTGTGT-A-
1 TTATGTAAG
9943897 TTATGTAAG
1 TTATGTAAG
*
9943906 TTAT-TATG
1 TTATGTAAG
9943914 TTATTATGTAAG
1 ---TTATGTAAG
*
9943926 TTATGCAAG
1 TTATGTAAG
9943935 TT
1 TT
9943937 TATATATGAT
Statistics
Matches: 96, Mismatches: 23, Indels: 30
0.64 0.15 0.20
Matches are distributed among these distances:
7 15 0.16
8 12 0.12
9 55 0.57
11 7 0.07
12 7 0.07
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9943818 original size:25 final size:25
Alignment explanation
Indices: 9943790--9943909 Score: 93
Period size: 25 Copynumber: 4.7 Consensus size: 25
9943780 AATTAAGTTG
*
9943790 TGTATTATGTAAGTTATGTAAGAAA
1 TGTATTATGTAAGTTATGTAAGTAA
* *
9943815 TGTATTATATAAGTTGTGT-A-TAA
1 TGTATTATGTAAGTTATGTAAGTAA
**
9943838 TGTTAGTTATCAAAGTTATGTACTATGTAA
1 TG-TA-TTATGTAAGTTATGTA--A-GTAA
* **
9943868 T-TAATTATTTAAGTTATGTAAGTTG
1 TGT-ATTATGTAAGTTATGTAAGTAA
9943893 TGTATTATGTAAGTTAT
1 TGTATTATGTAAGTTAT
9943910 TATGTTATTA
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.05
24 3 0.04
25 45 0.60
26 2 0.03
28 16 0.21
29 1 0.01
30 4 0.05
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (25 bp):
TGTATTATGTAAGTTATGTAAGTAA
Found at i:9943826 original size:95 final size:93
Alignment explanation
Indices: 9943471--9943825 Score: 267
Period size: 95 Copynumber: 3.8 Consensus size: 93
9943461 ATGTAAGTTA
* * ** * *
9943471 TGTGTATTATGTATTATGTATGTTATGCATAATATTAATTAAGTTGTGTAATATGTATTATGT--
1 TGTGTATTATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTATGTATTATGTAA
* *
9943534 -ACGT--TATGTATAATATTAATTAAGT
66 AATGTACTATATATAATATTAATTAAGT
* * * *
9943559 TGTGTATAATGTAAGAAATGTATTATGTATGTTATGTATAAAATTAATTAAG-T-TG-----TGT
1 TGTG--T-AT-T-----ATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTATGT
*
9943617 ATTATGT---ATGT--TATGTATAATATTAATTAAGT
57 ATTATGTAAAATGTACTATATATAATATTAATTAAGT
*
9943649 TGTGTATTATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTATGTATTATGTAT
1 TGTGTATTATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTATGTATTATGTAA
* *
9943714 TATGTACGCTATGTATAATATTAATTAAGT
66 AATGTA--CTATATATAATATTAATTAAGT
** * *
9943744 TGTGTATTATGTATTATGTACTTTATGTATAATATTAATTAAGTTGTGTATTATGTAAGTTATGT
1 TGTGTATTATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTATGT-A-TTATGT
*
9943809 AAGAAATGTATTATATA
64 -A-AAATGTACTATATA
9943826 AGTTGTGTAT
Statistics
Matches: 225, Mismatches: 15, Indels: 45
0.79 0.05 0.16
Matches are distributed among these distances:
81 31 0.14
82 1 0.00
83 2 0.01
86 1 0.00
87 2 0.01
88 15 0.07
90 39 0.17
91 6 0.03
92 1 0.00
95 75 0.33
96 2 0.01
97 44 0.20
98 1 0.00
99 5 0.02
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (93 bp):
TGTGTATTATGTATTATGTACGCTATATATAATATTAATTAAGTTGTGCATTATGTATTATGTAA
AATGTACTATATATAATATTAATTAAGT
Found at i:9943891 original size:37 final size:36
Alignment explanation
Indices: 9943850--9943930 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 36
9943840 TTAGTTATCA
9943850 AAGTTATGTACTATGTAA-TTAATTAT-TTAAGTTATGT
1 AAGTTATGTACTATGTAAGTT-ATTATGTT-A-TTATGT
* *
9943887 AAGTTGTGTATTATGTAAGTTATTATGTTATTATGT
1 AAGTTATGTACTATGTAAGTTATTATGTTATTATGT
9943923 AAGTTATG
1 AAGTTATG
9943931 CAAGTTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
36 13 0.33
37 22 0.56
38 4 0.10
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.49
Consensus pattern (36 bp):
AAGTTATGTACTATGTAAGTTATTATGTTATTATGT
Found at i:9943971 original size:42 final size:42
Alignment explanation
Indices: 9943916--9943999 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
9943906 TTATTATGTT
* *
9943916 ATTATGTAAGTTATGCAAGTTTATATATGATTTTATATATAA
1 ATTATGTAAGTTATGCAAGTTTATATATAAGTTTATATATAA
9943958 ATTATGTAAGTTATGCAAGTTTATATATAAGTTTATATATAA
1 ATTATGTAAGTTATGCAAGTTTATATATAAGTTTATATATAA
9944000 GTGTAAATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (42 bp):
ATTATGTAAGTTATGCAAGTTTATATATAAGTTTATATATAA
Found at i:9943991 original size:12 final size:12
Alignment explanation
Indices: 9943974--9944001 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9943964 TAAGTTATGC
9943974 AAGTTTATATAT
1 AAGTTTATATAT
9943986 AAGTTTATATAT
1 AAGTTTATATAT
9943998 AAGT
1 AAGT
9944002 GTAAATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (12 bp):
AAGTTTATATAT
Found at i:9945561 original size:84 final size:84
Alignment explanation
Indices: 9945461--9945710 Score: 419
Period size: 84 Copynumber: 3.0 Consensus size: 84
9945451 ATGGTGCGGC
* *
9945461 ATTGGCAAACAATAATTCACTCTTGCGGCGCTTTCCTAAAAAACGCCACTAGAAGATTTTATTCC
1 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAGAAGATTTTATTCC
* *
9945526 AGTAGAGAAACGGCGCTGT
66 AGTAGAGAAACGGCGCCGA
*
9945545 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAATCGCCACTAGAAGATTTTATTCC
1 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAGAAGATTTTATTCC
*
9945610 AGTAGAGAAACGGTGCCGA
66 AGTAGAGAAACGGCGCCGA
*
9945629 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTATAAGATTTTATTCC
1 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAGAAGATTTTATTCC
* *
9945694 TGTACAGAAACGGCGCC
66 AGTAGAGAAACGGCGCC
9945711 ACTTTGGCAA
Statistics
Matches: 155, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 155 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (84 bp):
ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAGAAGATTTTATTCC
AGTAGAGAAACGGCGCCGA
Found at i:9946271 original size:89 final size:88
Alignment explanation
Indices: 9946168--9946427 Score: 362
Period size: 89 Copynumber: 2.9 Consensus size: 88
9946158 TATAAAGAAC
* * ***
9946168 TTATTTAATATATAAATTAAAAAGTACTAATTAGTCTAAATTTTAAACCCTAACACGACCTCAAA
1 TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAAC-CGACCTCAAA
9946233 TCCCTAACCCCTAACCCCTAAACT
65 TCCCTAACCCCTAACCCCTAAACT
* * *
9946257 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAAACCTAAACTCGACCCCAA
1 TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCT-AAC-CGACCTCAA
9946322 ATCCCTAACCCCTAA-CCCTAAACT
64 ATCCCTAACCCCTAACCCCTAAACT
* *
9946346 TTACTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCATAACCTGATCCT-AA
1 TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAACC-GA-CCTCAA
*
9946410 ATCCCTAACCCTTAACCC
64 ATCCCTAACCCCTAACCC
9946428 TTAACCCCTA
Statistics
Matches: 152, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
87 1 0.01
88 21 0.14
89 104 0.68
90 26 0.17
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.28
Consensus pattern (88 bp):
TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAACCGACCTCAAAT
CCCTAACCCCTAACCCCTAAACT
Found at i:9946434 original size:14 final size:14
Alignment explanation
Indices: 9946412--9946445 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9946402 GATCCTAAAT
9946412 CCCTAACCCTTAAC
1 CCCTAACCCTTAAC
* *
9946426 CCTTAACCCCTAAC
1 CCCTAACCCTTAAC
9946440 CCCTAA
1 CCCTAA
9946446 ATCTTATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:9946451 original size:21 final size:21
Alignment explanation
Indices: 9946412--9946451 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9946402 GATCCTAAAT
* *
9946412 CCCTAACCCTTAACCCTTAAC
1 CCCTAACCCCTAAACCTTAAC
*
9946433 CCCTAACCCCTAAATCTTA
1 CCCTAACCCCTAAACCTTA
9946452 TTTAATATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (21 bp):
CCCTAACCCCTAAACCTTAAC
Found at i:9946562 original size:12 final size:12
Alignment explanation
Indices: 9946545--9946569 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9946535 CTCTTAACAT
9946545 CTAACCCCTAAC
1 CTAACCCCTAAC
9946557 CTAACCCCTAAC
1 CTAACCCCTAAC
9946569 C
1 C
9946570 CCTGACCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:9946637 original size:14 final size:15
Alignment explanation
Indices: 9946618--9946651 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
9946608 CTTAAACTAG
9946618 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
9946632 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
9946647 AATCC
1 AATCC
9946652 ATAAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:9947468 original size:114 final size:114
Alignment explanation
Indices: 9947215--9947583 Score: 488
Period size: 114 Copynumber: 3.2 Consensus size: 114
9947205 CTGAGCATTA
* * * * * *
9947215 GCGGCGCCTCCTCAAAAACGCCGCTAAAGCCTTGAGAATTAGCGACGCTTTATTAAAAACGTCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGC
* * * * *
9947280 TAAATCCCCAAAAGCTAAGAAACCA-CGTCGTTGAGCTTAGGTTCTTTT
66 TAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTT
* *
9947328 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGACGCTTTCTTAAAAATGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGC
* *
9947393 TAAATCCCCGACAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTT
* * *
9947442 GCGGCGCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGC
* * * * *
9947507 TAAGTCCTCGAAATCTCAAAAAACAGTGTCGTTGGGCTTAGGTTTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTT
* * * *
9947556 ACGGCGCTTTCTTAAAAATGTCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
9947584 TTGCCGAAAG
Statistics
Matches: 223, Mismatches: 32, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
113 77 0.35
114 146 0.65
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGC
TAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTT
Found at i:9947570 original size:73 final size:72
Alignment explanation
Indices: 9947484--9947655 Score: 202
Period size: 73 Copynumber: 2.4 Consensus size: 72
9947474 TGAGCATTAG
* * *
9947484 CGGCGCTTACTTAAAAACGCCGCTAAGTCCTCGAAATCTCAAAAAAC-AGTGTCGTTGGGCTTAG
1 CGGCGCTTTCTTAAAAACGCCGCTAAGTCC-CGAAAGCTCAAAAAACGA-CGTCGTTGGGCTTAG
9947548 GTTTTTTTA
64 GTTTTTTTA
* * * * *
9947557 CGGCGCTTTCTTAAAAATGTCGCTAAATTGCCGAAAGCTCAAAAAACGACGTCGTTGGGTTTAGG
1 CGGCGCTTTCTTAAAAACGCCGCT-AAGTCCCGAAAGCTCAAAAAACGACGTCGTTGGGCTTAGG
*
9947622 TTTTTTTG
65 TTTTTTTA
* * *
9947630 TGGCGCTTTCCTATAAACGCCGCTAA
1 CGGCGCTTTCTTAAAAACGCCGCTAA
9947656 AGCCCTGAGC
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
72 2 0.02
73 76 0.92
74 5 0.06
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (72 bp):
CGGCGCTTTCTTAAAAACGCCGCTAAGTCCCGAAAGCTCAAAAAACGACGTCGTTGGGCTTAGGT
TTTTTTA
Found at i:9947750 original size:187 final size:187
Alignment explanation
Indices: 9947373--9947769 Score: 532
Period size: 187 Copynumber: 2.1 Consensus size: 187
9947363 GCATTAGCGA
* * *
9947373 CGCTTTCTTAAAAATGCCGCTAAATCCCCGACAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
1 CGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTGGGCTTAGGTTT
9947438 TTTTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACG
66 TTTTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACG
* * * * * *
9947503 CCGCTAAGTCCTCGAAATCTCAAAAAACAGTGTCGTTGGGCTTAGGTTTTTTTACGG
131 CCGCTAAATCCCCGAAAGCTCAAAAAACAGCGTCATTGGGCTTAGGTTATTTTACGG
* ** *
9947560 CGCTTTCTTAAAAATGTCGCTAAATTGCCGAAAGCTCAAAAAACGACGTCGTTGGGTTTAGGTTT
1 CGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTGGGCTTAGGTTT
* * *
9947625 TTTTGTGGCGCTTTC-CTATAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTCT-CTTAAAAA
66 TTTTGCGGCGCTTTCTC-AAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCT-TACTT-AAAA
* * * * *
9947688 ACGCTGCTAAATCCCCGAACGCTGAAAAAACGGCGTCATTGGGCTTAGG-TATTTTGCGG
128 ACGCCGCTAAATCCCCGAAAGCTCAAAAAACAGCGTCATTGGGCTTAGGTTATTTTACGG
*
9947747 CGCTTTC-TAGAAAACGCCGCTAA
1 CGCTTTCTTA-AAAATGCCGCTAA
9947770 TGCTTATTTT
Statistics
Matches: 183, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
186 3 0.02
187 135 0.74
188 45 0.25
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (187 bp):
CGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTGGGCTTAGGTTT
TTTTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACG
CCGCTAAATCCCCGAAAGCTCAAAAAACAGCGTCATTGGGCTTAGGTTATTTTACGG
Found at i:9947762 original size:114 final size:114
Alignment explanation
Indices: 9947557--9947769 Score: 270
Period size: 115 Copynumber: 1.9 Consensus size: 114
9947547 GGTTTTTTTA
* * ** * *
9947557 CGGCGCTTTCTTAAAAATGTCGCTAAATTGCCGAAAGCTCAAAAAACGACGTCGTTGGGTTTAGG
1 CGGCGCTCTCTTAAAAACGTCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCATTGGGCTTAGG
* * *
9947622 TTTTTTTGTGGCGCTTTCCTATAAACGCCGCTAAAGCCCTGAGCATTAG
66 TTATTTTGCGGCGCTTTCCTAAAAACGCCGCTAAAGCCCTGAGCATTAG
* * *
9947671 CGGCGCTCTCTTAAAAAACG-CTGCTAAATCCCCGAACGCTGAAAAAACGGCGTCATTGGGCTTA
1 CGGCGCTCTCTT-AAAAACGTC-GCTAAATCCCCGAAAGCTCAAAAAACGACGTCATTGGGCTTA
9947735 GG-TATTTTGCGGCGCTTT-CTAGAAAACGCCGCTAA
64 GGTTATTTTGCGGCGCTTTCCTA-AAAACGCCGCTAA
9947770 TGCTTATTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
113 3 0.04
114 38 0.45
115 43 0.51
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (114 bp):
CGGCGCTCTCTTAAAAACGTCGCTAAATCCCCGAAAGCTCAAAAAACGACGTCATTGGGCTTAGG
TTATTTTGCGGCGCTTTCCTAAAAACGCCGCTAAAGCCCTGAGCATTAG
Found at i:9959086 original size:29 final size:30
Alignment explanation
Indices: 9959044--9959100 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
9959034 TATACCACAT
* * *
9959044 TCAAACTTGTATGTGTATAATTGCACAAAA
1 TCAAAATTGTATGTATAGAATTGCACAAAA
*
9959074 TCAAAATT-TATGTATCGAATTGCACAA
1 TCAAAATTGTATGTATAGAATTGCACAA
9959101 TAAATTAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (30 bp):
TCAAAATTGTATGTATAGAATTGCACAAAA
Found at i:9959199 original size:17 final size:17
Alignment explanation
Indices: 9959179--9959216 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9959169 AAATTTAATT
*
9959179 ATAAATGTTTATGGATG
1 ATAAATGATTATGGATG
*
9959196 ATAAATGATTATGTATG
1 ATAAATGATTATGGATG
9959213 ATAA
1 ATAA
9959217 TAAATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (17 bp):
ATAAATGATTATGGATG
Found at i:9959862 original size:3 final size:3
Alignment explanation
Indices: 9959854--9959888 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9959844 GGAACTTTAA
9959854 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9959889 AAGGCGAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9964923 original size:33 final size:32
Alignment explanation
Indices: 9964866--9964927 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
9964856 TAATTTTTTG
9964866 TTTTATATTTTTAAATTTATTTTAACAAAATA
1 TTTTATATTTTTAAATTTATTTTAACAAAATA
*
9964898 TTTTATAATTTTTGAATATTA-TTTAACAAA
1 TTTTAT-ATTTTTAAAT-TTATTTTAACAAA
9964928 GTTTCAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 6 0.22
33 18 0.67
34 3 0.11
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (32 bp):
TTTTATATTTTTAAATTTATTTTAACAAAATA
Found at i:9965352 original size:17 final size:18
Alignment explanation
Indices: 9965330--9965370 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9965320 ACGTATTTAG
9965330 ATATATTTAAA-AAT-AGA
1 ATATATTTAAATAATGA-A
9965347 ATATA-TTAAATAATGAA
1 ATATATTTAAATAATGAA
9965364 ATATATT
1 ATATATT
9965371 ATTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.24
17 14 0.67
18 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
ATATATTTAAATAATGAA
Found at i:9965401 original size:18 final size:18
Alignment explanation
Indices: 9965374--9965410 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9965364 ATATATTATT
* *
9965374 TAAAATAATACATTAAAA
1 TAAAAAAATAAATTAAAA
9965392 TAAAAAAATAAATTAAAA
1 TAAAAAAATAAATTAAAA
9965410 T
1 T
9965411 TTGAGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAAAATAAATTAAAA
Found at i:9983047 original size:12 final size:12
Alignment explanation
Indices: 9983030--9983054 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9983020 AGGCGGTGAC
9983030 CCTGTTACTTAA
1 CCTGTTACTTAA
9983042 CCTGTTACTTAA
1 CCTGTTACTTAA
9983054 C
1 C
9983055 ACAGAGGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (12 bp):
CCTGTTACTTAA
Found at i:9983842 original size:29 final size:29
Alignment explanation
Indices: 9983773--9983908 Score: 146
Period size: 29 Copynumber: 4.6 Consensus size: 29
9983763 GGCTTCCACT
* *
9983773 TATAACATATTCCGCCACTAGGGCTTACA
1 TATAACATATTCAGCCACTAGGGCTCACA
* * *
9983802 TATAATAGATTCCGCCACTAGGGCTCACA
1 TATAACATATTCAGCCACTAGGGCTCACA
* *
9983831 TATAACATATTCAGCCACAAAGGCCTCCACA
1 TATAACATATTCAGCCAC-TAGGGCT-CACA
* *** *
9983862 TATAACAGATTTTTCCACTAGGACTCACA
1 TATAACATATTCAGCCACTAGGGCTCACA
9983891 TATAACATATTCAGCCAC
1 TATAACATATTCAGCCAC
9983909 AAACTATAAC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
29 59 0.68
30 10 0.11
31 18 0.21
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.26
Consensus pattern (29 bp):
TATAACATATTCAGCCACTAGGGCTCACA
Found at i:9983872 original size:60 final size:59
Alignment explanation
Indices: 9983773--9983911 Score: 181
Period size: 60 Copynumber: 2.4 Consensus size: 59
9983763 GGCTTCCACT
* * * * * *
9983773 TATAACATATTCCGCCAC-TAGGGCTTACATATAATAGATTCCGCCACTAGGGCTCACA
1 TATAACATATTCAGCCACAAAGGCCTCACATATAACAGATTCCGCCACTAGGACTCACA
***
9983831 TATAACATATTCAGCCACAAAGGCCTCCACATATAACAGATTTTTCCACTAGGACTCACA
1 TATAACATATTCAGCCACAAAGGCCT-CACATATAACAGATTCCGCCACTAGGACTCACA
9983891 TATAACATATTCAGCCACAAA
1 TATAACATATTCAGCCACAAA
9983912 CTATAACACC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
58 17 0.24
59 5 0.07
60 48 0.69
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (59 bp):
TATAACATATTCAGCCACAAAGGCCTCACATATAACAGATTCCGCCACTAGGACTCACA
Found at i:9994267 original size:33 final size:33
Alignment explanation
Indices: 9994228--9994297 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
9994218 TACATATTCA
* *
9994228 TCAAACACCACTTGAAAAGATTCTATATATATT
1 TCAAACACCACTTGAAAACATCCTATATATATT
9994261 TCAAACACCACTTGAAAACATCCTATATATATT
1 TCAAACACCACTTGAAAACATCCTATATATATT
9994294 TCAA
1 TCAA
9994298 CCACAAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (33 bp):
TCAAACACCACTTGAAAACATCCTATATATATT
Found at i:9994619 original size:41 final size:41
Alignment explanation
Indices: 9994546--9994835 Score: 280
Period size: 41 Copynumber: 7.1 Consensus size: 41
9994536 GTCTAAACAA
* * * *
9994546 GGCACAAAAGTGC-ATTTAGGTGTACCGAAGTACAAATAGG
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* * * *
9994586 GGCACATATGTGCAATTCAGGGGTACCGTAGTACAAAGAGT
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* *
9994627 GGCACGTATGTGCAATTT-GGAGGTACCAAAGTACAAACAGG
1 GGCACATATGTGCAATTTAGG-GGTACCGAAGTACAAACAGG
* * * * *
9994668 GGCACGTATGTGTAATTTAAGGGTACCAAAATACAAACAGG
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* * * * * *
9994709 GGCACTTATTTGCAATTCAGGGATA-TGAAACTACAAACAGG
1 GGCACATATGTGCAATTTAGGGGTACCG-AAGTACAAACAGG
* * * * *
9994750 AGCACATATGTGTAATTTAGGGGTACTGAAATACAAACAAG
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* * *
9994791 GGCACATATGTGCAATTTAAGGGTATCGAAGTACAAACAAG
1 GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
9994832 GGCA
1 GGCA
9994836 TGTTTGTGCA
Statistics
Matches: 206, Mismatches: 39, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
40 13 0.06
41 190 0.92
42 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.22
Consensus pattern (41 bp):
GGCACATATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
Found at i:9994785 original size:123 final size:123
Alignment explanation
Indices: 9994540--9994835 Score: 318
Period size: 123 Copynumber: 2.4 Consensus size: 123
9994530 ACCGGAGTCT
* * *
9994540 AAACAA-GGCACAAAAGTGC-ATTT-AGGTGTACCGAAGTACAAATAGGGGCACATATGTGCAAT
1 AAACAAGGGCACATATGTGCAATTTAAGG-GTACCGAAGTACAAACAGGGGCACATATGTGCAAT
* * * * *
9994602 TCAGGGGTACCGTAGTACAAAGAGTGGCACGTATGTGCAATTTGGAGGTACCAAAGTAC
65 TCAGGGATACCGAACTACAAACAGTGGCACATATGTGCAATTTGGAGGTACCAAAGTAC
* * * * * * *
9994661 AAACAGGGGCACGTATGTGTAATTTAAGGGTACCAAAATACAAACAGGGGCACTTATTTGCAATT
1 AAACAAGGGCACATATGTGCAATTTAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATT
* * *
9994726 CAGGGATA-TGAAACTACAAACAG-GAGCACATATGTGTAATTTAGG-GGTACTGAAA-TAC
66 CAGGGATACCG-AACTACAAACAGTG-GCACATATGTGCAATTT-GGAGGTAC-CAAAGTAC
* *
9994784 AAACAAGGGCACATATGTGCAATTTAAGGGTATCGAAGTACAAACAAGGGCA
1 AAACAAGGGCACATATGTGCAATTTAAGGGTACCGAAGTACAAACAGGGGCA
9994836 TGTTTGTGCA
Statistics
Matches: 143, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
121 5 0.03
122 11 0.08
123 119 0.83
124 8 0.06
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (123 bp):
AAACAAGGGCACATATGTGCAATTTAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATT
CAGGGATACCGAACTACAAACAGTGGCACATATGTGCAATTTGGAGGTACCAAAGTAC
Found at i:9995619 original size:24 final size:24
Alignment explanation
Indices: 9995587--9995634 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
9995577 GGAAGAAAAC
9995587 CAATTAGAAAGATGATACTATCTT
1 CAATTAGAAAGATGATACTATCTT
9995611 CAATTAGAAAGATGATACTATCTT
1 CAATTAGAAAGATGATACTATCTT
9995635 TACTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
CAATTAGAAAGATGATACTATCTT
Found at i:9999807 original size:54 final size:54
Alignment explanation
Indices: 9999697--9999853 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
9999687 TTTTTCTCAC
* * * * * * * *
9999697 ATGACGCCATAGTCCCAGACTAGGTCTTG-CATTATGTGGTCTTCATATCCCCAT
1 ATGATGCCATAATCCGAGACTAGGTC-TGACACTATATGATCTTCTTGTCCCCAT
* * * *
9999751 ATGATGCCATAGTCCGAGTCTAGGTCTGACACTATATGATCTTTTTGTCCCTAT
1 ATGATGCCATAATCCGAGACTAGGTCTGACACTATATGATCTTCTTGTCCCCAT
* * * *
9999805 ATGATGCCATAATCCTAGACTAGGTCTTACACTTTATGGTCTTCTTGTC
1 ATGATGCCATAATCCGAGACTAGGTCTGACACTATATGATCTTCTTGTC
9999854 ATAGCTGTGG
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
ATGATGCCATAATCCGAGACTAGGTCTGACACTATATGATCTTCTTGTCCCCAT
Found at i:10003695 original size:105 final size:104
Alignment explanation
Indices: 10003445--10003813 Score: 620
Period size: 104 Copynumber: 3.6 Consensus size: 104
10003435 TAACCGTTAT
* * **
10003445 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
10003510 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* *
10003549 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
10003613 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
10003654 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCAC--AGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
10003717 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
**
10003756 TGGTGGATCACGCACATAGCACCACCAAT-AATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
10003814 TTATATACAA
Statistics
Matches: 254, Mismatches: 6, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
101 17 0.07
102 47 0.19
103 47 0.19
104 81 0.32
105 61 0.24
106 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:10004173 original size:29 final size:29
Alignment explanation
Indices: 10004140--10004203 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
10004130 TAATCCACCA
10004140 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
10004169 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
10004199 CCCAA
1 CCCAA
10004204 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:10004177 original size:30 final size:30
Alignment explanation
Indices: 10004147--10004203 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10004137 CCACCCAACT
10004147 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
10004176 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
10004204 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:10012015 original size:104 final size:104
Alignment explanation
Indices: 10011835--10012202 Score: 618
Period size: 104 Copynumber: 3.6 Consensus size: 104
10011825 TAACCGTTAT
* * **
10011835 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
10011900 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* *
10011939 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
10012003 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
10012043 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCAC--AGCAA-CCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
10012105 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
10012144 TGGTGGATCACGCACATAGCACCACCAATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
10012203 TTATATACAA
Statistics
Matches: 252, Mismatches: 7, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
101 95 0.38
102 5 0.02
103 5 0.02
104 146 0.58
105 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:10012561 original size:29 final size:29
Alignment explanation
Indices: 10012528--10012591 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
10012518 TAATCCACCA
10012528 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
10012557 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
10012587 CCCAA
1 CCCAA
10012592 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:10012565 original size:30 final size:30
Alignment explanation
Indices: 10012535--10012591 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10012525 CCACCCAACT
10012535 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
10012564 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
10012592 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:10016813 original size:15 final size:16
Alignment explanation
Indices: 10016777--10016814 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
10016767 TTATATTGCA
10016777 TATATATATGTTAACT
1 TATATATATGTTAACT
*
10016793 TAATATATAT-TTAAGT
1 T-ATATATATGTTAACT
10016809 TATATA
1 TATATA
10016815 ATGATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 7 0.35
17 8 0.40
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (16 bp):
TATATATATGTTAACT
Found at i:10020524 original size:22 final size:22
Alignment explanation
Indices: 10020488--10020547 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
10020478 GGCCTGGCCC
**
10020488 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATAAAAAAA
10020510 ATTTATTTTAAAAATAAAAAAA
1 ATTTATTTTAAAAATAAAAAAA
**
10020532 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
10020548 TTTTAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 27 0.82
23 6 0.18
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTTATTTTAAAAATAAAAAAA
Found at i:10020544 original size:11 final size:11
Alignment explanation
Indices: 10020529--10020566 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
10020519 AAAAATAAAA
10020529 AAAAAGTATTTT
1 AAAAA-TATTTT
10020541 AAAAATATTTT
1 AAAAATATTTT
10020552 AAAAATATTTT
1 AAAAATATTTT
10020563 AAAA
1 AAAA
10020567 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:10023451 original size:27 final size:26
Alignment explanation
Indices: 10023399--10023474 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
10023389 ACCCTTGAAA
* * * *
10023399 GGTAAAATGAACGAAATACCCCTATAT
1 GGTAAAAT-AACGTAATGCCCTTATAG
10023426 GGTAAAATAATCGTAATGCCCTTATAG
1 GGTAAAATAA-CGTAATGCCCTTATAG
* *
10023453 GGTAATATGACCGTAATGCCCT
1 GGTAAAAT-AACGTAATGCCCT
10023475 GGTGGGAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 38 0.93
28 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (26 bp):
GGTAAAATAACGTAATGCCCTTATAG
Found at i:10023566 original size:24 final size:24
Alignment explanation
Indices: 10023534--10023591 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
10023524 CTGTGGTTAA
10023534 ATGAATGATTTGTCTGTG-TTTGG
1 ATGAATGATTTGTCTGTGATTTGG
* *
10023557 TATGACTGATTTGTTTGTGATTTGG
1 -ATGAATGATTTGTCTGTGATTTGG
*
10023582 ATGATTGATT
1 ATGAATGATT
10023592 CTGAGCATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.50
Consensus pattern (24 bp):
ATGAATGATTTGTCTGTGATTTGG
Found at i:10023698 original size:27 final size:26
Alignment explanation
Indices: 10023655--10023724 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
10023645 ATGGAGGAAG
**
10023655 TACTG-TACTGGTGGCTTGGCCATAT-A
1 TACTGTTACTGGCAGCTTGG-C-TATGA
* *
10023681 TACTGTTACTGGCAGCTTTGCTGTGA
1 TACTGTTACTGGCAGCTTGGCTATGA
*
10023707 TACTGTTGCTGGCAGCTT
1 TACTGTTACTGGCAGCTT
10023725 TGCTGCGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 2 0.05
26 24 0.65
27 11 0.30
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTGGCTATGA
Found at i:10023709 original size:26 final size:26
Alignment explanation
Indices: 10023680--10023736 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
10023670 TTGGCCATAT
*
10023680 ATACTGTTACTGGCAGCTTTGCTGTG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
10023706 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
10023732 ATACT
1 ATACT
10023737 ATTGATGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:10023745 original size:26 final size:26
Alignment explanation
Indices: 10023690--10023745 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
10023680 ATACTGTTAC
* * *
10023690 TGGCAGCTTTGCTGTGATACTGTTGC
1 TGGCAGCTTTGCTGCGATACTATTGA
10023716 TGGCAGCTTTGCTGCGATACTATTGA
1 TGGCAGCTTTGCTGCGATACTATTGA
10023742 TGGC
1 TGGC
10023746 TTTGTGCCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.14, C:0.20, G:0.30, T:0.36
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTATTGA
Found at i:10023784 original size:32 final size:33
Alignment explanation
Indices: 10023739--10023926 Score: 242
Period size: 32 Copynumber: 5.8 Consensus size: 33
10023729 GCGATACTAT
*
10023739 TGATGGCTT-TGTGCCGATCATATTACCATTAC
1 TGATGGCTTGTGTGCCGATCATATTACTATTAC
* *
10023771 TGATGG-TTGTGTGCTGATCATATTACCATTAC
1 TGATGGCTTGTGTGCCGATCATATTACTATTAC
* * *
10023803 TGATGG-TTGTGTGCCTATTATATTACTACTAC
1 TGATGGCTTGTGTGCCGATCATATTACTATTAC
* *
10023835 TGATGGCTTTTGTGCCGATCATACTACTATTAC
1 TGATGGCTTGTGTGCCGATCATATTACTATTAC
* *
10023868 TAATGGC-TGTGTGCCGATCATATTACTACTAC
1 TGATGGCTTGTGTGCCGATCATATTACTATTAC
*
10023900 TGATGGCTT-TGTGCCAATCATATTACT
1 TGATGGCTTGTGTGCCGATCATATTACT
10023927 GTACTTGGGG
Statistics
Matches: 136, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
31 2 0.01
32 106 0.78
33 28 0.21
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (33 bp):
TGATGGCTTGTGTGCCGATCATATTACTATTAC
Found at i:10023879 original size:65 final size:65
Alignment explanation
Indices: 10023741--10023926 Score: 250
Period size: 65 Copynumber: 2.9 Consensus size: 65
10023731 GATACTATTG
* * * * * * *
10023741 ATGGCTTTGTGCCGATCATATTACCATTACTGATGG-TTGTGTGCTGATCATATTACCATTACTG
1 ATGGCTGTGTGCCGATCATATTACTACTACTGATGGCTTTTGTGCCGATCATATTACTATTACTA
* * * *
10023805 ATGGTTGTGTGCCTATTATATTACTACTACTGATGGCTTTTGTGCCGATCATACTACTATTACTA
1 ATGGCTGTGTGCCGATCATATTACTACTACTGATGGCTTTTGTGCCGATCATATTACTATTACTA
*
10023870 ATGGCTGTGTGCCGATCATATTACTACTACTGATGGC-TTTGTGCCAATCATATTACT
1 ATGGCTGTGTGCCGATCATATTACTACTACTGATGGCTTTTGTGCCGATCATATTACT
10023927 GTACTTGGGG
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 48 0.46
65 57 0.54
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (65 bp):
ATGGCTGTGTGCCGATCATATTACTACTACTGATGGCTTTTGTGCCGATCATATTACTATTACTA
Found at i:10023879 original size:97 final size:96
Alignment explanation
Indices: 10023733--10023926 Score: 273
Period size: 97 Copynumber: 2.0 Consensus size: 96
10023723 TTTGCTGCGA
* * * * *
10023733 TACTATTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGTTGTGTGCTGATCATATTACC
1 TACTACTGATGGCTTTGTGCCGATCATACTACCATTACTAATGGCTGTGTGCCGATCATATTACC
* * *
10023798 ATTACTGATGG-TTGTGTGCCTATTATATTAC
66 ACTACTGATGGCTT-TGTGCCAATCATATTAC
*
10023829 TACTACTGATGGCTTTTGTGCCGATCATACTACTATTACTAATGGCTGTGTGCCGATCATATTAC
1 TACTACTGATGGC-TTTGTGCCGATCATACTACCATTACTAATGGCTGTGTGCCGATCATATTAC
*
10023894 TACTACTGATGGCTTTGTGCCAATCATATTAC
65 CACTACTGATGGCTTTGTGCCAATCATATTAC
10023926 T
1 T
10023927 GTACTTGGGG
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
96 12 0.14
97 72 0.84
98 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (96 bp):
TACTACTGATGGCTTTGTGCCGATCATACTACCATTACTAATGGCTGTGTGCCGATCATATTACC
ACTACTGATGGCTTTGTGCCAATCATATTAC
Found at i:10027991 original size:60 final size:60
Alignment explanation
Indices: 10027920--10028046 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
10027910 CACTAGGAGA
* ** * *
10027920 AGGAAATCCTTTATGGTAAGTACTG-ATGTTAAGGAATGCCTTTATCGTAAAACTCTGGAC
1 AGGAAAGCCTTTATCCT-AGTACTGAATGTTAAGGAATGCCTTTAGCGCAAAACTCTGGAC
* * * * *
10027980 AGGAAAGCCTTTGTCCTAGTATTGAATGTTAAGGAATTCCTTTGGGGCAAAACTCTGGAC
1 AGGAAAGCCTTTATCCTAGTACTGAATGTTAAGGAATGCCTTTAGCGCAAAACTCTGGAC
10028040 AGGAAAG
1 AGGAAAG
10028047 TTCTATAAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 6 0.11
60 50 0.89
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (60 bp):
AGGAAAGCCTTTATCCTAGTACTGAATGTTAAGGAATGCCTTTAGCGCAAAACTCTGGAC
Found at i:10034100 original size:50 final size:50
Alignment explanation
Indices: 10033979--10034270 Score: 282
Period size: 50 Copynumber: 5.7 Consensus size: 50
10033969 GGTAAAAAGA
*
10033979 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* * *
10034035 TCCCATATAATACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
10034085 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
10034135 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGAACCGATATGAGAAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * * * **
10034185 TCCCATGTAAGATCATATCTGGGATATGACATTGGTA--GTACAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
* *
10034234 TCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10034271 TGTTATTATC
Statistics
Matches: 199, Mismatches: 36, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 35 0.18
50 125 0.63
53 3 0.02
55 1 0.01
56 34 0.17
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:10038181 original size:23 final size:24
Alignment explanation
Indices: 10038128--10038181 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
10038118 GAAGTCTAAA
10038128 AAATAAAATAAAAACAAATAACAG
1 AAATAAAATAAAAACAAATAACAG
* ** *
10038152 AGA-AAAATAAAAGTAAA-AATAG
1 AAATAAAATAAAAACAAATAACAG
10038174 AAATAAAA
1 AAATAAAA
10038182 AATAAATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 6 0.25
23 16 0.67
24 2 0.08
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (24 bp):
AAATAAAATAAAAACAAATAACAG
Found at i:10051586 original size:28 final size:28
Alignment explanation
Indices: 10051535--10051616 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
10051525 CTGATACTGA
10051535 TTCTG-TAATGGGCTT-AGG-TCCACCTGG
1 TTCTGTTAATGGG-TTAAGGCT-CACCTGG
10051562 TTCTGTTAAT-GGTCTAAGGCTCACCTGG
1 TTCTGTTAATGGGT-TAAGGCTCACCTGG
10051590 TTCTGTTAATGGGTTAAGGCTCACCTG
1 TTCTGTTAATGGGTTAAGGCTCACCTG
10051617 ATACTATGCC
Statistics
Matches: 50, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
26 1 0.02
27 8 0.16
28 37 0.74
29 4 0.08
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (28 bp):
TTCTGTTAATGGGTTAAGGCTCACCTGG
Found at i:10057687 original size:18 final size:18
Alignment explanation
Indices: 10057666--10057703 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10057656 TTTATTTTTC
10057666 AATACTAATTTGACCCAA
1 AATACTAATTTGACCCAA
* *
10057684 AATACTTATTTTACCCAA
1 AATACTAATTTGACCCAA
10057702 AA
1 AA
10057704 ATTATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (18 bp):
AATACTAATTTGACCCAA
Found at i:10058194 original size:18 final size:18
Alignment explanation
Indices: 10058147--10058199 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
10058137 AAATGTAACA
* *
10058147 ACTAAATTAAAAAAAATT
1 ACTAAATTAATAAAAATG
* **
10058165 ATTAAAAAAATAAAAATG
1 ACTAAATTAATAAAAATG
10058183 ACTAAATTAATAGAAAA
1 ACTAAATTAATA-AAAA
10058200 AAAAGTTTTC
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (18 bp):
ACTAAATTAATAAAAATG
Found at i:10063498 original size:61 final size:61
Alignment explanation
Indices: 10063423--10063572 Score: 221
Period size: 61 Copynumber: 2.5 Consensus size: 61
10063413 AAGAGAAGTA
*
10063423 TACTAAATGTTAAGGAATGCCTTTGTGGTAAAACTCTGGACAGGAAAACATTTGTGGT-GAG
1 TACTAAATGTTAAGGAACGCCTTTGTGGTAAAACTCTGGACAGGAAAACATTTGT-GTCGAG
* * * *
10063484 TACTAAATGTTAAGGAACACCTTTGGGGTAAAACTCTGGACAGGAAAGCCTTTGTGTCGAG
1 TACTAAATGTTAAGGAACGCCTTTGTGGTAAAACTCTGGACAGGAAAACATTTGTGTCGAG
* *
10063545 TATTAAATGTTAAGGAACGTCTTTGTGG
1 TACTAAATGTTAAGGAACGCCTTTGTGG
10063573 AAAGAGTCGG
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
60 2 0.03
61 77 0.97
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (61 bp):
TACTAAATGTTAAGGAACGCCTTTGTGGTAAAACTCTGGACAGGAAAACATTTGTGTCGAG
Found at i:10065333 original size:21 final size:21
Alignment explanation
Indices: 10065308--10065364 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
10065298 GAAAGATTTA
*
10065308 AAATTAATAATTGAGAATTGG
1 AAATTAAGAATTGAGAATTGG
*
10065329 AAATTTAGAATTGAGAATT-G
1 AAATTAAGAATTGAGAATTGG
*
10065349 AGAATTGAGAATTGAG
1 A-AATTAAGAATTGAG
10065365 GAGTGAGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 2 0.06
21 30 0.94
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.32
Consensus pattern (21 bp):
AAATTAAGAATTGAGAATTGG
Found at i:10065386 original size:7 final size:7
Alignment explanation
Indices: 10065316--10065385 Score: 79
Period size: 7 Copynumber: 10.0 Consensus size: 7
10065306 TAAAATTAAT
10065316 AATTGAG
1 AATTGAG
10065323 AATTG-G
1 AATTGAG
*
10065329 AAATTTAG
1 -AATTGAG
10065337 AATTGAG
1 AATTGAG
10065344 AATTGAG
1 AATTGAG
10065351 AATTGAG
1 AATTGAG
10065358 AATTGAG
1 AATTGAG
* *
10065365 GAGTGAG
1 AATTGAG
*
10065372 GATTGAG
1 AATTGAG
*
10065379 TATTGAG
1 AATTGAG
10065386 TTGAAAAGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
6 1 0.02
7 53 0.96
8 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.30
Consensus pattern (7 bp):
AATTGAG
Found at i:10076004 original size:18 final size:18
Alignment explanation
Indices: 10075978--10076039 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 18
10075968 TTATTATAAA
*
10075978 TTATGATAATTCCTATTT
1 TTATTATAATTCCTATTT
*
10075996 TTATTATAATT--TATATA
1 TTATTATAATTCCTAT-TT
*
10076013 TTGTTA-AATTCCTA-TT
1 TTATTATAATTCCTATTT
10076029 TTATTATAATT
1 TTATTATAATT
10076040 TACATACTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
16 13 0.37
17 10 0.29
18 12 0.34
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (18 bp):
TTATTATAATTCCTATTT
Found at i:10083496 original size:16 final size:15
Alignment explanation
Indices: 10083471--10083522 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
10083461 TTAAATTATT
10083471 ATTTAATATAAAATA
1 ATTTAATATAAAATA
**
10083486 ATTTAAATATAATTTA
1 ATTT-AATATAAAATA
*
10083502 TTTTTAATATAAATATA
1 -ATTTAATATAAA-ATA
10083519 ATTT
1 ATTT
10083523 TCAATTATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
15 4 0.14
16 19 0.68
17 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTAATATAAAATA
Found at i:10087107 original size:25 final size:25
Alignment explanation
Indices: 10087067--10087153 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 25
10087057 ATTTATCTGG
*
10087067 AAAGCCTTTGTAGTGAATTCTCTAA
1 AAAGCCTTTGTGGTGAATTCTCTAA
* *
10087092 AAAGCCTCTGTGGTGAATTCTCTAG
1 AAAGCCTTTGTGGTGAATTCTCTAA
* ** *
10087117 AAATCCTTTGTGGCAAATCCTCTAA
1 AAAGCCTTTGTGGTGAATTCTCTAA
*
10087142 AAAGCCTATGTG
1 AAAGCCTTTGTG
10087154 ACTACCTCAT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (25 bp):
AAAGCCTTTGTGGTGAATTCTCTAA
Found at i:10093115 original size:20 final size:20
Alignment explanation
Indices: 10093090--10093167 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
10093080 TTGTACGGGA
10093090 TTGCACTTCTGTGCCTCTGT
1 TTGCACTTCTGTGCCTCTGT
10093110 TTGCACTT-TAGTGCCTCTGT
1 TTGCACTTCT-GTGCCTCTGT
** * *
10093130 TTATACTTC-GATGTCTCTAT
1 TTGCACTTCTG-TGCCTCTGT
* *
10093150 TTGCACTGCGGTGCCTCT
1 TTGCACTTCTGTGCCTCT
10093168 AATTGCACAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
19 2 0.04
20 43 0.93
21 1 0.02
ACGTcount: A:0.10, C:0.27, G:0.19, T:0.44
Consensus pattern (20 bp):
TTGCACTTCTGTGCCTCTGT
Found at i:10097451 original size:70 final size:70
Alignment explanation
Indices: 10097333--10097469 Score: 238
Period size: 70 Copynumber: 2.0 Consensus size: 70
10097323 CAAACATACT
*
10097333 TGATTAAATTTCATATCAAAACATTCCCTAAATGATCACTTTGCAAACATGCCAACACATACCAC
1 TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGCAAACATGCCAACACATACCAC
10097398 TTTGG
66 TTTGG
* * *
10097403 TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGTAAACATGCTAGCACATACCAC
1 TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGCAAACATGCCAACACATACCAC
10097468 TT
66 TT
10097470 CGGCCATAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (70 bp):
TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGCAAACATGCCAACACATACCAC
TTTGG
Found at i:10098965 original size:29 final size:29
Alignment explanation
Indices: 10098901--10099020 Score: 143
Period size: 29 Copynumber: 4.1 Consensus size: 29
10098891 GTGCTAAACG
* ** *
10098901 ATGGTCGAAACCATCTCTTTTTTTAATT-G
1 ATGGTCGAAACCATCCCTTTTCAT-ATTCA
10098930 ATGGTCGAAACCATCCCTTTTCATATTCA
1 ATGGTCGAAACCATCCCTTTTCATATTCA
* * *
10098959 ATTGTCGAAGCCATCCCTTTTCATATTCG
1 ATGGTCGAAACCATCCCTTTTCATATTCA
**
10098988 ATGGTCGTCACCATCCCTTTTCATATTCA
1 ATGGTCGAAACCATCCCTTTTCATATTCA
10099017 ATGG
1 ATGG
10099021 GCGTCAATAC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 3 0.04
29 75 0.96
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
ATGGTCGAAACCATCCCTTTTCATATTCA
Found at i:10101149 original size:19 final size:19
Alignment explanation
Indices: 10101127--10101165 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
10101117 CACGGCCGTA
10101127 TGGAACCTCCAAGGCCATG
1 TGGAACCTCCAAGGCCATG
*
10101146 TGGAACCTCCAATGCCATG
1 TGGAACCTCCAAGGCCATG
10101165 T
1 T
10101166 AACTTTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (19 bp):
TGGAACCTCCAAGGCCATG
Found at i:10103361 original size:51 final size:51
Alignment explanation
Indices: 10103244--10103361 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 51
10103234 ATCAATGAGG
* * **
10103244 TTCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCA
* * ** * * *
10103295 TCCGATACATGTAGTAGCCTGCAGATAGTACTACACACGTGATCAAAACTA
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCA
*
10103346 TTCGGTACGCATAGTA
1 TTCGGTACACATAGTA
10103362 CACATGCGAC
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (51 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCA
Found at i:10106079 original size:20 final size:20
Alignment explanation
Indices: 10106010--10106079 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
10106000 ATAACAGAAG
*
10106010 CACCGAAGTGCTAAAAAGGG-
1 CACCGAAGTGC-AAACAGGGA
* *
10106030 CA-CAAATGTGCAAACAGGGG
1 CACCGAA-GTGCAAACAGGGA
* * *
10106050 CACTGTAGTGCGAACAGGGA
1 CACCGAAGTGCAAACAGGGA
10106070 CACCGAAGTG
1 CACCGAAGTG
10106080 TATTCAAAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 10 0.26
20 27 0.71
21 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.31, T:0.11
Consensus pattern (20 bp):
CACCGAAGTGCAAACAGGGA
Found at i:10106110 original size:20 final size:20
Alignment explanation
Indices: 10106087--10106124 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10106077 GTGTATTCAA
* *
10106087 AGGCACCGAATTGCAAATAG
1 AGGCACCAAAGTGCAAATAG
10106107 AGGCACCAAAGTGCAAAT
1 AGGCACCAAAGTGCAAAT
10106125 CTAGTACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAATAG
Done.