Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 28 of 318
Found at i:7515212 original size:46 final size:46
Alignment explanation
Indices: 7515037--7515212 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
7515027 TGTAACCCGC
* * *
7515037 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
7515083 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
7515133 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7515176 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
7515213 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7520106 original size:18 final size:19
Alignment explanation
Indices: 7520076--7520115 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
7520066 AATAACATTT
7520076 ATATCCTATAAATAAA-AA
1 ATATCCTATAAATAAATAA
7520094 ATATCACTA-AAATAAATAA
1 ATATC-CTATAAATAAATAA
7520113 ATA
1 ATA
7520116 ATGTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (19 bp):
ATATCCTATAAATAAATAA
Found at i:7521332 original size:9 final size:10
Alignment explanation
Indices: 7521307--7521338 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
7521297 CTGACTTAAA
7521307 AATTAATTTT
1 AATTAATTTT
7521317 AATTAATTTT
1 AATTAATTTT
7521327 -ATTAA-TTT
1 AATTAATTTT
7521335 AATT
1 AATT
7521339 TTACTTGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 8 0.38
10 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AATTAATTTT
Found at i:7529914 original size:39 final size:39
Alignment explanation
Indices: 7529870--7529994 Score: 162
Period size: 39 Copynumber: 3.2 Consensus size: 39
7529860 GATTGGAAAT
7529870 ATATCCGGACATGAGGTCCGCAGGCTATATGCTGAAAAA
1 ATATCCGGACATGAGGTCCGCAGGCTATATGCTGAAAAA
* *
7529909 ATATCCGGACATGAGATCCGCAGGCTATATGCT-AGAAAT
1 ATATCCGGACATGAGGTCCGCAGGCTATATGCTGA-AAAA
* * * ** *
7529948 ATATCCGAACTTGAGGTCTGCAGGCTACGTGCTGGAAAA
1 ATATCCGGACATGAGGTCCGCAGGCTATATGCTGAAAAA
7529987 ATATCCGG
1 ATATCCGG
7529995 GTTAAAGACC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 72 0.99
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGACATGAGGTCCGCAGGCTATATGCTGAAAAA
Found at i:7530033 original size:78 final size:78
Alignment explanation
Indices: 7529865--7530020 Score: 190
Period size: 78 Copynumber: 2.0 Consensus size: 78
7529855 TATGAGATTG
* * * * *
7529865 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGAAAAAATATCCGGACATGAGATCCGC
1 GAAATATATCCGAACTTGAGGTCCGCAGGCTACATGCTGAAAAAATATCCGGACATAAGACCCGC
*
7529930 AGGCTATATGCTA
66 AAGCTATATGCTA
* * * **
7529943 GAAATATATCCGAACTTGAGGTCTGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAATATATCCGAACTTGAGGTCCGCAGGCTACATGCTGAAAAAATATCCGGACAT-AAGACCCG
7530007 CAAGCT-TATGCTA
65 CAAGCTATATGCTA
7530020 G
1 G
7530021 TAATGTATTC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
77 9 0.14
78 57 0.86
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (78 bp):
GAAATATATCCGAACTTGAGGTCCGCAGGCTACATGCTGAAAAAATATCCGGACATAAGACCCGC
AAGCTATATGCTA
Found at i:7530216 original size:2 final size:2
Alignment explanation
Indices: 7530211--7530274 Score: 110
Period size: 2 Copynumber: 32.0 Consensus size: 2
7530201 TATATATATA
* *
7530211 TG TG TG TG TG TG TG TG TG TG TG TG TA TG TA TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7530253 TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG
7530275 ATTGAGTTCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:7537861 original size:39 final size:39
Alignment explanation
Indices: 7537811--7537942 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
7537801 TATATGAGAT
*
7537811 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
*
7537850 TGGAAAAATATCCGGACATGAGATCCGCAGGCTATATGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * * **
7537889 TAGAAATATATTCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
7537928 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
7537943 GTTAAAGACC
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:7537956 original size:78 final size:77
Alignment explanation
Indices: 7537813--7537978 Score: 208
Period size: 78 Copynumber: 2.1 Consensus size: 77
7537803 TATGAGATTG
* * * *
7537813 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGC
1 GAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGC
*
7537878 AGGCTATATGCTA
66 AAGCT-TATGCTA
* * **
7537891 GAAATATATTCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
7537955 CAAGCTTATGCTA
65 CAAGCTTATGCTA
* *
7537968 GTAATGTATTC
1 GAAATATATTC
7537979 CGAGCTCTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
77 17 0.22
78 59 0.78
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (77 bp):
GAAATATATTCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGC
AAGCTTATGCTA
Found at i:7553916 original size:52 final size:51
Alignment explanation
Indices: 7553825--7553991 Score: 156
Period size: 52 Copynumber: 3.1 Consensus size: 51
7553815 TTCCAGGTCT
* * * * **
7553825 TTTTCATTTTGGAGAAAACTACATTCATTTTTAAATGATTTCATTTCTCCA
1 TTTTCATTTTGGAAAAAACCATAATCATTTCCAAATGATTTCATTTCTCCA
* *
7553876 TTTTCATTTTGGAAAAAAACCATAATTATTTCCAAATGATTTCATTTCTTCATTTTTA
1 TTTTCATTTTGG-AAAAAACCATAATCATTTCCAAATGATTTCATTTC-TC-----CA
* *
7553934 TTTTCATTTTGGAGAAAACCATAATCATTTTCAAAT-ATTTCTCATTTCTCCA
1 TTTTCATTTTGGAAAAAACCATAATCATTTCCAAATGA-TT-TCATTTCTCCA
7553986 TTTTCA
1 TTTTCA
7553992 CAATTTCTAT
Statistics
Matches: 95, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
51 12 0.13
52 35 0.37
53 2 0.02
56 1 0.01
57 25 0.26
58 20 0.21
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (51 bp):
TTTTCATTTTGGAAAAAACCATAATCATTTCCAAATGATTTCATTTCTCCA
Found at i:7553969 original size:57 final size:59
Alignment explanation
Indices: 7553875--7553989 Score: 164
Period size: 58 Copynumber: 2.0 Consensus size: 59
7553865 TCATTTCTCC
* *
7553875 ATTTTCATTTTGGAAAAAAACCATAATTATTTCCAAATGA-TT-TCATTTCTTCATTTTT
1 ATTTTCATTTTGGAAAAAAACCATAATCATTTCCAAAT-ATTTCTCATTTCTCCATTTTT
* *
7553933 ATTTTCATTTTGG-AGAAAACCATAATCATTTTCAAATATTTCTCATTTCTCCATTTT
1 ATTTTCATTTTGGAAAAAAACCATAATCATTTCCAAATATTTCTCATTTCTCCATTTT
7553990 CACAATTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
56 1 0.02
57 23 0.45
58 27 0.53
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.48
Consensus pattern (59 bp):
ATTTTCATTTTGGAAAAAAACCATAATCATTTCCAAATATTTCTCATTTCTCCATTTTT
Found at i:7556321 original size:717 final size:717
Alignment explanation
Indices: 7555414--7556838 Score: 2841
Period size: 717 Copynumber: 2.0 Consensus size: 717
7555404 TGTTGAAATA
7555414 TTGATTTTAAACCAATTCAAGGTTTTGATTTTATCAAAAGTAAAGTCAAACTGATGTTAATTTCG
1 TTGATTTTAAACCAATTCAAGGTTTTGATTTTATCAAAAGTAAAGTCAAACTGATGTTAATTTCG
7555479 TGCCTCTTATGATTATAAATGAATACTTAAATTTTAAAACTTAATTTAACACTTAAATTGAATCT
66 TGCCTCTTATGATTATAAATGAATACTTAAATTTTAAAACTTAATTTAACACTTAAATTGAATCT
7555544 TAACTCGATTGGTATGAGTATTGTTGTTAATACATGATGACATGAATACATTATATTCCTATTTA
131 TAACTCGATTGGTATGAGTATTGTTGTTAATACATGATGACATGAATACATTATATTCCTATTTA
7555609 TGAGTTGAAGAGGGGCGATGGGTAGCTTTTGTGAATATGTTTTACTTAAGTTGATTTTAATTTAG
196 TGAGTTGAAGAGGGGCGATGGGTAGCTTTTGTGAATATGTTTTACTTAAGTTGATTTTAATTTAG
7555674 AAACATAAAATAAAATTTTAAGATTTGAAAGGAATCTAAATTAATTTCAATATTATATTAACTAA
261 AAACATAAAATAAAATTTTAAGATTTGAAAGGAATCTAAATTAATTTCAATATTATATTAACTAA
7555739 TCGATTAACACTATCAATGGACAAAAAATTTCATACTTATCTAATTGATTTTGATGTTTTGAAAT
326 TCGATTAACACTATCAATGGACAAAAAATTTCATACTTATCTAATTGATTTTGATGTTTTGAAAT
7555804 TTAAAATTTCAATATAAAAAAAATTAAAACTTCCAGCAAGCCGGTCAACAAGTACAATTTGACAA
391 TTAAAATTTCAATATAAAAAAAATTAAAACTTCCAGCAAGCCGGTCAACAAGTACAATTTGACAA
7555869 ATTTTAAAGCATTATTTTAGTTTTTACCACTTTTTCACTTTAATCCTTAAAGTATTTTACCCCAA
456 ATTTTAAAGCATTATTTTAGTTTTTACCACTTTTTCACTTTAATCCTTAAAGTATTTTACCCCAA
*
7555934 TCAATATTTTTTTTTAAAAAAGGATATTTTTTGGATGACCAAATGAAAGCAACCTAGAAGTTGAG
521 TCAATATTTTTTTTAAAAAAAGGATATTTTTTGGATGACCAAATGAAAGCAACCTAGAAGTTGAG
7555999 TGACCAAAATTAACATGTGAACATGATGTGGTGCGTTTAAGTTAACTGTTATTAGAGATTTAATG
586 TGACCAAAATTAACATGTGAACATGATGTGGTGCGTTTAAGTTAACTGTTATTAGAGATTTAATG
7556064 TTGGGTGATTAAAATAAAAACGTCCTAAAAATTAAGTGATAAAATTATAAAGATTTCAATATTGA
651 TTGGGTGATTAAAATAAAAACGTCCTAAAAATTAAGTGATAAAATTATAAAGATTTCAATATTGA
7556129 TT
716 TT
7556131 TTGATTTTAAACCAATTCAAGGTTTTGATTTTATCAAAAGTAAAGTCAAACTGATGTTAATTTCG
1 TTGATTTTAAACCAATTCAAGGTTTTGATTTTATCAAAAGTAAAGTCAAACTGATGTTAATTTCG
7556196 TGCCTCTTATGATTATAAATGAATACTTAAATTTTAAAACTTAATTTAACACTTAAATTGAATCT
66 TGCCTCTTATGATTATAAATGAATACTTAAATTTTAAAACTTAATTTAACACTTAAATTGAATCT
7556261 TAACTCGATTGGTATGAGTATTGTTGTTAATACATGATGACATGAATACATTATATTCCTATTTA
131 TAACTCGATTGGTATGAGTATTGTTGTTAATACATGATGACATGAATACATTATATTCCTATTTA
7556326 TGAGTTGAAGAGGGGCGATGGGTAGCTTTTGTGAATATGTTTTACTTAAGTTGATTTTAATTTAG
196 TGAGTTGAAGAGGGGCGATGGGTAGCTTTTGTGAATATGTTTTACTTAAGTTGATTTTAATTTAG
7556391 AAACATAAAATAAAATTTTAAGATTTGAAAGGAATCTAAATTAATTTCAATATTATATTAACTAA
261 AAACATAAAATAAAATTTTAAGATTTGAAAGGAATCTAAATTAATTTCAATATTATATTAACTAA
7556456 TCGATTAACACTATCAATGGACAAAAAATTTCATACTTATCTAATTGATTTTGATGTTTTGAAAT
326 TCGATTAACACTATCAATGGACAAAAAATTTCATACTTATCTAATTGATTTTGATGTTTTGAAAT
7556521 TTAAAATTTCAATATAAAAAAAATTAAAACTTCCAGCAAGCCGGTCAACAAGTACAATTTGACAA
391 TTAAAATTTCAATATAAAAAAAATTAAAACTTCCAGCAAGCCGGTCAACAAGTACAATTTGACAA
7556586 ATTTTAAAGCATTATTTTAGTTTTTACCACTTTTTCACTTTAATCCTTAAAGTATTTTACCCCAA
456 ATTTTAAAGCATTATTTTAGTTTTTACCACTTTTTCACTTTAATCCTTAAAGTATTTTACCCCAA
7556651 TCAATATTTTTTTTAAAAAAAGGATATTTTTTGGATGACCAAATGAAAGCAACCTAGAAGTTGAG
521 TCAATATTTTTTTTAAAAAAAGGATATTTTTTGGATGACCAAATGAAAGCAACCTAGAAGTTGAG
7556716 TGACCAAAATTAACATGTGAACATGATGTGGTGCGTTTAAGTTAACTGTTATTAGAGATTTAATG
586 TGACCAAAATTAACATGTGAACATGATGTGGTGCGTTTAAGTTAACTGTTATTAGAGATTTAATG
7556781 TTGGGTGATTAAAATAAAAACGTCCTAAAAATTAAGTGATAAAATTATAAAGATTTCA
651 TTGGGTGATTAAAATAAAAACGTCCTAAAAATTAAGTGATAAAATTATAAAGATTTCA
7556839 TTTTGGATGA
Statistics
Matches: 707, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
717 707 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (717 bp):
TTGATTTTAAACCAATTCAAGGTTTTGATTTTATCAAAAGTAAAGTCAAACTGATGTTAATTTCG
TGCCTCTTATGATTATAAATGAATACTTAAATTTTAAAACTTAATTTAACACTTAAATTGAATCT
TAACTCGATTGGTATGAGTATTGTTGTTAATACATGATGACATGAATACATTATATTCCTATTTA
TGAGTTGAAGAGGGGCGATGGGTAGCTTTTGTGAATATGTTTTACTTAAGTTGATTTTAATTTAG
AAACATAAAATAAAATTTTAAGATTTGAAAGGAATCTAAATTAATTTCAATATTATATTAACTAA
TCGATTAACACTATCAATGGACAAAAAATTTCATACTTATCTAATTGATTTTGATGTTTTGAAAT
TTAAAATTTCAATATAAAAAAAATTAAAACTTCCAGCAAGCCGGTCAACAAGTACAATTTGACAA
ATTTTAAAGCATTATTTTAGTTTTTACCACTTTTTCACTTTAATCCTTAAAGTATTTTACCCCAA
TCAATATTTTTTTTAAAAAAAGGATATTTTTTGGATGACCAAATGAAAGCAACCTAGAAGTTGAG
TGACCAAAATTAACATGTGAACATGATGTGGTGCGTTTAAGTTAACTGTTATTAGAGATTTAATG
TTGGGTGATTAAAATAAAAACGTCCTAAAAATTAAGTGATAAAATTATAAAGATTTCAATATTGA
TT
Found at i:7559919 original size:26 final size:27
Alignment explanation
Indices: 7559890--7559940 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
7559880 TTTTTTTCAA
*
7559890 ATTTACAGTATTTTTATAA-AATATGT
1 ATTTACAGTAATTTTATAACAATATGT
* *
7559916 ATTTATATTAATTTTATAACAATAT
1 ATTTACAGTAATTTTATAACAATAT
7559941 ATATATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (27 bp):
ATTTACAGTAATTTTATAACAATATGT
Found at i:7559939 original size:27 final size:26
Alignment explanation
Indices: 7559901--7559951 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
7559891 TTTACAGTAT
* *
7559901 TTTTATAAAATATGTATTTATATTAA
1 TTTTATAAAATATATATATATATTAA
7559927 TTTTATAACAATATATATATATATT
1 TTTTATAA-AATATATATATATATT
7559952 TTTTTACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTTATAAAATATATATATATATTAA
Found at i:7560130 original size:19 final size:18
Alignment explanation
Indices: 7560093--7560131 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
7560083 AATACAATGT
*
7560093 ATATTTTATATTATTAAA
1 ATATTTTATATTATAAAA
*
7560111 ATATTTATATATTCTAAAA
1 ATATTT-TATATTATAAAA
7560130 AT
1 AT
7560132 TCTAATCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTTATATTATAAAA
Found at i:7560330 original size:4 final size:4
Alignment explanation
Indices: 7560321--7560352 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
7560311 TTAATGATCC
7560321 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
7560353 CGTGAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:7563487 original size:20 final size:20
Alignment explanation
Indices: 7563458--7563497 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7563448 CACTTTTCAA
*
7563458 TTCATCTTGAACCTCCAACT
1 TTCATATTGAACCTCCAACT
7563478 TTCATATTGAACCTCCAACT
1 TTCATATTGAACCTCCAACT
7563498 CCAAGTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (20 bp):
TTCATATTGAACCTCCAACT
Found at i:7568261 original size:2 final size:2
Alignment explanation
Indices: 7568254--7568280 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7568244 ACATCTAATC
7568254 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7568281 CATAAATCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7568670 original size:42 final size:41
Alignment explanation
Indices: 7568624--7568720 Score: 124
Period size: 41 Copynumber: 2.3 Consensus size: 41
7568614 TCCCAGACGT
* *
7568624 GGTCTTACATGTAA-CAAGTATCGATGCCACTGTCCCAAATAG
1 GGTCTTACACGTAACCAA-TA-CGATGCCAATGTCCCAAATAG
* * *
7568666 GGTCTTACACGAAACCAATACGATGCCAATGTCCCAGATAT
1 GGTCTTACACGTAACCAATACGATGCCAATGTCCCAAATAG
7568707 GGTCTTACACGTAA
1 GGTCTTACACGTAA
7568721 ATAACAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 31 0.65
42 14 0.29
43 3 0.06
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (41 bp):
GGTCTTACACGTAACCAATACGATGCCAATGTCCCAAATAG
Found at i:7575275 original size:9 final size:9
Alignment explanation
Indices: 7575259--7575300 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
7575249 GGTTGCAAGA
7575259 ACGATGAGG
1 ACGATGAGG
*
7575268 ATGATGAGG
1 ACGATGAGG
*
7575277 ACGACGAGG
1 ACGATGAGG
7575286 ACGATGAGG
1 ACGATGAGG
7575295 ACGATG
1 ACGATG
7575301 TTTCTTCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.43, T:0.12
Consensus pattern (9 bp):
ACGATGAGG
Found at i:7575487 original size:11 final size:11
Alignment explanation
Indices: 7575461--7575580 Score: 105
Period size: 11 Copynumber: 10.8 Consensus size: 11
7575451 TTGTTGGTGA
*
7575461 TGCTGTTTTTTG
1 TGCTG-TTTTGG
*
7575473 TGCTGTTTTGT
1 TGCTGTTTTGG
*
7575484 TGCTGTTTGGG
1 TGCTGTTTTGG
7575495 TGCTGTTTTGG
1 TGCTGTTTTGG
*
7575506 TGCTGTTTTGA
1 TGCTGTTTTGG
* * **
7575517 TGGTATTTTTT
1 TGCTGTTTTGG
*
7575528 TGCTGTTTTGA
1 TGCTGTTTTGG
* *
7575539 TGGTATTTTGG
1 TGCTGTTTTGG
* *
7575550 TGTTGTTTTGA
1 TGCTGTTTTGG
7575561 TGCTGTTTTGG
1 TGCTGTTTTGG
*
7575572 TGCTATTTT
1 TGCTGTTTT
7575581 ACTGTTACTT
Statistics
Matches: 85, Mismatches: 23, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
11 80 0.94
12 5 0.06
ACGTcount: A:0.05, C:0.07, G:0.29, T:0.59
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:7575580 original size:22 final size:22
Alignment explanation
Indices: 7575468--7575580 Score: 120
Period size: 22 Copynumber: 5.2 Consensus size: 22
7575458 TGATGCTGTT
*
7575468 TTTTG-TGCTGTTTTGTTGCTG
1 TTTTGATGCTGTTTTGGTGCTG
* *
7575489 TTTGGGTGCTGTTTTGGTGCTG
1 TTTTGATGCTGTTTTGGTGCTG
* * **
7575511 TTTTGATGGTATTTTTTTGCTG
1 TTTTGATGCTGTTTTGGTGCTG
* * *
7575533 TTTTGATGGTATTTTGGTGTTG
1 TTTTGATGCTGTTTTGGTGCTG
*
7575555 TTTTGATGCTGTTTTGGTGCTA
1 TTTTGATGCTGTTTTGGTGCTG
7575577 TTTT
1 TTTT
7575581 ACTGTTACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
21 4 0.05
22 72 0.95
ACGTcount: A:0.05, C:0.06, G:0.29, T:0.59
Consensus pattern (22 bp):
TTTTGATGCTGTTTTGGTGCTG
Found at i:7580306 original size:45 final size:46
Alignment explanation
Indices: 7580242--7580331 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 46
7580232 ATAAAAAAGG
*
7580242 GGGGGGGGATTTGAAGTCTTTGAAATAAT-GGGGGATTATTGATTT
1 GGGGGGGGAGTTGAAGTCTTTGAAATAATGGGGGGATTATTGATTT
7580287 GGGGGGGGAGTTGAAGTCTTTGAAATAATGGGGGGATTATTGATT
1 GGGGGGGGAGTTGAAGTCTTTGAAATAATGGGGGGATTATTGATT
7580332 AGGCTAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 28 0.65
46 15 0.35
ACGTcount: A:0.24, C:0.02, G:0.40, T:0.33
Consensus pattern (46 bp):
GGGGGGGGAGTTGAAGTCTTTGAAATAATGGGGGGATTATTGATTT
Found at i:7582784 original size:3 final size:3
Alignment explanation
Indices: 7582776--7582822 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7582766 CACGTGACAC
7582776 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7582823 TTAATTCAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7583330 original size:16 final size:19
Alignment explanation
Indices: 7583282--7583337 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
7583272 TTTAGTCATA
7583282 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
7583302 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
7583320 TAATAAATTATTTAATAT
1 TAATAAATTA-TTAATAT
7583338 TTCAATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 8 0.26
19 1 0.03
20 6 0.19
21 4 0.13
22 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:7583440 original size:15 final size:15
Alignment explanation
Indices: 7583413--7583475 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
7583403 GAAAATATCC
*
7583413 AATATTAAA-ATTTT
1 AATAATAAATATTTT
7583427 AATAATAAATATTTATTAT
1 AATAATAAATA--T-TT-T
* *
7583446 AATTATAAATATATT
1 AATAATAAATATTTT
7583461 AATAATAAATATTTT
1 AATAATAAATATTTT
7583476 GTAGTATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 8 0.21
15 15 0.38
16 1 0.03
17 2 0.05
18 2 0.05
19 11 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAATAAATATTTT
Found at i:7588593 original size:17 final size:16
Alignment explanation
Indices: 7588568--7588603 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
7588558 TTATAAACCT
7588568 AAAAAGAAAAAAGAAA
1 AAAAAGAAAAAAGAAA
7588584 AAAAAGGAAAAAAGAAA
1 AAAAA-GAAAAAAGAAA
7588601 AAA
1 AAA
7588604 GACTAGATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAA
Found at i:7601000 original size:41 final size:40
Alignment explanation
Indices: 7600840--7601132 Score: 316
Period size: 40 Copynumber: 7.2 Consensus size: 40
7600830 GAACAATAGC
* * * * *
7600840 AAAAACGCCGCTATAGATCGAGGTTTTAACGACGCTTTTGG
1 AAAAACGCCACTATTGATC-AGTTTTTAGCGGCGCTTTTGG
* * * * *
7600881 AAAAACGCCGCTGTTGCTCATTTTTTAGCGGCGTTTTTGG
1 AAAAACGCCACTATTGATCAGTTTTTAGCGGCGCTTTTGG
* * * *
7600921 AAAAATGCTACTATTGTTCAGTTTTTAGCGGTGCTTTTGG
1 AAAAACGCCACTATTGATCAGTTTTTAGCGGCGCTTTTGG
* *
7600961 AAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGG
1 AAAAACGCCACTATTGATC-AGTTTTTAGCGGCGCTTTTGG
* *
7601002 AAAAATGCCACTATTGCTCAGTTTTTAGCGGCGCTTTTGG
1 AAAAACGCCACTATTGATCAGTTTTTAGCGGCGCTTTTGG
* * * *
7601042 GAAAACGCCACTATAGATCGAGGTTTTAGCAGCGCTTTTTGG
1 AAAAACGCCACTATTGATC-AGTTTTTAGCGGCGC-TTTTGG
* * * *
7601084 AAAAACACCGCTATTGCTCAGTTTTTAGCGACGCTTTTGG
1 AAAAACGCCACTATTGATCAGTTTTTAGCGGCGCTTTTGG
7601124 AAAAACGCC
1 AAAAACGCC
7601133 GCAAAAAACA
Statistics
Matches: 208, Mismatches: 41, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
40 112 0.54
41 76 0.37
42 20 0.10
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (40 bp):
AAAAACGCCACTATTGATCAGTTTTTAGCGGCGCTTTTGG
Found at i:7601001 original size:81 final size:81
Alignment explanation
Indices: 7600863--7601132 Score: 362
Period size: 81 Copynumber: 3.3 Consensus size: 81
7600853 TAGATCGAGG
* * * * * * ** *
7600863 TTTTAACGACGCTTTTGGAAAAACGCCGCTGTTGCTC-ATTTTTTAGCGGCGTTTTTGGAAAAAT
1 TTTTAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGAAAAAT
* *
7600927 GCTACTATTGTTCAGT
66 GCCACTATTGCTCAGT
*
7600943 TTTTAGCGGTGCTTTTGGAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGAAAAAT
1 TTTTAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGAAAAAT
7601008 GCCACTATTGCTCAGT
66 GCCACTATTGCTCAGT
* *
7601024 TTTTAGCGGCGCTTTTGGGAAAACGCCACTATAGATCGAGGTTTTAGCAGCGCTTTTTGGAAAAA
1 TTTTAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGC-TTTTGGAAAAA
** *
7601089 CACCGCTATTGCTCAGT
65 TGCCACTATTGCTCAGT
*
7601106 TTTTAGCGACGCTTTTGGAAAAACGCC
1 TTTTAGCGGCGCTTTTGGAAAAACGCC
7601133 GCAAAAAACA
Statistics
Matches: 168, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 30 0.18
81 88 0.52
82 50 0.30
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (81 bp):
TTTTAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGAAAAAT
GCCACTATTGCTCAGT
Found at i:7601343 original size:14 final size:14
Alignment explanation
Indices: 7601319--7601364 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
7601309 AGTTTATGTA
7601319 TTATGGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
7601334 TTATGGTTTAAGGG
1 TTATGGTTTAGGGG
**
7601348 TTGGGGTTTAGGGG
1 TTATGGTTTAGGGG
7601362 TTA
1 TTA
7601365 AGGGTTTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 22 0.85
15 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.43, T:0.41
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:7601635 original size:14 final size:15
Alignment explanation
Indices: 7601608--7601637 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7601598 GGTTTATGAT
7601608 GAATTATGGGTTTAG
1 GAATTATGGGTTTAG
7601623 GAATTAT-GGTTTAG
1 GAATTATGGGTTTAG
7601637 G
1 G
7601638 GTTTAGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (15 bp):
GAATTATGGGTTTAG
Found at i:7601642 original size:7 final size:7
Alignment explanation
Indices: 7601615--7601684 Score: 52
Period size: 7 Copynumber: 10.0 Consensus size: 7
7601605 GATGAATTAT
7601615 GGGTTTA
1 GGGTTTA
**
7601622 GGAATTA
1 GGGTTTA
*
7601629 TGGTTTA
1 GGGTTTA
7601636 GGGTTTA
1 GGGTTTA
7601643 GGG-TTA
1 GGGTTTA
*
7601649 GAGTTTA
1 GGGTTTA
* *
7601656 AGGTGTAA
1 GGGT-TTA
7601664 GGGTTTA
1 GGGTTTA
*
7601671 GAGTTTA
1 GGGTTTA
*
7601678 GTGTTTA
1 GGGTTTA
7601685 TAGGATAGGG
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
6 5 0.11
7 37 0.79
8 5 0.11
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:7609696 original size:91 final size:91
Alignment explanation
Indices: 7609541--7609719 Score: 340
Period size: 91 Copynumber: 2.0 Consensus size: 91
7609531 TATTTTATAG
7609541 AGCAGTAGATGTGAAAGTCTCACTGGTGAACCTCTTGTTTCACATTATTTTTGTTATTTTTATTC
1 AGCAGTAGATGTGAAAGTCTCACTGGTGAACCTCTTGTTTCACATTATTTTTGTTATTTTTATTC
7609606 GTTGTATTTGATACATATGCATATCC
66 GTTGTATTTGATACATATGCATATCC
*
7609632 AGCAGTAGATGTGAAAGTCTCACTGGTGAGCCTCTTGTTTCACATTATTTTTGTTATTTTTATTC
1 AGCAGTAGATGTGAAAGTCTCACTGGTGAACCTCTTGTTTCACATTATTTTTGTTATTTTTATTC
*
7609697 TTTGTATTTGATACATATGCATA
66 GTTGTATTTGATACATATGCATA
7609720 CATATTTAGG
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.45
Consensus pattern (91 bp):
AGCAGTAGATGTGAAAGTCTCACTGGTGAACCTCTTGTTTCACATTATTTTTGTTATTTTTATTC
GTTGTATTTGATACATATGCATATCC
Found at i:7611624 original size:43 final size:42
Alignment explanation
Indices: 7611551--7611653 Score: 152
Period size: 43 Copynumber: 2.4 Consensus size: 42
7611541 ATATATATGG
* * *
7611551 TCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAAAGGTCACTA
1 TCTTTAGCGGCGTTTTTTAGAAAGCGCCGCTAAAGGTCACGA
*
7611593 TCTTTAGCAGCGTTTTTTAGAAAAGCGCCGCTAAAGGTCACGA
1 TCTTTAGCGGCGTTTTTTAG-AAAGCGCCGCTAAAGGTCACGA
*
7611636 TCTTTAGCGGCATTTTTT
1 TCTTTAGCGGCGTTTTTT
7611654 TCAAAATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
42 18 0.33
43 36 0.67
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (42 bp):
TCTTTAGCGGCGTTTTTTAGAAAGCGCCGCTAAAGGTCACGA
Found at i:7614233 original size:5 final size:5
Alignment explanation
Indices: 7614222--7614318 Score: 52
Period size: 6 Copynumber: 17.4 Consensus size: 5
7614212 CAAGGAAGAA
* * **
7614222 AAAAT AATAT AAAAT AAAAT -AAAT CAGCT AGAAAT AGAAAT AATAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT A-AAAT AA-AAT
7614269 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AA
1 AA-AAT AA-AAT AA-AAT AA-AAT AA-AAT AA-AAT AA-AAT AA-AAT AA
7614319 GCAGAAAAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
4 4 0.05
5 16 0.20
6 62 0.76
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (5 bp):
AAAAT
Found at i:7614268 original size:3 final size:3
Alignment explanation
Indices: 7614260--7614318 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
7614250 TAGAAATAGA
7614260 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7614308 AAT AAT AAT AA
1 AAT AAT AAT AA
7614319 GCAGAAAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7614595 original size:3 final size:3
Alignment explanation
Indices: 7614587--7614781 Score: 86
Period size: 3 Copynumber: 65.3 Consensus size: 3
7614577 ATATAGTACC
* * *
7614587 ATA ATA ATA ATA AGA ATA AGA ATA ATA A-A ATA ATA A-A ATA ACA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
7614632 ATG TTA CTA ATA ATA ATA ATAA ATAA ATA ATG GTA ATA A-A TATA TATA
1 ATA ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA
* ** *
7614680 A-A ATA ATA GTA GCA GTA ATA A-A ATA A-A TATA AT- ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * *
7614721 TATA ATA A-A TATA AAA ATA ATA AGTA ATA ATA TATA ATA ACA ATA ACA
1 -ATA ATA ATA -ATA ATA ATA ATA A-TA ATA ATA -ATA ATA ATA ATA ATA
* *
7614769 ATA TTA AAA ATA A
1 ATA ATA ATA ATA A
7614782 CACTCTCCCC
Statistics
Matches: 147, Mismatches: 28, Indels: 34
0.70 0.13 0.16
Matches are distributed among these distances:
2 16 0.11
3 110 0.75
4 21 0.14
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:7614660 original size:14 final size:14
Alignment explanation
Indices: 7614643--7614757 Score: 60
Period size: 14 Copynumber: 7.8 Consensus size: 14
7614633 TGTTACTAAT
7614643 AATAATAATAAATA
1 AATAATAATAAATA
**
7614657 AATAATGGT-AATA
1 AATAATAATAAATA
7614670 AAT-ATATATAAAATA
1 AATAATA-AT-AAATA
7614685 ATAGTAGCAGTAATAAAATA
1 A-A-TA--A-TAAT-AAATA
7614705 AAT-ATAATATAATA
1 AATAATAATA-AATA
7614719 AAT-ATAATAAATA
1 AATAATAATAAATA
* *
7614732 TAAAAATAATAAGT-
1 -AATAATAATAAATA
7614746 AATAATATATAA
1 AATAATA-ATAA
7614758 TAACAATAAC
Statistics
Matches: 81, Mismatches: 7, Indels: 26
0.71 0.06 0.23
Matches are distributed among these distances:
12 2 0.02
13 19 0.23
14 30 0.37
15 14 0.17
16 1 0.01
17 1 0.01
18 1 0.01
19 1 0.01
20 10 0.12
21 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.30
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:7614727 original size:23 final size:22
Alignment explanation
Indices: 7614695--7614759 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
7614685 ATAGTAGCAG
*
7614695 TAATAAAATAAATATAATATAA
1 TAATATAATAAATATAATATAA
7614717 TAAATATAATAAATATAA-A-AA
1 T-AATATAATAAATATAATATAA
7614738 TAATAAGTAATAATATATAATA
1 TAAT-A-TAATAA-ATATAATA
7614760 ACAATAACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
20 3 0.08
21 4 0.11
22 8 0.22
23 21 0.57
24 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
TAATATAATAAATATAATATAA
Found at i:7614735 original size:34 final size:32
Alignment explanation
Indices: 7614697--7614760 Score: 76
Period size: 32 Copynumber: 1.9 Consensus size: 32
7614687 AGTAGCAGTA
7614697 ATAAAATAAATATAATATAATAA-ATATAATAAAT
1 ATAAAA-AAA-ATAA-ATAATAATATATAATAAAT
* *
7614731 ATAAAAATAATAAGTAATAATATATAATAA
1 ATAAAAAAAATAAATAATAATATATAATAA
7614761 CAATAACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 6 0.22
32 13 0.48
33 2 0.07
34 6 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (32 bp):
ATAAAAAAAATAAATAATAATATATAATAAAT
Found at i:7615753 original size:132 final size:131
Alignment explanation
Indices: 7615528--7615811 Score: 392
Period size: 132 Copynumber: 2.2 Consensus size: 131
7615518 ATCTGCTTTG
** *
7615528 CTACTGCTTAGGGAGATAAGAGCTACAATCTTCAGCCTGCTCACTACTGCTTAGAGAGATAAAGC
1 CTACTGCTTAGGGAGATAAGAGCTACAATCTTCAGCCCACTCACTACTGCTAAGAGAGATAAAGC
*
7615593 TAGTGGCTTAAATATGCTTCCCTACTACC-CTGGGAAGATAAGATTCACCGTCTTCGATCTGCTC
66 TAGTGGCTTAAATATGCTTCCCTACTACCTC-GGGAAGATAAGATTCACCGTCTTCGATCTACTC
7615657 CA
130 CA
* * * * * *
7615659 CTACTGCTCAGGGAGATAAGATCTATAATCTTTAGCCCACTCCACTGCTGCTCAAG-GAGATAAG
1 CTACTGCTTAGGGAGATAAGAGCTACAATCTTCAGCCCACT-CACTACTGCT-AAGAGAGATAAA
* * *
7615723 GTTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCGTCTTCGATCTACT
64 GCTAGTGGCTTAAATATGCTTCCCTACTACCTCGGGAAGATAAGATTCACCGTCTTCGATCTACT
*
7615788 CTA
129 CCA
*
7615791 CTACTGCTTAGAGAGATAAGA
1 CTACTGCTTAGGGAGATAAGA
7615812 CCTGTAACTT
Statistics
Matches: 134, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
131 35 0.26
132 96 0.72
133 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (131 bp):
CTACTGCTTAGGGAGATAAGAGCTACAATCTTCAGCCCACTCACTACTGCTAAGAGAGATAAAGC
TAGTGGCTTAAATATGCTTCCCTACTACCTCGGGAAGATAAGATTCACCGTCTTCGATCTACTCC
A
Found at i:7615874 original size:132 final size:132
Alignment explanation
Indices: 7615598--7615861 Score: 318
Period size: 132 Copynumber: 2.0 Consensus size: 132
7615588 AAAGCTAGTG
* *
7615598 GCTTAAATATGCTTCCCTACTACCCTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
1 GCTTAAATCTGCTTCCCTACTACCCTGGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTAC
* * * * ** *
7615663 TGCTCAGGGAGATAAGATCTATAATCTTTAGCCCACTCCACTGCTGCTCAAGGAGATAAGGTTGG
66 TGCTCAGAGAGATAAGACCTATAATCTTCAACCCACTCCACTGCAACTCAAGGAGATAAGGTTGC
*
7615728 TG
131 TA
*
7615730 GCTTAAATCTGCTTCCCTACTA-CCTCGGGAAGATAAGATTCACCGTCTTCGATCTACTCTACTA
1 GCTTAAATCTGCTTCCCTACTACCCT-GGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTA
* * ** * **
7615794 CTGCTTAGAGAGATAAGACCTGTAA-CTTCAACCTGCT-CTCTGCAACTTTAGAGAGATAAGGTT
65 CTGCTCAGAGAGATAAGACCTATAATCTTCAACCCACTCCACTGCAACTCAAG-GAGATAAGG-T
7615857 TGCTA
128 TGCTA
7615862 TCTTTGATCT
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
130 9 0.08
131 20 0.18
132 82 0.74
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (132 bp):
GCTTAAATCTGCTTCCCTACTACCCTGGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTAC
TGCTCAGAGAGATAAGACCTATAATCTTCAACCCACTCCACTGCAACTCAAGGAGATAAGGTTGC
TA
Found at i:7616007 original size:134 final size:134
Alignment explanation
Indices: 7615847--7616109 Score: 368
Period size: 134 Copynumber: 2.0 Consensus size: 134
7615837 AACTTTAGAG
* * * *
7615847 AGATAAGGTTTGCTATCTTTGATCTGCTCCGCTG-TAACTTCAGGGAGATAAGATCTGCTATCTT
1 AGATAAGATTTGCTATCTTTGATCTGCTCCACTGCTAAC-TCAGGGAGATAAGATCTACAATCTT
* * * *
7615911 CAGCCTACTTCTTTGCTACTTCAAGGAGATAAGACTGGTGGCCTAT-ATCTGCTTCCCTGCTACC
65 CAACCTACTCCTTTGCTACCTCAAGGAGATAAGACTGGTGG-CTATAATCTGCTCCCCTGCTACC
7615975 TTGGGA
129 TTGGGA
* * *
7615981 AGATAAGATTTGTTGTCTTTGATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTC
1 AGATAAGATTTGCTATCTTTGATCTGCTCCACTGCTAACTCAGGGAGATAAGATCTACAATCTTC
* * *
7616046 AACCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTGGTGGCTTTAATCTGCTCCCCTGCTACCT
66 AACCTACTCCTTTGCTACCTCAAGGAGATAAGACTGGTGGCTATAATCTGCTCCCCTGCTACCT
7616110 CGAAAAGGTA
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
133 3 0.03
134 107 0.95
135 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (134 bp):
AGATAAGATTTGCTATCTTTGATCTGCTCCACTGCTAACTCAGGGAGATAAGATCTACAATCTTC
AACCTACTCCTTTGCTACCTCAAGGAGATAAGACTGGTGGCTATAATCTGCTCCCCTGCTACCTT
GGGA
Found at i:7616095 original size:89 final size:89
Alignment explanation
Indices: 7615997--7616187 Score: 276
Period size: 89 Copynumber: 2.1 Consensus size: 89
7615987 GATTTGTTGT
* * ** *
7615997 CTTTGATCTGCTCCACTGCTATCTC-AGGGAGATAAGATCTACAATCTTCAACCTGCTCCTTTGC
1 CTTTAATCTGCTCCACTGCTACCTCGA-AAAGATAAGATCTACAATATTCAACCTGCTCCTTTGC
*
7616061 TACCTCAAGGAGATAAGGCTGGTGG
65 CACCTCAAGGAGATAAGGCTGGTGG
* * *
7616086 CTTTAATCTGCTCCCCTGCTACCTCGAAAAGGTAAGATCTACAATATTCAACTTGCTCCTTTGCC
1 CTTTAATCTGCTCCACTGCTACCTCGAAAAGATAAGATCTACAATATTCAACCTGCTCCTTTGCC
7616151 ACCTCAAGGAGATAAGGCTGGTGG
66 ACCTCAAGGAGATAAGGCTGGTGG
*
7616175 CTTAAATCTGCTC
1 CTTTAATCTGCTC
7616188 TATTACTGCT
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 90 0.99
90 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (89 bp):
CTTTAATCTGCTCCACTGCTACCTCGAAAAGATAAGATCTACAATATTCAACCTGCTCCTTTGCC
ACCTCAAGGAGATAAGGCTGGTGG
Found at i:7616143 original size:134 final size:134
Alignment explanation
Indices: 7615868--7616144 Score: 299
Period size: 134 Copynumber: 2.1 Consensus size: 134
7615858 GCTATCTTTG
* * * * * * *
7615868 ATCTGCTCCGCTG-TAACTTCAGGGAGATAAGATCTGCTATCTTCAGCCTACTTCTTTGCTACTT
1 ATCTGCTCCACTGCTATC-TCAGGGAGATAAGATCTACAATCTTCAACCTACTCCTTTGCTACCT
* * ** * ****
7615932 CAAGGAGATAAGACTGGTGGCCTATATCTGCTTCCCTGCTACCTTGGGAAGATAAGATTTGTTGT
65 CAAGGAGATAAGACTGGTGGCCTATATCTGCTCCCCTGCTACCTCGAAAAGATAAGATCTACAAT
* **
7615997 CTTTG
130 ATTCA
*
7616002 ATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAACCTGCTCCTTTGCTACCTC
1 ATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAACCTACTCCTTTGCTACCTC
* * *
7616067 AAGGAGATAAGGCTGGTGG-CTTTAATCTGCTCCCCTGCTACCTCGAAAAGGTAAGATCTACAAT
66 AAGGAGATAAGACTGGTGGCCTAT-ATCTGCTCCCCTGCTACCTCGAAAAGATAAGATCTACAAT
7616131 ATTCA
130 ATTCA
7616136 A-CTTGCTCC
1 ATC-TGCTCC
7616145 TTTGCCACCT
Statistics
Matches: 117, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
133 4 0.03
134 110 0.94
135 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (134 bp):
ATCTGCTCCACTGCTATCTCAGGGAGATAAGATCTACAATCTTCAACCTACTCCTTTGCTACCTC
AAGGAGATAAGACTGGTGGCCTATATCTGCTCCCCTGCTACCTCGAAAAGATAAGATCTACAATA
TTCA
Found at i:7618667 original size:47 final size:47
Alignment explanation
Indices: 7618614--7618782 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
7618604 GCATTGGCAC
* *
7618614 TAAGACAATGATACCATATAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
7618661 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
7618708 TAAGACAAGGATACCATGTAAGACCATGTTTGGAATATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
7618755 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
7618783 CCAAGGCATG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:7618825 original size:54 final size:54
Alignment explanation
Indices: 7618761--7618957 Score: 229
Period size: 54 Copynumber: 3.6 Consensus size: 54
7618751 TTGGTAAGAT
* * *
7618761 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGG
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
* *
7618815 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-A
* * * *
7618871 AAGG-TCTCAT-TCAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATATCATGT-AAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
* * * *
7618923 AAGGATACCACGTAAGATCATGTCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCA
7618958 ATGGTAAATT
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
52 4 0.03
53 28 0.23
54 44 0.36
55 41 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
Found at i:7622546 original size:17 final size:17
Alignment explanation
Indices: 7622524--7622557 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7622514 AATAAAGTCC
7622524 AAAGAACAAAAGAATAT
1 AAAGAACAAAAGAATAT
7622541 AAAGAACAAAAGAATAT
1 AAAGAACAAAAGAATAT
7622558 TTGCTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.06, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAGAACAAAAGAATAT
Found at i:7626726 original size:3 final size:3
Alignment explanation
Indices: 7626718--7626867 Score: 55
Period size: 3 Copynumber: 50.3 Consensus size: 3
7626708 TAGTACCATG
* * * * *
7626718 ATA ATA ATA AGA ATA ATA A-A ATA ATA AAA ATA ACA AT- ATG TTA CA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * *
7626764 ATA ATA ATAA ATAA ATA ATG GTA ATA A-A TATA TATAA ATA ATA GTA
1 ATA ATA AT-A AT-A ATA ATA ATA ATA ATA -ATA -AT-A ATA ATA ATA
* * *
7626810 ACA GTA ATA A-A ATA A-A TATA AT- ATA ATA ATA AT- ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
7626852 ACA ATA TTA AAA ATA A
1 ATA ATA ATA ATA ATA A
7626868 CATTCTCGCC
Statistics
Matches: 107, Mismatches: 27, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
2 13 0.12
3 79 0.74
4 14 0.13
5 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:7626789 original size:23 final size:23
Alignment explanation
Indices: 7626763--7626852 Score: 76
Period size: 23 Copynumber: 3.8 Consensus size: 23
7626753 ATATGTTACA
*
7626763 AATAATAATAAATAAATAATGGT
1 AATAATAATAAATAAATAATAGT
*
7626786 AATAA-ATATATATAAATAATAGT
1 AATAATA-ATAAATAAATAATAGT
* *
7626809 AACAGTAATAAAATAAATATAATA-T
1 AATAATAAT-AAAT-AA-ATAATAGT
* *
7626834 AATAATAATATATTAATAA
1 AATAATAATAAATAAATAA
7626853 CAATATTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
22 5 0.09
23 25 0.47
24 7 0.13
25 10 0.19
26 6 0.11
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (23 bp):
AATAATAATAAATAAATAATAGT
Found at i:7627303 original size:13 final size:13
Alignment explanation
Indices: 7627285--7627327 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
7627275 CAGGCAAGTA
*
7627285 GGGTGGTTTTGTG
1 GGGTGGTTTAGTG
7627298 GGGTGGTTTAGT-
1 GGGTGGTTTAGTG
* *
7627310 GGTTAGTTTAGTG
1 GGGTGGTTTAGTG
7627323 GGGTG
1 GGGTG
7627328 TTAATTGGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.07, C:0.00, G:0.51, T:0.42
Consensus pattern (13 bp):
GGGTGGTTTAGTG
Found at i:7627855 original size:17 final size:19
Alignment explanation
Indices: 7627833--7627873 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
7627823 AGAAAATCCT
7627833 ATTTTAAGT-TTATTTTA-
1 ATTTTAAGTATTATTTTAG
*
7627850 ATTTT-ATTATTATTTTAG
1 ATTTTAAGTATTATTTTAG
7627868 ATTTTA
1 ATTTTA
7627874 TATTAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.10
17 13 0.65
18 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
ATTTTAAGTATTATTTTAG
Found at i:7627877 original size:17 final size:17
Alignment explanation
Indices: 7627842--7627878 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7627832 TATTTTAAGT
7627842 TTATTTTAATTTTATTA
1 TTATTTTAATTTTATTA
7627859 TTATTTTAGATTTTA-TA
1 TTATTTTA-ATTTTATTA
7627876 TTA
1 TTA
7627879 ATGAATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTATTTTAATTTTATTA
Found at i:7635492 original size:8 final size:8
Alignment explanation
Indices: 7635479--7635510 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
7635469 TTGCTTGTGC
7635479 ATGAAAAA
1 ATGAAAAA
7635487 ATG-AAAA
1 ATGAAAAA
7635494 ATGAAAAA
1 ATGAAAAA
7635502 ATGAAAAA
1 ATGAAAAA
7635510 A
1 A
7635511 ATTGTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
ATGAAAAA
Found at i:7635499 original size:15 final size:15
Alignment explanation
Indices: 7635479--7635509 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7635469 TTGCTTGTGC
7635479 ATGAAAAAATGAAAA
1 ATGAAAAAATGAAAA
7635494 ATGAAAAAATGAAAA
1 ATGAAAAAATGAAAA
7635509 A
1 A
7635510 AATTGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (15 bp):
ATGAAAAAATGAAAA
Found at i:7636444 original size:40 final size:37
Alignment explanation
Indices: 7636400--7636484 Score: 89
Period size: 40 Copynumber: 2.2 Consensus size: 37
7636390 ATCAAATATT
* * *
7636400 TCTTTTCCTATTTCTATTTGGAGTTGAATTGTTTTCTTTG
1 TCTTTTCC-ACTTCAATTTGGAGTAGAA-T-TTTTCTTTG
* *
7636440 TCTTTCTCCACTTCAATTTGGAGTAGGATTTTTCTTTT
1 TCTTT-TCCACTTCAATTTGGAGTAGAATTTTTCTTTG
7636478 TCTTTTC
1 TCTTTTC
7636485 AAGTTGGCGT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
37 2 0.05
38 13 0.33
39 1 0.03
40 20 0.51
41 3 0.08
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (37 bp):
TCTTTTCCACTTCAATTTGGAGTAGAATTTTTCTTTG
Found at i:7641628 original size:15 final size:15
Alignment explanation
Indices: 7641608--7641638 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7641598 TACTGTAGGA
*
7641608 GTACATTAGAAGCAT
1 GTACATGAGAAGCAT
7641623 GTACATGAGAAGCAT
1 GTACATGAGAAGCAT
7641638 G
1 G
7641639 AAAGGTTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.23
Consensus pattern (15 bp):
GTACATGAGAAGCAT
Found at i:7647000 original size:18 final size:19
Alignment explanation
Indices: 7646977--7647022 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
7646967 CAGCAACAGT
7646977 AAAAAAAACA-CTGAAAA-C
1 AAAAAAAA-AGCTGAAAATC
*
7646995 AAAAAAAAAGCTGAAAATG
1 AAAAAAAAAGCTGAAAATC
7647014 AAAAAAAAA
1 AAAAAAAAA
7647023 TAATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 15 0.60
19 9 0.36
ACGTcount: A:0.76, C:0.09, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAAAAAAAGCTGAAAATC
Found at i:7647457 original size:146 final size:146
Alignment explanation
Indices: 7647267--7647863 Score: 889
Period size: 146 Copynumber: 4.1 Consensus size: 146
7647257 AAAAAATAAT
*
7647267 ATACGAATAAAGTG-CTAAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATAATA
1 ATACGAAGAAAGTGTC-AAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATAATA
* *
7647331 CATTTGAAACATTATGTACTAAAATAATATGAAGAAATAAAATATGAAAATAATATATTTTAAAA
65 CATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAA
*
7647396 AATAAGATACGAAAAAA
130 AATAAGATAAGAAAAAA
* * * *
7647413 ATACGAAGAATGTGTCAAAATCTGGGTTATTTATT-AAATTAATATAAAAAA-ACTTACATAATA
1 ATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTGAAA-AAATATAAAAAATACTTAAATAATA
* * *
7647476 CATTTGAAACATTTTTTGCTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAA
65 CATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAA
*
7647541 AATAAGATACGAAAAAA
130 AATAAGATAAGAAAAAA
*
7647558 ATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTGAAAAAATATAAATAATACTTAAATAATAC
1 ATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATAATAC
* *
7647623 ATTTAAAACATTATGTACTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAA
66 ATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAA
*
7647688 ATAAGATAAGAAAGAA
131 ATAAGATAAGAAAAAA
* * * *
7647704 ATACGAAGAAAGTGTCAAAATCAAGGTTATTTATT-AAATTAATATAAAAAAACACTTACATAAT
1 ATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTGAAA-AAATAT-AAAAAATACTTAAATAAT
* * * *
7647768 ACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTT-AA
64 ACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAA
*
7647832 AAATAATATAAGAAAAAA
129 AAATAAGATAAGAAAAAA
*
7647850 ATACGAATAAAGTG
1 ATACGAAGAAAGTG
7647864 CTTGGGTGCC
Statistics
Matches: 409, Mismatches: 36, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
145 137 0.33
146 200 0.49
147 72 0.18
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.29
Consensus pattern (146 bp):
ATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATAATAC
ATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAA
ATAAGATAAGAAAAAA
Found at i:7647656 original size:291 final size:292
Alignment explanation
Indices: 7647100--7647865 Score: 1247
Period size: 291 Copynumber: 2.7 Consensus size: 292
7647090 AGCACTATAA
*
7647100 AATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAATA-TGTCAAAATCAAGGTTATTTA
1 AATATATTTTAAAAAATAAGATAAGAAAAAAATACGAAGAA-AGTGTCAAAATCAAGGTTATTTA
* *
7647164 TTAAATTAATATAAAAAAAACATTTACATAATACATTTGAAATATTTTTTGCTAAAATAATAT-A
65 TTAAATTAATAT-AAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAA
*
7647228 AAAAATAAAATACGAAAATAATATATTTT--AAA-AA-AT------AATATACGAATAAAGTGCT
129 AAAAATAAAATACGAAAATAATATATTTTAAAAATAAGATAAGAAAAAAATACGAATAAAGTGCT
*
7647283 AAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
194 AAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTAAAACATTATGT
*
7647348 ACTAAAATAATATGAAGAAATAAAATATGAAAAT
259 ACTAAAATAATATGAAGAAATAAAATACGAAAAT
* * **
7647382 AATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAATGTGTCAAAATCTGGGTTATTTAT
1 AATATATTTTAAAAAATAAGATAAGAAAAAAATACGAAGAAAGTGTCAAAATCAAGGTTATTTAT
*
7647447 TAAATTAATAT-AAAAAA-ACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAG
66 TAAATTAATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAA
* *
7647510 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGTG-TC
131 AAATAAAATACGAAAATAATATATTTT-AAAAATAAGATAAGAAAAAAATACGAATAAAGTGCT-
*
7647574 AAAATCAGGGTTATTTATTGAAAAAATATAAATAATACTTAAATAATACATTTAAAACATTATGT
194 AAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTAAAACATTATGT
7647639 ACTAAAATAATATGAAGAAATAAAATACGAAAAT
259 ACTAAAATAATATGAAGAAATAAAATACGAAAAT
*
7647673 AATATATTTTAAAAAATAAGATAAGAAAGAAATACGAAGAAAGTGTCAAAATCAAGGTTATTTAT
1 AATATATTTTAAAAAATAAGATAAGAAAAAAATACGAAGAAAGTGTCAAAATCAAGGTTATTTAT
7647738 TAAATTAATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAA
66 TAAATTAATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAA
*
7647803 AAATAAAATACGAAAATAATATATTTTAAAAATAATATAAGAAAAAAATACGAATAAAGTGCT
131 AAATAAAATACGAAAATAATATATTTTAAAAATAAGATAAGAAAAAAATACGAATAAAGTGCT
7647866 TGGGTGCCGC
Statistics
Matches: 447, Mismatches: 20, Indels: 23
0.91 0.04 0.05
Matches are distributed among these distances:
279 40 0.09
280 35 0.08
282 72 0.16
283 3 0.01
284 2 0.00
285 2 0.00
290 1 0.00
291 182 0.41
292 37 0.08
293 73 0.16
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.30
Consensus pattern (292 bp):
AATATATTTTAAAAAATAAGATAAGAAAAAAATACGAAGAAAGTGTCAAAATCAAGGTTATTTAT
TAAATTAATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAA
AAATAAAATACGAAAATAATATATTTTAAAAATAAGATAAGAAAAAAATACGAATAAAGTGCTAA
AATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTAAAACATTATGTAC
TAAAATAATATGAAGAAATAAAATACGAAAAT
Found at i:7647976 original size:20 final size:18
Alignment explanation
Indices: 7647960--7648007 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
7647950 TTTTTTATTA
*
7647960 TTTTTTTTTCGTTTTTAG
1 TTTTTTTTTTGTTTTTAG
*
7647978 TTTTTTTTTTGTTTTCAG
1 TTTTTTTTTTGTTTTTAG
7647996 TGTTCTTTTTTT
1 T-TT-TTTTTTT
7648008 TTACTGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 17 0.65
19 2 0.08
20 7 0.27
ACGTcount: A:0.04, C:0.06, G:0.10, T:0.79
Consensus pattern (18 bp):
TTTTTTTTTTGTTTTTAG
Found at i:7652479 original size:21 final size:23
Alignment explanation
Indices: 7652432--7652480 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
7652422 TTACGAGCTG
*
7652432 AAAAAAGAGAAAGCACATAGAAT
1 AAAAAAGAGAAAGCAAATAGAAT
7652455 AAAAGAAGAGAAA-CAAATA-AA-
1 AAAA-AAGAGAAAGCAAATAGAAT
7652476 AAAAA
1 AAAAA
7652481 TGATTAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 4 0.17
22 2 0.08
23 9 0.38
24 8 0.33
ACGTcount: A:0.73, C:0.06, G:0.14, T:0.06
Consensus pattern (23 bp):
AAAAAAGAGAAAGCAAATAGAAT
Found at i:7652991 original size:61 final size:61
Alignment explanation
Indices: 7652926--7653045 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 61
7652916 TTTAATGGAT
* * *
7652926 TAATTATTATATCAGTAATCTATTAAAAAAATAAAAATTTTAACAACAATAATTAATTCAC
1 TAATTATTATATCAATAATCTATTAAAAAAACAAAAATTTTAACAACAATAAATAATTCAC
* *
7652987 TAATTATTGTATCAATAATCTATTAAAAAAACAAAAATTTTAACAACGATAAATAATTC
1 TAATTATTATATCAATAATCTATTAAAAAAACAAAAATTTTAACAACAATAAATAATTC
7653046 GTATAATCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (61 bp):
TAATTATTATATCAATAATCTATTAAAAAAACAAAAATTTTAACAACAATAAATAATTCAC
Found at i:7655095 original size:21 final size:22
Alignment explanation
Indices: 7655069--7655122 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
7655059 TGTGGGGTCT
**
7655069 ACACGCCCA-TGTGAAGGCTAC
1 ACACGCCCAGTGTGAAGGAGAC
*
7655090 ACACG-CCAGTGTGGAGGAGAC
1 ACACGCCCAGTGTGAAGGAGAC
7655111 ACACGCCC-GTGT
1 ACACGCCCAGTGT
7655123 AAGCAGCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.26, C:0.31, G:0.30, T:0.13
Consensus pattern (22 bp):
ACACGCCCAGTGTGAAGGAGAC
Found at i:7666137 original size:26 final size:28
Alignment explanation
Indices: 7666096--7666152 Score: 100
Period size: 26 Copynumber: 2.1 Consensus size: 28
7666086 TTTTTTTGGT
7666096 ATACTCACATTCTTTTTTGTATATCCTC
1 ATACTCACATTCTTTTTTGTATATCCTC
7666124 ATACTCACA-T-TTTTTTGTATATCCTC
1 ATACTCACATTCTTTTTTGTATATCCTC
7666150 ATA
1 ATA
7666153 TTTTCGGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 19 0.66
27 1 0.03
28 9 0.31
ACGTcount: A:0.25, C:0.23, G:0.04, T:0.49
Consensus pattern (28 bp):
ATACTCACATTCTTTTTTGTATATCCTC
Found at i:7666155 original size:20 final size:20
Alignment explanation
Indices: 7666039--7666156 Score: 53
Period size: 20 Copynumber: 5.5 Consensus size: 20
7666029 TTTTATAATC
* *
7666039 CCTCATATTTTTTGGTATCT
1 CCTCATATTTTTTTGTATAT
* * * *
7666059 CCTCATGTTTATTTGTTTGT
1 CCTCATATTTTTTTGTATAT
*
7666079 CCT-ATTTTTTTTTTGGTATA-
1 CCTCA-TATTTTTTT-GTATAT
*
7666099 -CTCACATTCTTTTTTGTATAT
1 CCTCATA-T-TTTTTTGTATAT
7666120 CCTCATACTCACATTTTTTTGTATAT
1 CCTC--A-T---ATTTTTTTGTATAT
7666146 CCTCATATTTT
1 CCTCATATTTT
7666157 CGGGTAAACT
Statistics
Matches: 73, Mismatches: 12, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
19 3 0.04
20 37 0.51
21 9 0.12
22 3 0.04
23 1 0.01
24 2 0.03
26 16 0.22
27 1 0.01
28 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.08, T:0.57
Consensus pattern (20 bp):
CCTCATATTTTTTTGTATAT
Found at i:7668600 original size:23 final size:22
Alignment explanation
Indices: 7668585--7668633 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
7668575 TTTAATTTAG
7668585 TTTTGTATTTTTATTTTTAAGAA
1 TTTTGTATTTTTATTTTTAAG-A
*
7668608 TTTTGTATTTTTATTTTTAAAA
1 TTTTGTATTTTTATTTTTAAGA
7668630 TTTT
1 TTTT
7668634 AAAATTTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTTGTATTTTTATTTTTAAGA
Found at i:7668646 original size:29 final size:29
Alignment explanation
Indices: 7668578--7668646 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
7668568 AATTTAATTT
*
7668578 AATTTAG-TTTTGTATTTTTATTTTTAAG
1 AATTTAGATTTTGTATTTTTAATTTTAAG
*
7668606 AATTTTGTATTTT-TATTTTTAAAATTTTAA-
1 AATTTAG-ATTTTGTATTTTT--AATTTTAAG
7668636 AATTTAGATTT
1 AATTTAGATTT
7668647 AAGTGACCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 6 0.18
29 11 0.32
30 10 0.29
31 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (29 bp):
AATTTAGATTTTGTATTTTTAATTTTAAG
Found at i:7669497 original size:21 final size:21
Alignment explanation
Indices: 7669468--7669521 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
7669458 TATGTAAAAT
7669468 ATTAATAAATAAAAAAATAAA
1 ATTAATAAATAAAAAAATAAA
* **
7669489 ATTATTAAATATTAAAATAAA
1 ATTAATAAATAAAAAAATAAA
*
7669510 ATAAAATAAATA
1 AT-TAATAAATA
7669522 TCTATTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
ATTAATAAATAAAAAAATAAA
Found at i:7671771 original size:43 final size:43
Alignment explanation
Indices: 7671723--7671808 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
7671713 GAGATATGTG
* *
7671723 GCATCCGAGCCCATTGAGAGGTCAGAGTTCATTATGGATGCGA
1 GCATCCGAGCCCATTGAGAGGTCAGAGTTCATAATAGATGCGA
*** *
7671766 GCATCCGAGCTTGTTGAGAGGTCTGAGTTCATAATAGATGCGA
1 GCATCCGAGCCCATTGAGAGGTCAGAGTTCATAATAGATGCGA
7671809 TTCATGTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
GCATCCGAGCCCATTGAGAGGTCAGAGTTCATAATAGATGCGA
Found at i:7691686 original size:21 final size:21
Alignment explanation
Indices: 7691662--7691726 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
7691652 AAATCTAACT
7691662 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** *
7691683 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACAAAAGTGCTAAACG
*
7691701 GAAGCACATAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
7691722 GAAGC
1 GAAGC
7691727 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:7691702 original size:39 final size:39
Alignment explanation
Indices: 7691656--7691744 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
7691646 AACCCGAAAT
7691656 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
*
7691695 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
*
7691734 CTAACGGAAGC
1 CTAACTGAAGC
7691745 TCATCAGAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.39, C:0.24, G:0.26, T:0.11
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:7691741 original size:18 final size:18
Alignment explanation
Indices: 7691679--7691744 Score: 78
Period size: 18 Copynumber: 3.5 Consensus size: 18
7691669 AAAAGTGCTA
7691679 AACGGAAGCCCGAAGGCT
1 AACGGAAGCCCGAAGGCT
* **
7691697 AACTGAAGCACATAAGTGCT
1 AACGGAAGC-CCGAAG-GCT
7691717 AAACGGAAGCCCGAAGGCT
1 -AACGGAAGCCCGAAGGCT
7691736 AACGGAAGC
1 AACGGAAGC
7691745 TCATCAGAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 17 0.44
19 7 0.18
20 7 0.18
21 8 0.21
ACGTcount: A:0.38, C:0.24, G:0.29, T:0.09
Consensus pattern (18 bp):
AACGGAAGCCCGAAGGCT
Found at i:7699603 original size:21 final size:21
Alignment explanation
Indices: 7699579--7699643 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
7699569 AAATCTAACT
7699579 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** *
7699600 GAAGC-CCGAAG-GCT-AACA
1 GAAGCACAAAAGTGCTAAACG
*
7699618 GAAGCACATAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
7699639 GAAGC
1 GAAGC
7699644 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.43, C:0.22, G:0.26, T:0.09
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:7699622 original size:39 final size:39
Alignment explanation
Indices: 7699573--7699661 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
7699563 AACCCGAAAT
*
7699573 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACAGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
*
7699612 CTAACAGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACAGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
7699651 CTAACAGAAGC
1 CTAACAGAAGC
7699662 TCATCAGAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.10
Consensus pattern (39 bp):
CTAACAGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:7704342 original size:2 final size:2
Alignment explanation
Indices: 7704335--7704369 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7704325 GCTAAATTAT
7704335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7704370 TAGGAAACAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7723064 original size:5 final size:6
Alignment explanation
Indices: 7723052--7723076 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7723042 TTAAATTATA
7723052 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
7723077 CTATATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:7726697 original size:20 final size:20
Alignment explanation
Indices: 7726674--7726711 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7726664 CTTCTAGTTG
7726674 GGATAATATCATTCTACTCA
1 GGATAATATCATTCTACTCA
7726694 GGATAATATCATTCTACT
1 GGATAATATCATTCTACT
7726712 TACCTTCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (20 bp):
GGATAATATCATTCTACTCA
Found at i:7732848 original size:1 final size:1
Alignment explanation
Indices: 7732842--7732866 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7732832 TCCATGGCAC
7732842 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
7732867 CGGGAGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7735022 original size:2 final size:2
Alignment explanation
Indices: 7735015--7735043 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7735005 CAACTAAGAG
7735015 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7735044 GTAAGAGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7741068 original size:30 final size:30
Alignment explanation
Indices: 7741034--7741100 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
7741024 CTATCTATTT
*
7741034 TTAATTTATGCTATTGTACTATTATATTAA
1 TTAATTTATGCTATTATACTATTATATTAA
7741064 TTAATTTATGCTATTATACTATTATATTAA
1 TTAATTTATGCTATTATACTATTATATTAA
7741094 TTAATTT
1 TTAATTT
7741101 TTAATTTAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (30 bp):
TTAATTTATGCTATTATACTATTATATTAA
Found at i:7744256 original size:5 final size:5
Alignment explanation
Indices: 7744246--7744271 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7744236 CTCAAAAATT
7744246 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
7744272 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:7745508 original size:43 final size:42
Alignment explanation
Indices: 7745351--7745509 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
7745341 TATGTGTTAT
*
7745351 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATC-ATATT-TGA-TTA
* * * * * * *
7745395 CGTGTAGGACCATGTTTAGGACATTGGCATCGTATATGATTT
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCATATTTGATTA
* *
7745437 CGTGAAAGACC-CTATCTAGGACAG-TGGCATCAATATTTGATTA
1 CGTGTAAGACCAC-GTCTAGGAC-GTTGGCATC-ATATTTGATTA
* *
7745480 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
7745510 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
42 26 0.30
43 34 0.39
44 28 0.32
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCATATTTGATTA
Found at i:7747961 original size:46 final size:46
Alignment explanation
Indices: 7747869--7747974 Score: 151
Period size: 46 Copynumber: 2.3 Consensus size: 46
7747859 ATAATCTCAC
*
7747869 CCATAATGAACTCGGAACACAACTCAACAAGCTCGGGTGTTCGCAT
1 CCATAATGAACTCGGAACACAACTCAACAAGCTCGGATGTTCGCAT
* *
7747915 CCATAATGAACTCGGAACACAACTCAACAAGTTTGGATGCTT-GCAT
1 CCATAATGAACTCGGAACACAACTCAACAAGCTCGGATG-TTCGCAT
*
7747961 CCATAGGTGAACTC
1 CCATA-ATGAACTC
7747975 AGATTGCAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
46 45 0.83
47 9 0.17
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAATGAACTCGGAACACAACTCAACAAGCTCGGATGTTCGCAT
Found at i:7756549 original size:21 final size:21
Alignment explanation
Indices: 7756499--7756550 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
7756489 TACATGATAT
* * *
7756499 ACATAACATATATAAAAATAAT
1 ACATAATA-ATATAAAAACAAA
7756521 A-ATAAATAATATAAAAACAAA
1 ACAT-AATAATATAAAAACAAA
7756542 ACATAATAA
1 ACATAATAA
7756551 AGATTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (21 bp):
ACATAATAATATAAAAACAAA
Found at i:7756707 original size:3 final size:3
Alignment explanation
Indices: 7756701--7756759 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
7756691 ATTTAAGAAA
* *
7756701 AAT AAT ACAT AAT AAGT AAT AAT AAT ATAT AATT AA- AAT AAT ACT TAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
7756749 AAT AA- AAT AAT
1 AAT AAT AAT AAT
7756760 TTTATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 30 0.65
4 12 0.26
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:7756714 original size:7 final size:6
Alignment explanation
Indices: 7756701--7756759 Score: 50
Period size: 7 Copynumber: 9.5 Consensus size: 6
7756691 ATTTAAGAAA
* *
7756701 AATAAT ACATAAT AAGTAAT AATAAT ATATAATT AA-AAT AATACT TATAAT
1 AATAAT A-ATAAT AA-TAAT AATAAT A-ATAA-T AATAAT AATAAT AATAAT
7756752 AA-AAT AAT
1 AATAAT AAT
7756760 TTTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 8 0.19
6 16 0.37
7 17 0.40
8 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (6 bp):
AATAAT
Found at i:7756727 original size:36 final size:34
Alignment explanation
Indices: 7756681--7756787 Score: 98
Period size: 36 Copynumber: 3.2 Consensus size: 34
7756671 ATAAAGAGAT
7756681 GTAAAATAATATTTAAGAAAAATAATACATAATAA
1 GTAAAATAATATTTAAGAAAAATAATAC-TAATAA
* ** *
7756716 GTAATAATAATATATAATTAAAATAATACTTATAA
1 GTAA-AATAATATTTAAGAAAAATAATACTAATAA
* *
7756751 -TAAAATAAT-TTTATA-ATATATAATA-TAA-AA
1 GTAAAATAATATTTA-AGAAAAATAATACTAATAA
7756781 GTAAAAT
1 GTAAAAT
7756788 TAAAATAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
30 2 0.03
31 8 0.13
32 10 0.17
33 7 0.12
34 3 0.05
35 9 0.15
36 21 0.35
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (34 bp):
GTAAAATAATATTTAAGAAAAATAATACTAATAA
Found at i:7756742 original size:16 final size:16
Alignment explanation
Indices: 7756681--7756787 Score: 76
Period size: 16 Copynumber: 6.4 Consensus size: 16
7756671 ATAAAGAGAT
*
7756681 GTAAAATAATATTTAA
1 GTAAAATAATATATAA
*
7756697 GAAAAATAATACATAATAA
1 GTAAAATAAT--AT-ATAA
7756716 GTAATAATAATATATAA
1 GTAA-AATAATATATAA
*
7756733 TTAAAATAATACTTATAA
1 GTAAAATAATA--TATAA
*
7756751 -TAAAATAATTTTATAA
1 GTAAAATAA-TATATAA
* *
7756767 -T-ATATAATATAAAA
1 GTAAAATAATATATAA
7756781 GTAAAAT
1 GTAAAAT
7756788 TAAAATAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
14 5 0.07
15 6 0.08
16 25 0.34
17 15 0.21
18 10 0.14
19 6 0.08
20 6 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (16 bp):
GTAAAATAATATATAA
Found at i:7758556 original size:119 final size:119
Alignment explanation
Indices: 7758345--7758934 Score: 999
Period size: 119 Copynumber: 5.0 Consensus size: 119
7758335 CTTGAGTTTG
* * * * *
7758345 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAGACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
7758410 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
7758464 TTTGAAAACGTCTGAGAGTCAAATCTGCTATGTTCC-CAATTTGTTCCTTGTAAACACAAGAATA
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATG-TCCTCGATTTGTTCCTTGTAAACACAAGAATA
* *
7758528 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTGTA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
7758583 TTTGAGAACGTCTGAGAGTCAAATCTGTTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
7758648 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
7758702 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
7758767 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
7758821 TTTGAGAACGT-TGAGAGTCAAAT-TGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAAAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* **
7758884 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
7758935 GTCTTCAATT
Statistics
Matches: 449, Mismatches: 19, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
116 2 0.00
117 84 0.19
118 15 0.03
119 345 0.77
120 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:7781067 original size:12 final size:12
Alignment explanation
Indices: 7781050--7781074 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7781040 TATAAGTAAC
7781050 AAAATATATATA
1 AAAATATATATA
7781062 AAAATATATATA
1 AAAATATATATA
7781074 A
1 A
7781075 TACATAAGGA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATATATATA
Found at i:7783755 original size:15 final size:14
Alignment explanation
Indices: 7783726--7783768 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
7783716 ATTCCATCAC
*
7783726 TTTTGTTTAAATTT
1 TTTTATTTAAATTT
7783740 TTTTATTTAGAATTT
1 TTTTATTTA-AATTT
7783755 TTTATATGTTAAAT
1 TTT-TAT-TTAAAT
7783769 ATAAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 8 0.32
15 8 0.32
16 6 0.24
17 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (14 bp):
TTTTATTTAAATTT
Found at i:7784555 original size:16 final size:15
Alignment explanation
Indices: 7784523--7784551 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7784513 CGTGTCTCTC
7784523 TTTTTTAAATATTTA
1 TTTTTTAAATATTTA
7784538 TTTTTTAAATATTT
1 TTTTTTAAATATTT
7784552 TATTATACTC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTAAATATTTA
Found at i:7787608 original size:2 final size:2
Alignment explanation
Indices: 7787597--7787641 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
7787587 CATTTCAACA
7787597 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7787638 CT CT
1 CT CT
7787642 TACTCATTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:7800931 original size:26 final size:26
Alignment explanation
Indices: 7800902--7801009 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
7800892 TGATACAAAT
7800902 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
7800928 TGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7800954 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7800980 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7801006 TGAT
1 TGAT
7801010 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:7802516 original size:26 final size:26
Alignment explanation
Indices: 7802487--7802539 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
7802477 TTTACAGTTT
7802487 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
7802513 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
7802539 T
1 T
7802540 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:7806742 original size:17 final size:18
Alignment explanation
Indices: 7806708--7806743 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7806698 TGAATTTCTA
7806708 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
7806726 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
7806743 T
1 T
7806744 AACTCATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:7811554 original size:6 final size:6
Alignment explanation
Indices: 7811543--7811586 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
7811533 TAAGTCTACG
* *
7811543 AAAATA AAAATA AACATA AACATA AAAAT- AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
7811587 GAAAACAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:7811567 original size:12 final size:11
Alignment explanation
Indices: 7811543--7811591 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
7811533 TAAGTCTACG
7811543 AAAATAAAAATA
1 AAAAT-AAAATA
*
7811555 AACATAAACATA
1 AAAATAAA-ATA
7811567 AAAATAAAATA
1 AAAATAAAATA
*
7811578 AAAATAAAAGA
1 AAAATAAAATA
7811589 AAA
1 AAA
7811592 CAAATGGACT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 19 0.58
12 14 0.42
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:7811569 original size:18 final size:17
Alignment explanation
Indices: 7811543--7811586 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
7811533 TAAGTCTACG
7811543 AAAATAAAAATAAACATA
1 AAAATAAAAATAAA-ATA
*
7811561 AACATAAAAATAAAATA
1 AAAATAAAAATAAAATA
7811578 AAAATAAAA
1 AAAATAAAA
7811587 GAAAACAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:7815792 original size:3 final size:3
Alignment explanation
Indices: 7815779--7815839 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
7815769 TAAATAACGT
*
7815779 ATA AAA ATA ATA ATA ATA ATA A-A GA-A ATA A-A ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA
*
7815823 ATA ATT ATA ATA GATA A
1 ATA ATA ATA ATA -ATA A
7815840 CAAATAATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 4 0.08
3 39 0.80
4 6 0.12
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:7815815 original size:8 final size:8
Alignment explanation
Indices: 7815782--7815878 Score: 74
Period size: 8 Copynumber: 11.9 Consensus size: 8
7815772 ATAACGTATA
7815782 AAAATAAT
1 AAAATAAT
7815790 AATAATAAT
1 AA-AATAAT
7815799 AAAGA-AAT
1 AAA-ATAAT
7815807 AAAATAAT
1 AAAATAAT
7815815 -AAATAAT
1 AAAATAAT
*
7815822 AATAATTAT
1 AA-AATAAT
7815831 AATAGATAA-
1 AA-A-ATAAT
*
7815840 CAAATAAT
1 AAAATAAT
*
7815848 TAAATAAT
1 AAAATAAT
*
7815856 TAAATAAT
1 AAAATAAT
*
7815864 TAAATAAT
1 AAAATAAT
*
7815872 TAAATAA
1 AAAATAA
7815879 AGAGAAGAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
7 12 0.15
8 44 0.56
9 19 0.24
10 3 0.04
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (8 bp):
AAAATAAT
Found at i:7820300 original size:18 final size:18
Alignment explanation
Indices: 7820252--7820459 Score: 202
Period size: 18 Copynumber: 11.5 Consensus size: 18
7820242 CACTTTATCA
7820252 ATTTCATTCAGTAAC-GATC
1 ATTT-ATTCAGTAACAG-TC
* *
7820271 AATTGTTCAGTAACAGTC
1 ATTTATTCAGTAACAGTC
** * *
7820289 GGTTATTTAGTAATAGTC
1 ATTTATTCAGTAACAGTC
7820307 ATTTATTCAGTAACAGTC
1 ATTTATTCAGTAACAGTC
* * *
7820325 AATTATTCAGTAATAATC
1 ATTTATTCAGTAACAGTC
* *
7820343 AGTTATTCAATAACAGTC
1 ATTTATTCAGTAACAGTC
7820361 ATTTATTCAGTAACAGTC
1 ATTTATTCAGTAACAGTC
* *
7820379 ATTTATTCAGTAATAATC
1 ATTTATTCAGTAACAGTC
*
7820397 AGTTATTCAGTAACAGTC
1 ATTTATTCAGTAACAGTC
* * *
7820415 ATTTATTTAGTAATAGTT
1 ATTTATTCAGTAACAGTC
* * *
7820433 AATTATTCAGTAGCAGTT
1 ATTTATTCAGTAACAGTC
*
7820451 AGTTATTCA
1 ATTTATTCA
7820460 ATACCTTTAT
Statistics
Matches: 154, Mismatches: 34, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
18 150 0.97
19 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (18 bp):
ATTTATTCAGTAACAGTC
Found at i:7820334 original size:54 final size:54
Alignment explanation
Indices: 7820252--7820459 Score: 256
Period size: 54 Copynumber: 3.8 Consensus size: 54
7820242 CACTTTATCA
* * * * *
7820252 ATTTCATTCAGTAAC-GATCAATTGTTCAGTAACAGTCGGTTATTTAGTAATAGTC
1 ATTT-ATTCAGTAACAG-TCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTC
* *
7820307 ATTTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATTCAATAACAGTC
1 ATTTATTCAGTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTC
* *
7820361 ATTTATTCAGTAACAGTCATTTATTCAGTAATAATCAGTTATTCAGTAACAGTC
1 ATTTATTCAGTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTC
* * * * * *
7820415 ATTTATTTAGTAATAGTTAATTATTCAGTAGCAGTTAGTTATTCA
1 ATTTATTCAGTAACAGTCAATTATTCAGTAACAATCAGTTATTCA
7820460 ATACCTTTAT
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
54 130 0.96
55 5 0.04
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (54 bp):
ATTTATTCAGTAACAGTCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTC
Found at i:7820577 original size:6 final size:6
Alignment explanation
Indices: 7820566--7820597 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
7820556 AGCAAAAAAA
*
7820566 TAACAG TAACAG TAACAG TATCAG TAACAG TA
1 TAACAG TAACAG TAACAG TAACAG TAACAG TA
7820598 CGGTACACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.22
Consensus pattern (6 bp):
TAACAG
Found at i:7821116 original size:2 final size:2
Alignment explanation
Indices: 7821111--7821144 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7821101 CGCGCGCGCG
7821111 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
7821145 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7821916 original size:17 final size:15
Alignment explanation
Indices: 7821888--7821921 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
7821878 TCCCTATTTC
7821888 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
7821903 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
7821920 TC
1 TC
7821922 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:7821992 original size:2 final size:2
Alignment explanation
Indices: 7821985--7822028 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
7821975 TCATATCTTT
7821985 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7822027 TA
1 TA
7822029 CTAATTAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7822512 original size:23 final size:24
Alignment explanation
Indices: 7822481--7822537 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
7822471 ATATATTTTT
7822481 ATACATTTGTACAATATCAATACC
1 ATACATTTGTACAATATCAATACC
*
7822505 ATAC-TTTGTTCAATATCAATACC
1 ATACATTTGTACAATATCAATACC
*
7822528 ATACAATTGT
1 ATACATTTGT
7822538 CATACTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (24 bp):
ATACATTTGTACAATATCAATACC
Found at i:7822842 original size:3 final size:3
Alignment explanation
Indices: 7822829--7822874 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
7822819 AACTTATTTC
7822829 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7822875 CTAAATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:7832730 original size:3 final size:3
Alignment explanation
Indices: 7832722--7832750 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7832712 ATGAAGATAA
7832722 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
7832751 ATGGCAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.31, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:7839073 original size:25 final size:25
Alignment explanation
Indices: 7839028--7839077 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7839018 CACCCAAATT
**
7839028 CAATTTTAAAATTTATTTTTTTATA
1 CAATTTTAAAATTTAAATTTTTATA
7839053 CAATTTT-AAATTATAAATTTTTATA
1 CAATTTTAAAATT-TAAATTTTTATA
7839078 TTATAAGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
CAATTTTAAAATTTAAATTTTTATA
Found at i:7840673 original size:20 final size:21
Alignment explanation
Indices: 7840634--7840673 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
7840624 CACCAAGTGA
7840634 AAGCATTTACATAAACAACTTC
1 AAGCATTTA-ATAAACAACTTC
*
7840656 AAGCATTT-ATATACAACT
1 AAGCATTTAATAAACAACT
7840674 ATGTTCTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (21 bp):
AAGCATTTAATAAACAACTTC
Found at i:7851401 original size:35 final size:35
Alignment explanation
Indices: 7851360--7851430 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
7851350 TCTAGGATCA
*
7851360 CATATCTTTAAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTTAAAGATCACCTTCCATATTTACCAAG
* * *
7851395 CATATCTTTGAATATCACTTTCCATATTTACCAAG
1 CATATCTTTAAAGATCACCTTCCATATTTACCAAG
7851430 C
1 C
7851431 TCCGGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (35 bp):
CATATCTTTAAAGATCACCTTCCATATTTACCAAG
Found at i:7854091 original size:32 final size:32
Alignment explanation
Indices: 7854043--7854103 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
7854033 CGAGTAACTC
* *
7854043 AAAACTTAAATTATTT-ATTTAAATTAACTCAA
1 AAAAATTAAATAATTTAATTT-AATTAACTCAA
7854075 AAAAATTAAATAATTTAATTTAATTAACT
1 AAAAATTAAATAATTTAATTTAATTAACT
7854104 AAATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (32 bp):
AAAAATTAAATAATTTAATTTAATTAACTCAA
Found at i:7855414 original size:19 final size:19
Alignment explanation
Indices: 7855366--7855416 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
7855356 CCTTGATCCG
7855366 ATACATGATGAGAAAATTTA
1 ATACATGATGA-AAAATTTA
* *
7855386 A-ACGAAGATGAAGAATTTA
1 ATAC-ATGATGAAAAATTTA
7855405 ATACATGATGAA
1 ATACATGATGAA
7855417 CTTAAAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.51, C:0.06, G:0.18, T:0.25
Consensus pattern (19 bp):
ATACATGATGAAAAATTTA
Found at i:7868843 original size:2 final size:2
Alignment explanation
Indices: 7868836--7868945 Score: 62
Period size: 2 Copynumber: 60.5 Consensus size: 2
7868826 ACTGCTGCTC
* *
7868836 CT CT CT CT C- CT CT CT CT CT CC CT TT C- CT -T CT C- CT -T CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * *
7868873 CC CT TT CT CT C- CT CT CT CT CT C- CT -T TT CC CT CT CT CT C-
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * *
7868911 CT CT C- CT -T CT CT CT CT CT TT CT CT TT CT CT TT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
7868946 CTTATCCCTA
Statistics
Matches: 80, Mismatches: 17, Indels: 22
0.67 0.14 0.18
Matches are distributed among these distances:
1 11 0.14
2 69 0.86
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:7868867 original size:27 final size:26
Alignment explanation
Indices: 7868833--7868934 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 26
7868823 CCTACTGCTG
7868833 CTCC-TCTCTCTCCTCTCTCTCTCCCT
1 CTCCTTCTCTCTCC-CTCTCTCTCCCT
* *
7868859 TTCCTTCTCCTTCTCCCTTTCTCTCCTCT
1 CTCCTTCT-C-TCTCCCTCTCTCTCC-CT
* *
7868888 CTCTCTCCT-TTTCCCTCTCTCT-CCT
1 CTC-CTTCTCTCTCCCTCTCTCTCCCT
* *
7868913 CTCCTTCTCTCTCTCTTTCTCT
1 CTCCTTCTCTCTCCCTCTCTCT
7868935 TTCTCTTTCT
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
24 4 0.07
25 15 0.25
26 4 0.07
27 14 0.23
28 10 0.17
29 9 0.15
30 4 0.07
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (26 bp):
CTCCTTCTCTCTCCCTCTCTCTCCCT
Found at i:7868882 original size:39 final size:39
Alignment explanation
Indices: 7868839--7868975 Score: 138
Period size: 39 Copynumber: 3.5 Consensus size: 39
7868829 GCTGCTCCTC
7868839 TCTCTCCTCTCTCTCTCCCTTTCCTTCTCCTTCTCCCTT
1 TCTCTCCTCTCTCTCTCCCTTTCCTTCTCCTTCTCCCTT
* * *
7868878 TCTCTCCTCTCTCTCTCCTTTTCCCTCTCTCTCCTCTCC-T
1 TCTCTCCTCTCTCTCTCCCTTTCCTTCTC-CTTCTC-CCTT
* * *
7868918 TCTCT-CTCTCT-T-TCTCTTTCTCTTTCTCCTTATCCCTA
1 TCTCTCCTCTCTCTCTCCCTTTC-C-TTCTCCTTCTCCCTT
* *
7868956 TCTCTCCTTTCTCTTTCCCT
1 TCTCTCCTCTCTCTCTCCCT
7868976 ATCCCTTTCT
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
37 8 0.10
38 11 0.14
39 42 0.53
40 12 0.15
41 6 0.08
ACGTcount: A:0.01, C:0.47, G:0.00, T:0.51
Consensus pattern (39 bp):
TCTCTCCTCTCTCTCTCCCTTTCCTTCTCCTTCTCCCTT
Found at i:7868946 original size:51 final size:51
Alignment explanation
Indices: 7868847--7869027 Score: 161
Period size: 51 Copynumber: 3.5 Consensus size: 51
7868837 TCTCTCTCCT
* * *
7868847 CTCTCTCTCCCTTTCCTTCTCCTTCTCCCTTTCTCTCCTCTCTCTCTCCTTTTCC
1 CTCTCTCT-CCTCTCCTTCT-C-TCTCCCTTTCTCT-ATCTCTTTCTCCTTTTCC
* * *
7868902 CTCTCTCTCCTCTCCTTCTCTCTCTCTTTCTCTTTCTCTTTCTCCTTATCC
1 CTCTCTCTCCTCTCCTTCTCTCTCCCTTTCTCTATCTCTTTCTCCTTTTCC
* * * *
7868953 CTATCTCTCCTTTCTCTTTCCCTATCCCTTTCTCTATCT-TTT-TCCTTTTCC
1 CTCTCTCTCC--TCTCCTTCTCTCTCCCTTTCTCTATCTCTTTCTCCTTTTCC
* *
7869004 CT-TCCTCTACTGCTCCTCCTCTCT
1 CTCT-CTCTCCT-CTCCTTCTCTCT
7869028 AAATCTCTAT
Statistics
Matches: 105, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
49 1 0.01
50 9 0.09
51 39 0.37
52 15 0.14
53 23 0.22
54 10 0.10
55 8 0.08
ACGTcount: A:0.03, C:0.46, G:0.01, T:0.51
Consensus pattern (51 bp):
CTCTCTCTCCTCTCCTTCTCTCTCCCTTTCTCTATCTCTTTCTCCTTTTCC
Found at i:7868954 original size:78 final size:75
Alignment explanation
Indices: 7868833--7868987 Score: 186
Period size: 78 Copynumber: 2.0 Consensus size: 75
7868823 CCTACTGCTG
* * *
7868833 CTCCTCTCTCTCCTCTCTCTCTCCCTTTCCTTCTCCTTCTCCCTTTCTCTCCTCTCTCTCTCCTT
1 CTCCTCTCTCTCCTCTCTCTCTCCCTTTCCTTCTCCTTATCCCTATCTCTCCTCTCTCTCTCCCT
*
7868898 TTCCCTCTCT
66 ATCCCTCTCT
* * * *
7868908 CTCCTCTC-CTTCTCTCTCTCTTTCTCTTTCTCTTTCTCCTTATCCCTATCTCTCCTTTCTCTTT
1 CTCCTCTCTC-TC-CTCTCTCTCTCCCTTTC-C-TTCTCCTTATCCCTATCTCTCCTCTCTCTCT
*
7868972 CCCTATCCCTTTCT
62 CCCTATCCCTCTCT
7868986 CT
1 CT
7868988 ATCTTTTTCC
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
74 1 0.01
75 10 0.15
76 15 0.22
77 1 0.01
78 40 0.60
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (75 bp):
CTCCTCTCTCTCCTCTCTCTCTCCCTTTCCTTCTCCTTATCCCTATCTCTCCTCTCTCTCTCCCT
ATCCCTCTCT
Done.