Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 280 of 311
Found at i:91684712 original size:52 final size:53
Alignment explanation
Indices: 91684634--91684814 Score: 186
Period size: 52 Copynumber: 3.4 Consensus size: 53
91684624 TGAATTTTTT
* * * *
91684634 TTAACAGGCCAACACC-AATTTTTTTTTAAAACTCGTATTTTGGTGTCGACCA
1 TTAACAGGCCAGCACCAAATTTTTTTTAAAAACTCGTATTATGGTGTCGGCCA
* *
91684686 TTAACAAGCCAGCACCAAATTTTTTTTTTAAAAAAAACTCGTATTATGGTGTCGGCTA
1 TTAACAGGCCAGCACCAAA--TTTTTTTT---AAAAACTCGTATTATGGTGTCGGCCA
* * * ** *
91684744 GTGACAGGCCAGCACC-AATTTTTTTTAAAAACTCGTATTCTGGTACCGGTCA
1 TTAACAGGCCAGCACCAAATTTTTTTTAAAAACTCGTATTATGGTGTCGGCCA
*
91684796 TTGACAGGCCAGCACCAAA
1 TTAACAGGCCAGCACCAAA
91684815 AAAATTTGAA
Statistics
Matches: 107, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
52 50 0.47
53 4 0.04
55 16 0.15
57 2 0.02
58 35 0.33
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (53 bp):
TTAACAGGCCAGCACCAAATTTTTTTTAAAAACTCGTATTATGGTGTCGGCCA
Found at i:91684736 original size:58 final size:57
Alignment explanation
Indices: 91684661--91684769 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 57
91684651 ATTTTTTTTT
* *
91684661 AAAACTCGTATTTTGGTGTCGACCATTAACAAGCCAGCACCAAATTTTTTTTTTAAAA
1 AAAACTCGTATTATGGTGTCGACCAGTAACAAGCCAGCACC-AATTTTTTTTTTAAAA
* * * *
91684719 AAAACTCGTATTATGGTGTCGGCTAGTGACAGGCCAGCACCAATTTTTTTT
1 AAAACTCGTATTATGGTGTCGACCAGTAACAAGCCAGCACCAATTTTTTTT
91684770 AAAAACTCGT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 10 0.22
58 35 0.78
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (57 bp):
AAAACTCGTATTATGGTGTCGACCAGTAACAAGCCAGCACCAATTTTTTTTTTAAAA
Found at i:91686722 original size:46 final size:45
Alignment explanation
Indices: 91686669--91686844 Score: 230
Period size: 46 Copynumber: 3.8 Consensus size: 45
91686659 CCATATCATA
*
91686669 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTC-AG
* * *
91686715 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTC-AG
*
91686761 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCA-G
91686809 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
91686845 ACACAAGTGA
Statistics
Matches: 116, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
46 61 0.53
47 30 0.26
48 24 0.21
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAG
Found at i:91686797 original size:94 final size:92
Alignment explanation
Indices: 91686669--91686844 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 92
91686659 CCATATCATA
*
91686669 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCGA-GGCCGATGCATGTCCCA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT--ATGGCCGATGCATGTCCCA
91686731 GACATGTCTTACACTAGCTCTCGTCTCAAT
63 GACATGTCTTACACTAGCTCTCGTCTCAAT
*
91686761 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCAG
*
91686826 ACATGTCTTACACTGGCTC
64 ACATGTCTTACACTAGCTC
91686845 ACACAAGTGA
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
92 7 0.09
93 14 0.18
94 53 0.70
95 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:91687743 original size:34 final size:34
Alignment explanation
Indices: 91687695--91687764 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
91687685 TTTCCATAGC
91687695 TTAGCTGATAATATGGGATAAAGTTACTTTACTT
1 TTAGCTGATAATATGGGATAAAGTTACTTTACTT
* *
91687729 TTAGGTGATAATATGGGATAAAGTTACTTTATTT
1 TTAGCTGATAATATGGGATAAAGTTACTTTACTT
91687763 TT
1 TT
91687765 TTTTATCTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (34 bp):
TTAGCTGATAATATGGGATAAAGTTACTTTACTT
Found at i:91688064 original size:13 final size:13
Alignment explanation
Indices: 91688046--91688070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91688036 AACAATGTTC
91688046 TCTTATAAATTTA
1 TCTTATAAATTTA
91688059 TCTTATAAATTT
1 TCTTATAAATTT
91688071 TTAATTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTTATAAATTTA
Found at i:91688078 original size:7 final size:7
Alignment explanation
Indices: 91688066--91688094 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
91688056 TTATCTTATA
91688066 AATTTTT
1 AATTTTT
91688073 AATTTTT
1 AATTTTT
91688080 AA-TTTT
1 AATTTTT
91688086 AATTTTT
1 AATTTTT
91688093 AA
1 AA
91688095 CAGCAGTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (7 bp):
AATTTTT
Found at i:91688085 original size:13 final size:13
Alignment explanation
Indices: 91688069--91688094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91688059 TCTTATAAAT
91688069 TTTTAATTTTTAA
1 TTTTAATTTTTAA
91688082 TTTTAATTTTTAA
1 TTTTAATTTTTAA
91688095 CAGCAGTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:91689110 original size:108 final size:108
Alignment explanation
Indices: 91688921--91689138 Score: 418
Period size: 108 Copynumber: 2.0 Consensus size: 108
91688911 CTATAAGTTG
91688921 TGATTCATAGAAGCATGTCACAATGAAACCAATGTACAAGAGGCAGAACAGTACCAAAGCAAACT
1 TGATTCATAGAAGCATGTCACAATGAAACCAATGTACAAGAGGCAGAACAGTACCAAAGCAAACT
91688986 GTTTTGAGCATAAATTGCAAGCAAAAACAGCTTTTAGTTAGCC
66 GTTTTGAGCATAAATTGCAAGCAAAAACAGCTTTTAGTTAGCC
91689029 TGATTCATAGAAGCATGTCACAATGAAACCAATGTACAAGAGGCAGAACAGTACCAAAGCAAACT
1 TGATTCATAGAAGCATGTCACAATGAAACCAATGTACAAGAGGCAGAACAGTACCAAAGCAAACT
* *
91689094 GTTTTGGGCATAAATTGCAAGCAAAACCAGCTTTTAGTTAGCC
66 GTTTTGAGCATAAATTGCAAGCAAAAACAGCTTTTAGTTAGCC
91689137 TG
1 TG
91689139 TAACAACACC
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.22
Consensus pattern (108 bp):
TGATTCATAGAAGCATGTCACAATGAAACCAATGTACAAGAGGCAGAACAGTACCAAAGCAAACT
GTTTTGAGCATAAATTGCAAGCAAAAACAGCTTTTAGTTAGCC
Found at i:91697536 original size:21 final size:22
Alignment explanation
Indices: 91697507--91697553 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
91697497 CAGAAGGAGT
*
91697507 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
91697529 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
91697550 GAGT
1 GAGT
91697554 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:91706372 original size:16 final size:16
Alignment explanation
Indices: 91706351--91706385 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
91706341 ACGCATTTCC
* *
91706351 ATTATTTTTATTATTA
1 ATTATTTGTATAATTA
91706367 ATTATTTGTATAATTA
1 ATTATTTGTATAATTA
91706383 ATT
1 ATT
91706386 CTCGCAGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
ATTATTTGTATAATTA
Found at i:91708325 original size:6 final size:6
Alignment explanation
Indices: 91708314--91708358 Score: 72
Period size: 6 Copynumber: 7.2 Consensus size: 6
91708304 TATTGTTGAT
91708314 AATGGG AATGGG AATGGG AAATGGG AAATGGG AATGGG AATGGG A
1 AATGGG AATGGG AATGGG -AATGGG -AATGGG AATGGG AATGGG A
91708359 GGAGGGAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 25 0.66
7 13 0.34
ACGTcount: A:0.38, C:0.00, G:0.47, T:0.16
Consensus pattern (6 bp):
AATGGG
Found at i:91708338 original size:7 final size:7
Alignment explanation
Indices: 91708314--91708406 Score: 65
Period size: 6 Copynumber: 13.9 Consensus size: 7
91708304 TATTGTTGAT
91708314 AATGGG-
1 AATGGGA
91708320 AATGGG-
1 AATGGGA
91708326 AATGGGA
1 AATGGGA
91708333 AATGGGA
1 AATGGGA
91708340 AATGGG-
1 AATGGGA
91708346 AATGGG-
1 AATGGGA
91708352 AATGGGA
1 AATGGGA
*
91708359 GGA-GGGA
1 -AATGGGA
**
91708366 ACGGTGGA
1 AATG-GGA
*
91708374 AGAGGGGA
1 A-ATGGGA
*
91708382 GATGGG-
1 AATGGGA
91708388 AATGGGA
1 AATGGGA
91708395 AATGGG-
1 AATGGGA
91708401 AATGGG
1 AATGGG
91708407 TATTGCATGG
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
6 35 0.48
7 28 0.38
8 8 0.11
9 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.52, T:0.13
Consensus pattern (7 bp):
AATGGGA
Found at i:91708338 original size:13 final size:13
Alignment explanation
Indices: 91708314--91708406 Score: 75
Period size: 13 Copynumber: 6.9 Consensus size: 13
91708304 TATTGTTGAT
91708314 AATGGGAATGGG-
1 AATGGGAATGGGA
91708326 AATGGGAAATGGGA
1 AATGGG-AATGGGA
91708340 AATGGGAATGGG-
1 AATGGGAATGGGA
91708352 AATGGGAGGA-GGGA
1 AATGGGA--ATGGGA
* * *
91708366 ACGGTGGAAGAGGGGA
1 A--ATGGGA-ATGGGA
*
91708382 GATGGGAATGGGA
1 AATGGGAATGGGA
91708395 AATGGGAATGGG
1 AATGGGAATGGG
91708407 TATTGCATGG
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
12 13 0.20
13 31 0.47
14 12 0.18
15 2 0.03
16 8 0.12
ACGTcount: A:0.34, C:0.01, G:0.52, T:0.13
Consensus pattern (13 bp):
AATGGGAATGGGA
Found at i:91708530 original size:30 final size:30
Alignment explanation
Indices: 91708494--91708933 Score: 604
Period size: 30 Copynumber: 15.1 Consensus size: 30
91708484 TGTATTTAAA
* *
91708494 ATTTTAAAAATAAAAAAATATATGTAATGG
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
91708524 ATTTTAAAAATAAAAAAATACT-TGTAGTGT
1 ATTTTAAAAATAAAAAAATA-TATGTAGTGT
*
91708554 ATTTT-AAAAT----ATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
91708579 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
91708608 ATTCTAGAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* * * *
91708638 ATTTT-AAAAT--ATATATATATGAATTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
91708665 ATTTTAAAAGTAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
91708695 ATTTTAAAAATAAAAAAAATATATGTAGTGT
1 ATTTTAAAAAT-AAAAAAATATATGTAGTGT
91708726 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
91708755 ATTTTAAAAATAAAAAAATATGTGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
91708785 ATTTTAAAAAT--AAAAATATATGTAATGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* * *
91708813 ATTTTAAAAATAAAAAAATATGTATAATGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
91708843 ATTTTAAAAAT--AAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
91708871 ATTTTAAAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
91708901 ATTGTAAAAATAAAAAAATATATGTAGTAT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
91708931 ATT
1 ATT
91708934 CGGCGTATTC
Statistics
Matches: 366, Mismatches: 28, Indels: 32
0.86 0.07 0.08
Matches are distributed among these distances:
24 1 0.00
25 17 0.05
26 5 0.01
27 18 0.05
28 55 0.15
29 61 0.17
30 178 0.49
31 31 0.08
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:91708807 original size:58 final size:58
Alignment explanation
Indices: 91708494--91708933 Score: 572
Period size: 58 Copynumber: 7.5 Consensus size: 58
91708484 TGTATTTAAA
* *
91708494 ATTTTAAAAATAAAAAAATATATGTAATGGATTTTAAAAATAAAAAAATACT-TGTAGTGT
1 ATTTTAAAAAT--AAAAATATATGTAGTGTATTTTAAAAATAAAAAAATA-TATGTAGTGT
*
91708554 ATTTT-AAAAT--ATATATATGTAGTGTATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
* * * * * *
91708608 ATTCTAGAAATAAAAAAATATATGTAGTGTATTTT-AAAAT--ATATATATATGAATTGT
1 ATTTTA-AAA-ATAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
*
91708665 ATTTTAAAAGTAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAATATATGTAGTGT
1 ATTTTAAAA--ATAAAAATATATGTAGTGTATTTTAAAAAT-AAAAAAATATATGTAGTGT
*
91708726 ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATGTGTAGTGT
1 ATTTTAAAAAT-AAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
* * * *
91708785 ATTTTAAAAATAAAAATATATGTAATGTATTTTAAAAATAAAAAAATATGTATAATGT
1 ATTTTAAAAATAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
91708843 ATTTTAAAAATAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
* *
91708901 ATTGTAAAAATAAAAAAATATATGTAGTATATT
1 ATTTTAAAAAT--AAAAATATATGTAGTGTATT
91708934 CGGCGTATTC
Statistics
Matches: 340, Mismatches: 26, Indels: 28
0.86 0.07 0.07
Matches are distributed among these distances:
53 1 0.00
54 20 0.06
55 23 0.07
56 6 0.02
57 44 0.13
58 118 0.35
59 54 0.16
60 52 0.15
61 22 0.06
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (58 bp):
ATTTTAAAAATAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:91708910 original size:88 final size:88
Alignment explanation
Indices: 91708494--91708921 Score: 572
Period size: 88 Copynumber: 4.9 Consensus size: 88
91708484 TGTATTTAAA
* *
91708494 ATTTTAAAAATAAAAAAATATATGTAATGGATTTTAAAAATAAAAAAATACT-TGTAGTGTATTT
1 ATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATA-TATGTAGTGTATTT
* * *
91708558 T-AAAAT--ATATATATG-TAGTGT
64 TAAAAATAAAAAAATATGATAATGT
* *
91708579 ATTTTAAAAATAAAAAATATATGTAGTGTATTCTAGAAATAAAAAAATATATGTAGTGTATTTT-
1 ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTA
* * * *
91708643 AAAATATATATATATGA-ATTGT
66 AAAATAAAAAAATATGATAATGT
*
91708665 ATTTTAAAAGTAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAATATATGTAGTGTATTT
1 ATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAAT-AAAAAAATATATGTAGTGTATTT
*
91708730 TAAAAATAAAAAATATATG-TAGTGT
64 TAAAAATAAAAAA-ATATGATAATGT
* *
91708755 ATTTTAAAAATAAAAAAATATGTGTAGTGTATTTTAAAAAT--AAAAATATATGTAATGTATTTT
1 ATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTT
91708818 AAAAATAAAAAAATATGTATAATGT
65 AAAAATAAAAAAATATG-ATAATGT
*
91708843 ATTTTAAAAAT-AAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTGTA
1 ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTA
91708907 AAAATAAAAAAATAT
66 AAAATAAAAAAATAT
91708922 ATGTAGTATA
Statistics
Matches: 311, Mismatches: 19, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
83 1 0.00
84 52 0.17
85 11 0.04
86 55 0.18
87 60 0.19
88 76 0.24
89 8 0.03
90 48 0.15
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (88 bp):
ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTA
AAAATAAAAAAATATGATAATGT
Found at i:91709367 original size:21 final size:21
Alignment explanation
Indices: 91709343--91709395 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
91709333 CATTGTTTCT
*
91709343 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
91709364 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
91709385 AATCTCACCGC
1 AATCTCACCGC
91709396 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:91712128 original size:24 final size:23
Alignment explanation
Indices: 91712084--91712131 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
91712074 AATTTAATCC
* **
91712084 ATTTTTTTATTTTTAGGAATTTA
1 ATTTTCTTATTTTTAAAAATTTA
91712107 ATTTTCTTATTTTTTAAAAATTTA
1 ATTTTCTTA-TTTTTAAAAATTTA
91712131 A
1 A
91712132 AATCAGATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
ATTTTCTTATTTTTAAAAATTTA
Found at i:91716716 original size:22 final size:22
Alignment explanation
Indices: 91716665--91716725 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
91716655 TAATAAAAAA
*
91716665 ATAATTTTATATTAATATTTAT
1 ATAATTTTATATTAATATGTAT
*
91716687 ATATTTTTATAATTAA-ATGTA-
1 ATAATTTTAT-ATTAATATGTAT
91716708 AGTAATTTT-TATTGAATA
1 A-TAATTTTATATT-AATA
91716726 ATAAAACGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 3 0.09
21 4 0.12
22 20 0.62
23 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (22 bp):
ATAATTTTATATTAATATGTAT
Found at i:91717438 original size:15 final size:16
Alignment explanation
Indices: 91717412--91717441 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
91717402 ATTTAAAAAA
91717412 TAAAAAATATTATAAT
1 TAAAAAATATTATAAT
91717428 TAAAAAA-ATTATAA
1 TAAAAAATATTATAA
91717442 CAAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAAATATTATAAT
Found at i:91718037 original size:23 final size:23
Alignment explanation
Indices: 91718011--91718104 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
91718001 AAGTTAGAAG
91718011 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
91718034 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
91718057 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
91718080 AGTTAAGAGGCTTGGATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
91718103 AG
1 AG
91718105 ATACACGCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.47, C:0.04, G:0.27, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:91722541 original size:23 final size:23
Alignment explanation
Indices: 91722515--91722608 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
91722505 AAGTTAGAAG
91722515 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
91722538 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
91722561 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
91722584 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
91722607 AG
1 AG
91722609 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:91723712 original size:27 final size:29
Alignment explanation
Indices: 91723660--91723714 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
91723650 TAGATAATTT
**
91723660 AATGAAAAATATAAATTTAATAATTAAAA
1 AATGAAAAATATAAATAAAATAATTAAAA
91723689 AATGAAAAATA-AAATAAAAT-ATTAAA
1 AATGAAAAATATAAATAAAATAATTAAA
91723715 CTAATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 7 0.29
29 11 0.46
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (29 bp):
AATGAAAAATATAAATAAAATAATTAAAA
Found at i:91726994 original size:5 final size:5
Alignment explanation
Indices: 91726984--91727023 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
91726974 CGTGATAATA
91726984 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
91727024 ATGATAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:91728723 original size:12 final size:12
Alignment explanation
Indices: 91728706--91728741 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
91728696 GTGGGTGTTT
91728706 CTGGTGTTGGTG
1 CTGGTGTTGGTG
*
91728718 CTGGTGCTGGTG
1 CTGGTGTTGGTG
91728730 CTGGTGTTGGTG
1 CTGGTGTTGGTG
91728742 TTGGCCCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.11, G:0.50, T:0.39
Consensus pattern (12 bp):
CTGGTGTTGGTG
Found at i:91728729 original size:18 final size:18
Alignment explanation
Indices: 91728706--91728760 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
91728696 GTGGGTGTTT
* *
91728706 CTGGTGTTGGTGCTGGTG
1 CTGGTGCTGGTGTTGGTG
91728724 CTGGTGCTGGTGTTGGTG
1 CTGGTGCTGGTGTTGGTG
* ** *
91728742 TTGGCCCTGGAGTTGGTG
1 CTGGTGCTGGTGTTGGTG
91728760 C
1 C
91728761 AAGTGGTGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.02, C:0.15, G:0.47, T:0.36
Consensus pattern (18 bp):
CTGGTGCTGGTGTTGGTG
Found at i:91728745 original size:6 final size:6
Alignment explanation
Indices: 91728706--91728741 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
91728696 GTGGGTGTTT
* *
91728706 CTGGTG TTGGTG CTGGTG CTGGTG CTGGTG TTGGTG
1 CTGGTG CTGGTG CTGGTG CTGGTG CTGGTG CTGGTG
91728742 TTGGCCCTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.11, G:0.50, T:0.39
Consensus pattern (6 bp):
CTGGTG
Found at i:91729977 original size:18 final size:18
Alignment explanation
Indices: 91729950--91729999 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
91729940 TCGTGACCGT
* *
91729950 GATCGTGATAGGGAGCGG
1 GATCGAGATAGGGAGAGG
*
91729968 GATCGAGATAGGGATAGG
1 GATCGAGATAGGGAGAGG
*
91729986 GATCGATATAGGGA
1 GATCGAGATAGGGA
91730000 AGACAGAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.30, C:0.08, G:0.44, T:0.18
Consensus pattern (18 bp):
GATCGAGATAGGGAGAGG
Found at i:91731633 original size:18 final size:18
Alignment explanation
Indices: 91731610--91731663 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
91731600 CTGTTGGCTG
91731610 TTTTGTTGTATTATTTAT
1 TTTTGTTGTATTATTTAT
*
91731628 TTTTGTCCTTTATT-TTTAT
1 TTTTGT--TGTATTATTTAT
*
91731647 TTTTATTGTTATTATTT
1 TTTTGTTG-TATTATTT
91731664 TTGGCTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 1 0.03
18 10 0.34
19 13 0.45
20 5 0.17
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTTGTTGTATTATTTAT
Found at i:91732753 original size:17 final size:17
Alignment explanation
Indices: 91732725--91732765 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
91732715 TTTGGTTCGC
91732725 TGTATT-GGATTAGAGG
1 TGTATTGGGATTAGAGG
91732741 TGTATTGGGATTAGAGG
1 TGTATTGGGATTAGAGG
91732758 TGTATTGG
1 TGTATTGG
91732766 CTAATCCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (17 bp):
TGTATTGGGATTAGAGG
Found at i:91733018 original size:18 final size:17
Alignment explanation
Indices: 91732997--91733031 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
91732987 TTATTATTAA
*
91732997 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
91733015 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
91733032 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:91733138 original size:18 final size:17
Alignment explanation
Indices: 91733117--91733151 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
91733107 TTATTATTAA
*
91733117 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
91733135 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
91733152 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:91733193 original size:120 final size:120
Alignment explanation
Indices: 91732980--91734101 Score: 2140
Period size: 120 Copynumber: 9.4 Consensus size: 120
91732970 ATCATATTTA
91732980 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
91733045 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
91733100 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
91733165 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
91733220 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAT-AAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
91733284 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
91733339 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
91733404 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
91733459 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
91733524 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
91733579 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
91733644 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
91733699 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
91733764 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
91733819 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
91733884 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
91733939 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT-ATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
91734003 TATACTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
91734058 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTT
91734102 GAACATCAAA
Statistics
Matches: 988, Mismatches: 13, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
119 235 0.24
120 753 0.76
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:91733737 original size:18 final size:17
Alignment explanation
Indices: 91733716--91733750 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
91733706 TTATTATTAA
*
91733716 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
91733734 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
91733751 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:91739872 original size:13 final size:13
Alignment explanation
Indices: 91739854--91739879 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91739844 CAGCTAAACT
91739854 GAAACAGAAGGAA
1 GAAACAGAAGGAA
91739867 GAAACAGAAGGAA
1 GAAACAGAAGGAA
91739880 CAGCTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:91739885 original size:36 final size:36
Alignment explanation
Indices: 91739844--91739923 Score: 133
Period size: 36 Copynumber: 2.2 Consensus size: 36
91739834 GGTTGTGAAG
*
91739844 CAGCTAAACTGAAACAGAAGGAAGAAACAGAAGGAA
1 CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
*
91739880 CAGCTAAACTGAAACAGAAAGAAGAAATAGAAGGAA
1 CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
*
91739916 CGGCTAAA
1 CAGCTAAA
91739924 TTGTGAAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.55, C:0.14, G:0.24, T:0.07
Consensus pattern (36 bp):
CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
Found at i:91741895 original size:18 final size:17
Alignment explanation
Indices: 91741870--91741903 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
91741860 TTAATTCCTA
*
91741870 TAATATTTTTATATATG
1 TAATATTTTTAAATATG
91741887 TAATGATTTTTAAATAT
1 TAAT-ATTTTTAAATAT
91741904 TTTATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TAATATTTTTAAATATG
Found at i:91746641 original size:5 final size:5
Alignment explanation
Indices: 91746631--91746656 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
91746621 ACGTACATAT
91746631 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
91746657 AAGATTAAAG
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:91750978 original size:5 final size:5
Alignment explanation
Indices: 91750968--91750992 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
91750958 TTGATTGAGG
91750968 AATCA AATCA AATCA AATCA AATCA
1 AATCA AATCA AATCA AATCA AATCA
91750993 TATCCCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AATCA
Found at i:91759835 original size:33 final size:33
Alignment explanation
Indices: 91759753--91759823 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
91759743 ACCTGGAGGA
* * *
91759753 GGTGGAGGAGCCCCCCGCATAGGAGGCGGGGGC
1 GGTGCAGGTGCCCCACGCATAGGAGGCGGGGGC
*
91759786 GGTGCAGGTGCCCCACGCATAGGAGGGGGGGGC
1 GGTGCAGGTGCCCCACGCATAGGAGGCGGGGGC
91759819 GGTGC
1 GGTGC
91759824 TGGTTCTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.14, C:0.25, G:0.52, T:0.08
Consensus pattern (33 bp):
GGTGCAGGTGCCCCACGCATAGGAGGCGGGGGC
Found at i:91759871 original size:27 final size:27
Alignment explanation
Indices: 91759841--91759895 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
91759831 CCACGAGCAG
* * *
91759841 GTGGAGGTGGTGGGGGTGGAGCTCCAC
1 GTGGAGGAGGAGGAGGTGGAGCTCCAC
* *
91759868 GTGGGGGAGGAGGAGGTGGTGCTCCAC
1 GTGGAGGAGGAGGAGGTGGAGCTCCAC
91759895 G
1 G
91759896 CAAAGGGGGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.15, G:0.56, T:0.16
Consensus pattern (27 bp):
GTGGAGGAGGAGGAGGTGGAGCTCCAC
Found at i:91759971 original size:6 final size:6
Alignment explanation
Indices: 91759960--91759988 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
91759950 CACCGATGGG
91759960 GGAGGT GGAGGT GGAGGT GGAGGT GGAGG
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGG
91759989 ACCAGGCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.69, T:0.14
Consensus pattern (6 bp):
GGAGGT
Found at i:91760057 original size:39 final size:39
Alignment explanation
Indices: 91760013--91760107 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 39
91760003 GGAGCAATGA
91760013 AGGTGGAGGTGGGGCACTAGACATCAATG-GCGGTGGAGG
1 AGGTGGAGGTGGGGCACTAGACATCAATGAG-GGTGGAGG
* * * * *
91760052 GGGTGGAGGTGGGGCAGTGGACTTCAATGAGGGTGGTGG
1 AGGTGGAGGTGGGGCACTAGACATCAATGAGGGTGGAGG
*
91760091 AGGTGGAGGAGGGGCAC
1 AGGTGGAGGTGGGGCAC
91760108 CAAACCTAGG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 46 0.98
40 1 0.02
ACGTcount: A:0.20, C:0.11, G:0.54, T:0.16
Consensus pattern (39 bp):
AGGTGGAGGTGGGGCACTAGACATCAATGAGGGTGGAGG
Found at i:91760576 original size:12 final size:12
Alignment explanation
Indices: 91760559--91760598 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
91760549 AGAAAACGTG
*
91760559 GGAGGGGGAAGA
1 GGAGGGGGAGGA
91760571 GGAGGGGGAGGA
1 GGAGGGGGAGGA
*
91760583 GGAGGCGGAGGA
1 GGAGGGGGAGGA
91760595 GGAG
1 GGAG
91760599 CTGCAAATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.70, T:0.00
Consensus pattern (12 bp):
GGAGGGGGAGGA
Found at i:91760693 original size:6 final size:6
Alignment explanation
Indices: 91760670--91760722 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
91760660 ATGGAGGGAT
* * * *
91760670 GGAGGG GGAAGA GGAGGG GGAGGG GGAGGG CGG-GGA GGAGGA GGAGGG
1 GGAGGG GGAGGG GGAGGG GGAGGG GGAGGG -GGAGGG GGAGGG GGAGGG
91760718 GGAGG
1 GGAGG
91760723 TGATGCTGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 2 0.05
6 35 0.90
7 2 0.05
ACGTcount: A:0.23, C:0.02, G:0.75, T:0.00
Consensus pattern (6 bp):
GGAGGG
Found at i:91760699 original size:24 final size:24
Alignment explanation
Indices: 91760670--91760722 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
91760660 ATGGAGGGAT
*
91760670 GGAGGG-GGAAGAGGAGGGGGAGGG
1 GGAGGGCGG-AGAGGAGGAGGAGGG
*
91760694 GGAGGGCGGGGAGGAGGAGGAGGG
1 GGAGGGCGGAGAGGAGGAGGAGGG
91760718 GGAGG
1 GGAGG
91760723 TGATGCTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.75, T:0.00
Consensus pattern (24 bp):
GGAGGGCGGAGAGGAGGAGGAGGG
Found at i:91760704 original size:15 final size:15
Alignment explanation
Indices: 91760680--91760722 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
91760670 GGAGGGGGAA
*
91760680 GAGGAGGGGGAGGGG
1 GAGGAGGGGGAGGAG
91760695 GAGG-GCGGGGAGGAG
1 GAGGAG-GGGGAGGAG
91760710 GAGGAGGGGGAGG
1 GAGGAGGGGGAGG
91760723 TGATGCTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.21, C:0.02, G:0.77, T:0.00
Consensus pattern (15 bp):
GAGGAGGGGGAGGAG
Found at i:91765222 original size:40 final size:36
Alignment explanation
Indices: 91765139--91765225 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 36
91765129 ACGATTTTAA
* *
91765139 AATATAAATATATGTTTAAAAGTAACATATAATAGAT
1 AATA-AAATATATGTTTAAAACTAAAATATAATAGAT
91765176 AATAAAATATATGGTTTAAAACTAATTAATCATAATA-AT
1 AATAAAATATAT-GTTTAAAACTAA--AAT-ATAATAGAT
91765215 ACATAAAATAT
1 A-ATAAAATAT
91765226 GTACGATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
36 8 0.19
37 15 0.35
39 5 0.12
40 15 0.35
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (36 bp):
AATAAAATATATGTTTAAAACTAAAATATAATAGAT
Found at i:91770494 original size:20 final size:20
Alignment explanation
Indices: 91770465--91770505 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
91770455 TGACATGTCA
91770465 ACTTCCATGGTTAGATGGTT
1 ACTTCCATGGTTAGATGGTT
*
91770485 ACTTCTATGGTTAGATGGTT
1 ACTTCCATGGTTAGATGGTT
91770505 A
1 A
91770506 AAATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.41
Consensus pattern (20 bp):
ACTTCCATGGTTAGATGGTT
Found at i:91778199 original size:18 final size:18
Alignment explanation
Indices: 91778155--91778189 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
91778145 TAACAGATAT
*
91778155 ACTTAAAATCTATTTGGC
1 ACTTAAAATCTAGTTGGC
91778173 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
91778190 ACTGTCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:91781204 original size:1 final size:1
Alignment explanation
Indices: 91781198--91781225 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
91781188 TTTTATTGCC
91781198 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
91781226 AACTTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:91782170 original size:20 final size:20
Alignment explanation
Indices: 91782145--91782184 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
91782135 CTGTTTTTAC
91782145 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
91782165 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
91782185 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTAATAAATTTATAT
Found at i:91782189 original size:16 final size:18
Alignment explanation
Indices: 91782140--91782184 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
91782130 AAAAACTGTT
* *
91782140 TTTACATATATTAATAAA
1 TTTATATATTTTAATAAA
91782158 TTTATATATATATTAATAAA
1 TTTATATAT-T-TTAATAAA
91782178 TTTATAT
1 TTTATAT
91782185 TTTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATTTTAATAAA
Found at i:91782289 original size:18 final size:18
Alignment explanation
Indices: 91782227--91782303 Score: 64
Period size: 18 Copynumber: 4.0 Consensus size: 18
91782217 TATTTATAAA
*
91782227 TAAATAAATCAATCAAAT
1 TAAATAAATAAATCAAAT
* *
91782245 AAATATATAATAATACTCAATT
1 TAA-ATA-AATAA-A-TCAAAT
91782267 ATAAATAAATAAATCAAAT
1 -TAAATAAATAAATCAAAT
* *
91782286 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
91782304 GGTTTAATTG
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
18 18 0.38
19 8 0.17
20 5 0.11
21 6 0.13
22 8 0.17
23 2 0.04
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:91784811 original size:54 final size:54
Alignment explanation
Indices: 91784729--91784836 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
91784719 TAATTTGACA
91784729 TGTTTTTTTTACATGCGGTGATATGGCATAGGCATTTTTTATACAATTGAACAC
1 TGTTTTTTTTACATGCGGTGATATGGCATAGGCATTTTTTATACAATTGAACAC
91784783 TGTTTTTTTTACATGCGGTGATATGGCATAGGCATTTTTTATACAATTGAACAC
1 TGTTTTTTTTACATGCGGTGATATGGCATAGGCATTTTTTATACAATTGAACAC
91784837 CAAAGACTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (54 bp):
TGTTTTTTTTACATGCGGTGATATGGCATAGGCATTTTTTATACAATTGAACAC
Found at i:91788525 original size:18 final size:21
Alignment explanation
Indices: 91788485--91788526 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
91788475 ATTGGATTTA
*
91788485 AATAATGATATATTCAAATTG
1 AATAATGATATATACAAATTG
91788506 AATAAT-ATA-ATACAAA-TG
1 AATAATGATATATACAAATTG
91788524 AAT
1 AAT
91788527 TCCAACTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
19 6 0.30
20 3 0.15
21 6 0.30
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
AATAATGATATATACAAATTG
Found at i:91792747 original size:130 final size:130
Alignment explanation
Indices: 91792565--91792812 Score: 277
Period size: 130 Copynumber: 1.9 Consensus size: 130
91792555 CCCTTCAAAA
* * * * * * *
91792565 TTTCACCCATGTCTTCTTAAAACCCTTTAAAATGAAGGCAATACTCGGTGTTTGATAATTCGGGA
1 TTTCACCCATGTCTTATTAAAAACCTTTAAAACGAAGGCAATACTAGATGTTTGACAATTCGAGA
* * *
91792630 ATCATGCCCTATCATGCTGGGTTGTG-GTTTCTCGTTTGTTCAAAACAATCGAAATTCTTTTAGG
66 ATCATGCCCTATCATGCTGGGTTGCGCATTT-TCGTTCGTTCAAAACAATCGAAATTCTTTTAGG
91792694 T
130 T
* * * * *
91792695 TTTCACTCATGT-TTATTAAAAACCTTCTAAAACGAAGGCGAT-CTTAGATGTTTGGCGATTTGA
1 TTTCACCCATGTCTTATTAAAAACCTT-TAAAACGAAGGCAATAC-TAGATGTTTGACAATTCGA
* * * *
91792758 GAATCGTGCCTTATCGTGCTGGGTTGCGCATTTTCGTTCGTTCAAAATAATCGAA
64 GAATCATGCCCTATCATGCTGGGTTGCGCATTTTCGTTCGTTCAAAACAATCGAA
91792813 GATCCCTTTG
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
129 13 0.14
130 80 0.83
131 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (130 bp):
TTTCACCCATGTCTTATTAAAAACCTTTAAAACGAAGGCAATACTAGATGTTTGACAATTCGAGA
ATCATGCCCTATCATGCTGGGTTGCGCATTTTCGTTCGTTCAAAACAATCGAAATTCTTTTAGGT
Found at i:91804222 original size:64 final size:64
Alignment explanation
Indices: 91804112--91804232 Score: 152
Period size: 64 Copynumber: 1.9 Consensus size: 64
91804102 CATAATCATT
* ***
91804112 CATTTAGTTAGAAGCACTTGATTTATTTCGATCATAGCATTTTAATTATTTGACATAAACACCA
1 CATTTAGTTAGAAGCACTTGATTCATTTCGATCATAGCACCCTAATTATTTGACATAAACACCA
** * * * *
91804176 CATTTAGTTAGGGGCATTTGATTCATTTTGATCATGGCACCCTAATTATTTGGCATA
1 CATTTAGTTAGAAGCACTTGATTCATTTCGATCATAGCACCCTAATTATTTGACATA
91804233 CACAAATACA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (64 bp):
CATTTAGTTAGAAGCACTTGATTCATTTCGATCATAGCACCCTAATTATTTGACATAAACACCA
Found at i:91805775 original size:41 final size:41
Alignment explanation
Indices: 91805490--91805769 Score: 381
Period size: 41 Copynumber: 6.8 Consensus size: 41
91805480 TTAAACAGAT
** * * *
91805490 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
91805532 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
91805572 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
91805613 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
91805654 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
91805695 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
91805734 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
91805770 TATTACATTC
Statistics
Matches: 222, Mismatches: 10, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 208 0.94
42 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:91813399 original size:41 final size:41
Alignment explanation
Indices: 91813155--91813393 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
91813145 TTAAACAGAT
** * * *
91813155 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
91813197 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
91813237 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
91813278 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
91813319 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
91813358 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
91813394 TATTACATTC
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 167 0.92
42 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:91816869 original size:15 final size:15
Alignment explanation
Indices: 91816849--91816877 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
91816839 CGTTATGATA
91816849 ATATGTTTTGTATAT
1 ATATGTTTTGTATAT
91816864 ATATGTTTTGTATA
1 ATATGTTTTGTATA
91816878 AAATTATTTT
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:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (15 bp):
ATATGTTTTGTATAT
Found at i:91818334 original size:130 final size:130
Alignment explanation
Indices: 91817954--91818420 Score: 394
Period size: 131 Copynumber: 3.6 Consensus size: 130
91817944 AGGCGATATG
* * * * *
91817954 CGATATTTGGTAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTG-GAATTTCTCGTTTGCTT-A
1 CGATGTTTGGCAATTCG-GGAATCGTGCCCTATCGTGCTGGGTTGCG-ATTTCTCGTTCG-TTCA
* * * * * ** ** * *
91818017 AAATAATCAAATATCCCTCCAAAATTTCACCCATGTCTTCTAAAAACCCTTTAAAACGAAGGCAA
63 AAACAATCGAACATTCATTTAGGATTTCACTCATGTTTTCTAAAAA-CCTTTAAAACGAAGGCAA
91818082 TAC-T
127 T-CTT
* ** * * * *
91818086 CGGTGTTTGATAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGGTTTCTCGTTTGTTCAAAA
1 CGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTCGTTCAAAA
* * *
91818151 CAATCGAACATTCATTTAGGTTTTCACTCATGTTTAT-TAAAAACCTTCCAAAACGAAGGCGATC
66 CAATCGAACATTCATTTAGGATTTCACTCATGTTT-TCTAAAAACCTT-TAAAACGAAGGCAATC
91818215 TT
129 TT
* * *
91818217 AGATGTTTGGCAATTTGAGAATCGTGCCCTATCGTGCT-GGTTGCGCATTT-TCGTTCGTTCAAA
1 CGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCG-ATTTCTCGTTCGTTCAAA
* * *
91818280 ACAATCGAAGATTCCTTT-GGAATTTCACTC-TCGTTTTCTAAAAACTCTTTAAAACGGAA-GAA
65 ACAATCGAACATTCATTTAGG-ATTTCACTCAT-GTTTTCTAAAAAC-CTTTAAAAC-GAAGGCA
*
91818342 ATGTT
126 ATCTT
* * * * * *
91818347 CGATGTTTGGCAATTCGGGGAATAGCGCCCTATCGTGCTGGGTTGCAATCTCCCGTTTGTTCAAA
1 CGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTCGTTCAAA
*
91818412 ATAATCGAA
65 ACAATCGAA
91818421 TATCTCTTTC
Statistics
Matches: 273, Mismatches: 48, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
129 4 0.01
130 84 0.31
131 144 0.53
132 41 0.15
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (130 bp):
CGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTCGTTCAAAA
CAATCGAACATTCATTTAGGATTTCACTCATGTTTTCTAAAAACCTTTAAAACGAAGGCAATCTT
Found at i:91825541 original size:30 final size:31
Alignment explanation
Indices: 91825507--91825575 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
91825497 TTGTCTAAGA
* *
91825507 GTAAATACT-CAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TACAAAAGTTGAAGGATTAATAGT
*
91825537 GTAAATATAGAAAAGTTGAAGGATTAATAGT
1 GTAAATATACAAAAGTTGAAGGATTAATAGT
*
91825568 GCAAATAT
1 GTAAATAT
91825576 TTCAAGGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 22 0.67
31 10 0.30
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.29
Consensus pattern (31 bp):
GTAAATATACAAAAGTTGAAGGATTAATAGT
Found at i:91838327 original size:126 final size:126
Alignment explanation
Indices: 91838044--91838734 Score: 707
Period size: 125 Copynumber: 5.5 Consensus size: 126
91838034 CCCAAACGAT
* * * * ** * * * * * *
91838044 AAATCGAAACCTAGTACGATTGGGCACGATTTATCGAATTTTCAAATACGAAACATTGCCTCATT
1 AAATCGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTT
* * * * ** *
91838109 TTAATTTGAGAAAACATGGACGAAATTTTAAAAA-GATATTCTGTATTTTAGTCGAATGGA
66 TTATTTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCCATATTTTAGTCGAATGAA
*
91838169 AAATTGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTT
1 AAATCGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTT
** * *
91838234 TTATTTTAAGAAAATGTGGATGAAATTTCAAAAAGGATATTCCATATTTTAGTCAAATGGA
66 TTATTTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCCATATTTTAGTCGAATGAA
* *
91838295 AAATTGAAGCCCAGCACGATTGGGCACAACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTT
1 AAATCGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTT
* *
91838360 TTATTTTAAGAAAACGTGGATGAAATTTCAAAAAAGGATATTCTATATTTTAGTCGAATGAAA
66 TTATTTTAAGAAAACATGGATGAAATTTC-AAAAAGGATATTCCATATTTTAGTCGAATG-AA
* * * * * * *
91838423 AAAACGAAACCCAGCACGATTGGGCACGA-TCTCTCAAACTCCCCAAATACGACATATTGCCTCA
1 AAATCGAAGCCCAGCACGATTGGGCACGACT-TCCCAAACT-TCCAAACACGAAATATTGCCTCG
** * * * *
91838487 TTTTAATTTTTTTTAA-AAAACATGGACAAAATTTC-CAAAGGATATTCCGTATTTTAGCCGAAC
64 TTTT-A----TTTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCCATATTTTAGTCGAAT
91838550 GAA
124 GAA
* * * *
91838553 AAATCGAAGCCCAACACGATTGGGCACGAC-CCCTCGAACTCCCAAACACGAAATATTGCCTCGT
1 AAATCGAAGCCCAGCACGATTGGGCACGACTTCC-CAAACTTCCAAACACGAAATATTGCCTCGT
* * * * * * *
91838617 TTCCA-TTTAAG-AAACATGGATGAAATCTC-ACAAGGATATTCCCTAGTTCAGTTGAATGAA
65 TT-TATTTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCCATATTTTAGTCGAATGAA
* * *
91838677 AAAGTCGTAA-CCCAGCACGATTGGGCACGATTTCTCTAACTTCCAAACACGAAATATT
1 AAA-TCG-AAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATT
91838735 TCCTTATGCT
Statistics
Matches: 478, Mismatches: 71, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
124 46 0.10
125 123 0.26
126 118 0.25
127 29 0.06
128 34 0.07
129 48 0.10
130 34 0.07
131 24 0.05
133 16 0.03
134 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (126 bp):
AAATCGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTT
TTATTTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCCATATTTTAGTCGAATGAA
Found at i:91842321 original size:28 final size:28
Alignment explanation
Indices: 91842290--91842343 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
91842280 TTTTCAATAT
* *
91842290 CAATCAATTTATT-AGTATCATTCAGTAA
1 CAATCAA-TTATTCAGTAGCAATCAGTAA
91842318 CAATCAATTATTCAGTAGCAATCAGT
1 CAATCAATTATTCAGTAGCAATCAGT
91842344 TATTCAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (28 bp):
CAATCAATTATTCAGTAGCAATCAGTAA
Found at i:91842332 original size:18 final size:18
Alignment explanation
Indices: 91842309--91842371 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 18
91842299 TATTAGTATC
91842309 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* *
91842327 ATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
* *
91842345 ATTCAATAACAATCAATC
1 ATTCAGTAACAATCAATT
91842363 ATTCAGTAA
1 ATTCAGTAA
91842372 TAGTTAGTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:91842385 original size:36 final size:36
Alignment explanation
Indices: 91842307--91842387 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
91842297 TTTATTAGTA
* * *
91842307 TCATTCAGTAACAATCAATTATTCAGTAGCAATCAG
1 TCATTCAATAACAATCAATCATTCAGTAACAATCAG
* * * *
91842343 TTATTCAATAACAATCAATCATTCAGTAATAGTTAG
1 TCATTCAATAACAATCAATCATTCAGTAACAATCAG
91842379 TCATTCAAT
1 TCATTCAAT
91842388 GCCTTTATTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATTCAATAACAATCAATCATTCAGTAACAATCAG
Found at i:91842610 original size:44 final size:44
Alignment explanation
Indices: 91842541--91842632 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
91842531 CCAAAGTAAC
* *
91842541 AGTAACAGTACGACACACATGGTGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACT-AAAGGTCGA
**
91842585 AGTAACAGTACGACACTTATAGTGCCTCATCGACTAAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTAAAGGTCGA
91842629 AGTA
1 AGTA
91842633 TCCCTAAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTAAAGGTCGA
Found at i:91843826 original size:4 final size:4
Alignment explanation
Indices: 91843807--91843840 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
91843797 CATACAATTG
*
91843807 TATT AATT TGATT TATT TATT TATT TATT TATT T
1 TATT TATT T-ATT TATT TATT TATT TATT TATT T
91843841 TATTAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:91843862 original size:16 final size:17
Alignment explanation
Indices: 91843841--91843872 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
91843831 TTATTTATTT
91843841 TATTAATATAA-AATAA
1 TATTAATATAATAATAA
91843857 TATTAATATAATAATA
1 TATTAATATAATAATA
91843873 TTTACTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATTAATATAATAATAA
Found at i:91843871 original size:14 final size:15
Alignment explanation
Indices: 91843841--91843887 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
91843831 TTATTTATTT
91843841 TATTAATATAAAATAA
1 TATTAATAT-AAATAA
91843857 TATTAATAT-AATAA
1 TATTAATATAAATAA
*
91843871 TATTTACT-TAAATAA
1 TA-TTAATATAAATAA
91843886 TA
1 TA
91843888 AGTAAACAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 8 0.29
15 11 0.39
16 9 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TATTAATATAAATAA
Found at i:91844824 original size:9 final size:9
Alignment explanation
Indices: 91844810--91844888 Score: 65
Period size: 9 Copynumber: 9.0 Consensus size: 9
91844800 GTTTTATTAT
91844810 TATATAATA
1 TATATAATA
91844819 TATATAATA
1 TATATAATA
91844828 TATATAATA
1 TATATAATA
* *
91844837 CATAT-ATT
1 TATATAATA
* * *
91844845 TAAACATTAA
1 TATATAAT-A
*
91844855 GATATAATA
1 TATATAATA
91844864 T-TATAATA
1 TATATAATA
91844872 T-TATAATA
1 TATATAATA
*
91844880 TATGTAATA
1 TATATAATA
91844889 GCCAATTTTG
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
8 20 0.37
9 30 0.56
10 4 0.07
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (9 bp):
TATATAATA
Found at i:91846548 original size:27 final size:25
Alignment explanation
Indices: 91846505--91846563 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
91846495 GTTATATATC
91846505 ATTTT-AAATTAACTTATATATTACTT
1 ATTTTAAAATTAACTTATATA--ACTT
** *
91846531 ATTTTAAAATTATTTTATATACCTT
1 ATTTTAAAATTAACTTATATAACTT
91846556 ATTTTAAA
1 ATTTTAAA
91846564 CCCATTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 11 0.38
26 5 0.17
27 13 0.45
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTTAAAATTAACTTATATAACTT
Found at i:91847877 original size:44 final size:44
Alignment explanation
Indices: 91847642--91847888 Score: 205
Period size: 44 Copynumber: 5.7 Consensus size: 44
91847632 TTGAAAGCTT
* * *
91847642 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAACC
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACC
** * ** * **
91847686 ATTAACCTTATCTCCCTGAAGATGCAGTGGAGTTGGTTGAAATT
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACC
* * * * * *
91847730 ACAGATCTTGTCTCTCTGAAGTTGCAGTAGAGCAGA-TCAAA--
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACC
* * *
91847771 ACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTT-AAAGTC
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CC
* ** * *
91847815 ACTAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCC
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACC
* * *
91847859 ACAAACCTTACCCCCCTGAAGTTACAGTGG
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGG
91847889 GACAGGTTAA
Statistics
Matches: 155, Mismatches: 43, Indels: 10
0.75 0.21 0.05
Matches are distributed among these distances:
41 32 0.21
42 1 0.01
43 4 0.03
44 116 0.75
45 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACC
Found at i:91847895 original size:88 final size:86
Alignment explanation
Indices: 91847646--91847899 Score: 257
Period size: 85 Copynumber: 2.9 Consensus size: 86
91847636 AAGCTTACAA
* * * ** *
91847646 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAACCATTAACCTTATCTCCCTGAAGATGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTG-AACCACAAACCTTATCTCCCTGAAGTTGC
** *
91847711 AGTGGAGTTGGTTGAAATTACAG
65 AGTGGAGCAGGTT-AAATCACAG
* * * * *
91847734 ATCTTGTC-TCTCTGAAGTTGCAGTAGAGCAGA-TCAA-AACAAACCTTATCTCCCTGAAGTTGT
1 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAACCACAAACCTTATCTCCCTGAAGTTGC
91847796 AGTGGAGCAGGTTAAAGTCACTAG
65 AGTGGAGCAGGTTAAA-TCAC-AG
* * *
91847820 -TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTACCCCCCTGAAGTTAC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAA-CCACAAACCTTATCTCCCTGAAGTTGC
91847884 AGTGG-GACAGGTTAAA
65 AGTGGAG-CAGGTTAAA
91847900 ACTACGAGTA
Statistics
Matches: 136, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
84 3 0.02
85 61 0.45
86 9 0.07
87 2 0.01
88 61 0.45
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (86 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAACCACAAACCTTATCTCCCTGAAGTTGCA
GTGGAGCAGGTTAAATCACAG
Found at i:91848589 original size:20 final size:20
Alignment explanation
Indices: 91848564--91848604 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
91848554 GTTACCGCTA
91848564 TTTATTTATTTTT-CTTTCTT
1 TTTATTT-TTTTTACTTTCTT
91848584 TTTATTTTTTTTACTTTCTT
1 TTTATTTTTTTTACTTTCTT
91848604 T
1 T
91848605 CTTTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTATTTTTTTTACTTTCTT
Found at i:91849528 original size:3 final size:3
Alignment explanation
Indices: 91849520--91849554 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
91849510 CATTTTATTT
91849520 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
91849555 TATTATTATT
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:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:91852422 original size:46 final size:46
Alignment explanation
Indices: 91851922--91852418 Score: 744
Period size: 46 Copynumber: 10.8 Consensus size: 46
91851912 GTGTGCTCTT
*
91851922 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
91851968 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* *
91852014 AGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
91852060 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* *
91852106 AGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
91852152 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
91852198 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
**
91852244 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * *
91852290 TGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*** ** * *
91852336 TGACGGGAAAATGAATAAGACCATGGTTGAAAGATACTATGGCAACA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * * * *
91852383 TGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
91852419 TATGACATCA
Statistics
Matches: 421, Mismatches: 29, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
46 380 0.90
47 41 0.10
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:91853305 original size:17 final size:18
Alignment explanation
Indices: 91853262--91853305 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
91853252 CATTGTTTTT
* *
91853262 TATTACTATTATCATTAT
1 TATTACTATTACCATTAG
91853280 TA-TACTATTACCATTAG
1 TATTACTATTACCATTAG
91853297 TATTA-TATT
1 TATTACTATT
91853306 TATATTCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.52
Consensus pattern (18 bp):
TATTACTATTACCATTAG
Found at i:91854021 original size:27 final size:28
Alignment explanation
Indices: 91853991--91854049 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
91853981 GTATTATTTT
91853991 AATTT-ATTTAACATATTA-TTTATTTAA
1 AATTTGATTT-ACATATTACTTTATTTAA
* * *
91854018 AATTTGCTTTATATATTACTTTATTTCA
1 AATTTGATTTACATATTACTTTATTTAA
91854046 AATT
1 AATT
91854050 GTTTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (28 bp):
AATTTGATTTACATATTACTTTATTTAA
Found at i:91854056 original size:24 final size:26
Alignment explanation
Indices: 91854003--91854066 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 26
91853993 TTTATTTAAC
91854003 ATATTATTTATTTAAAATTTGCTTTAT
1 ATATTATTTATTTAAAATTTGC-TTAT
* *
91854030 ATATTACTTTATTTCAAA-TTGTTTAT
1 ATATTA-TTTATTTAAAATTTGCTTAT
*
91854056 ATTTTATTTAT
1 ATATTATTTAT
91854067 GTTGAATCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.15
26 9 0.27
27 9 0.27
28 10 0.30
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
ATATTATTTATTTAAAATTTGCTTAT
Found at i:91858045 original size:16 final size:16
Alignment explanation
Indices: 91858024--91858054 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91858014 CATGTTAGAG
91858024 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
91858040 CATATATATTTGAAA
1 CATATAAATTTGAAA
91858055 ACTTTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:91858223 original size:20 final size:21
Alignment explanation
Indices: 91858198--91858236 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
91858188 TTTAAAATAA
*
91858198 TATAAAT-TTTTGGATTTTTT
1 TATAAATATTTTGAATTTTTT
91858218 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
91858237 AAAATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (21 bp):
TATAAATATTTTGAATTTTTT
Found at i:91868213 original size:3 final size:3
Alignment explanation
Indices: 91868205--91868230 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
91868195 AAGGTTACAA
91868205 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
91868231 ATCAATGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:91871206 original size:29 final size:31
Alignment explanation
Indices: 91871164--91871225 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
91871154 TAGTAAAGAT
* *
91871164 AAAATTGCACTTTGACCCTCTA-AAATTATA
1 AAAATTGCAATTTGACCATCTACAAATTATA
* *
91871194 AAAATT-CAATTTGATCATTTACAAATTATA
1 AAAATTGCAATTTGACCATCTACAAATTATA
91871224 AA
1 AA
91871226 GATATAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (31 bp):
AAAATTGCAATTTGACCATCTACAAATTATA
Found at i:91872053 original size:19 final size:19
Alignment explanation
Indices: 91872029--91872074 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
91872019 TAAAAATGTT
91872029 ATTAAATT-TATTATAAA-AA
1 ATTAAATTCTA-TA-AAAGAA
91872048 ATTAAATTCTATAAAAGAA
1 ATTAAATTCTATAAAAGAA
91872067 ATTAAATT
1 ATTAAATT
91872075 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.12
19 20 0.80
20 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTAAATTCTATAAAAGAA
Found at i:91877289 original size:3 final size:3
Alignment explanation
Indices: 91877283--91877311 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
91877273 TTCTTCTTTC
91877283 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
91877312 AGGTAAATGG
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:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:91889630 original size:17 final size:17
Alignment explanation
Indices: 91889608--91889655 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
91889598 CCCGGCCCGA
91889608 TTTTAATATTAAATTAT
1 TTTTAATATTAAATTAT
* ***
91889625 TTTTAAAATTTTTTTAT
1 TTTTAATATTAAATTAT
*
91889642 TTTTAATTTTAAAT
1 TTTTAATATTAAAT
91889656 AACTTTAGTA
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAATATTAAATTAT
Found at i:91889894 original size:20 final size:19
Alignment explanation
Indices: 91889852--91889895 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
91889842 ATTATTTATT
*
91889852 TATTTTTTGTTTTAATATT
1 TATTTTTTGTTTTAATATG
91889871 TATTTTTATGTTTTTAA-ATG
1 TATTTTT-TG-TTTTAATATG
91889891 TATTT
1 TATTT
91889896 GATTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 9 0.41
21 6 0.27
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (19 bp):
TATTTTTTGTTTTAATATG
Found at i:91890637 original size:19 final size:20
Alignment explanation
Indices: 91890603--91890640 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
91890593 TAAAAATCAA
91890603 TAAAAATATAATAATTTATT
1 TAAAAATATAATAATTTATT
*
91890623 TAAAAATATTA-AATTTAT
1 TAAAAATATAATAATTTAT
91890641 CAAAACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAAATATAATAATTTATT
Found at i:91890859 original size:20 final size:19
Alignment explanation
Indices: 91890831--91890877 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
91890821 ATATTTATTG
91890831 TAATTTTAAATG-ATTTTTA
1 TAATTTT-AATGTATTTTTA
*
91890850 TAATTCTTAATGTTTTTTTA
1 TAATT-TTAATGTATTTTTA
91890870 TAAATTTT
1 T-AATTTT
91890878 TATAATGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 11 0.46
21 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (19 bp):
TAATTTTAATGTATTTTTA
Found at i:91893932 original size:24 final size:24
Alignment explanation
Indices: 91893904--91893951 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
91893894 TTTAACATGC
91893904 TTTTT-ATATTATTCGTTAGTTAGA
1 TTTTTCATATTATTCGTT-GTTAGA
* *
91893928 TTTTTCATGTTTTTCGTTGTTAGA
1 TTTTTCATATTATTCGTTGTTAGA
91893952 CATTTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.19, C:0.06, G:0.15, T:0.60
Consensus pattern (24 bp):
TTTTTCATATTATTCGTTGTTAGA
Found at i:91897953 original size:23 final size:23
Alignment explanation
Indices: 91897927--91897972 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
91897917 TATTTAGATT
* *
91897927 ATTTGATAA-ATATAATTTTTAAA
1 ATTTGA-AAGATAAAATATTTAAA
91897950 ATTTGAAAGATAAAATATTTAAA
1 ATTTGAAAGATAAAATATTTAAA
91897973 GGATAATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (23 bp):
ATTTGAAAGATAAAATATTTAAA
Found at i:91900017 original size:7 final size:7
Alignment explanation
Indices: 91900005--91900030 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
91899995 ATTTTATATA
91900005 AATTTAC
1 AATTTAC
91900012 AATTTAC
1 AATTTAC
91900019 AATTTAC
1 AATTTAC
91900026 AATTT
1 AATTT
91900031 TTTTTTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTTAC
Found at i:91900731 original size:17 final size:15
Alignment explanation
Indices: 91900705--91900752 Score: 71
Period size: 14 Copynumber: 3.1 Consensus size: 15
91900695 AAAATAAAAT
91900705 AATTTTTATTATATA
1 AATTTTTATTATATA
91900720 AATTCATTTATTATAT-
1 AATT--TTTATTATATA
91900736 AATTTTTATTATATA
1 AATTTTTATTATATA
91900751 AA
1 AA
91900753 ATTGTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.33
15 6 0.20
16 4 0.13
17 10 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTTTATTATATA
Found at i:91902032 original size:47 final size:47
Alignment explanation
Indices: 91901980--91902073 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
91901970 TTATAATAAT
* *
91901980 TTATTTATTTTAACCGAATAGATTAATTGAAGTGATGAACTGTTAGA
1 TTATTTATTCTAACCGAATAGATTAATTGAAGTAATGAACTGTTAGA
* * *
91902027 TTATTTATTCTAACCGGATAGATTAATTGAATTAATGGACTGTTAGA
1 TTATTTATTCTAACCGAATAGATTAATTGAAGTAATGAACTGTTAGA
91902074 ATCTATCTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (47 bp):
TTATTTATTCTAACCGAATAGATTAATTGAAGTAATGAACTGTTAGA
Found at i:91909001 original size:35 final size:35
Alignment explanation
Indices: 91908956--91909032 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 35
91908946 TTATTTTTAA
91908956 TATC-AATTTTTATAAACTTGTTACAA-AAAATTTC
1 TATCAAATTTTTATAAACTTGTTA-AAGAAAATTTC
*
91908990 TATCAAATTTTTATAAATTTGTTAAAGAAAATTTC
1 TATCAAATTTTTATAAACTTGTTAAAGAAAATTTC
91909025 -ACTCAAAT
1 TA-TCAAAT
91909033 CGTGAGCATG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 7 0.18
35 32 0.82
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (35 bp):
TATCAAATTTTTATAAACTTGTTAAAGAAAATTTC
Found at i:91909243 original size:31 final size:31
Alignment explanation
Indices: 91909205--91909264 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
91909195 TTTTCAGTAA
91909205 TAATTTGGCTAACCCACTTAACCTAATTTAT
1 TAATTTGGCTAACCCACTTAACCTAATTTAT
91909236 TAATTTGGCTAACCCACTTAACCTAATTT
1 TAATTTGGCTAACCCACTTAACCTAATTT
91909265 CATCAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (31 bp):
TAATTTGGCTAACCCACTTAACCTAATTTAT
Found at i:91912619 original size:60 final size:59
Alignment explanation
Indices: 91912555--91912684 Score: 136
Period size: 60 Copynumber: 2.2 Consensus size: 59
91912545 ATCTTAAATA
* ** * * * * *
91912555 TAAAAATTCAACAATTTTAG-CCCTCAATGTTTATAAAATTTGTCATTTTAGTTCTAATTC
1 TAAAAATT-AACAAATTT-GCCCCTCAACATTTATAAAATCTATCAATTTAGTCCTAACTC
*
91912615 TAAAAAAATAACAAATTTGCCCCTCAACATTTATAAAATCTATCAATTTAGTCCTAACTC
1 T-AAAAATTAACAAATTTGCCCCTCAACATTTATAAAATCTATCAATTTAGTCCTAACTC
*
91912675 TAGAAATTAA
1 TAAAAATTAA
91912685 AAAAATATTT
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
59 8 0.14
60 43 0.75
61 6 0.11
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (59 bp):
TAAAAATTAACAAATTTGCCCCTCAACATTTATAAAATCTATCAATTTAGTCCTAACTC
Found at i:91912709 original size:13 final size:14
Alignment explanation
Indices: 91912681--91912711 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
91912671 ACTCTAGAAA
*
91912681 TTAAAAAAATATTT
1 TTAAAAAAACATTT
91912695 TTAAAAAAACATTT
1 TTAAAAAAACATTT
91912709 TTA
1 TTA
91912712 GCTCTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
TTAAAAAAACATTT
Found at i:91914796 original size:28 final size:28
Alignment explanation
Indices: 91914707--91914796 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 28
91914697 AAGTCTGGAG
91914707 GGACTATC-TAAATGTAGAAGTCCATTA
1 GGACTATCTTAAATGTAGAAGTCCATTA
* * * *
91914734 GGCCTA--TAAAATGTGGAAGTCCGTTA
1 GGACTATCTTAAATGTAGAAGTCCATTA
* *
91914760 AGA-TAATCTTAAATGTAGAAGTCCATCA
1 GGACT-ATCTTAAATGTAGAAGTCCATTA
91914788 GGACTATCT
1 GGACTATCT
91914797 AATGTGGAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
25 1 0.02
26 18 0.38
27 5 0.11
28 22 0.47
29 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (28 bp):
GGACTATCTTAAATGTAGAAGTCCATTA
Found at i:91919794 original size:17 final size:18
Alignment explanation
Indices: 91919750--91919784 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
91919740 TAATATTATT
91919750 AAATAATTATAAATTTAA
1 AAATAATTATAAATTTAA
91919768 AAATAATTAT-AATTTAA
1 AAATAATTATAAATTTAA
91919785 TAAAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATAATTATAAATTTAA
Found at i:91921021 original size:9 final size:9
Alignment explanation
Indices: 91920991--91921021 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
91920981 TTATTAATTT
91920991 AAAATTTTA
1 AAAATTTTA
*
91921000 AAGATTTTA
1 AAAATTTTA
91921009 AAAATTTTA
1 AAAATTTTA
91921018 AAAA
1 AAAA
91921022 ACTGAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (9 bp):
AAAATTTTA
Found at i:91921501 original size:27 final size:27
Alignment explanation
Indices: 91921471--91921527 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
91921461 ATTAATGATT
91921471 TAAAAATT-ATAAAATATTCAA-AAAAAA
1 TAAAAATTAATAAAA-ATT-AAGAAAAAA
*
91921498 TAAAAGTTAATAAAAATTAAGAAAAAA
1 TAAAAATTAATAAAAATTAAGAAAAAA
91921525 TAA
1 TAA
91921528 CATGAAGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 19 0.70
28 6 0.22
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (27 bp):
TAAAAATTAATAAAAATTAAGAAAAAA
Found at i:91921708 original size:31 final size:31
Alignment explanation
Indices: 91921650--91921709 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
91921640 ATTAGGTAGT
**
91921650 AAAGTTTTCATTTAAGTTATTGAACTATTTA
1 AAAGTTTTCATTTAAGCCATTGAACTATTTA
*
91921681 AAAGTTTTTATTTAAGCCATT-AGACTATT
1 AAAGTTTTCATTTAAGCCATTGA-ACTATT
91921710 AAGTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (31 bp):
AAAGTTTTCATTTAAGCCATTGAACTATTTA
Found at i:91929495 original size:26 final size:26
Alignment explanation
Indices: 91929434--91929496 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
91929424 ATTTTTTAAC
91929434 TTATAATAAATAATAATTATATATAAA
1 TTAT-ATAAATAATAATTATATATAAA
** * *
91929461 TTA-ATTAAATAATTGTTATGTCTAAA
1 TTATA-TAAATAATAATTATATATAAA
91929487 TTATATAAAT
1 TTATATAAAT
91929497 TTAACTTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 1 0.03
26 25 0.83
27 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (26 bp):
TTATATAAATAATAATTATATATAAA
Found at i:91929744 original size:16 final size:16
Alignment explanation
Indices: 91929720--91929761 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
91929710 TATAATTATT
*
91929720 TTCCCTAAATTATATG
1 TTCCTTAAATTATATG
91929736 TTCCTTAAATTATATG
1 TTCCTTAAATTATATG
91929752 TTCCATTAAA
1 TTCC-TTAAA
91929762 AAATAATCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (16 bp):
TTCCTTAAATTATATG
Found at i:91938296 original size:15 final size:15
Alignment explanation
Indices: 91938276--91938304 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
91938266 CCAGTATATA
91938276 GTTGAAATATGTATT
1 GTTGAAATATGTATT
91938291 GTTGAAATATGTAT
1 GTTGAAATATGTAT
91938305 ATATATTTTA
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:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (15 bp):
GTTGAAATATGTATT
Found at i:91938359 original size:19 final size:19
Alignment explanation
Indices: 91938313--91938360 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
91938303 ATATATATTT
91938313 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
91938331 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
91938350 TAAGTTTTATT
1 TAAATTTTATT
91938361 CATATTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:91938429 original size:42 final size:42
Alignment explanation
Indices: 91938377--91938465 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
91938367 CTAAGAATTT
* *
91938377 TTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGGAAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGAAACTA
*
91938419 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGAAACTA
91938461 TTTTC
1 TTTTC
91938466 CCAATTAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGAAACTA
Found at i:91942305 original size:19 final size:19
Alignment explanation
Indices: 91942259--91942306 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
91942249 ATATATATTT
91942259 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
91942277 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
91942296 TAAGTTTTATT
1 TAAATTTTATT
91942307 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:91942375 original size:42 final size:42
Alignment explanation
Indices: 91942323--91942411 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
91942313 CTAGAAATTT
* *
91942323 TTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGAGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGAGAACTA
*
91942365 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGAGAACTA
91942407 TTTTC
1 TTTTC
91942412 CCCATTAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGAGAACTA
Found at i:91949618 original size:24 final size:23
Alignment explanation
Indices: 91949559--91949618 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
91949549 GATTTATTTT
*
91949559 ATTATTTTTGAATATTATTTTATA
1 ATTATTTTTGAA-AATATTTTATA
* *
91949583 A--ATGTTTAAAAATATTTTGATA
1 ATTATTTTTGAAAATATTTT-ATA
91949605 ATTATTTTTGAAAA
1 ATTATTTTTGAAAA
91949619 ATGATATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
21 7 0.25
22 11 0.39
24 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (23 bp):
ATTATTTTTGAAAATATTTTATA
Found at i:91949692 original size:23 final size:23
Alignment explanation
Indices: 91949649--91949693 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
91949639 TTAAATTACT
91949649 TTTATTATTTTAAATATAAAATA
1 TTTATTATTTTAAATATAAAATA
91949672 TTTATT-TTTATATAATA-AAAAT
1 TTTATTATTT-TA-AATATAAAAT
91949694 TAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.15
23 13 0.65
24 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTATTATTTTAAATATAAAATA
Found at i:91950421 original size:11 final size:11
Alignment explanation
Indices: 91950405--91950446 Score: 52
Period size: 10 Copynumber: 4.0 Consensus size: 11
91950395 ATATTATAAA
91950405 ATATAAAATTT
1 ATATAAAATTT
91950416 ATAT-AAATTT
1 ATATAAAATTT
*
91950426 -TTTAAAATTT
1 ATATAAAATTT
*
91950436 ATATAATATTT
1 ATATAAAATTT
91950447 GTCGAAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 2 0.08
10 12 0.46
11 12 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATAAAATTT
Found at i:91950433 original size:20 final size:21
Alignment explanation
Indices: 91950408--91950446 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
91950398 TTATAAAATA
91950408 TAAAATTTATATAA-ATTTTT
1 TAAAATTTATATAATATTTTT
91950428 TAAAATTTATATAATATTT
1 TAAAATTTATATAATATTT
91950447 GTCGAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAAAATTTATATAATATTTTT
Found at i:91951399 original size:30 final size:28
Alignment explanation
Indices: 91951333--91951399 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 28
91951323 AATACAAAGG
*
91951333 AGAAAAATAGTATAAAATAAAATAAATC
1 AGAAAAATAGAATAAAATAAAATAAATC
91951361 AGCCAAAAATAGAAATAAAAATAAAAATAAA-C
1 AG--AAAAATAG-AAT-AAAAT-AAAATAAATC
91951393 AGAAAAA
1 AGAAAAA
91951400 ACTAAATCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
28 2 0.06
30 13 0.39
31 2 0.06
32 8 0.24
33 8 0.24
ACGTcount: A:0.72, C:0.06, G:0.07, T:0.15
Consensus pattern (28 bp):
AGAAAAATAGAATAAAATAAAATAAATC
Found at i:91951671 original size:3 final size:3
Alignment explanation
Indices: 91951663--91951832 Score: 61
Period size: 3 Copynumber: 57.3 Consensus size: 3
91951653 TAGTACCATG
* * * * * *
91951663 ATA ATA ATA AAA ATA ATA ATA A-A ATA ATA AAA ATA ACA GT- ATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
91951709 CTA ATA ATA ATAA ATAA ATAA ATA ATG GTA GTA A-A TATA TATA A-A
1 ATA ATA ATA AT-A AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA
* * *
91951754 ATA ATA ATA ACA GTA ATA A-A ATA A-A TGTA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * *
91951797 AGTA ATA A-A AT- ATA ATA TTA AAA ATA TTA AAA ATA A
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
91951833 CACTCTCCGC
Statistics
Matches: 124, Mismatches: 30, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
2 15 0.12
3 89 0.72
4 20 0.16
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:91951680 original size:12 final size:11
Alignment explanation
Indices: 91951663--91951692 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
91951653 TAGTACCATG
91951663 ATAATAATAAAA
1 ATAATAAT-AAA
91951675 ATAATAATAAA
1 ATAATAATAAA
91951686 ATAATAA
1 ATAATAA
91951693 AAATAACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAATAAA
Done.