Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 139 of 186
Found at i:45943842 original size:44 final size:46
Alignment explanation
Indices: 45943771--45943888 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 46
45943761 GTTAGCAGAT
* * *
45943771 CTTATCTC-CTTGAAGTTGTAGTGGAGCA-GATCAAAGT-CAC-AATC
1 CTTATCTCTC-TGAAGTTGCAGTGGAGCAGGATAAAAATACACGAA-C
* *
45943815 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATATACGAAC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGATAAAAATACACGAAC
* *
45943861 CATACCTCTCTGAAGTTGCAGTGGAGCA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCA
45943889 CATTGGAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
44 24 0.39
45 8 0.13
46 28 0.45
47 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (46 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAGGATAAAAATACACGAAC
Found at i:45946545 original size:127 final size:128
Alignment explanation
Indices: 45946373--45946681 Score: 380
Period size: 127 Copynumber: 2.4 Consensus size: 128
45946363 CCTTAAAATG
** * *
45946373 AAGGCAATGTTTGATGTTTGGGAAA-TCGA-GAAATCGTGCCCTATCGTGCTGGGTTTCGA-TTT
1 AAGGCAATGTTCAATGTTT-AGAAACTCGAGGGAATCGTGCCCTATCGTGCTGGGTTTC-ATTTT
* * *
45946435 CGTGTTTGTTCAAAAT-AGTCGAATATTCCTTTAGAATTTCACTCGT-GTTTCCCAAATTTTAAA
64 CCTGTTTGTTCAAAATAACT-GAATATTCCTTTAGAATTTCACTC-TAGTTTCCCAAATTCTAAA
45946498 AC
127 AC
* * * *
45946500 AAGGCTATGTTCAATTTTTGGAAACTCG-GGGAATCGTGCCTTATCGTGCTGGGTTTCATTTTCC
1 AAGGCAATGTTCAATGTTTAGAAACTCGAGGGAATCGTGCCCTATCGTGCTGGGTTTCATTTTCC
* * * *
45946564 TGTTTGTTCAAAATAACTGAATATTCCTTTTGAATTTCACTCTAGTTTTCTAAATTCTAAAGC
66 TGTTTGTTCAAAATAACTGAATATTCCTTTAGAATTTCACTCTAGTTTCCCAAATTCTAAAAC
* *
45946627 AAGGCAATGTTCAATGTTTAGAAATTCGAGGG-ATCGTGCCCTACCGTGCTGGGTT
1 AAGGCAATGTTCAATGTTTAGAAACTCGAGGGAATCGTGCCCTATCGTGCTGGGTT
45946682 CGGTTTTTCG
Statistics
Matches: 157, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
126 7 0.04
127 145 0.92
128 5 0.03
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (128 bp):
AAGGCAATGTTCAATGTTTAGAAACTCGAGGGAATCGTGCCCTATCGTGCTGGGTTTCATTTTCC
TGTTTGTTCAAAATAACTGAATATTCCTTTAGAATTTCACTCTAGTTTCCCAAATTCTAAAAC
Found at i:45953661 original size:15 final size:16
Alignment explanation
Indices: 45953643--45953672 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45953633 AATTGTTTTA
45953643 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
45953658 TTACATAATTTCACT
1 TTACATAATTTCACT
45953673 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:45953925 original size:50 final size:50
Alignment explanation
Indices: 45953871--45954949 Score: 1908
Period size: 50 Copynumber: 21.5 Consensus size: 50
45953861 CTGGTATGCA
* *
45953871 TAGTAGCCTACACTTAGTATTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45953921 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45953971 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954021 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954071 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954121 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954171 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954221 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954271 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954321 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954371 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954421 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954471 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954521 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954571 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954621 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954671 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
45954721 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* *** * * * *
45954771 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGATACACG
* * * * *
45954822 TAGTAGCCTGCACTTAGTACTATACATGGGACCTAACTATCT-AGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA-TACACG
* * * * * * *
45954872 TAGTAACCTGTACTTAATACTACACACGTGGCCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
*
45954924 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
45954950 ATTGTTCTCA
Statistics
Matches: 992, Mismatches: 32, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
50 918 0.93
51 39 0.04
52 34 0.03
53 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:45962896 original size:50 final size:50
Alignment explanation
Indices: 45962778--45963051 Score: 268
Period size: 50 Copynumber: 5.4 Consensus size: 50
45962768 CTGGTACGCA
* * *
45962778 TAGTAGCCTGCACTTAGTACTACACATGCGACC--ACCAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC-ATCTGATACACG
*
45962827 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACG
* *** * *
45962877 TAGTAGCCTGCACTTAGTACTACACACGCGA-TTGAAGTTTCTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCT-AACCATCTGA-TACACG
* * * *
45962928 TAGTAGCCTGCACTTAGTACTACACATGGGACCTAACTATCT-AGTGCACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGA-TACACG
* * * * * * *
45962978 TAGTAACCTGCAATTAATACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCT--AACCATCTGATACACG
*
45963030 TAGTAGCCTGCACATAGTACTA
1 TAGTAGCCTGCACTTAGTACTA
45963052 TACAATTGTT
Statistics
Matches: 185, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
49 32 0.17
50 81 0.44
51 42 0.23
52 29 0.16
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACG
Found at i:45969544 original size:50 final size:50
Alignment explanation
Indices: 45969426--45969749 Score: 359
Period size: 50 Copynumber: 6.4 Consensus size: 50
45969416 CTGGTACGCA
* * * *
45969426 TAGTAGCCTGCACTTAGTACTACACATGCGACC--ACCAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC-ATCTGATACACG
45969475 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
45969525 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACAGG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * *** * *
45969575 TAGTAGCCTGCACTTAGTACTACACACGCGA-TTGAAGTTTCTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACCATCTGA-TACACG
* * * *
45969626 TAGTAGCCTGCACTTAGTACTACACATGGGACCTAACTATCT-AGTGCACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA-TACACG
* * * * * *
45969676 TAGTAACCTGCAATTAATACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
*
45969728 TAGTAGCCTGCACATAGTACTA
1 TAGTAGCCTGCACTTAGTACTA
45969750 TACAATTGTT
Statistics
Matches: 233, Mismatches: 34, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
49 32 0.14
50 130 0.56
51 41 0.18
52 29 0.12
53 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:45969662 original size:101 final size:101
Alignment explanation
Indices: 45969414--45969749 Score: 371
Period size: 101 Copynumber: 3.3 Consensus size: 101
45969404 AACCGAAGCT
* *
45969414 ATCTG-GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC--ACCAATCCGGTACACGT
1 ATCTGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACC-ATCTGATACACGT
*
45969476 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
65 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
* * * * *
45969513 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACAGGTA
1 ATCTGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACGTA
* **
45969577 GTAGCCTGCACTTAGTACTACACACGCGA-TTGAAGT
66 GTAGCCTGCACTTAGTACTACACACGCGACCT-AACC
* * * *
45969613 TTCTGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGGGACCTAACTATCT-AGTGCACGT
1 ATCTGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGA-TACACGT
* * * *
45969677 AGTAACCTGCAATTAATACTACACACGTGACCTAAAACC
65 AGTAGCCTGCACTTAGTACTACACACGCGACCT--AACC
* * * *
45969716 ATCTTA-AACACATAGTAGCCTGCACATAGTACTA
1 ATCTGAGTACGCATAGTAGCCTGCACTTAGTACTA
45969750 TACAATTGTT
Statistics
Matches: 197, Mismatches: 32, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
99 41 0.21
100 47 0.24
101 77 0.39
102 26 0.13
103 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
ATCTGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACGTA
GTAGCCTGCACTTAGTACTACACACGCGACCTAACC
Found at i:45969686 original size:151 final size:152
Alignment explanation
Indices: 45969475--45969749 Score: 410
Period size: 151 Copynumber: 1.8 Consensus size: 152
45969465 CCGGTACACG
* * *
45969475 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGGGACCTAACCATCTGATACACGTAGTAACCTGCAATT
* * ** *
45969540 AGTACTACACACGTGACCT-AACCATCTGATACAGGTAGTAGCCTGCACTTAGTACTACACACGC
66 AATACTACACACGTGACCTAAACCATCTGAAACACATAGTAGCCTGCACATAGTACTACACACGC
45969604 GATTGAAGTTTCTGAGTACGCA
131 GATTGAAGTTTCTGAGTACGCA
* * *
45969626 TAGTAGCCTGCACTTAGTACTACACATGGGACCTAACTATCT-AGTGCACGTAGTAACCTGCAAT
1 TAGTAGCCTGCACTTAGTACTACACACGGGACCTAACCATCTGA-TACACGTAGTAACCTGCAAT
*
45969690 TAATACTACACACGTGACCTAAAACCATCTTAAACACATAGTAGCCTGCACATAGTACTA
65 TAATACTACACACGTGACCT-AAACCATCTGAAACACATAGTAGCCTGCACATAGTACTA
45969750 TACAATTGTT
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
150 1 0.01
151 75 0.69
153 33 0.30
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (152 bp):
TAGTAGCCTGCACTTAGTACTACACACGGGACCTAACCATCTGATACACGTAGTAACCTGCAATT
AATACTACACACGTGACCTAAACCATCTGAAACACATAGTAGCCTGCACATAGTACTACACACGC
GATTGAAGTTTCTGAGTACGCA
Found at i:45970888 original size:8 final size:8
Alignment explanation
Indices: 45970875--45970899 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45970865 AATTTTCACA
45970875 CAATCATG
1 CAATCATG
45970883 CAATCATG
1 CAATCATG
45970891 CAATCATG
1 CAATCATG
45970899 C
1 C
45970900 TATAGACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (8 bp):
CAATCATG
Found at i:45971416 original size:23 final size:23
Alignment explanation
Indices: 45971390--45971435 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
45971380 TATATGTTAG
45971390 TAATTAACTTTTCATCAAGGAAA
1 TAATTAACTTTTCATCAAGGAAA
45971413 TAATTAACTTTTCATCAAGGAAA
1 TAATTAACTTTTCATCAAGGAAA
45971436 ATGTAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (23 bp):
TAATTAACTTTTCATCAAGGAAA
Found at i:45979957 original size:47 final size:44
Alignment explanation
Indices: 45979884--45980103 Score: 160
Period size: 46 Copynumber: 4.8 Consensus size: 44
45979874 TCATTTGTGT
45979884 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-G--ACATTGA-GAC
* *
45979930 GAGCCAGTGTAAGACCATGTCTGGGACACGGCATCGACATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACA-TGCATCGACATTGAGAC
* *
45979976 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATC-AGCCTTGGGAC
1 GA--GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CATTGAGAC
* ** * * * *
45980022 GTAAGCCAGCATAAGACATGTCTAGGACATGCATCGGC-TACGAGAT
1 G--AGCTAGTGTAAGACATGTCTGGGACATGCATCGACAT-TGAGAC
* * *
45980068 GTGTTAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
45980104 GCACTTTACC
Statistics
Matches: 142, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
44 8 0.06
45 23 0.16
46 67 0.47
47 27 0.19
48 17 0.12
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
Found at i:45979989 original size:48 final size:45
Alignment explanation
Indices: 45979884--45980010 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 45
45979874 TCATTTGTGT
*
45979884 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACAGGCATCGG-CACATTATGA
*
45979930 GAGCCAGTGTAAGACCATGTCTGGGACACGGCATC-G-ACATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACA-GGCATCGGCACATT-ATGA
*
45979975 CGAGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 -GA--GCTAGTGTAAGACATGTCTGGGACAGGCATC
45980011 AGCCTTGGGA
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
45 7 0.10
46 21 0.30
47 27 0.38
48 16 0.23
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACAGGCATCGGCACATTATGA
Found at i:45987371 original size:22 final size:23
Alignment explanation
Indices: 45987346--45987393 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
45987336 ATATGGCCTA
45987346 AATTGCTTGATTTCGAGATTG-G
1 AATTGCTTGATTTCGAGATTGAG
*
45987368 AATTTCTTGATTTCGAGATTGAG
1 AATTGCTTGATTTCGAGATTGAG
45987391 AAT
1 AAT
45987394 GTGTAATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (23 bp):
AATTGCTTGATTTCGAGATTGAG
Found at i:45987711 original size:51 final size:50
Alignment explanation
Indices: 45987655--45987751 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
45987645 GATCATGCAT
*
45987655 CGGTTATGAGATGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCAACA
1 CGGTTATGAGA-GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCAACA
*
45987706 CGGTTATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 CGGTTATGAGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
45987752 GGTACTTTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 32 0.74
51 11 0.26
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (50 bp):
CGGTTATGAGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACA
Found at i:45994236 original size:25 final size:25
Alignment explanation
Indices: 45994190--45994260 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
45994180 GCAGAGTACA
*
45994190 CCACAAAAGGCCACAT--AGAATATG
1 CCAC-AAAGGCAACATACAGAATATG
45994214 CCAC-AAGAGCAACATACAGAATATG
1 CCACAAAG-GCAACATACAGAATATG
*
45994239 CCACAAAGGCATCATACAGAAT
1 CCACAAAGGCAACATACAGAAT
45994261 CACGTGTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.07
23 6 0.15
24 4 0.10
25 25 0.61
26 3 0.07
ACGTcount: A:0.46, C:0.25, G:0.15, T:0.13
Consensus pattern (25 bp):
CCACAAAGGCAACATACAGAATATG
Found at i:45997187 original size:469 final size:468
Alignment explanation
Indices: 45996305--45997260 Score: 1824
Period size: 469 Copynumber: 2.0 Consensus size: 468
45996295 AACAACCTAT
*
45996305 ATGGTTTATACAACTTGGTACACAGAAAAACATCCCAAACTCATATCACTTTATACCAAACAAAT
1 ATGGGTTATACAACTTGGTACACAGAAAAACATCCCAAACTCATATCACTTTATACCAAACAAAT
45996370 CATTTAACCATTTCTAATCAAAACCAATTCAACATGAGCTCAACCTAATACAAATCTATTCATTT
66 CATTTAACCATTTCTAATCAAAACCAATTCAACATGAGCTCAACCTAATACAAATCTATTCATTT
45996435 CAATACATTCAATCAAATGTTAAAAAAAGAAAAAAAAATATGTTAAAACACGATAAGGCATTCCA
131 CAATACATTCAATCAAATGTTAAAAAAAGAAAAAAAAATATGTTAAAACACGATAAGGCATTCCA
*
45996500 TTCAACCTTAATACATACTTTTCTTTACCTTAAATGTTTCATTGTCATATAAGCCTTTAATATGA
196 TTCAACCTTAATACATACTTTTCTTTACCTTAAATGTATCATTGTCATATAAGCCTTTAATATGA
45996565 ACAATAACAATTAAATCTTAATTACATATTCTTAGCATACTTTCAAATATGCCAATTTCAACCAT
261 ACAATAACAATTAAATCTTAATTACATATTCTTAGCATACTTTCAAATATGCCAATTTCAACCAT
45996630 TACTTAGCTTAGTTATCTTATCTACCTCATTATACATTATTCCAAATGCTAAACATGAAAAAAAT
326 TACTTAGCTTAGTTATCTTATCTACCTCATTATACATTATTCCAAATGCTAAACATGAAAAAAAT
45996695 CTATTATCATATACCCTAGCATAAAACATAACCAATGCCATGCACTTACCAAACCACAAAGGGAA
391 CTATTATCATATACCCTAGCATAAAACATAACCAATGCCATGCACTTACCAAACCACAAAGGGAA
45996760 CATATTATACAAA
456 CATATTATACAAA
45996773 ATGGGTTATACAACTTGGTACACAGAAAAACATCCCAAACTCATATCACTTTATACCAAACAAAT
1 ATGGGTTATACAACTTGGTACACAGAAAAACATCCCAAACTCATATCACTTTATACCAAACAAAT
*
45996838 CATTTAACCATTTTTAATCAAAACCAATTCAACATGAGCTCAACCTAATACAAATCTATTCATTT
66 CATTTAACCATTTCTAATCAAAACCAATTCAACATGAGCTCAACCTAATACAAATCTATTCATTT
45996903 CAATACATTCAATCAAATGTTAAAAAAAGAAAAAAAAAACTATGTTAAAACACGATAAGGCATTC
131 CAATACATTCAATCAAATGTTAAAAAAAG-AAAAAAAAA-TATGTTAAAACACGATAAGGCATTC
*
45996968 CATTCAACCTTAATACATACTTTTCTTTACCTTAAATGTATCATTGTCTTATAAGCCTTT-ATAT
194 CATTCAACCTTAATACATACTTTTCTTTACCTTAAATGTATCATTGTCATATAAGCCTTTAATAT
*
45997032 GAACAATAACAATTAAGTCTTAATTACATATTCTTAGCATACTTTCAAATATGCCAATTTCAACC
259 GAACAATAACAATTAAATCTTAATTACATATTCTTAGCATACTTTCAAATATGCCAATTTCAACC
45997097 ATTACTTAGCTTAGTTATCTTATCTACCTCATTATACATTATTCCAAATGCTAAACATGAAAAAA
324 ATTACTTAGCTTAGTTATCTTATCTACCTCATTATACATTATTCCAAATGCTAAACATGAAAAAA
45997162 ATCTATTATCATATACCCTAGCATAAAACATAACCAATGCCATGCACTTACCAAACCACAAAGGG
389 ATCTATTATCATATACCCTAGCATAAAACATAACCAATGCCATGCACTTACCAAACCACAAAGGG
45997227 AACATATTATACAAA
454 AACATATTATACAAA
45997242 ATGGGTTATATCATACTTG
1 ATGGGTTATA-CA-ACTTG
45997261 CCAAGTAGTA
Statistics
Matches: 479, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
468 157 0.33
469 232 0.48
470 85 0.18
471 5 0.01
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.31
Consensus pattern (468 bp):
ATGGGTTATACAACTTGGTACACAGAAAAACATCCCAAACTCATATCACTTTATACCAAACAAAT
CATTTAACCATTTCTAATCAAAACCAATTCAACATGAGCTCAACCTAATACAAATCTATTCATTT
CAATACATTCAATCAAATGTTAAAAAAAGAAAAAAAAATATGTTAAAACACGATAAGGCATTCCA
TTCAACCTTAATACATACTTTTCTTTACCTTAAATGTATCATTGTCATATAAGCCTTTAATATGA
ACAATAACAATTAAATCTTAATTACATATTCTTAGCATACTTTCAAATATGCCAATTTCAACCAT
TACTTAGCTTAGTTATCTTATCTACCTCATTATACATTATTCCAAATGCTAAACATGAAAAAAAT
CTATTATCATATACCCTAGCATAAAACATAACCAATGCCATGCACTTACCAAACCACAAAGGGAA
CATATTATACAAA
Found at i:45997936 original size:38 final size:38
Alignment explanation
Indices: 45997884--45997990 Score: 178
Period size: 38 Copynumber: 2.8 Consensus size: 38
45997874 AAATATATAT
45997884 ACATATCAGGTTACTCGTCCGAGCTAAACCTTTATAATG
1 ACATAT-AGGTTACTCGTCCGAGCTAAACCTTTATAATG
* *
45997923 ACATATAGGTTACTCGTTCGAGTTAAACCTTTATAATG
1 ACATATAGGTTACTCGTCCGAGCTAAACCTTTATAATG
*
45997961 ACATACAGGTTACTCGTCCGAGCTAAACCT
1 ACATATAGGTTACTCGTCCGAGCTAAACCT
45997991 GCGTCACATA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
38 57 0.90
39 6 0.10
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (38 bp):
ACATATAGGTTACTCGTCCGAGCTAAACCTTTATAATG
Found at i:46003910 original size:22 final size:21
Alignment explanation
Indices: 46003885--46003937 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
46003875 AAATAGGGTC
46003885 ACACGCCCGTGTGGGCACAGGG
1 ACACGCCCGTGTGGGCACA-GG
* *
46003907 ACACG-CC-TGTGTGCCCAGG
1 ACACGCCCGTGTGGGCACAGG
46003926 ACACGCCCGTGT
1 ACACGCCCGTGT
46003938 CCTTAGGCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 7 0.26
20 10 0.37
21 5 0.19
22 5 0.19
ACGTcount: A:0.17, C:0.36, G:0.34, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGGGCACAGG
Found at i:46005928 original size:49 final size:49
Alignment explanation
Indices: 46005866--46006175 Score: 168
Period size: 49 Copynumber: 6.5 Consensus size: 49
46005856 CAAAGTCGAC
*
46005866 GCCATGTCCCAGACAGGTCTTACACTGACT-TTTATATATCGAG-GCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCT-TATATCG-GTGCCGAT
* * * * *
46005915 GCCATTTTCCAGACAGGTCTTACACTGGCTCTCTTCTATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCTTATATCGGTGCCGAT
* * ** * *
46005964 GCCATGTCCCAGACAGGTCTTACACTGACACAC--A-A-C-AAGCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCTTATATCGGTGCCGAT
* * * * *
46006008 GCCATGTCCCAGACAGGTCTTACACT-AGTTTGTATATCTCAAG-GCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCT-TATATC-GGTGCCGAT
* * * * ** *
46006057 G-CATGTCCCATACATGTCTTACACT-AGCTCTC--GTCTCAATACCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGA-CTCTCTTATATCGGTGCCGAT
* * * *
46006103 G-CATGTCCCAGACATGTCTTACACTGGCT-TGTATATCTCGAG-GCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCT-TATATCG-GTGCCGAT
* *
46006151 G-CATGTCCCAGAAATGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
46006176 AGCACACATC
Statistics
Matches: 203, Mismatches: 42, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 3 0.01
46 37 0.18
48 58 0.29
49 73 0.36
50 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTCTCTTATATCGGTGCCGAT
Found at i:46006081 original size:48 final size:47
Alignment explanation
Indices: 46006010--46006177 Score: 212
Period size: 48 Copynumber: 3.6 Consensus size: 47
46006000 AAGCTGACGC
*
46006010 CATGTCCCAGACAGGTCTTACACTAGTTTGTATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAG-TTGTATATCTCAAGGCCGATG
* * * ** **
46006058 CATGTCCCATACATGTCTTACACTAGCTCT-CGTCTCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTAGTTGTATATCTCAAGGCCGATG
* *
46006104 CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAG-TTGTATATCTCAAGGCCGATG
*
46006152 CATGTCCCAGAAATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
46006178 CACACATCAC
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
46 36 0.36
47 4 0.04
48 59 0.60
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGTTGTATATCTCAAGGCCGATG
Found at i:46008569 original size:31 final size:31
Alignment explanation
Indices: 46008531--46008788 Score: 257
Period size: 31 Copynumber: 8.3 Consensus size: 31
46008521 CAACCTTTTG
*
46008531 AACCTTTTTATTTGATATTCGTTTCGGATAT
1 AACCTTTTCATTTGATATTCGTTTCGGATAT
* * *
46008562 AACCTTTTCATTTGATACTGGTTTTGGATAT
1 AACCTTTTCATTTGATATTCGTTTCGGATAT
* * * * *
46008593 TACATTTTCATTTAATATTCGTTACGAATAT
1 AACCTTTTCATTTGATATTCGTTTCGGATAT
* * * *
46008624 AACATTTTCATTTGATATCCATTTCAGATAT
1 AACCTTTTCATTTGATATTCGTTTCGGATAT
* * * *
46008655 AACCTTTTCAATTAATATTCATTTCGAATAT
1 AACCTTTTCATTTGATATTCGTTTCGGATAT
* *
46008686 AACCTTTTCATTTGATATCCGTTTCAGATAT
1 AACCTTTTCATTTGATATTCGTTTCGGATAT
* * * * *
46008717 AATCTTTTCAATTAATATAT-TTTTCAGATAT
1 AACCTTTTCATTTGATAT-TCGTTTCGGATAT
* * *
46008748 AACCTTTTCATTTTATATACGTTTGGGATAT
1 AACCTTTTCATTTGATATTCGTTTCGGATAT
46008779 AACCTTTTCA
1 AACCTTTTCA
46008789 AGAATTCAGT
Statistics
Matches: 182, Mismatches: 43, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
31 182 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.48
Consensus pattern (31 bp):
AACCTTTTCATTTGATATTCGTTTCGGATAT
Found at i:46008755 original size:15 final size:15
Alignment explanation
Indices: 46008645--46008757 Score: 54
Period size: 15 Copynumber: 7.3 Consensus size: 15
46008635 TTGATATCCA
46008645 TTTCAGATATAACCT
1 TTTCAGATATAACCT
** *
46008660 TTTCA-ATTAATATTCA
1 TTTCAGA-T-ATAACCT
46008676 TTTC-GAATATAACCT
1 TTTCAG-ATATAACCT
** * *
46008691 TTTCATTTGATATCCG
1 TTTCAGAT-ATAACCT
*
46008707 TTTCAGATATAATCT
1 TTTCAGATATAACCT
*
46008722 TTTCA-ATTAATATA-TT
1 TTTCAGA-T-ATA-ACCT
46008738 TTTCAGATATAACCT
1 TTTCAGATATAACCT
46008753 TTTCA
1 TTTCA
46008758 TTTTATATAC
Statistics
Matches: 70, Mismatches: 17, Indels: 22
0.64 0.16 0.20
Matches are distributed among these distances:
14 3 0.04
15 34 0.49
16 30 0.43
17 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (15 bp):
TTTCAGATATAACCT
Found at i:46009512 original size:41 final size:41
Alignment explanation
Indices: 46009455--46009537 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
46009445 GCTAAGTAAG
46009455 TTAAGCTAAAACGAGTTCAAAAACATAAAAATCATTAAAAA
1 TTAAGCTAAAACGAGTTCAAAAACATAAAAATCATTAAAAA
*
46009496 TTAAGCTAAAACGAGTTCAAAAACATAAAAATCTTTAAAAA
1 TTAAGCTAAAACGAGTTCAAAAACATAAAAATCATTAAAAA
46009537 T
1 T
46009538 GGGACTCAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.24
Consensus pattern (41 bp):
TTAAGCTAAAACGAGTTCAAAAACATAAAAATCATTAAAAA
Found at i:46011027 original size:27 final size:28
Alignment explanation
Indices: 46010970--46011235 Score: 192
Period size: 27 Copynumber: 9.6 Consensus size: 28
46010960 GTATGCCATT
* * * * *
46010970 AAGGCATTCTTTTTAGA-ATTTGCTACG
1 AAGGCATTCCTTTTATATGTTTGCCACA
*
46010997 AAGGCATTCCTTTTA-ATGTCTGCCACA
1 AAGGCATTCCTTTTATATGTTTGCCACA
* *
46011024 AAGGCATTCCTTTTAGA-GTTTTCCACA
1 AAGGCATTCCTTTTATATGTTTGCCACA
* * * *
46011051 AAGGCATTTCC-ATCA-AAGTCTGCCACA
1 AAGGCA-TTCCTTTTATATGTTTGCCACA
* * *
46011078 AAGACATTCCTTTCAGA-GTTTGCCACA
1 AAGGCATTCCTTTTATATGTTTGCCACA
* * * *
46011105 AAGGCATTTCTATTCATAT-ATTGTCACA
1 AAGGCATTCCT-TTTATATGTTTGCCACA
* **
46011133 AAGGCATTCCTTTTCATATATTT-CCATG
1 AAGGCATTCCTTTT-ATATGTTTGCCACA
*
46011161 AAGGCATTCCTTTTTATAT-TTTCCCACA
1 AAGGCATTCC-TTTTATATGTTTGCCACA
*
46011189 AAGGCATTCATTTTAATAT-TTTGCCACA
1 AAGGCATTCCTTTT-ATATGTTTGCCACA
46011217 AAGGCATTCCTTTTTATAT
1 AAGGCATTCC-TTTTATAT
46011236 ATTGCTATGA
Statistics
Matches: 195, Mismatches: 30, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
26 6 0.03
27 94 0.48
28 85 0.44
29 10 0.05
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (28 bp):
AAGGCATTCCTTTTATATGTTTGCCACA
Found at i:46011055 original size:54 final size:55
Alignment explanation
Indices: 46010970--46011235 Score: 213
Period size: 54 Copynumber: 4.8 Consensus size: 55
46010960 GTATGCCATT
* * * *
46010970 AAGGCATTCTTTTTAGAATTTGCTACGAAGGCATTCCTTTTA-ATGTCTGCCACA
1 AAGGCATTCCTTTTAGAATTTTCCACAAAGGCATTCCTTTTATATGTCTGCCACA
* * * *
46011024 AAGGCATTCCTTTTAGAGTTTTCCACAAAGGCATTTCC-ATCA-AAGTCTGCCACA
1 AAGGCATTCCTTTTAGAATTTTCCACAAAGGCA-TTCCTTTTATATGTCTGCCACA
* * * * * * * *
46011078 AAGACATTCCTTTCAGAGTTTGCCACAAAGGCATTTCTATTCATATAT-TGTCACA
1 AAGGCATTCCTTTTAGAATTTTCCACAAAGGCATTCCT-TTTATATGTCTGCCACA
* ** * *
46011133 AAGGCATTCCTTTTCA-TATATTTCCATGAAGGCATTCCTTTTTATAT-TTTCCCACA
1 AAGGCATTCCTTTT-AGAAT-TTTCCACAAAGGCATTCC-TTTTATATGTCTGCCACA
*
46011189 AAGGCATTCATTTTA-ATATTTTGCCACAAAGGCATTCCTTTTTATAT
1 AAGGCATTCCTTTTAGA-ATTTT-CCACAAAGGCATTCC-TTTTATAT
46011236 ATTGCTATGA
Statistics
Matches: 171, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
53 3 0.02
54 71 0.42
55 31 0.18
56 65 0.38
57 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (55 bp):
AAGGCATTCCTTTTAGAATTTTCCACAAAGGCATTCCTTTTATATGTCTGCCACA
Found at i:46011133 original size:28 final size:28
Alignment explanation
Indices: 46010997--46011240 Score: 193
Period size: 28 Copynumber: 8.9 Consensus size: 28
46010987 ATTTGCTACG
*
46010997 AAGGCATTCCTTTT-A-ATGTCTGCCACA
1 AAGGCATTCCTTTTCATATAT-TGCCACA
* *
46011024 AAGGCATTCCTTTT-AGAGT-TTTCCACA
1 AAGGCATTCCTTTTCATA-TATTGCCACA
*
46011051 AAGGCATTTCC--ATCA-A-AGTCTGCCACA
1 AAGGCA-TTCCTTTTCATATA-T-TGCCACA
* *
46011078 AAGACATTCC-TTTCAGAGT-TTGCCACA
1 AAGGCATTCCTTTTCATA-TATTGCCACA
* * *
46011105 AAGGCATTTCTATTCATATATTGTCACA
1 AAGGCATTCCTTTTCATATATTGCCACA
* **
46011133 AAGGCATTCCTTTTCATATATTTCCATG
1 AAGGCATTCCTTTTCATATATTGCCACA
* * *
46011161 AAGGCATTCCTTTTTATATTTTCCCACA
1 AAGGCATTCCTTTTCATATATTGCCACA
* * *
46011189 AAGGCATTCATTTTAATATTTTGCCACA
1 AAGGCATTCCTTTTCATATATTGCCACA
*
46011217 AAGGCATTCCTTTTTATATATTGC
1 AAGGCATTCCTTTTCATATATTGC
46011241 TATGAAAATA
Statistics
Matches: 177, Mismatches: 27, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
26 7 0.04
27 58 0.33
28 111 0.63
29 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (28 bp):
AAGGCATTCCTTTTCATATATTGCCACA
Found at i:46011254 original size:84 final size:84
Alignment explanation
Indices: 46011100--46011259 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 84
46011090 TCAGAGTTTG
* * * **
46011100 CCACAAAGGCATTTCTATTCATATATTGTCACAAAGGCATTCCTTTTCATATATTTCCATGAAGG
1 CCACAAAGGCATTTCTATTAATATATTGCCACAAAGGCATTCCTTTTCATATATTGCCATGAAAA
46011165 CATTCCTTTTTATATTTTC
66 CATTCCTTTTTATATTTTC
* * * *
46011184 CCACAAAGGCA-TTCATTTTAATATTTTGCCACAAAGGCATTCCTTTTTATATATTGCTATGAAA
1 CCACAAAGGCATTTC-TATTAATATATTGCCACAAAGGCATTCCTTTTCATATATTGCCATGAAA
*
46011248 ATATTCCTTTTT
65 ACATTCCTTTTT
46011260 TGACATGTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
83 3 0.05
84 62 0.95
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (84 bp):
CCACAAAGGCATTTCTATTAATATATTGCCACAAAGGCATTCCTTTTCATATATTGCCATGAAAA
CATTCCTTTTTATATTTTC
Found at i:46020823 original size:33 final size:33
Alignment explanation
Indices: 46020781--46020904 Score: 221
Period size: 33 Copynumber: 3.8 Consensus size: 33
46020771 TTTCTTCTTG
*
46020781 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
46020814 ACATTCCAGCTCCTGTTCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
46020847 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
46020880 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
46020905 TAAAATAGAG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.30, C:0.42, G:0.10, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:46032756 original size:17 final size:18
Alignment explanation
Indices: 46032717--46032756 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
46032707 TATTTTTATC
* *
46032717 CTTGGTGGATAAATATCG
1 CTTGGTGGATAAAAATAG
46032735 CTTGGTGGA-AAAAATAG
1 CTTGGTGGATAAAAATAG
46032752 CTTGG
1 CTTGG
46032757 AGGACAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (18 bp):
CTTGGTGGATAAAAATAG
Found at i:46041891 original size:11 final size:11
Alignment explanation
Indices: 46041877--46041936 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
46041867 GATAATATGT
46041877 TATTAATTTAA
1 TATTAATTTAA
46041888 TATTAATTTAA
1 TATTAATTTAA
* *
46041899 TATTTATCTAGA
1 TATTAATTTA-A
*
46041911 TAAT-ATTT--
1 TATTAATTTAA
46041919 TATTAATTTAA
1 TATTAATTTAA
46041930 TATTAAT
1 TATTAAT
46041937 GTGATTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 3 0.08
9 4 0.10
11 29 0.73
12 4 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:46041901 original size:42 final size:42
Alignment explanation
Indices: 46041841--46041936 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
46041831 TAAATTTAAT
46041841 ATTTAAT-TTAATTTAATATTTATCTAGATAATATGTTATTA
1 ATTTAATATTAATTTAATATTTATCTAGATAATATGTTATTA
*
46041882 ATTTAATATTAATTTAATATTTATCTAGATAATATTTTATTA
1 ATTTAATATTAATTTAATATTTATCTAGATAATATGTTATTA
46041924 ATTTAATATTAAT
1 ATTTAATATTAAT
46041937 GTGATTAATT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 7 0.13
42 46 0.87
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (42 bp):
ATTTAATATTAATTTAATATTTATCTAGATAATATGTTATTA
Found at i:46044896 original size:28 final size:30
Alignment explanation
Indices: 46044857--46044924 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 30
46044847 CACATTTTCT
*
46044857 TTCATCTATTAAGG-TTAGTACTTA-CTTC
1 TTCATCTTTTAAGGTTTAGTACTTAGCTTC
* *
46044885 TTCATCTTTTAAGGTTTAGTTCTTAGCTTT
1 TTCATCTTTTAAGGTTTAGTACTTAGCTTC
*
46044915 TTCCTCTTTT
1 TTCATCTTTT
46044925 TAGTTGGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 13 0.38
29 9 0.26
30 12 0.35
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.54
Consensus pattern (30 bp):
TTCATCTTTTAAGGTTTAGTACTTAGCTTC
Found at i:46050572 original size:15 final size:15
Alignment explanation
Indices: 46050552--46050582 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
46050542 TTTTTTTTTG
46050552 TTATGAAATATATCA
1 TTATGAAATATATCA
46050567 TTATGAAATATATCA
1 TTATGAAATATATCA
46050582 T
1 T
46050583 CTAAGTAATG
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:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
TTATGAAATATATCA
Found at i:46052049 original size:28 final size:24
Alignment explanation
Indices: 46051979--46052030 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
46051969 ATCATTACAA
46051979 CTTTTATTACATTTAAAATTAAGT
1 CTTTTATTACATTTAAAATTAAGT
46052003 CTTTTATTACATTTAAAATTAAGT
1 CTTTTATTACATTTAAAATTAAGT
46052027 CTTT
1 CTTT
46052031 CTACTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.52
Consensus pattern (24 bp):
CTTTTATTACATTTAAAATTAAGT
Found at i:46056802 original size:8 final size:8
Alignment explanation
Indices: 46056754--46056796 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
46056744 ATACTTAAGT
46056754 ATAATATA
1 ATAATATA
*
46056762 ATAATTTA
1 ATAATATA
*
46056770 TTAATATA
1 ATAATATA
46056778 ATAATATA
1 ATAATATA
46056786 ATAATATA
1 ATAATATA
46056794 ATA
1 ATA
46056797 CAATAAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATATA
Found at i:46056844 original size:19 final size:20
Alignment explanation
Indices: 46056817--46056867 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
46056807 TAAATAAACT
*
46056817 AAAGTGAAAAAACAAA-GAA
1 AAAGAGAAAAAACAAATGAA
*
46056836 AAAGAGAAATAAAGAAATGAA
1 AAAGAGAAA-AAACAAATGAA
*
46056857 ACAGAGAAAAA
1 AAAGAGAAAAA
46056868 TAGGGGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 11 0.41
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.06
Consensus pattern (20 bp):
AAAGAGAAAAAACAAATGAA
Found at i:46065270 original size:20 final size:21
Alignment explanation
Indices: 46065216--46065270 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
46065206 TTTGCCTAAT
* * *
46065216 ATGTGAATTGGATTGAATTGA
1 ATGTAAATTGTATTAAATTGA
46065237 ATGTAAATTGTATTAAATTG-
1 ATGTAAATTGTATTAAATTGA
46065257 ATGTTAAATT-TATT
1 ATG-TAAATTGTATT
46065271 TGTATAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (21 bp):
ATGTAAATTGTATTAAATTGA
Found at i:46065760 original size:26 final size:26
Alignment explanation
Indices: 46065689--46065762 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 26
46065679 GCAGCTCTTA
* *
46065689 TGAGCGTCCTGATATATGGCTC-TTC
1 TGAGCTTCCTGATAGATGGCTCTTTC
* * *
46065714 AGAGCTTCCCGAGTAGA-GGCTCTTTG
1 TGAGCTTCCTGA-TAGATGGCTCTTTC
46065740 TGAGCTTCCTGATTA-ATGGCTCT
1 TGAGCTTCCTGA-TAGATGGCTCT
46065763 CCGGACCTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
25 15 0.39
26 23 0.61
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.34
Consensus pattern (26 bp):
TGAGCTTCCTGATAGATGGCTCTTTC
Found at i:46069204 original size:48 final size:48
Alignment explanation
Indices: 46069132--46069493 Score: 509
Period size: 48 Copynumber: 7.6 Consensus size: 48
46069122 TACAGTACCA
* *
46069132 ATGCCATGTCCTC-GACATGTTCTTACA-T-GAATCCACATATCATC-CCTG
1 ATGCCATGTCC-CAGACATGGTCTTACACTGGCA--CACATATCATCGCC-G
*
46069180 ATGCCATGTCCCAGACATAGTCTTACACTGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* * *
46069228 ATGCCATGTCTCAGACATGGTCTTACACTGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* *
46069276 ATGCCCTGTCCCAGACATGGTCTTACACTAGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* * *
46069324 ATGCCATGTCTCAGACATGGTCTTACACTGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* *
46069372 ATGCCCTGTCCCAGACATGGTCTTACACTAGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* * *
46069420 ATGCCATGTCGCAGACATGGTCTTGCACTGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
46069468 ATGCCA-GTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
46069494 TAACCACATT
Statistics
Matches: 281, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
47 19 0.07
48 257 0.91
49 3 0.01
50 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
Found at i:46069299 original size:96 final size:96
Alignment explanation
Indices: 46069168--46069493 Score: 566
Period size: 96 Copynumber: 3.4 Consensus size: 96
46069158 ATGAATCCAC
* * *
46069168 ATATCATC-CCTGATGCCATGTCCCAGACATAGTCTTACACTGGCACACATATCATCGCCGATGC
1 ATATCATCACC-GATGCCCTGTCCCAGACATGGTCTTACACTAGCACACATATCATCGCCGATGC
46069232 CATGTCTCAGACATGGTCTTACACTGGCACAT
65 CATGTCTCAGACATGGTCTTACACTGGCACAT
46069264 ATATCATCACCGATGCCCTGTCCCAGACATGGTCTTACACTAGCACACATATCATCGCCGATGCC
1 ATATCATCACCGATGCCCTGTCCCAGACATGGTCTTACACTAGCACACATATCATCGCCGATGCC
46069329 ATGTCTCAGACATGGTCTTACACTGGCACAT
66 ATGTCTCAGACATGGTCTTACACTGGCACAT
46069360 ATATCATCACCGATGCCCTGTCCCAGACATGGTCTTACACTAGCACACATATCATCGCCGATGCC
1 ATATCATCACCGATGCCCTGTCCCAGACATGGTCTTACACTAGCACACATATCATCGCCGATGCC
* *
46069425 ATGTCGCAGACATGGTCTTGCACTGGCACAT
66 ATGTCTCAGACATGGTCTTACACTGGCACAT
* *
46069456 ATATCATCGCCGATG-CCAGTCCCAGACATGGTCTTACA
1 ATATCATCACCGATGCCCTGTCCCAGACATGGTCTTACA
46069494 TAACCACATT
Statistics
Matches: 222, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
95 22 0.10
96 198 0.89
97 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (96 bp):
ATATCATCACCGATGCCCTGTCCCAGACATGGTCTTACACTAGCACACATATCATCGCCGATGCC
ATGTCTCAGACATGGTCTTACACTGGCACAT
Found at i:46072120 original size:23 final size:23
Alignment explanation
Indices: 46072090--46072135 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
46072080 TATTGATGAC
46072090 AGTCAGTATTTTTCAATAACAAT
1 AGTCAGTATTTTTCAATAACAAT
46072113 AGTCAGTATTTTTCAATAACAAT
1 AGTCAGTATTTTTCAATAACAAT
46072136 CATTTAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (23 bp):
AGTCAGTATTTTTCAATAACAAT
Found at i:46082206 original size:26 final size:26
Alignment explanation
Indices: 46082175--46082282 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
46082165 TGAAATGCCC
*
46082175 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
46082201 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
46082227 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
46082253 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46082279 ATCA
1 ATCA
46082283 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:46095206 original size:40 final size:40
Alignment explanation
Indices: 46094938--46095206 Score: 421
Period size: 40 Copynumber: 6.7 Consensus size: 40
46094928 GCAAACACAT
* * * * *
46094938 TTGCCTTCGGGTTTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* *
46094978 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* *
46095018 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* *
46095058 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* *
46095098 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
46095138 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
46095178 TTGCCTTCGGGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGATATATT
46095207 CCAATGCTCA
Statistics
Matches: 210, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 210 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
Found at i:46106633 original size:2 final size:2
Alignment explanation
Indices: 46106626--46106655 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
46106616 CATTCCGAAG
46106626 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
46106656 CACAAGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46107190 original size:27 final size:28
Alignment explanation
Indices: 46107106--46107203 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
46107096 CATGAGATTG
* * * *
46107106 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
46107135 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
46107163 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46107190 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
46107204 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46107214 original size:27 final size:27
Alignment explanation
Indices: 46107134--46107216 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
46107124 TAAATTGTAC
* *
46107134 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
46107162 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
46107189 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
46107216 A
1 A
46107217 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:46107217 original size:29 final size:27
Alignment explanation
Indices: 46107106--46107217 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
46107096 CATGAGATTG
** * *
46107106 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
46107135 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
46107163 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
46107190 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
46107218 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:46118779 original size:40 final size:40
Alignment explanation
Indices: 46118724--46118802 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
46118714 TTACAAAATT
*
46118724 ATCCAGAGATCCACATCGAAAACAGTCTCGATCATTCAAG
1 ATCCAGAGATCCACATCGAAAACAGGCTCGATCATTCAAG
*
46118764 ATCCAGAGATCCACATTGAAAACAGGCTCGATCATTCAA
1 ATCCAGAGATCCACATCGAAAACAGGCTCGATCATTCAA
46118803 TCTACAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (40 bp):
ATCCAGAGATCCACATCGAAAACAGGCTCGATCATTCAAG
Found at i:46126152 original size:40 final size:39
Alignment explanation
Indices: 46126075--46126160 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
46126065 TAATGACTTA
* **
46126075 TCGGCTAAAATGGCATTTAATGTGCGGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAATGTGCAATTCGAAATAGCT
* * *
46126114 TCGGCTAAAAGTGGCACTTAGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAATGTGCAATTCGAAATAGCT
*
46126154 TTGGCTA
1 TCGGCTA
46126161 TATATATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 10 0.26
40 29 0.74
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAATGTGCAATTCGAAATAGCT
Found at i:46141325 original size:42 final size:41
Alignment explanation
Indices: 46141217--46141329 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 41
46141207 AACACCATAC
*
46141217 CAATGCCATATCCCAGATATGGTCTTACATTGGAACTCACAT
1 CAATGCCATATCCCAGATATGGTCTTACA-TCGAACTCACAT
* * *
46141259 CAATGCCAATAGCCCAGCTATGGTCTTACA-CGAAGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACATCGAA--CTCACAT
* **
46141302 CGATTTCATATCCCAGATATGGTCTTAC
1 CAATGCCATATCCCAGATATGGTCTTAC
46141330 CAATAATCTC
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 3 0.05
42 26 0.44
43 30 0.51
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (41 bp):
CAATGCCATATCCCAGATATGGTCTTACATCGAACTCACAT
Found at i:46141340 original size:42 final size:42
Alignment explanation
Indices: 46141217--46141340 Score: 110
Period size: 42 Copynumber: 2.9 Consensus size: 42
46141207 AACACCATAC
*
46141217 CAATGCCATATCCCAGATATGGTCTTA-CATTGGAA-CTCACAT
1 CAATGCCATATCCCAGATATGGTCTTACCAAT--AATCTCACAT
* * * * *
46141259 CAATGCCAATAGCCCAGCTATGGTCTTACACGA-AGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTAC-CAATAATCTCACAT
* **
46141302 CGATTTCATATCCCAGATATGGTCTTACCAATAATCTCA
1 CAATGCCATATCCCAGATATGGTCTTACCAATAATCTCA
46141341 AATAACCCTA
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
41 2 0.03
42 33 0.52
43 28 0.44
45 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACCAATAATCTCACAT
Found at i:46148290 original size:40 final size:40
Alignment explanation
Indices: 46148235--46148486 Score: 303
Period size: 40 Copynumber: 6.2 Consensus size: 40
46148225 TATTCGGATG
46148235 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
*
46148275 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
*
46148318 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* * *
46148358 ATATCCGGGCGAAGTCCTGAAGACATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
*
46148401 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* * * * *
46148441 ATATTCAGGCTAAGACCCGAAGGCATGTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
46148481 ATATCC
1 ATATCC
46148487 CGAAGGTACT
Statistics
Matches: 183, Mismatches: 18, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
39 4 0.02
40 105 0.57
41 2 0.01
43 68 0.37
44 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:46148385 original size:83 final size:83
Alignment explanation
Indices: 46148239--46148476 Score: 404
Period size: 83 Copynumber: 2.9 Consensus size: 83
46148229 CGGATGATAT
46148239 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTG
46148304 TGCGAGTAGTTGCTATAC
66 TGCGAGTAGTTGCTATAC
* * *
46148322 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCTGAAGACATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTG
46148387 TGCGAGTAGTTGCTATAC
66 TGCGAGTAGTTGCTATAC
* * * * *
46148405 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATTCAGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTG
46148470 TGCGAGT
66 TGCGAGT
46148477 TGCTATATCC
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 145 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (83 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTG
TGCGAGTAGTTGCTATAC
Found at i:46152718 original size:27 final size:27
Alignment explanation
Indices: 46152680--46152792 Score: 133
Period size: 27 Copynumber: 4.2 Consensus size: 27
46152670 AGCATGGCTG
* *
46152680 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
46152706 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
46152734 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
46152761 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
46152788 CCAGA
1 CCAGA
46152793 ACGCTTCCTC
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 5 0.06
27 55 0.71
28 17 0.22
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:46152772 original size:54 final size:54
Alignment explanation
Indices: 46152680--46152794 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
46152670 AGCATGGCTG
* *
46152680 CCAGAACAGATAATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
46152734 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
46152788 CCAGAAC
1 CCAGAAC
46152795 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:46152921 original size:26 final size:27
Alignment explanation
Indices: 46152882--46152952 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
46152872 CATGCTTTTC
* * *
46152882 GGGTATAACGGTAATTTTGC-ACCTAG
1 GGGTATAACAGTAATTTTCCAACATAG
46152908 GGGTATAACAGTAATTTTCCATACATAG
1 GGGTATAACAGTAATTTTCCA-ACATAG
* *
46152936 GGGTATTATAGTAATTT
1 GGGTATAACAGTAATTT
46152953 AGCTAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 18 0.47
28 20 0.53
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (27 bp):
GGGTATAACAGTAATTTTCCAACATAG
Found at i:46154430 original size:26 final size:26
Alignment explanation
Indices: 46154394--46154503 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
46154384 CATGAAATTC
46154394 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
46154420 TTATCATGAAACATTTACCCAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
46154446 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
46154472 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
46154498 TTATCA
1 TTATCA
46154504 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:46155786 original size:12 final size:13
Alignment explanation
Indices: 46155762--46155791 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
46155752 CACTTAGTTA
46155762 ATTTTAGGTTTTT
1 ATTTTAGGTTTTT
46155775 ATTTTA-GTTTTT
1 ATTTTAGGTTTTT
46155787 ATTTT
1 ATTTT
46155792 CTTTCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (13 bp):
ATTTTAGGTTTTT
Found at i:46156970 original size:20 final size:20
Alignment explanation
Indices: 46156927--46156973 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
46156917 AATTGATAAA
46156927 AATAAAAATAATAAAAATTT
1 AATAAAAATAATAAAAATTT
* *
46156947 -ATAAAAATAATTAAATTTT
1 AATAAAAATAATAAAAATTT
46156966 AATAAAAA
1 AATAAAAA
46156974 ATATAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AATAAAAATAATAAAAATTT
Found at i:46156982 original size:20 final size:19
Alignment explanation
Indices: 46156928--46156982 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
46156918 ATTGATAAAA
*
46156928 ATAAAAATAATAAAAATTT
1 ATAAAAATAATAAAATTTT
*
46156947 ATAAAAATAATTAAATTTT
1 ATAAAAATAATAAAATTTT
46156966 AATAAAAA-ATATAAAAT
1 -ATAAAAATA-ATAAAAT
46156983 CGTAAAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAATAATAAAATTTT
Found at i:46157035 original size:19 final size:20
Alignment explanation
Indices: 46157013--46157116 Score: 69
Period size: 21 Copynumber: 5.4 Consensus size: 20
46157003 TTGTAAAATT
46157013 TTATAAAAATCATATA-AAA
1 TTATAAAAATCATATAGAAA
46157032 TTAT-AAAAT-ATATAGAAA
1 TTATAAAAATCATATAGAAA
* * * *
46157050 -TATAGAAATAATTTATAAA
1 TTATAAAAATCATATAGAAA
* *
46157069 TTTTATAAAGTCATA-AGAAAA
1 TTATA-AAAATCATATAG-AAA
*
46157090 TTATAAAAAAT-ATAAAGAAA
1 TTAT-AAAAATCATATAGAAA
46157110 -TATAAAA
1 TTATAAAA
46157117 TTTGTAAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
17 8 0.12
18 16 0.24
19 14 0.21
20 10 0.15
21 17 0.26
22 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
TTATAAAAATCATATAGAAA
Found at i:46157038 original size:8 final size:9
Alignment explanation
Indices: 46157014--46157117 Score: 52
Period size: 9 Copynumber: 11.1 Consensus size: 9
46157004 TGTAAAATTT
46157014 TATA-AAAA
1 TATATAAAA
46157022 TCATATAAAA
1 T-ATATAAAA
46157032 T-TATAAAA
1 TATATAAAA
46157040 TATATAGAAA
1 TATATA-AAA
*
46157050 TATAGAAATAA
1 TATA-TAA-AA
* *
46157061 TTTATAAAT
1 TATATAAAA
* *
46157070 TTTATAAAG
1 TATATAAAA
*
46157079 TCATAAGAAAA
1 T-AT-ATAAAA
46157090 T-TATAAAA
1 TATATAAAA
*
46157098 AATATAAAGA
1 TATATAAA-A
*
46157108 AATATAAAA
1 TATATAAAA
46157117 T
1 T
46157118 TTGTAAAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
8 14 0.19
9 25 0.33
10 25 0.33
11 11 0.15
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (9 bp):
TATATAAAA
Found at i:46157124 original size:19 final size:20
Alignment explanation
Indices: 46157086--46157139 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
46157076 AAGTCATAAG
** *
46157086 AAAATTATAAAAAATATAAA
1 AAAATTATAAAATTTGTAAA
*
46157106 GAAA-TATAAAATTTGTAAA
1 AAAATTATAAAATTTGTAAA
46157125 AAAATTATAAAATTT
1 AAAATTATAAAATTT
46157140 ATCGTACCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAATTATAAAATTTGTAAA
Found at i:46157137 original size:20 final size:20
Alignment explanation
Indices: 46157081--46157141 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
46157071 TTATAAAGTC
* **
46157081 ATAAGAAAATTATAAAAAAT
1 ATAAAAAAATTATAAAATTT
*
46157101 ATAAAGAAA-TATAAAATTT
1 ATAAAAAAATTATAAAATTT
*
46157120 GTAAAAAAATTATAAAATTT
1 ATAAAAAAATTATAAAATTT
46157140 AT
1 AT
46157142 CGTACCAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAAAAAAATTATAAAATTT
Found at i:46161439 original size:53 final size:53
Alignment explanation
Indices: 46161381--46161491 Score: 195
Period size: 53 Copynumber: 2.1 Consensus size: 53
46161371 AGTATTTGGA
46161381 AACTTGATTTTCAGTATTTAGGCATCCAAGAGGTAAGTATCACTGGATATTCT
1 AACTTGATTTTCAGTATTTAGGCATCCAAGAGGTAAGTATCACTGGATATTCT
* *
46161434 AACTTGATTTTCAGTATTTAGGCTTCCAAGAGGTAAGTATCATTGGATATTCT
1 AACTTGATTTTCAGTATTTAGGCATCCAAGAGGTAAGTATCACTGGATATTCT
*
46161487 TACTT
1 AACTT
46161492 TTCTTATGCT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (53 bp):
AACTTGATTTTCAGTATTTAGGCATCCAAGAGGTAAGTATCACTGGATATTCT
Found at i:46164566 original size:20 final size:20
Alignment explanation
Indices: 46164541--46164587 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
46164531 TATGTGATTA
46164541 TATGAAATATGTGATATTCG
1 TATGAAATATGTGATATTCG
46164561 TATGAAATATGTGATATTCG
1 TATGAAATATGTGATATTCG
46164581 TATGAAA
1 TATGAAA
46164588 ATAAGATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.38
Consensus pattern (20 bp):
TATGAAATATGTGATATTCG
Found at i:46166978 original size:28 final size:28
Alignment explanation
Indices: 46166945--46166998 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
46166935 GACAGTCCAC
* *
46166945 AGGGACATTCCTCCAAGTATGAGTCCGT
1 AGGGACATTCCCCCAAGCATGAGTCCGT
46166973 AGGGACATTCCCCCAAGCATGAGTCC
1 AGGGACATTCCCCCAAGCATGAGTCC
46166999 ACAAGTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (28 bp):
AGGGACATTCCCCCAAGCATGAGTCCGT
Found at i:46167035 original size:29 final size:29
Alignment explanation
Indices: 46166957--46167075 Score: 96
Period size: 29 Copynumber: 4.1 Consensus size: 29
46166947 GGACATTCCT
* * * * *
46166957 CCAAGTATGAGTCCGTAGGGACAT-TCCC
1 CCAAGTATGAGCCCGCAGGTATATATCCA
* * * * *
46166985 CCAAGCATGAGTCCACAAGTATGTATCCA
1 CCAAGTATGAGCCCGCAGGTATATATCCA
* * *
46167014 CCAAGTATTAGCCCGTAGGTATATAACCA
1 CCAAGTATGAGCCCGCAGGTATATATCCA
* *
46167043 CCAAGTATGAGTCTGCAGGTATATATCCA
1 CCAAGTATGAGCCCGCAGGTATATATCCA
46167072 CCAA
1 CCAA
46167076 ATATAAACCT
Statistics
Matches: 69, Mismatches: 21, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
28 17 0.25
29 52 0.75
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (29 bp):
CCAAGTATGAGCCCGCAGGTATATATCCA
Found at i:46169027 original size:43 final size:42
Alignment explanation
Indices: 46168958--46169074 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 42
46168948 GAAAAGCTCG
* * * * * * *
46168958 TACAATGCCAACGTTCCAGACGAGGTCTTTCATGTAATTAAA
1 TACAAAGCCAATGTCCCAGACAAGGTCTTACATGAAATCAAA
* * * *
46169000 TATCGATGCCACTGTCCCAGACAAGGTCTTACATGAAATCATA
1 TA-CAAAGCCAATGTCCCAGACAAGGTCTTACATGAAATCAAA
*
46169043 TACAAAGCCAATGTCCCAGACATGGTCTTACA
1 TACAAAGCCAATGTCCCAGACAAGGTCTTACA
46169075 CGTAAATCTC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
TACAAAGCCAATGTCCCAGACAAGGTCTTACATGAAATCAAA
Found at i:46169124 original size:20 final size:20
Alignment explanation
Indices: 46169099--46169136 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46169089 CGATGCCAAC
*
46169099 GTCCCAAACGTGGTCTTAAT
1 GTCCCAAACATGGTCTTAAT
*
46169119 GTCCCAGACATGGTCTTA
1 GTCCCAAACATGGTCTTA
46169137 CACGTAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (20 bp):
GTCCCAAACATGGTCTTAAT
Found at i:46169153 original size:64 final size:64
Alignment explanation
Indices: 46169052--46169180 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
46169042 ATACAAAGCC
46169052 AATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACGTCCCAAACGTGGTCTT
1 AATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACGTCCCAAACGTGGTCTT
* *
46169116 AATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAATGTCCCAGACGTGGTCTT
1 AATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACGTCCCAAACGTGGTCTT
46169180 A
1 A
46169181 CACGAAATCA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (64 bp):
AATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACGTCCCAAACGTGGTCTT
Found at i:46176769 original size:22 final size:21
Alignment explanation
Indices: 46176734--46176809 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
46176724 AAAAGGTATC
* * *
46176734 TACAAATTAAATCTCTAGGAT
1 TACAAATCATATCTCTAAGAT
46176755 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
46176778 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
46176797 TGC-AATCATATCT
1 TACAAATCATATCT
46176810 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 9 0.20
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:46176794 original size:19 final size:19
Alignment explanation
Indices: 46176770--46176857 Score: 146
Period size: 19 Copynumber: 4.8 Consensus size: 19
46176760 AATCATATCT
46176770 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46176789 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
46176807 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
46176824 TCTAAGATAGCATATCATA
1 TCTAAGATTGCATATCATA
46176843 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
46176858 TATTGAAGAC
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.25
19 33 0.52
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46177320 original size:44 final size:45
Alignment explanation
Indices: 46177204--46177403 Score: 267
Period size: 45 Copynumber: 4.5 Consensus size: 45
46177194 AGAAGGCGAT
* * *
46177204 ATCTGCTATCTTTGATTTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
46177249 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
46177294 ATCTGCT-TCTTCAATCTGCTCACCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
46177338 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
46177383 ATCTATCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
46177404 TCGATGTAAA
Statistics
Matches: 136, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 40 0.29
45 96 0.71
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:46177329 original size:89 final size:89
Alignment explanation
Indices: 46177221--46177386 Score: 278
Period size: 89 Copynumber: 1.9 Consensus size: 89
46177211 ATCTTTGATT
* * *
46177221 TGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATACAAA
46177286 GACGCCAAATCTGCTTCTTCAATC
66 GACGCCAAATCTGCTTCTTCAATC
* *
46177310 TGCTCACCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAAA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATACAAA
*
46177375 GATGCCAAATCT
66 GACGCCAAATCT
46177387 ATCATCTTGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (89 bp):
TGCTCACCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATACAAA
GACGCCAAATCTGCTTCTTCAATC
Found at i:46177548 original size:78 final size:78
Alignment explanation
Indices: 46177417--46177647 Score: 356
Period size: 78 Copynumber: 3.0 Consensus size: 78
46177407 ATGTAAACAC
* * * *
46177417 ATGAAGGTCAGATCTGCTATTTCTTCGATTTGCTCCCCGTCTAATACAAAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATATCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
46177482 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
46177495 ATGAAGGTCTA-ATCTGTTATATCTTCGATCTGCTCCCCGTTTAATATAGAGATGCCAAATCATC
1 ATGAAGGTC-AGATCTGCTATATCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATC
46177559 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * *
46177573 ATGAAGGTCAGATCTGCTGTGTCTTTGATCTGCTCCCCATCTAATATAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATATCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
46177638 TGGATCTGCT
66 TGGATCTGCT
46177648 ATGTCTTCGA
Statistics
Matches: 139, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
77 1 0.01
78 137 0.99
79 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATATCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:46177805 original size:344 final size:348
Alignment explanation
Indices: 46177328--46177977 Score: 995
Period size: 344 Copynumber: 1.9 Consensus size: 348
46177318 GTCTAATACA
*
46177328 GAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAAAGATGCCAAATCTATCATC
1 GAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGACTAATACAAAGATGCCAAA--TATCATC
* * * * * * *
46177393 TTGGATCTGCTTCGATGTAAACACATGAAGGTCAGATCTGCTATTTCTTCGATTTGCTCCCCGTC
64 TTAGATCTACTTCGACGTAAACACATGAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCCCGTC
*
46177458 TAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCTAATCTGTTATATCTTCGA
129 TAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATATCTTCGA
* * * *
46177523 TCTGCTCCCCGTTTAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCT
194 TCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCATGGATCTACTTCAATGAAGGTCAGATCT
*
46177588 GCTGTGTCTTTGATCTGCTCCCCATCTAATATAGAGATGCCAAATCATCTTGGATCTGCTATGTC
259 GCTGTGTCTTCGATCTGCTCCCCATCTAATATAGAGATGCCAAATCATCTTGGATCTGCTATGTC
46177653 TTCGATCTTCTTTTCGTCGAATATG
324 TTCGATCTTCTTTTCGTCGAATATG
* * * * * *
46177678 GAGATGCCAAATCTGTT-TCTTCGATTTGTTCTCTGAC-AGTACAGAGATGCC-AA-ATCATCTT
1 GAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGACTAATACAAAGATGCCAAATATCATCTT
* *
46177739 AGATCTACTTC-AGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTCGTCT
66 AGATCTACTTCGA-CGTAAACACATGAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCCCGTCT
* *
46177803 AATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGAT
130 AATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATATCTTCGAT
*
46177868 CTGCTCCCCGTCTAATACAGAGATTCCAAATCATCATGGATCTACTTCAATGAAGGTCAGATCTG
195 CTGCTCCCCGTCTAATACAGAGATGCCAAATCATCATGGATCTACTTCAATGAAGGTCAGATCTG
* *
46177933 CTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGTCAAATC
260 CTGTGTCTTCGATCTGCTCCCCATCTAATATAGAGATGCCAAATC
46177978 TGTTTCTTCG
Statistics
Matches: 272, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
343 1 0.00
344 225 0.83
347 2 0.01
348 12 0.04
349 15 0.06
350 17 0.06
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (348 bp):
GAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGACTAATACAAAGATGCCAAATATCATCTT
AGATCTACTTCGACGTAAACACATGAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCCCGTCTA
ATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATATCTTCGATC
TGCTCCCCGTCTAATACAGAGATGCCAAATCATCATGGATCTACTTCAATGAAGGTCAGATCTGC
TGTGTCTTCGATCTGCTCCCCATCTAATATAGAGATGCCAAATCATCTTGGATCTGCTATGTCTT
CGATCTTCTTTTCGTCGAATATG
Found at i:46177900 original size:78 final size:77
Alignment explanation
Indices: 46177771--46177977 Score: 308
Period size: 78 Copynumber: 2.7 Consensus size: 77
46177761 GTGAAAGCCA
* * * * *
46177771 AATCTGCTATGTCTTCGATTTGCTCCTCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATTCCAAATCATCATGGATCTACT
46177836 TCAATGAAGGTCC
66 TCAATGAAGGT-C
*
46177849 AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATTCCAAATCATCATGGATCTACT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATTCCAAATCATCATGGATCTACT
46177914 TCAATGAAGGTC
66 TCAATGAAGGTC
* *
46177926 AGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGT-CAAATC
1 A-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGAT-TCCAAATC
46177978 TGTTTCTTCG
Statistics
Matches: 118, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
77 2 0.02
78 115 0.97
79 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (77 bp):
AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATTCCAAATCATCATGGATCTACT
TCAATGAAGGTC
Found at i:46188585 original size:38 final size:38
Alignment explanation
Indices: 46188524--46188750 Score: 217
Period size: 38 Copynumber: 5.9 Consensus size: 38
46188514 ATTTGATGTG
* *
46188524 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
*
46188564 TATCCGGGTTAAATCCCGCAGGCTTCGCGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
* * *
46188602 TATCCAGGTTAAATCCCACAGGCTTCGCGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
** * *
46188640 TATCTAGGTTAAATCCCGCAGGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * *
46188678 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
46188716 TATCTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGG
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGG
46188751 TGACTGGATT
Statistics
Matches: 162, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
37 2 0.01
38 122 0.75
39 13 0.08
40 25 0.15
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:46190519 original size:19 final size:20
Alignment explanation
Indices: 46190495--46190532 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46190485 GGTACCACCA
46190495 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
46190514 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
46190533 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:46190877 original size:93 final size:93
Alignment explanation
Indices: 46190762--46190932 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
46190752 GCCCCTAAGT
*
46190762 GAACCCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACCCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
46190826 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
46190855 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACCCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
46190920 CGAGTTCGGATGC
66 CGAGTTCGGATGC
46190933 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACCCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46190928 original size:46 final size:47
Alignment explanation
Indices: 46190757--46190929 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 47
46190747 AACCCGCCCC
* * * *
46190757 TAAGTGAACCCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * *
46190803 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCATCCA
* *
46190851 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
46190896 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46190930 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.53
47 31 0.29
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:46190948 original size:46 final size:45
Alignment explanation
Indices: 46190807--46190948 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
46190797 CATCCATAAA
46190807 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
46190854 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
46190900 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
46190946 TGA
1 TGA
46190949 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:46194585 original size:23 final size:22
Alignment explanation
Indices: 46194542--46194599 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
46194532 AAAAGGTATC
* *
46194542 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
46194563 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
46194586 TACATATCATATCT
1 TACAAATCATATCT
46194600 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:46194602 original size:19 final size:20
Alignment explanation
Indices: 46194555--46194614 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
46194545 AAATTAAATC
*
46194555 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
46194578 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
46194597 TCTAAGATTGCATATCAT
1 TCTAAGATTACATATCAT
46194615 TGAAGATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
22 7 0.20
23 11 0.31
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:46194622 original size:17 final size:19
Alignment explanation
Indices: 46194581--46194623 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
46194571 CATATCTTCT
*
46194581 AAGATTACATATCATATCT
1 AAGATTACATATCATATCG
*
46194600 AAGATTGCATATCAT-T-G
1 AAGATTACATATCATATCG
46194617 AAGATTA
1 AAGATTA
46194624 TATTTCCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 14 0.67
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
AAGATTACATATCATATCG
Found at i:46196656 original size:12 final size:12
Alignment explanation
Indices: 46196639--46196672 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
46196629 AAAACCTTAG
46196639 TTTTTCCTTTTC
1 TTTTTCCTTTTC
46196651 TTTTT-CTTTTC
1 TTTTTCCTTTTC
46196662 TTCTTTCCTTT
1 TT-TTTCCTTT
46196673 CTCCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:46196773 original size:3 final size:3
Alignment explanation
Indices: 46196758--46196803 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
46196748 ATATATTAGT
*
46196758 TAA TAA TAT TAA TAA TAA TACA TAA TAA TAA T-A TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
46196802 TA
1 TA
46196804 TTTAATTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:46196783 original size:13 final size:12
Alignment explanation
Indices: 46196758--46196803 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 12
46196748 ATATATTAGT
*
46196758 TAATAATATTAA
1 TAATAATAATAA
46196770 TAATAATACATAA
1 TAATAATA-ATAA
46196783 TAATAAT-ATAA
1 TAATAATAATAA
46196794 T-ATAATAATA
1 TAATAATAATA
46196804 TTTAATTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
10 5 0.16
11 8 0.26
12 8 0.26
13 10 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAA
Found at i:46196788 original size:16 final size:15
Alignment explanation
Indices: 46196758--46196803 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
46196748 ATATATTAGT
*
46196758 TAATAATATTAATAA
1 TAATAATAATAATAA
46196773 TAATACATAATAATAA
1 TAATA-ATAATAATAA
46196789 T-ATAAT-ATAATAA
1 TAATAATAATAATAA
46196802 TA
1 TA
46196804 TTTAATTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 8 0.29
14 2 0.07
15 8 0.29
16 10 0.36
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:46197408 original size:10 final size:11
Alignment explanation
Indices: 46197392--46197433 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
46197382 CTCCTTATAC
46197392 CTAATTAACCT
1 CTAATTAACCT
*
46197403 -TAATTAAACT
1 CTAATTAACCT
*
46197413 CTAATTAACCA
1 CTAATTAACCT
46197424 CTCAATTAAC
1 CT-AATTAAC
46197434 TTCGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (11 bp):
CTAATTAACCT
Found at i:46197466 original size:13 final size:13
Alignment explanation
Indices: 46197450--46197476 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46197440 AATATTTTTA
46197450 ATAAATATTTACG
1 ATAAATATTTACG
46197463 ATAAATATTTACG
1 ATAAATATTTACG
46197476 A
1 A
46197477 ATTCGTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
ATAAATATTTACG
Found at i:46198056 original size:30 final size:31
Alignment explanation
Indices: 46198032--46198090 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
46198022 GTAAATACTC
* *
46198032 AAAATTTGAAGGATTAA-AGTGTAAATATGA
1 AAAAGTTGAAGGACTAATAGTGTAAATATGA
*
46198062 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
46198091 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATGA
Found at i:46198367 original size:8 final size:8
Alignment explanation
Indices: 46198344--46198368 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46198334 TTTAATAATA
46198344 TATTTTAT
1 TATTTTAT
46198352 TATTTTAT
1 TATTTTAT
46198360 TATTTTAT
1 TATTTTAT
46198368 T
1 T
46198369 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:46199658 original size:18 final size:18
Alignment explanation
Indices: 46199609--46199650 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
46199599 AACAATGTTA
*
46199609 GAAATGACCAATTTGCAT
1 GAAATGACTAATTTGCAT
46199627 GAAATGACTAATTTGCAT
1 GAAATGACTAATTTGCAT
46199645 GAAATG
1 GAAATG
46199651 GATTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (18 bp):
GAAATGACTAATTTGCAT
Found at i:46206183 original size:40 final size:39
Alignment explanation
Indices: 46206152--46206361 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
46206142 GGACTAAGAT
* *
46206152 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
46206192 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
46206232 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
46206272 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
46206312 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
46206351 CCGAAGGCATT
1 CCGAAGGCATT
46206362 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:46206315 original size:120 final size:120
Alignment explanation
Indices: 46206099--46206361 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
46206089 TTGAATGCTG
* *
46206099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
46206163 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
46206219 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
46206282 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
46206338 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46206362 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:46206381 original size:79 final size:80
Alignment explanation
Indices: 46206100--46206396 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
46206090 TGAATGCTGT
* ** * * * **
46206100 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
46206163 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
46206180 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
46206244 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
46206260 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
46206324 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
46206339 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
46206397 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:46214131 original size:40 final size:39
Alignment explanation
Indices: 46214100--46214309 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
46214090 GGACTAAGAT
* *
46214100 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
46214140 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
46214180 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
46214220 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
46214260 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
46214299 CCGAAGGCATT
1 CCGAAGGCATT
46214310 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:46214263 original size:120 final size:120
Alignment explanation
Indices: 46214047--46214309 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
46214037 TTGAATGCTG
* *
46214047 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
46214111 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
46214167 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
46214230 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
46214286 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46214310 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:46214329 original size:79 final size:80
Alignment explanation
Indices: 46214048--46214344 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
46214038 TGAATGCTGT
* ** * * * **
46214048 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
46214111 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
46214128 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
46214192 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
46214208 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
46214272 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
46214287 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
46214345 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:46217102 original size:6 final size:6
Alignment explanation
Indices: 46217093--46217120 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
46217083 GTTATTGTTA
46217093 TTATTC TTATTC TTATTC TTATTC TTAT
1 TTATTC TTATTC TTATTC TTATTC TTAT
46217121 ACTTGTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATTC
Found at i:46227087 original size:16 final size:16
Alignment explanation
Indices: 46227066--46227117 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
46227056 CCACTATTTA
46227066 TTTATTTATTATTATT
1 TTTATTTATTATTATT
46227082 TTTATTTAAATT-TTATT
1 TTTATTT--ATTATTATT
*
46227099 TTGATTT-TTATCTATT
1 TTTATTTATTAT-TATT
46227115 TTT
1 TTT
46227118 GAAGACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 2 0.07
15 1 0.03
16 13 0.43
17 11 0.37
18 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTATTTATTATTATT
Found at i:46228678 original size:22 final size:22
Alignment explanation
Indices: 46228653--46228718 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
46228643 TGTCGTAATC
*
46228653 TTAGTTAATTAGATAATCAGTG
1 TTAGTTAATTAGATAATCAATG
* *
46228675 TTAG-T--TTA-A-AA-CATTC
1 TTAGTTAATTAGATAATCAATG
46228691 TTAGTTAATTAGATAATCAATG
1 TTAGTTAATTAGATAATCAATG
46228713 TTAGTT
1 TTAGTT
46228719 TAAAACATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 7 0.21
17 3 0.09
18 1 0.03
19 6 0.18
20 1 0.03
21 3 0.09
22 13 0.38
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (22 bp):
TTAGTTAATTAGATAATCAATG
Found at i:46228702 original size:38 final size:38
Alignment explanation
Indices: 46228651--46228729 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
46228641 TCTGTCGTAA
*
46228651 TCTTAGTTAATTAGATAATCAGTGTTAGTTTAAAACAT
1 TCTTAGTTAATTAGATAATCAATGTTAGTTTAAAACAT
46228689 TCTTAGTTAATTAGATAATCAATGTTAGTTTAAAACAT
1 TCTTAGTTAATTAGATAATCAATGTTAGTTTAAAACAT
46228727 TCT
1 TCT
46228730 CTTAGTTGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (38 bp):
TCTTAGTTAATTAGATAATCAATGTTAGTTTAAAACAT
Found at i:46232321 original size:49 final size:49
Alignment explanation
Indices: 46232259--46232387 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
46232249 ATCAAAGTCG
* * * *
46232259 ATGCCATGTCCCAGACCGGTCTTGCACTGACTTTCATATATCGAG-GCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATAT-AAGTGCCA
* * * * *
46232308 ATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATAAGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATAAGTGCCA
46232357 ATGCCATGTCCCAGACAGGTCTTACACTGAC
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC
46232388 ACAAAACAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
48 2 0.03
49 66 0.97
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATAAGTGCCA
Found at i:46235274 original size:52 final size:51
Alignment explanation
Indices: 46235216--46235366 Score: 130
Period size: 52 Copynumber: 2.9 Consensus size: 51
46235206 GACGGAAAGG
46235216 ATGTGATATGTACTTCCATATAAGACCATAGTTGGACTATGGCATCAGTACA
1 ATGTGATATGTA-TTCCATATAAGACCATAGTTGGACTATGGCATCAGTACA
* * * * ***
46235268 ATGTGAT-TCG-AGATCTCGTATAAGACCATAGTTGGGCTATGGCATCGGTGTG
1 ATGTGATAT-GTA-TTC-CATATAAGACCATAGTTGGACTATGGCATCAGTACA
*
46235320 ATGTGATAAAGTGATTCCATATAAGACCATA-TCTGGGA-TATGGCATC
1 ATGTGAT-ATGT-ATTCCATATAAGACCATAGT-T-GGACTATGGCATC
46235367 GGTATGTTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
51 4 0.05
52 46 0.58
53 24 0.30
54 4 0.05
55 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (51 bp):
ATGTGATATGTATTCCATATAAGACCATAGTTGGACTATGGCATCAGTACA
Found at i:46236192 original size:20 final size:20
Alignment explanation
Indices: 46236163--46236237 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
46236153 TGCCCATGGG
* *
46236163 CAGGTCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTCC
* *
46236183 CAGGCAACACGGGCGTGTCC
1 CAGGCCACACGGGCATGTCC
46236203 CAGGCCACACGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
*
46236223 CAGGCCATACGGGCA
1 CAGGCCACACGGGCA
46236238 GGTGCCCCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.21, C:0.35, G:0.32, T:0.12
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:46243277 original size:312 final size:311
Alignment explanation
Indices: 46242671--46243294 Score: 1140
Period size: 312 Copynumber: 2.0 Consensus size: 311
46242661 CTTGGGAAAC
*
46242671 TGATAATGCTCTAGAATAACCTTTTTTTTGTATTAATCATGTGTTTATTCTGGGCTTGATCCTAC
1 TGATAATGCTCTAGAATAACCTTTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTAC
*
46242736 TAATTTGAGCTATTTTTGTCTTTTTATCGATTAGGGACTGATTTAGAGGAAAAAGCAAAATTAAG
66 TAATTTGAGCTATTTATGTCTTTTTATCGATTAGGGACTGATTTAGAGGAAAAAGCAAAATTAAG
* *
46242801 GGACAAAAGTGCGAATTTGGAGACATAATGGGCTGATATGCGACGCAGGAAAAAGATTGTGCCAA
131 GGACAAAAGTGCGAATTTGGAGACACAATGGGCTAATATGCGACGCAGGAAAAAGATTGTGCCAA
46242866 AAGTGCAAGCATGGAAGACACAAGGACTAAAAACGCAAAAAGAAGAGATTTTATTTTATAAGACT
196 AAGTGCAAGCATGGAAGACACAAGGACTAAAAACGCAAAAAGAAGAGATTTTATTTTATAAGACT
* *
46242931 CCATTTTATTAGGATAATTACTATTAAGATAATTATTAGGATTATTTAATT
261 CCATTTTATTAGGATAATTAATATTAAAATAATTATTAGGATTATTTAATT
* *
46242982 TGATAATGCTCTAGAATAACGTATTTTTATGTATTAATCATGTGTTTATTTTGGGCTTGATCCTA
1 TGATAATGCTCTAGAATAACCT-TTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTA
* *
46243047 CTAATTTGAGCTATTTATGTCTTTTTATCGATTAGGGACTGATTTGGAGGCAAAAGCAAAATTAA
65 CTAATTTGAGCTATTTATGTCTTTTTATCGATTAGGGACTGATTTAGAGGAAAAAGCAAAATTAA
46243112 GGGACAAAAGTGCGAATTTGGAGACACAATGGGCTAATATGCGACGCAGGAAAAAGATTGTGCCA
130 GGGACAAAAGTGCGAATTTGGAGACACAATGGGCTAATATGCGACGCAGGAAAAAGATTGTGCCA
*
46243177 AAAGTGCGAGCATGGAAGACACAAGGACTAAAAACGCAAAAAGAAGAGATTTTATTTTATAAGAC
195 AAAGTGCAAGCATGGAAGACACAAGGACTAAAAACGCAAAAAGAAGAGATTTTATTTTATAAGAC
46243242 TCCATTTTATTAGGATAATTAATATTAAAATAATTATTAGGATTATTTAATT
260 TCCATTTTATTAGGATAATTAATATTAAAATAATTATTAGGATTATTTAATT
46243294 T
1 T
46243295 TAGGATTTTA
Statistics
Matches: 301, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
311 21 0.07
312 280 0.93
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (311 bp):
TGATAATGCTCTAGAATAACCTTTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTAC
TAATTTGAGCTATTTATGTCTTTTTATCGATTAGGGACTGATTTAGAGGAAAAAGCAAAATTAAG
GGACAAAAGTGCGAATTTGGAGACACAATGGGCTAATATGCGACGCAGGAAAAAGATTGTGCCAA
AAGTGCAAGCATGGAAGACACAAGGACTAAAAACGCAAAAAGAAGAGATTTTATTTTATAAGACT
CCATTTTATTAGGATAATTAATATTAAAATAATTATTAGGATTATTTAATT
Found at i:46255730 original size:28 final size:28
Alignment explanation
Indices: 46255698--46255795 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
46255688 TATAGCCTAC
* *
46255698 TAGGCTCAATCTCTTTCATATGGCCCAT
1 TAGGCCCAATCACTTTCATATGGCCCAT
* *
46255726 TAGGCCCATTCACATTT-ATGTGGCCCAT
1 TAGGCCCAATCAC-TTTCATATGGCCCAT
* * *
46255754 TAGGCCCAAATCACATTCATAT-GACCAC
1 TAGGCCC-AATCACTTTCATATGGCCCAT
46255782 TAGGCCCAAATCAC
1 TAGGCCC-AATCAC
46255796 AATTACAGTC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
28 47 0.81
29 11 0.19
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.28
Consensus pattern (28 bp):
TAGGCCCAATCACTTTCATATGGCCCAT
Found at i:46255904 original size:19 final size:18
Alignment explanation
Indices: 46255871--46255907 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
46255861 TGGGCCCAAC
46255871 AGCCCATCGAGCCCATTT
1 AGCCCATCGAGCCCATTT
*
46255889 AGCCCATTCTAGCCCATTT
1 AGCCCA-TCGAGCCCATTT
46255908 GGCCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.38, G:0.14, T:0.27
Consensus pattern (18 bp):
AGCCCATCGAGCCCATTT
Found at i:46255916 original size:19 final size:19
Alignment explanation
Indices: 46255880--46255916 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46255870 CAGCCCATCG
*
46255880 AGCCCATTTAGCCCATTCT
1 AGCCCATTTAGCCAATTCT
*
46255899 AGCCCATTTGGCCAATTC
1 AGCCCATTTAGCCAATTC
46255917 ACAACCCAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.30
Consensus pattern (19 bp):
AGCCCATTTAGCCAATTCT
Found at i:46257943 original size:40 final size:37
Alignment explanation
Indices: 46257877--46258011 Score: 143
Period size: 35 Copynumber: 3.7 Consensus size: 37
46257867 CATGCCAAAG
46257877 TGTGAAATGTAGGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
*
46257912 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGACT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * * *
46257952 TAAGAAACGTAGGTATGGCATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
* *
46257987 TGTAAAATGTACGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
46258012 ATGAGGAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
35 47 0.58
38 2 0.02
39 2 0.02
40 30 0.37
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:46260028 original size:320 final size:320
Alignment explanation
Indices: 46259446--46260085 Score: 1280
Period size: 320 Copynumber: 2.0 Consensus size: 320
46259436 TATAGCCGAA
46259446 ATCCTTATGGCTAAATTCCCATTTCGGCTCCATCACTTCCTTCTTCTCATCTCCTCGTTTTTCTC
1 ATCCTTATGGCTAAATTCCCATTTCGGCTCCATCACTTCCTTCTTCTCATCTCCTCGTTTTTCTC
46259511 CCTGATAACTCCCCAATCTATTTCCTAAATTTTCTCTTCTGAACACTCCCCTTAGAGTCGATCTT
66 CCTGATAACTCCCCAATCTATTTCCTAAATTTTCTCTTCTGAACACTCCCCTTAGAGTCGATCTT
46259576 CACCCCACTTCCAACCTTCTAGAAGGCCCAAAATTAAGCTCCTAAAAATACTAAGCTAGGATTCG
131 CACCCCACTTCCAACCTTCTAGAAGGCCCAAAATTAAGCTCCTAAAAATACTAAGCTAGGATTCG
46259641 AACCTTGGATCTCCTTGCTAGCTACTAACGCCACCTCCCTACACTCTAAGTGGCATCACTTAGTC
196 AACCTTGGATCTCCTTGCTAGCTACTAACGCCACCTCCCTACACTCTAAGTGGCATCACTTAGTC
46259706 ACTCTTCCACAAGGCTTTTTGATGTCATTTTCCCCTATTTTTATTTAAAAGCCCAACTAC
261 ACTCTTCCACAAGGCTTTTTGATGTCATTTTCCCCTATTTTTATTTAAAAGCCCAACTAC
46259766 ATCCTTATGGCTAAATTCCCATTTCGGCTCCATCACTTCCTTCTTCTCATCTCCTCGTTTTTCTC
1 ATCCTTATGGCTAAATTCCCATTTCGGCTCCATCACTTCCTTCTTCTCATCTCCTCGTTTTTCTC
46259831 CCTGATAACTCCCCAATCTATTTCCTAAATTTTCTCTTCTGAACACTCCCCTTAGAGTCGATCTT
66 CCTGATAACTCCCCAATCTATTTCCTAAATTTTCTCTTCTGAACACTCCCCTTAGAGTCGATCTT
46259896 CACCCCACTTCCAACCTTCTAGAAGGCCCAAAATTAAGCTCCTAAAAATACTAAGCTAGGATTCG
131 CACCCCACTTCCAACCTTCTAGAAGGCCCAAAATTAAGCTCCTAAAAATACTAAGCTAGGATTCG
46259961 AACCTTGGATCTCCTTGCTAGCTACTAACGCCACCTCCCTACACTCTAAGTGGCATCACTTAGTC
196 AACCTTGGATCTCCTTGCTAGCTACTAACGCCACCTCCCTACACTCTAAGTGGCATCACTTAGTC
46260026 ACTCTTCCACAAGGCTTTTTGATGTCATTTTCCCCTATTTTTATTTAAAAGCCCAACTAC
261 ACTCTTCCACAAGGCTTTTTGATGTCATTTTCCCCTATTTTTATTTAAAAGCCCAACTAC
46260086 TCCCAACCCT
Statistics
Matches: 320, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
320 320 1.00
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (320 bp):
ATCCTTATGGCTAAATTCCCATTTCGGCTCCATCACTTCCTTCTTCTCATCTCCTCGTTTTTCTC
CCTGATAACTCCCCAATCTATTTCCTAAATTTTCTCTTCTGAACACTCCCCTTAGAGTCGATCTT
CACCCCACTTCCAACCTTCTAGAAGGCCCAAAATTAAGCTCCTAAAAATACTAAGCTAGGATTCG
AACCTTGGATCTCCTTGCTAGCTACTAACGCCACCTCCCTACACTCTAAGTGGCATCACTTAGTC
ACTCTTCCACAAGGCTTTTTGATGTCATTTTCCCCTATTTTTATTTAAAAGCCCAACTAC
Found at i:46263248 original size:28 final size:28
Alignment explanation
Indices: 46263216--46263313 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
46263206 TATAGCCTAC
* *
46263216 TAGGCTCAATCTCTTTCATATGGCCCAT
1 TAGGCCCAATCACTTTCATATGGCCCAT
* *
46263244 TAGGCCCATTCACATTT-ATGTGGCCCAT
1 TAGGCCCAATCAC-TTTCATATGGCCCAT
* * *
46263272 TAGGCCCAAATCACATTCATAT-GACCAC
1 TAGGCCC-AATCACTTTCATATGGCCCAT
46263300 TAGGCCCAAATCAC
1 TAGGCCC-AATCAC
46263314 AATTACAGTC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
28 47 0.81
29 11 0.19
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.28
Consensus pattern (28 bp):
TAGGCCCAATCACTTTCATATGGCCCAT
Found at i:46263422 original size:19 final size:18
Alignment explanation
Indices: 46263389--46263425 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
46263379 TGGGCCCAAC
46263389 AGCCCATCGAGCCCATTT
1 AGCCCATCGAGCCCATTT
*
46263407 AGCCCATTCTAGCCCATTT
1 AGCCCA-TCGAGCCCATTT
46263426 GGCCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.38, G:0.14, T:0.27
Consensus pattern (18 bp):
AGCCCATCGAGCCCATTT
Found at i:46263434 original size:19 final size:19
Alignment explanation
Indices: 46263398--46263434 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46263388 CAGCCCATCG
*
46263398 AGCCCATTTAGCCCATTCT
1 AGCCCATTTAGCCAATTCT
*
46263417 AGCCCATTTGGCCAATTC
1 AGCCCATTTAGCCAATTC
46263435 ACAACCCAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.30
Consensus pattern (19 bp):
AGCCCATTTAGCCAATTCT
Found at i:46265814 original size:35 final size:34
Alignment explanation
Indices: 46265735--46266028 Score: 202
Period size: 35 Copynumber: 8.4 Consensus size: 34
46265725 AAGCCGGTCC
** * *
46265735 TCTTTCAAAAAACATCTCACCACAACA-CCAAACTT
1 TCTTTCAATTAACATC-CACCACAACATCGATAC-T
* *
46265770 CTCTTTCAATTAACAGTCCACCACGACATCAATACT
1 -TCTTTCAATTAACA-TCCACCACAACATCGATACT
*
46265806 TCTTTCAATTAACATCCCACTACAACATCGATACT
1 TCTTTCAATTAACAT-CCACCACAACATCGATACT
* * * *
46265841 TCATTCATTTAACATCTCACCATAA-AACTGATACT
1 TCTTTCAATTAACATC-CACCACAACATC-GATACT
* * * *
46265876 TCTTTTAATGAGCATCTCGCCACAACATCGATACT
1 TCTTTCAATTAACATC-CACCACAACATCGATACT
* * *
46265911 TCATTCATTTAACATCC-CGCAACAACACCGATACT
1 TCTTTCAATTAACATCCAC-C-ACAACATCGATACT
* * * *
46265946 TCTTCCAATTTAACGTCCCACCACAACACCAATAAC-
1 TCTTTCAA-TTAACAT-CCACCACAACATCGAT-ACT
*
46265982 TCTTTCAATTAACATCCCACCACAA-ATTTGATACT
1 TCTTTCAATTAACAT-CCACCACAACA-TCGATACT
*
46266017 TCATTCAATTAA
1 TCTTTCAATTAA
46266029 TATCAAGAAG
Statistics
Matches: 206, Mismatches: 38, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
33 1 0.00
34 9 0.04
35 137 0.67
36 47 0.23
37 11 0.05
38 1 0.00
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.29
Consensus pattern (34 bp):
TCTTTCAATTAACATCCACCACAACATCGATACT
Found at i:46265879 original size:70 final size:70
Alignment explanation
Indices: 46265801--46266028 Score: 242
Period size: 70 Copynumber: 3.2 Consensus size: 70
46265791 CACGACATCA
* * *
46265801 ATACTTCTTTCAATTAACATCCCACTACAACATCGATACTTCATTCATTTAACATCTCACCATAA
1 ATACTTCTTTCAATTAACATCCCACCACAACATCGATACTTCATTCATTTAACATCCCACCACAA
46265866 AACTG
66 AACTG
* * * * * * *
46265871 ATACTTCTTTTAATGAGCATCTCGCCACAACATCGATACTTCATTCATTTAACATCCCGCAACAA
1 ATACTTCTTTCAATTAACATCCCACCACAACATCGATACTTCATTCATTTAACATCCCACCACAA
* *
46265936 CACCG
66 AACTG
* * * * * *
46265941 ATACTTCTTCCAATTTAACGTCCCACCACAACACCAATAAC-TCTTTCAATTAACATCCCACCAC
1 ATACTTCTTTCAA-TTAACATCCCACCACAACATCGAT-ACTTCATTCATTTAACATCCCACCAC
**
46266005 AAATTTG
64 AAAACTG
*
46266012 ATACTTCATTCAATTAA
1 ATACTTCTTTCAATTAA
46266029 TATCAAGAAG
Statistics
Matches: 125, Mismatches: 31, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
70 73 0.58
71 50 0.40
72 2 0.02
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.31
Consensus pattern (70 bp):
ATACTTCTTTCAATTAACATCCCACCACAACATCGATACTTCATTCATTTAACATCCCACCACAA
AACTG
Found at i:46273111 original size:26 final size:25
Alignment explanation
Indices: 46273081--46273139 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
46273071 TTCATTCTAT
* *
46273081 TTTCACTTCTA-ATTTCTATATCTTAA
1 TTTCACTTC-ACATTTCAAT-TCATAA
*
46273107 TTTCAATTCACATTTCAATTCATAA
1 TTTCACTTCACATTTCAATTCATAA
46273132 TTTCACTT
1 TTTCACTT
46273140 TCTCATACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTCACTTCACATTTCAATTCATAA
Done.