Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 27 of 34
Found at i:4165161 original size:46 final size:46
Alignment explanation
Indices: 4165099--4165233 Score: 143
Period size: 46 Copynumber: 2.9 Consensus size: 46
4165089 TCGATAAGCT
* * ***
4165099 AAATAAGAACGAAAAGGGTTTGACCAGGGTGGTAACTGATATGGTC
1 AAATGAGAATGAAAAGGGTTTGACCAGGGTGGTAACTGATACAATC
*
4165145 AAATGAGAATGAAAAGGGTTTGACCA-GGTGGATAACTGATGCAATC
1 AAATGAGAATGAAAAGGGTTTGACCAGGGTGG-TAACTGATACAATC
*
4165191 AAA-GAAGGATGATAAA-GGTTTGACCAGGGTGGTAAGC-GATACA
1 AAATG-AGAATGA-AAAGGGTTTGACCAGGGTGGTAA-CTGATACA
4165234 GTGAGCCTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
45 6 0.08
46 61 0.80
47 9 0.12
ACGTcount: A:0.39, C:0.10, G:0.30, T:0.21
Consensus pattern (46 bp):
AAATGAGAATGAAAAGGGTTTGACCAGGGTGGTAACTGATACAATC
Found at i:4169194 original size:12 final size:12
Alignment explanation
Indices: 4169177--4169211 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4169167 TCTATTTTCA
*
4169177 CTTTTTTTCTTT
1 CTTTTTTTCTCT
4169189 CTTTTTTTCTCT
1 CTTTTTTTCTCT
*
4169201 CTTTTTCTCTC
1 CTTTTTTTCTC
4169212 ACTTGCCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTTTTTTCTCT
Found at i:4170024 original size:62 final size:64
Alignment explanation
Indices: 4169926--4170049 Score: 166
Period size: 63 Copynumber: 2.0 Consensus size: 64
4169916 AATGATGATA
* *
4169926 TTTGATGAATATTAAAAAATTTTTATAGAGAAAAACCC-CTCAAAAACATTTATGGAATAAATG
1 TTTGATGAATATTAAAAAATTTTGATAAAGAAAAACCCTCTCAAAAACATTTATGGAATAAATG
* *
4169989 TTTGATGAATATT-AAAAATTTTGA-ACCAAG-AAAACCCTCTCGAAAATATTTATGGAATAAA
1 TTTGATGAATATTAAAAAATTTTGATA--AAGAAAAACCCTCTCAAAAACATTTATGGAATAAA
4170050 AAAAACTCGA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
61 1 0.02
62 17 0.31
63 36 0.67
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.31
Consensus pattern (64 bp):
TTTGATGAATATTAAAAAATTTTGATAAAGAAAAACCCTCTCAAAAACATTTATGGAATAAATG
Found at i:4179909 original size:20 final size:20
Alignment explanation
Indices: 4179884--4179939 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
4179874 CTTCTACCCA
*
4179884 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTATC
* *
4179904 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTATC
4179924 AATGTATCGATACATT
1 AATGTATCGATACATT
4179940 CTGTCTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTATC
Found at i:4179938 original size:70 final size:71
Alignment explanation
Indices: 4179835--4179989 Score: 224
Period size: 70 Copynumber: 2.2 Consensus size: 71
4179825 TTTTACCCAC
* * * *
4179835 ATGTATCGATACATTTTTCAATTTATCGATACATTTTGTC-TTCTACCCAA-ATGTATCGATACA
1 ATGTATCGATACATGTATCAATGTATCGATACATTCTGTCTTTCTA-CCAAGATGTATCGATACA
4179898 TTTTTCA
65 TTTTTCA
* *
4179905 ATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCAAGATGTATCGATACAT
1 ATGTATCGATACATGTATCAATGTATCGATACATTCTGTCTTTCTACCAAGATGTATCGATACAT
*
4179970 TTTTCG
66 TTTTCA
4179976 ATGTATCGATACAT
1 ATGTATCGATACAT
4179990 CTAGTTAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
70 39 0.51
71 37 0.49
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (71 bp):
ATGTATCGATACATGTATCAATGTATCGATACATTCTGTCTTTCTACCAAGATGTATCGATACAT
TTTTCA
Found at i:4184037 original size:16 final size:17
Alignment explanation
Indices: 4184016--4184054 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
4184006 AAAAAAATAA
* *
4184016 AAAAAAAATG-AAAGAG
1 AAAAAAAAGGAAAAAAG
4184032 AAAAAAAAGGAAAAAAG
1 AAAAAAAAGGAAAAAAG
4184049 AAAAAA
1 AAAAAA
4184055 GTATGAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAAAAAAGGAAAAAAG
Found at i:4185507 original size:89 final size:88
Alignment explanation
Indices: 4185406--4185587 Score: 199
Period size: 89 Copynumber: 2.1 Consensus size: 88
4185396 AGTTGCCTCA
* * * *
4185406 TTTCACACACA-TT-CATAGTTTTGATAACATTCACATTTGCATCGTTTCATATGCATTTGCTAT
1 TTTCACACACATTTGCAT--TTTAGATAACATTCACATTTGCATCATTTCATAGGCATTTGCCA-
4185469 TTTTATTGATCCCCGCATTTGCATCG
63 TTTTATTGATCCCCGCATTTGCATCG
* *** *
4185495 TTTCAC-CTACATTTGCATTTTAGATGACATTTGTATTTGCGTCATTTCATAGGCATTTGCCATT
1 TTTCACAC-ACATTTGCATTTTAGATAACATTCACATTTGCATCATTTCATAGGCATTTGCCATT
* **
4185559 TTATTGATGCTTGCATTTGCATCG
65 TTATTGATCCCCGCATTTGCATCG
4185583 TTTCA
1 TTTCA
4185588 TGCATATCTG
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
88 29 0.37
89 44 0.56
90 2 0.03
91 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (88 bp):
TTTCACACACATTTGCATTTTAGATAACATTCACATTTGCATCATTTCATAGGCATTTGCCATTT
TATTGATCCCCGCATTTGCATCG
Found at i:4185577 original size:44 final size:43
Alignment explanation
Indices: 4185439--4185592 Score: 138
Period size: 44 Copynumber: 3.5 Consensus size: 43
4185429 ATAACATTCA
* * **
4185439 CATTTGCATCGTTTCATATGCATTTGCTATTTTTATTGATCCCCG
1 CATTTGCATCGTTTCATA-GCATTTGCCA-TTTTATTGATGCTTG
4185484 CATTTGCATCGTTTCACCTA-CATTTG-CATTTTA--GATGACATTTG
1 CATTTGCATCGTTTCA--TAGCATTTGCCATTTTATTGATG-C--TTG
* * *
4185528 TATTTGCGTCATTTCATAGGCATTTGCCATTTTATTGATGCTTG
1 CATTTGCATCGTTTCATA-GCATTTGCCATTTTATTGATGCTTG
4185572 CATTTGCATCGTTTCAT-GCAT
1 CATTTGCATCGTTTCATAGCAT
4185593 ATCTGCACCA
Statistics
Matches: 89, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
41 3 0.03
42 7 0.08
43 5 0.06
44 38 0.43
45 29 0.33
46 1 0.01
47 6 0.07
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.45
Consensus pattern (43 bp):
CATTTGCATCGTTTCATAGCATTTGCCATTTTATTGATGCTTG
Found at i:4185607 original size:89 final size:88
Alignment explanation
Indices: 4185440--4185614 Score: 201
Period size: 89 Copynumber: 2.0 Consensus size: 88
4185430 TAACATTCAC
* * *
4185440 ATTTGCATCGTTTCATATGCATTTGCTATTTTTATTGATCCCCGCATTTGCATCGTTTCACCTAC
1 ATTTGCATCATTTCATAGGCATTTGCCATTTTTATTGATCCCCGCATTTGCATCGTTTCA-CTAC
** *
4185505 ATTTGCATTTTAGATGACATTTGT
65 ATTTGCACATTAGATAACATTTGT
* * ** *
4185529 ATTTGCGTCATTTCATAGGCATTTGCCA-TTTTATTGATGCTTGCATTTGCATCGTTTCA-TGCA
1 ATTTGCATCATTTCATAGGCATTTGCCATTTTTATTGATCCCCGCATTTGCATCGTTTCACTACA
4185592 TATCTGCACCATTAGATAACATT
66 T-T-TGCA-CATTAGATAACATT
4185615 CATCATTCTC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
86 4 0.06
87 1 0.01
88 32 0.44
89 35 0.49
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (88 bp):
ATTTGCATCATTTCATAGGCATTTGCCATTTTTATTGATCCCCGCATTTGCATCGTTTCACTACA
TTTGCACATTAGATAACATTTGT
Found at i:4186453 original size:36 final size:35
Alignment explanation
Indices: 4186339--4186494 Score: 143
Period size: 35 Copynumber: 4.4 Consensus size: 35
4186329 CAAATTTTCT
* * *
4186339 ATCGTTTAACTATATTTGGTCAAACTCTTCCCATC
1 ATCGTTTGACTATATCTGGTCAAACTCTTTCCATC
* ** * * *
4186374 ACCGTTTGGTTATATCTAGCCAAACTCTTTCCACC
1 ATCGTTTGACTATATCTGGTCAAACTCTTTCCATC
4186409 ATCGTTTGACTATATCTGGTCAAACTTCTTTCCATC
1 ATCGTTTGACTATATCTGGTCAAAC-TCTTTCCATC
* * * * * *
4186445 ATCATTTGATTGTATTTGGTCAAACTCCTTT-TACC
1 ATCGTTTGACTATATCTGGTCAAACT-CTTTCCATC
*
4186480 CTCGTTTGACTATAT
1 ATCGTTTGACTATAT
4186495 TGGCATTAGG
Statistics
Matches: 94, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
35 60 0.64
36 34 0.36
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (35 bp):
ATCGTTTGACTATATCTGGTCAAACTCTTTCCATC
Found at i:4186485 original size:71 final size:70
Alignment explanation
Indices: 4186339--4186494 Score: 179
Period size: 71 Copynumber: 2.2 Consensus size: 70
4186329 CAAATTTTCT
* * * *
4186339 ATCGTTTAACTATATTTGGTCAAACTCTTCCCATCACCGTTTGGTTATATCTAGCCAAACTCTTT
1 ATCGTTTGACTATATCTGGTCAAACTCTTCCCATCACCATTTGATTATATCTAGCCAAACTCTTT
4186404 CCACC
66 CCACC
* * * * * *
4186409 ATCGTTTGACTATATCTGGTCAAACTTCTTTCCATCATCATTTGATTGTATTTGGTCAAACTCCT
1 ATCGTTTGACTATATCTGGTCAAAC-TCTTCCCATCACCATTTGATTATATCTAGCCAAACT-CT
*
4186474 TT-TACC
64 TTCCACC
*
4186480 CTCGTTTGACTATAT
1 ATCGTTTGACTATAT
4186495 TGGCATTAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
70 23 0.32
71 45 0.62
72 4 0.06
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (70 bp):
ATCGTTTGACTATATCTGGTCAAACTCTTCCCATCACCATTTGATTATATCTAGCCAAACTCTTT
CCACC
Found at i:4186612 original size:48 final size:47
Alignment explanation
Indices: 4186463--4186716 Score: 240
Period size: 48 Copynumber: 5.3 Consensus size: 47
4186453 ATTGTATTTG
* * * * **
4186463 GTCAAACTCCTTTT-ACCCTCGTTTGACTATATTGGCATTAGGGCCTA
1 GTCAAACT-CTTTTCATCCTCATTTGACTGTATTAGTGTTAGGGCCTA
** * * * * *
4186510 GTCAAACTCTTTTTTTCCTCATTTAACTATATTGGTGCTAGGGTCTA
1 GTCAAACTCTTTTCATCCTCATTTGACTGTATTAGTGTTAGGGCCTA
** *
4186557 GTCAAACTCTTTTCATCCTTTGTTTGACTGTATTAATGTTAGGGCCTA
1 GTCAAACTCTTTTCATCC-TCATTTGACTGTATTAGTGTTAGGGCCTA
* * *
4186605 GTCAAACTCTTTTCATCCCTCATTTGATTGTATTGGTGTTAAGGCCTA
1 GTCAAACTCTTTTCAT-CCTCATTTGACTGTATTAGTGTTAGGGCCTA
* * * * *
4186653 GTCAAACTCTTTTCATACCTCGTTTGACTGTATTAGTCTTAAGACCTG
1 GTCAAACTCTTTTCAT-CCTCATTTGACTGTATTAGTGTTAGGGCCTA
*
4186701 GTCAAACTCTTCTCAT
1 GTCAAACTCTTTTCAT
4186717 TTTGGTCTGA
Statistics
Matches: 172, Mismatches: 32, Indels: 5
0.82 0.15 0.02
Matches are distributed among these distances:
46 5 0.03
47 49 0.28
48 116 0.67
49 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (47 bp):
GTCAAACTCTTTTCATCCTCATTTGACTGTATTAGTGTTAGGGCCTA
Found at i:4186664 original size:96 final size:96
Alignment explanation
Indices: 4186500--4186716 Score: 276
Period size: 96 Copynumber: 2.3 Consensus size: 96
4186490 TATATTGGCA
* * * *
4186500 TTAGGGCCTAGTCAAACTCTTTT-TTTCCTCATTTAACTATATTGGTGCTAGGGTCTAGTCAAAC
1 TTAGGGCCTAGTCAAACTCTTTTCATCCCTCATTTAACTATATTGGTGCTAAGGCCTAGTCAAAC
* *
4186564 TCTTTTCAT-CCTTTGTTTGACTGTATTAATG
66 TCTTTTCATACC-TCGTTTGACTGTATTAATC
* * * *
4186595 TTAGGGCCTAGTCAAACTCTTTTCATCCCTCATTTGATTGTATTGGTGTTAAGGCCTAGTCAAAC
1 TTAGGGCCTAGTCAAACTCTTTTCATCCCTCATTTAACTATATTGGTGCTAAGGCCTAGTCAAAC
*
4186660 TCTTTTCATACCTCGTTTGACTGTATTAGTC
66 TCTTTTCATACCTCGTTTGACTGTATTAATC
* * * *
4186691 TTAAGACCTGGTCAAACTCTTCTCAT
1 TTAGGGCCTAGTCAAACTCTTTTCAT
4186717 TTTGGTCTGA
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
95 23 0.22
96 80 0.76
97 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (96 bp):
TTAGGGCCTAGTCAAACTCTTTTCATCCCTCATTTAACTATATTGGTGCTAAGGCCTAGTCAAAC
TCTTTTCATACCTCGTTTGACTGTATTAATC
Found at i:4186779 original size:44 final size:42
Alignment explanation
Indices: 4186724--4186966 Score: 168
Period size: 44 Copynumber: 5.5 Consensus size: 42
4186714 CATTTTGGTC
*
4186724 TGACATATGGTTACCACCCTAGTCAAGTCTGCCACTTTCTTGTT
1 TGACGTATGGTTACCACCCTAGTCAAGTCTGCCA-TTTC-TGTT
* **
4186768 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCA-TTCTGATT
1 TGACGTATGGTTACCACCCTAGTCA-AGTC-TGCCATTTCTG-TT
* * * * *
4186812 TGAAGTATGGTTACCACCCTAGTCAAATCTACCTTTTTCTTGTC
1 TGACGTATGGTTACCACCCTAGTCAAGTCTGCC-ATTTC-TGTT
* * **
4186856 TGACGTATGGTTACCAACCTAGTCAAATTCTTTTCATTTC-GATT
1 TGACGTATGGTTACCACCCTAGTC-AAGTC-TGCCATTTCTG-TT
** * * *
4186900 TGATATATGGCTACCACCCTGGTCAAGTCTGCTTC-TTTCCTATT
1 TGACGTATGGTTACCACCCTAGTCAAGTCTGC--CATTT-CTGTT
* *
4186944 TAACGTATGGTTACTACCCTAGT
1 TGACGTATGGTTACCACCCTAGT
4186967 TAGATTTCTT
Statistics
Matches: 154, Mismatches: 32, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
42 3 0.02
43 13 0.08
44 120 0.78
45 13 0.08
46 5 0.03
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (42 bp):
TGACGTATGGTTACCACCCTAGTCAAGTCTGCCATTTCTGTT
Found at i:4186828 original size:88 final size:88
Alignment explanation
Indices: 4186729--4187013 Score: 367
Period size: 88 Copynumber: 3.2 Consensus size: 88
4186719 TGGTCTGACA
*
4186729 TATGGTTACCACCCTAGTCAAGTCTGCCACTTTCTTGTTTGACGTATGGTTACCACCCTAGTCAG
1 TATGGTTACCACCCTAGTCAAGTCTGCCTCTTTCTTGTTTGACGTATGGTTACCACCCTAGTCAG
4186794 ATTCTTTTCA-TTCTGATTTGAAG
66 ATTCTTTTCATTTC-GATTTGAAG
* * * * * *
4186817 TATGGTTACCACCCTAGTCAAATCTACCTTTTTCTTGTCTGACGTATGGTTACCAACCTAGTCAA
1 TATGGTTACCACCCTAGTCAAGTCTGCCTCTTTCTTGTTTGACGTATGGTTACCACCCTAGTCAG
4186882 ATTCTTTTCATTTCGATTTGATA-
66 ATTCTTTTCATTTCGATTTGA-AG
* * * * * * * *
4186905 TATGGCTACCACCCTGGTCAAGTCTGCTTCTTTCCTATTTAACGTATGGTTACTACCCTAGTTAG
1 TATGGTTACCACCCTAGTCAAGTCTGCCTCTTTCTTGTTTGACGTATGGTTACCACCCTAGTCAG
*
4186970 ATTTCTTTTCATTTCGATTTGACG
66 A-TTCTTTTCATTTCGATTTGAAG
* *
4186994 TATGGTTACCAGCCTGGTCA
1 TATGGTTACCACCCTAGTCA
4187014 GATTTTTTTC
Statistics
Matches: 169, Mismatches: 24, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
88 127 0.75
89 42 0.25
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.40
Consensus pattern (88 bp):
TATGGTTACCACCCTAGTCAAGTCTGCCTCTTTCTTGTTTGACGTATGGTTACCACCCTAGTCAG
ATTCTTTTCATTTCGATTTGAAG
Found at i:4186902 original size:132 final size:131
Alignment explanation
Indices: 4186766--4187063 Score: 295
Period size: 132 Copynumber: 2.3 Consensus size: 131
4186756 CACTTTCTTG
* *
4186766 TTTGACGTATGGTTACCACCCTAGTCAGATTCT-TTTCATT-CTGATTTGAA-GTATGGTTACCA
1 TTTGA-GTATGGTTACCACCCTAGTCA-AGTCTGCTTCATTCCT-ATTT-AACGTATGGTTACCA
4186828 CCCTAGTCAAATCTACCTTTTTC-TT-G-TCTGACGTATGGTTACCAACCTAGTCAAATTCTTTT
62 CCCTAGTCAAAT-T-CC-TTTTCATTCGATCTGACGTATGGTTACCAACCTAGTCAAATTCTTTT
*
4186890 CATTTCGA
124 CATTCCGA
* * * * *
4186898 TTTGATATATGGCTACCACCCTGGTCAAGTCTGCTTCTTTCCTATTTAACGTATGGTTACTACCC
1 TTTGA-GTATGGTTACCACCCTAGTCAAGTCTGCTTCATTCCTATTTAACGTATGGTTACCACCC
* * * * * * * *
4186963 TAGTTAGATTTCTTTTCATTTCGATTTGACGTATGGTTACCAGCCTGGTCAGATTTTTTTCATTC
65 TAGTCAAATTCCTTTTCA-TTCGATCTGACGTATGGTTACCAACCTAGTCAAATTCTTTTCATTC
4187028 CGA
129 CGA
* *
4187031 TTTG-GTATGGTTACCCACCCTAGTTAAATCTGC
1 TTTGAGTATGGTTA-CCACCCTAGTCAAGTCTGC
4187064 CTCCTTTCTG
Statistics
Matches: 136, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
129 5 0.04
130 1 0.01
131 16 0.12
132 70 0.51
133 44 0.32
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (131 bp):
TTTGAGTATGGTTACCACCCTAGTCAAGTCTGCTTCATTCCTATTTAACGTATGGTTACCACCCT
AGTCAAATTCCTTTTCATTCGATCTGACGTATGGTTACCAACCTAGTCAAATTCTTTTCATTCCG
A
Found at i:4187299 original size:42 final size:43
Alignment explanation
Indices: 4187187--4187305 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
4187177 TGATCCCTTT
* *
4187187 TCTACCCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTTTG
1 TCTACCCGTCGGCTTAGACTTGAGAGACTTCTTTATCTTTTTG
* * *
4187230 TCTGCCCGTCGGCTTAGGCCTGAGAGACTTCTTTATC-TTTTG
1 TCTACCCGTCGGCTTAGACTTGAGAGACTTCTTTATCTTTTTG
* *
4187272 TCTACCCATCGG-TTCAGACTTGGGAGACTTCTTT
1 TCTACCCGTCGGCTT-AGACTTGAGAGACTTCTTT
4187306 GTCCTTTATC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.03
42 31 0.48
43 32 0.49
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (43 bp):
TCTACCCGTCGGCTTAGACTTGAGAGACTTCTTTATCTTTTTG
Found at i:4187405 original size:42 final size:42
Alignment explanation
Indices: 4187182--4187907 Score: 331
Period size: 42 Copynumber: 17.2 Consensus size: 42
4187172 ACCTTTGATC
* * * * *
4187182 CCTTT-TCTACCCGTCGGCTTAGACTCGAGAGACTTCTTCAT
1 CCTTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTTAT
* * * * *
4187223 CTTTTTGTCTGCCCGTCGGCTTAGGCCTGAGAGACTTCTTTAT
1 C-CTTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTTAT
* * * * ** *
4187266 CTTTTGTCTACCCATCGGTTCAGACTTGGGAGACTTCTTTGT
1 CCTTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTTAT
* ** ** * *
4187308 CCTTTATCTGCCTATCAACTCAGGCCCAGGGA-ACTTTTTTAT
1 CCTTTGTCTGCCCGTCGGCTCAGACCC-GGGAGACTTCTTTAT
** * * * * * *
4187350 TTTTCTATCTGCCCATCAGCTTAAACCCGGGAGACTCCTTTAT
1 CCTT-TGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTTAT
* * * ** *
4187393 CCTTTGTCTGCCCGTCGGTTTAGGCCTAGAAGACTT-TTTCA-
1 CCTTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTT-AT
* * ** * * *
4187434 CCTTTTTGTCTACCCATTAGCTTAGACTCAGGAGACTT-TTTCAT
1 CC--TTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTT-AT
* * * * * ** *
4187478 CTTTTGTATGCCCATCAGCTTAGA-CCGGAGAGGTTTCTTCAT
1 CCTTTGTCTGCCCGTCGGCTCAGACCCGG-GAGACTTCTTTAT
** * * * *
4187520 CCTTTTGTCTGCCTATCAGCTCAAACCCGGGAAACTTTTTTAT
1 CC-TTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTTAT
** * * * * *
4187563 TTTTTGTCTGCCTGTGGGCTCAGGCTCGGGACACTTCTTTAT
1 CCTTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTTAT
* * ** *
4187605 CCTTTGTTTGCCCATCGATTCAGACCTC-GGAGACGTCTTTAT
1 CCTTTGTCTGCCCGTCGGCTCAGACC-CGGGAGACTTCTTTAT
* * ** * **
4187647 CTTTTGTCTTCCCGTTAGCTCAGGCCCAAGAGACTTCTTTAT
1 CCTTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTTAT
* * * * ** *
4187689 CTTTTATCTGCCCGTTGGCTCAAACCAAGAAGACTTCTTTAT
1 CCTTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTTAT
* * **
4187731 CCTTTGTCTGCCTGTTGGCTCAGACTTGGGAGAC-TCTTATAT
1 CCTTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTT-TAT
* *
4187773 CCTTTGTCTGCCTGTCGGCTTA-ACCTCGGGAGACTTCTTTAT
1 CCTTTGTCTGCCCGTCGGCTCAGACC-CGGGAGACTTCTTTAT
* * *
4187815 CTTTTTGCCTGCCCGTCGGCTCA-ACCCCAGGAGACTTCTTTAT
1 C-CTTTGTCTGCCCGTCGGCTCAGA-CCCGGGAGACTTCTTTAT
* * * * * *
4187858 CCTTTGCCTGCCCATTGGCTCA-AGCTCAGGAGACTTCTTCAT
1 CCTTTGTCTGCCCGTCGGCTCAGA-CCCGGGAGACTTCTTTAT
4187900 CTCTTTGT
1 C-CTTTGT
4187908 TGGCCCCTTG
Statistics
Matches: 524, Mismatches: 140, Indels: 40
0.74 0.20 0.06
Matches are distributed among these distances:
41 15 0.03
42 336 0.64
43 166 0.32
44 7 0.01
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.37
Consensus pattern (42 bp):
CCTTTGTCTGCCCGTCGGCTCAGACCCGGGAGACTTCTTTAT
Found at i:4192054 original size:166 final size:165
Alignment explanation
Indices: 4191738--4192493 Score: 822
Period size: 166 Copynumber: 4.6 Consensus size: 165
4191728 TTCAAACATC
* * * * * * *
4191738 AAAATTCTTCAAATATTATCATTTAATTC-TCATCAAATTAGTTTTAAAAAATTCTTTCTATTCT
1 AAAATTCATAAAATATTATTATTTATTTCAT-ATTAAATTAGTTTTCAAAAATTCATTC-ATT-T
* * *
4191802 T--TGAGTTATTT--ATTTTCTT--TTAAAATTCCTCATGTTTTC-AAATTAC-GAGATTTTCTT
63 TCATGAGTT-TTTGAATTTT-TTCCTTGAAATT-CTCCTGTTTTCGAAA-TACAGAG-TTTTCTA
*
4191859 CTCCGTAAATTTTTTAGGAGGATTTTTCTTGGTTTTTAATTTTT
123 CTTCGTAAATTTTTTAGGA-GATTTTTCTTGGTTTTTAATTTTT
* * * * * *
4191903 AAAATTCATAAAATATTACTATTTAATTCATTTTAAATCAGTTTTCAAAAATTTATTTATTTTCA
1 AAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCA
* *
4191968 TGAGTTTTTGAATTTTTTCCTTGAAATTC-CCTTGTTTTCGAAATACATAGTTTTTTACTTCGTA
66 TGAGTTTTTGAATTTTTTCCTTGAAATTCTCC-TGTTTTCGAAATACAGAGTTTTCTACTTCGTA
* *
4192032 AATTTTTTAGGCAAATTTTTCTTGGTTTTTTATTTTT
130 AATTTTTTAGG-AGATTTTTCTTGGTTTTTAATTTTT
* * *
4192069 AAAA-TCTATCAAATATTATTATTTATTTCATATTAAATTACTTTTCAAAAATCCATTCATTTTC
1 AAAATTC-ATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTC
* * *
4192133 ATGAGTTTTTTAACTTTTTCCTTGAAATTCTCCTATTTTCGAAATACAGAGTTTTCTAC-TCTGT
65 ATGAGTTTTTGAATTTTTTCCTTGAAATTCTCCTGTTTTCGAAATACAGAGTTTTCTACTTC-GT
4192197 AAATTTTTTGGAGGAGATTTTTCTTGGTTTTTAATTTTT
129 AAATTTTTT--AGGAGATTTTTCTTGGTTTTTAATTTTT
* * **
4192236 AAAATACATAAAATATTGTTATTTATTTCATATT-AATTTTTTTTCAAATAA-TCATTCATTTTC
1 AAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAA-AATTCATTCATTTTC
* * * ** *
4192299 ATGAGTTTTTGAATTTTTTCATTGAAATTCTCCTGTTTCCAAAATATGGAGTTTTCTACTTCGAA
65 ATGAGTTTTTGAATTTTTTCCTTGAAATTCTCCTGTTTTCGAAATACAGAGTTTTCTACTTCGTA
** * *
4192364 AACTTTTTCGGGGGGGATTTTTCTTGGCTTTTAATTTTT
130 AA-TTTTT--TAGGAGATTTTTCTTGGTTTTTAATTTTT
** *
4192403 AAAACCCATAAAATATTATTATATATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCA
* *
4192468 TAAGTTTTTG-ATTTTTTCTTTGAAAT
66 TGAGTTTTTGAATTTTTTCCTTGAAAT
4192494 CCTTTTTTTC
Statistics
Matches: 505, Mismatches: 62, Indels: 46
0.82 0.10 0.08
Matches are distributed among these distances:
163 2 0.00
164 6 0.01
165 58 0.11
166 253 0.50
167 148 0.29
168 38 0.08
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.51
Consensus pattern (165 bp):
AAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCA
TGAGTTTTTGAATTTTTTCCTTGAAATTCTCCTGTTTTCGAAATACAGAGTTTTCTACTTCGTAA
ATTTTTTAGGAGATTTTTCTTGGTTTTTAATTTTT
Found at i:4194621 original size:31 final size:31
Alignment explanation
Indices: 4194548--4194728 Score: 199
Period size: 31 Copynumber: 5.6 Consensus size: 31
4194538 CGAAGTGATT
4194548 GAGAGGTTCTATCTTAGCCTT-TGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAG-CTTGTG-AAAAGAT----A
4194584 GAGAGGTTCTATCTTAGCTTGTGAAAAGATA
1 GAGAGGTTCTATCTTAGCTTGTGAAAAGATA
4194615 GAGAGGTTCTATCTTAGCCTT-TGAAAAGATA
1 GAGAGGTTCTATCTTAG-CTTGTGAAAAGATA
* *
4194646 -AGGAGGTTCCATCTTAGCCTGTGAAAAGATA
1 GA-GAGGTTCTATCTTAGCTTGTGAAAAGATA
*
4194677 GGGAAGAGATTCTATCTTAGCTTGTGAAAAGATA
1 --G-AGAGGTTCTATCTTAGCTTGTGAAAAGATA
4194711 -AGGAGGTTCTATCTTAGC
1 GA-GAGGTTCTATCTTAGC
4194729 CTTCAAAAGA
Statistics
Matches: 130, Mismatches: 6, Indels: 23
0.82 0.04 0.14
Matches are distributed among these distances:
30 4 0.03
31 67 0.52
32 3 0.02
34 26 0.20
35 11 0.08
36 19 0.15
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (31 bp):
GAGAGGTTCTATCTTAGCTTGTGAAAAGATA
Found at i:4194716 original size:65 final size:62
Alignment explanation
Indices: 4194548--4194740 Score: 255
Period size: 65 Copynumber: 3.0 Consensus size: 62
4194538 CGAAGTGATT
*
4194548 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAGAGGTTCTATCTTAGCTTGTGAAAAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATA---AG-GAGGTTCTATCTTAGCCTGTGAAAAGA
4194613 TA
61 TA
*
4194615 GAGAGGTTCTATCTTAGCCTTTGAAAAGATAAGGAGGTTCCATCTTAGCCTGTGAAAAGATA
1 GAGAGGTTCTATCTTAGCCTTTGAAAAGATAAGGAGGTTCTATCTTAGCCTGTGAAAAGATA
* *
4194677 GGGAAGAGATTCTATCTTAG-CTTGTGAAAAGATAAGGAGGTTCTATCTTAGCCT-TCAAAAGAT
1 --G-AGAGGTTCTATCTTAGCCTT-TGAAAAGATAAGGAGGTTCTATCTTAGCCTGTGAAAAGAT
4194740 A
62 A
4194741 CTGTTGTAAG
Statistics
Matches: 117, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
62 27 0.23
63 2 0.02
64 13 0.11
65 44 0.38
66 8 0.07
67 23 0.20
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (62 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAAGGAGGTTCTATCTTAGCCTGTGAAAAGATA
Found at i:4194717 original size:96 final size:97
Alignment explanation
Indices: 4194550--4194740 Score: 307
Period size: 96 Copynumber: 2.0 Consensus size: 97
4194540 AAGTGATTGA
* * *
4194550 GAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAGAGGTTCTATCTTAGCTTGTGAAAAGATA
1 GAGGTTCCATCTTAGCCTGTGAAAAAGATAGGGAGAGAGATTCTATCTTAGCTTGTGAAAAGATA
*
4194615 GAGAGGTTCTATCTTAGCCTTTGAAAAGATAAG
66 GAGAGGTTCTATCTTAGCC-TTCAAAAGATAAG
4194648 GAGGTTCCATCTTAGCCTGTG-AAAAGATAGGGA-AGAGATTCTATCTTAGCTTGTGAAAAGATA
1 GAGGTTCCATCTTAGCCTGTGAAAAAGATAGGGAGAGAGATTCTATCTTAGCTTGTGAAAAGATA
4194711 -AGGAGGTTCTATCTTAGCCTTCAAAAGATA
66 GA-GAGGTTCTATCTTAGCCTTCAAAAGATA
4194741 CTGTTGTAAG
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
95 11 0.12
96 46 0.52
97 12 0.14
98 19 0.22
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (97 bp):
GAGGTTCCATCTTAGCCTGTGAAAAAGATAGGGAGAGAGATTCTATCTTAGCTTGTGAAAAGATA
GAGAGGTTCTATCTTAGCCTTCAAAAGATAAG
Found at i:4195249 original size:20 final size:20
Alignment explanation
Indices: 4195211--4195247 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4195201 ATATTTTTGA
4195211 AAATAAACCAAAGTAAAATT
1 AAATAAACCAAAGTAAAATT
*
4195231 AAATAAATCAAA-TAAAA
1 AAATAAACCAAAGTAAAA
4195248 ATGAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.70, C:0.08, G:0.03, T:0.19
Consensus pattern (20 bp):
AAATAAACCAAAGTAAAATT
Found at i:4195254 original size:19 final size:20
Alignment explanation
Indices: 4195211--4195257 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
4195201 ATATTTTTGA
* *
4195211 AAATAAACCAAAGTAAAATT
1 AAATAAATCAAAGTAAAAAT
4195231 AAATAAATCAAA-TAAAAAT
1 AAATAAATCAAAGTAAAAAT
*
4195250 GAATAAAT
1 AAATAAAT
4195258 ATTCTTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.21
Consensus pattern (20 bp):
AAATAAATCAAAGTAAAAAT
Found at i:4201386 original size:181 final size:180
Alignment explanation
Indices: 4201185--4201527 Score: 505
Period size: 181 Copynumber: 1.9 Consensus size: 180
4201175 TTGCCTCAAT
* * *
4201185 GGCCCAACCAAAATGCATTTTGCTAGTTCT-AGGGGTTCTGGATTACGTAGGTTTGAAAAATCAT
1 GGCCCAACCAAAATGCATTTTGCTAGTT-TGAAGGGTTCTGGACTACCTAGGTTTGAAAAATCAT
* * **
4201249 AACTCCCTCATTTGGAATGATCC-GGTGATGCACAA-GACATCGTTGCAACA-ATATTTTGACAC
65 AACTCCCTCATTCGAAATGATCCAGG-GATGCA-AAGGACATAATTGCAA-AGATATTTTGACAC
4201311 ACTTTCAAGGAAAAATACTAGAAAATTCATAAAAAATCATCTCGTGGGCCTTAGA
127 ACTTTCAAGG-AAAATACTAGAAAATTCATAAAAAATCATCTCGTGGGCCTTAGA
* * *
4201366 GGCCCAACCAGAATGCATTTTGCTAGTTTGAAGGGTTTTGGACTGCCTAGGTTTGAAAAATCATA
1 GGCCCAACCAAAATGCATTTTGCTAGTTTGAAGGGTTCTGGACTACCTAGGTTTGAAAAATCATA
*
4201431 ACTCCCTCATTCGAAATGATCCAGGGATGCAAAGGACATAATTGCAAAGATATTTTGACACATTT
66 ACTCCCTCATTCGAAATGATCCAGGGATGCAAAGGACATAATTGCAAAGATATTTTGACACACTT
*
4201496 TCAAGGAAAATATTAGAAAATTCATAAAAAAT
131 TCAAGGAAAATACTAGAAAATTCATAAAAAAT
4201528 TGTTTGGGAC
Statistics
Matches: 146, Mismatches: 12, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
180 29 0.20
181 115 0.79
182 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (180 bp):
GGCCCAACCAAAATGCATTTTGCTAGTTTGAAGGGTTCTGGACTACCTAGGTTTGAAAAATCATA
ACTCCCTCATTCGAAATGATCCAGGGATGCAAAGGACATAATTGCAAAGATATTTTGACACACTT
TCAAGGAAAATACTAGAAAATTCATAAAAAATCATCTCGTGGGCCTTAGA
Found at i:4202861 original size:41 final size:41
Alignment explanation
Indices: 4202814--4202908 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
4202804 GTGATGGACA
* *
4202814 TAAGGTGGCTGGTTTGAATGTTGAAATGATATA-TGAGCAAG
1 TAAGGTGGCTGGTTTAAATGCTGAAATGATATACT-AGCAAG
*
4202855 TAAGGTGGCTAGTTTAAATGCTGAAATGATATACTAGCAAG
1 TAAGGTGGCTGGTTTAAATGCTGAAATGATATACTAGCAAG
*
4202896 TAGGGTGGCTGGT
1 TAAGGTGGCTGGT
4202909 GGTGAATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 47 0.98
42 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.32, T:0.31
Consensus pattern (41 bp):
TAAGGTGGCTGGTTTAAATGCTGAAATGATATACTAGCAAG
Found at i:4206966 original size:16 final size:16
Alignment explanation
Indices: 4206947--4207019 Score: 50
Period size: 16 Copynumber: 4.8 Consensus size: 16
4206937 GGATATTATT
4206947 TAAATTAATTTATAAA
1 TAAATTAATTTATAAA
4206963 TAAA-T-ATTTA-AACA
1 TAAATTAATTTATAA-A
* * *
4206977 -AGATT-ATTTAGATA
1 TAAATTAATTTATAAA
4206991 TCAAATTAATTATATAAA
1 T-AAATTAATT-TATAAA
4207009 T-AATTAATTTA
1 TAAATTAATTTA
4207020 CCTATATCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
13 4 0.09
14 13 0.29
15 4 0.09
16 16 0.36
17 3 0.07
18 5 0.11
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAATTAATTTATAAA
Found at i:4216658 original size:152 final size:152
Alignment explanation
Indices: 4216382--4216685 Score: 599
Period size: 152 Copynumber: 2.0 Consensus size: 152
4216372 ATGTTGACTT
4216382 TGCTAAATTGTATGCTTTATGTGAAAAGGGGGCTCATGATGGGTTTTATAAGCATGATGGGTATC
1 TGCTAAATTGTATGCTTTATGTGAAAAGGGGGCTCATGATGGGTTTTATAAGCATGATGGGTATC
*
4216447 TGTTTAAGGGGAATAAATTGTGTGTGCCTAGATGCTCAATTCGTGACTTACTCGTGAAAGAAGCG
66 TGTTTAAGGGGAATAAATTGTGTGTGCCTAGATGCTCAATTCGTGACTTACTCGTGAAAGAAGCC
4216512 TATGAGGGTAGTTTGATGGGAC
131 TATGAGGGTAGTTTGATGGGAC
4216534 TGCTAAATTGTATGCTTTATGTGAAAAGGGGGCTCATGATGGGTTTTATAAGCATGATGGGTATC
1 TGCTAAATTGTATGCTTTATGTGAAAAGGGGGCTCATGATGGGTTTTATAAGCATGATGGGTATC
4216599 TGTTTAAGGGGAATAAATTGTGTGTGCCTAGATGCTCAATTCGTGACTTACTCGTGAAAGAAGCC
66 TGTTTAAGGGGAATAAATTGTGTGTGCCTAGATGCTCAATTCGTGACTTACTCGTGAAAGAAGCC
4216664 TATGAGGGTAGTTTGATGGGAC
131 TATGAGGGTAGTTTGATGGGAC
4216686 ACTTTGGTGT
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 151 1.00
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (152 bp):
TGCTAAATTGTATGCTTTATGTGAAAAGGGGGCTCATGATGGGTTTTATAAGCATGATGGGTATC
TGTTTAAGGGGAATAAATTGTGTGTGCCTAGATGCTCAATTCGTGACTTACTCGTGAAAGAAGCC
TATGAGGGTAGTTTGATGGGAC
Found at i:4218614 original size:31 final size:31
Alignment explanation
Indices: 4218571--4218631 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
4218561 CTTTTCAGAA
4218571 TCCTAGAAGTCATCCATCAAATCCCATAGCT
1 TCCTAGAAGTCATCCATCAAATCCCATAGCT
*
4218602 TCCTGGAAGTCATCCATCAAATCCCATAGC
1 TCCTAGAAGTCATCCATCAAATCCCATAGC
4218632 CTGTGCCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.25
Consensus pattern (31 bp):
TCCTAGAAGTCATCCATCAAATCCCATAGCT
Found at i:4221431 original size:80 final size:80
Alignment explanation
Indices: 4221254--4221431 Score: 203
Period size: 80 Copynumber: 2.2 Consensus size: 80
4221244 AATGTGTTGA
* *
4221254 TTCAAGGCTAGCGACAATAAGCTTGGGAAGAAAATTTAGATAGATGCCACATGACTTAGGGCAAG
1 TTCAAGGCCAGCGACATTAAGCTTGGGAAGAAAATTTAGATAGATGCCACATGACTTAGGGCAAG
*** * *
4221319 GTGTCATTGTCCTAC
66 GCACCAATGTACTAC
* * * * *** *
4221334 TTTAAGGCCAGCAACATTAAGCTTGGGATGAAGATTTAGATAGATGTTGCTTGACTTAGGGCAAG
1 TTCAAGGCCAGCGACATTAAGCTTGGGAAGAAAATTTAGATAGATGCCACATGACTTAGGGCAAG
*
4221399 GCACCAATGTACTGC
66 GCACCAATGTACTAC
*
4221414 TTCAAGGCCAGTGACATT
1 TTCAAGGCCAGCGACATT
4221432 GGGCTTGAGT
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (80 bp):
TTCAAGGCCAGCGACATTAAGCTTGGGAAGAAAATTTAGATAGATGCCACATGACTTAGGGCAAG
GCACCAATGTACTAC
Found at i:4221438 original size:80 final size:80
Alignment explanation
Indices: 4221254--4221452 Score: 200
Period size: 80 Copynumber: 2.5 Consensus size: 80
4221244 AATGTGTTGA
* * * *
4221254 TTCAAGGCTAGCGACAATAAGCTTGGGAAGAAAATTTAGATAGATGCCACATGACTTAGGGCAAG
1 TTCAAGGCCAGCAACATTAAGCTTGGGAAGAAGATTTAGATAGATGCCACATGACTTAGGGCAAG
*** * *
4221319 GTGTCATTGTCCTAC
66 GCACCAATGTACTAC
* * *** *
4221334 TTTAAGGCCAGCAACATTAAGCTTGGGATGAAGATTTAGATAGATGTTGCTTGACTTAGGGCAAG
1 TTCAAGGCCAGCAACATTAAGCTTGGGAAGAAGATTTAGATAGATGCCACATGACTTAGGGCAAG
*
4221399 GCACCAATGTACTGC
66 GCACCAATGTACTAC
** **
4221414 TTCAAGGCCAGTGACATTGGGCTTGAGTGAAGAAGATTT
1 TTCAAGGCCAGCAACATTAAGCTTG-G-GAAGAAGATTT
4221453 GACAAGTGCC
Statistics
Matches: 95, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 84 0.88
81 1 0.01
82 10 0.11
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (80 bp):
TTCAAGGCCAGCAACATTAAGCTTGGGAAGAAGATTTAGATAGATGCCACATGACTTAGGGCAAG
GCACCAATGTACTAC
Found at i:4221488 original size:80 final size:79
Alignment explanation
Indices: 4221393--4221907 Score: 356
Period size: 80 Copynumber: 6.4 Consensus size: 79
4221383 CTTGACTTAG
** * * *
4221393 GGCAAGGCACCAATGTACTGCTTCAAGGCCAGTGACATTGGGCTTGAGTGAAGAAGATTTGACAA
1 GGCAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTGAG-GAAAAAGATTTGACAA
*
4221458 GTGCCTCTTGACATA
65 GTGCCTCATGACATA
* * * * * ** * * * *
4221473 GGCAGGGTACTAATGTGCTAATTCGAGGTTAGTGACATTGGGCTTAAGAAAAATAGTTTTAACAA
1 GGCAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTGAGGAAAA-AGATTTGACAA
**** * * * *
4221538 ACATCGCATCACTTTG
65 GTGCCTCATGAC-ATA
** * *
4221554 GGCAAGGTGCCAATGTGCTGATTCAAGGCCAAAGATATTGGGCTTG-GGAAGAAGATTTAGAC-A
1 GGCAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTGAGGAAAAAGATTT-GACAA
* *
4221617 GATGCCACATGACCTA
65 G-TGCCTCATGACATA
* ** * *
4221633 GGGCAAGGTGCCAATGTGCTAATTCAAGGCCAACGACATTGGGCTTTAGTGAAAAAGATTTGAGA
1 -GGCAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTGAG-GAAAAAGATTTGACA
**
4221698 AGTGCCTTTTGACATA
64 AGTGCCTCATGACATA
* * * * * * * *
4221714 AGCAGGGTACCAATGTGCTGATTCAAGGCTAGTGATATTGAGCTTCA-GAAGAAGATTTAGAC-A
1 GGCAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTGAGGAAAAAGATTT-GACAA
* * *
4221777 GATGTCGCATGACCTA
65 G-TGCCTCATGACATA
* * * * * *
4221793 GGGCAAAGTGCCAATGTGCTGATTCAAGGCCAATAACATTAGGCTTTAGTGAAAAAGATATGACA
1 -GGCAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTGAG-GAAAAAGATTTGACA
**
4221858 A-TGCCTTTTGACATA
64 AGTGCCTCATGACATA
* * *
4221873 GGTAGGGTGCCAATGTGTTGATTCAAGGCCAGTGA
1 GGCAAGGTGCCAATGTGCTGATTCAAGGCCAGTGA
4221908 TATTAGTCTT
Statistics
Matches: 324, Mismatches: 97, Indels: 29
0.72 0.22 0.06
Matches are distributed among these distances:
78 12 0.04
79 50 0.15
80 188 0.58
81 52 0.16
82 22 0.07
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (79 bp):
GGCAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTGAGGAAAAAGATTTGACAAG
TGCCTCATGACATA
Found at i:4221639 original size:241 final size:240
Alignment explanation
Indices: 4221354--4221825 Score: 604
Period size: 241 Copynumber: 2.0 Consensus size: 240
4221344 GCAACATTAA
* * *** * * **
4221354 GCTTGGGATGAAGATTTAGATAGATGTTGCTTGACTTAGGGCAAGGCACCAATGTACTGCTTCAA
1 GCTTGGGAAGAAGATTTAGACAGATGCCACATGACCTAGGGCAAGGCACCAATGTACTAATTCAA
** * * *
4221419 GGCCAGTGACATTGGGCTTGAGTGAAGAAGATTTGACAAGTGCCTCTTGACATAGGCAGGGTACT
66 GGCCAACGACATTGGGCTTGAGTGAAAAAGATTTGACAAGTGCCTCTTGACATAAGCAGGGTACC
* * * *
4221484 AATGTGCTAATTCGAGGTTAGTGACATTGGGCTTAAGAAAAATAGTTTTA-ACAAACATCGCATC
131 AATGTGCTAATTCAAGGCTAGTGACATTGAGCTTAAG-AAAA-AGATTTAGACAAACATCGCATC
* * *
4221548 ACTTTGGGCAAGGTGCCAATGTGCTGATTCAAGGCCAAAGATATTGG
194 ACCTAGGGCAAAGTGCCAATGTGCTGATTCAAGGCCAAAGATATTGG
** *
4221595 GCTTGGGAAGAAGATTTAGACAGATGCCACATGACCTAGGGCAAGGTGCCAATGTGCTAATTCAA
1 GCTTGGGAAGAAGATTTAGACAGATGCCACATGACCTAGGGCAAGGCACCAATGTACTAATTCAA
* * *
4221660 GGCCAACGACATTGGGCTTTAGTGAAAAAGATTTGAGAAGTGCCTTTTGACATAAGCAGGGTACC
66 GGCCAACGACATTGGGCTTGAGTGAAAAAGATTTGACAAGTGCCTCTTGACATAAGCAGGGTACC
* * * * * ** *
4221725 AATGTGCTGATTCAAGGCTAGTGATATTGAGCTTCAGAAGAAGATTTAGACAGATGTCGCATGAC
131 AATGTGCTAATTCAAGGCTAGTGACATTGAGCTTAAGAAAAAGATTTAGACAAACATCGCATCAC
4221790 CTAGGGCAAAGTGCCAATGTGCTGATTCAAGGCCAA
196 CTAGGGCAAAGTGCCAATGTGCTGATTCAAGGCCAA
4221826 TAACATTAGG
Statistics
Matches: 195, Mismatches: 35, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
239 6 0.03
240 48 0.25
241 141 0.72
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (240 bp):
GCTTGGGAAGAAGATTTAGACAGATGCCACATGACCTAGGGCAAGGCACCAATGTACTAATTCAA
GGCCAACGACATTGGGCTTGAGTGAAAAAGATTTGACAAGTGCCTCTTGACATAAGCAGGGTACC
AATGTGCTAATTCAAGGCTAGTGACATTGAGCTTAAGAAAAAGATTTAGACAAACATCGCATCAC
CTAGGGCAAAGTGCCAATGTGCTGATTCAAGGCCAAAGATATTGG
Found at i:4221767 original size:160 final size:159
Alignment explanation
Indices: 4221563--4221911 Score: 518
Period size: 160 Copynumber: 2.2 Consensus size: 159
4221553 GGGCAAGGTG
** * **
4221563 CCAATGTGCTGATTCAAGGCCAAAGATATTGGGCTTGGGAAGAAGATTTAGACAGATGCCACATG
1 CCAATGTGCTGATTCAAGGCCAGTGATATTGAGCTTCAGAAGAAGATTTAGACAGATGCCACATG
* * * *
4221628 ACCTAGGGCAAGGTGCCAATGTGCTAATTCAAGGCCAACGACATTGGGCTTTAGTGAAAAAGATT
66 ACCTAGGGCAAAGTGCCAATGTGCTAATTCAAGGCCAACAACATTAGGCTTTAGTGAAAAAGATA
*
4221693 TGAGAAGTGCCTTTTGACATAAGCAGGGTA
131 TGACAA-TGCCTTTTGACATAAGCAGGGTA
* * *
4221723 CCAATGTGCTGATTCAAGGCTAGTGATATTGAGCTTCAGAAGAAGATTTAGACAGATGTCGCATG
1 CCAATGTGCTGATTCAAGGCCAGTGATATTGAGCTTCAGAAGAAGATTTAGACAGATGCCACATG
* *
4221788 ACCTAGGGCAAAGTGCCAATGTGCTGATTCAAGGCCAATAACATTAGGCTTTAGTGAAAAAGATA
66 ACCTAGGGCAAAGTGCCAATGTGCTAATTCAAGGCCAACAACATTAGGCTTTAGTGAAAAAGATA
* * *
4221853 TGACAATGCCTTTTGACATAGGTAGGGTG
131 TGACAATGCCTTTTGACATAAGCAGGGTA
*
4221882 CCAATGTGTTGATTCAAGGCCAGTGATATT
1 CCAATGTGCTGATTCAAGGCCAGTGATATT
4221912 AGTCTTAGGA
Statistics
Matches: 169, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
159 48 0.28
160 121 0.72
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (159 bp):
CCAATGTGCTGATTCAAGGCCAGTGATATTGAGCTTCAGAAGAAGATTTAGACAGATGCCACATG
ACCTAGGGCAAAGTGCCAATGTGCTAATTCAAGGCCAACAACATTAGGCTTTAGTGAAAAAGATA
TGACAATGCCTTTTGACATAAGCAGGGTA
Found at i:4222004 original size:28 final size:28
Alignment explanation
Indices: 4221963--4222042 Score: 115
Period size: 28 Copynumber: 2.9 Consensus size: 28
4221953 AAAGGTTTGA
* * *
4221963 GTGCCACCAACTTGTGTGGGCTTTTTAG
1 GTGCCCCCAGCTTGTGCGGGCTTTTTAG
4221991 GTGCCCCCAGCTTGTGCGGGCTTTTTAG
1 GTGCCCCCAGCTTGTGCGGGCTTTTTAG
* *
4222019 GTGCCCCTAGCTTTTGCGGGCTTT
1 GTGCCCCCAGCTTGTGCGGGCTTT
4222043 GAAAAGGGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.09, C:0.26, G:0.30, T:0.35
Consensus pattern (28 bp):
GTGCCCCCAGCTTGTGCGGGCTTTTTAG
Found at i:4222079 original size:60 final size:60
Alignment explanation
Indices: 4222008--4222137 Score: 181
Period size: 60 Copynumber: 2.2 Consensus size: 60
4221998 CAGCTTGTGC
** * * * * *
4222008 GGGCTTTTTAGGTGCCCCTAGCTTTTGCGGGCTTTGAAAAGGGTTGCCACCAACTCATGT
1 GGGCTTTTTAGGTGCCCCTAGCTCGTCCGAGCTTTGAAAAAGGATACCACCAACTCATGT
*
4222068 GGGCTTTTTAGGTGCCCCTAGCTCGTCCGAGCTTTGAAAAAGGATACCACCAACTCGTGT
1 GGGCTTTTTAGGTGCCCCTAGCTCGTCCGAGCTTTGAAAAAGGATACCACCAACTCATGT
4222128 -GGCTTTTTAG
1 GGGCTTTTTAG
4222138 AAAAAAGATT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
59 10 0.16
60 52 0.84
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (60 bp):
GGGCTTTTTAGGTGCCCCTAGCTCGTCCGAGCTTTGAAAAAGGATACCACCAACTCATGT
Found at i:4222395 original size:65 final size:65
Alignment explanation
Indices: 4222252--4222380 Score: 161
Period size: 65 Copynumber: 2.0 Consensus size: 65
4222242 AAAAGATTGG
* * * * * *
4222252 GTGCGACCAACTCGTGTGGGCTTTTTGGGTGCCGCCAACTCATGCGAACTTTTAGAAAGGTTTGA
1 GTGCCACCAACTTGCGTGGGCTTTCTAGGTGCCACCAACTCATGCGAACTTTTAGAAAGGTTTGA
* * *
4222317 GTGCCACCAACTTGCGTGGGCTTTCTAGGTGCCACCAATTCATGC-AAGCTTTTGGAGAGGTTTG
1 GTGCCACCAACTTGCGTGGGCTTTCTAGGTGCCACCAACTCATGCGAA-CTTTTAGAAAGGTTTG
4222381 GTTGCCATCG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 2 0.04
65 52 0.96
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (65 bp):
GTGCCACCAACTTGCGTGGGCTTTCTAGGTGCCACCAACTCATGCGAACTTTTAGAAAGGTTTGA
Found at i:4222439 original size:36 final size:37
Alignment explanation
Indices: 4222365--4222448 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 37
4222355 TTCATGCAAG
* * * * * *
4222365 CTTTTGGAGAGGTTTGGTTGCCATCGACTTGTATGGA
1 CTTTTGAAAAGGTTTGGTTGCCACCAACTCGTACGGA
*
4222402 C-TTTGAAAAGGTTTGGTTGCCACCAACTCGTGCGGA
1 CTTTTGAAAAGGTTTGGTTGCCACCAACTCGTACGGA
4222438 CTTTTGAAAAG
1 CTTTTGAAAAG
4222449 ATTACCACCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 29 0.74
37 10 0.26
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (37 bp):
CTTTTGAAAAGGTTTGGTTGCCACCAACTCGTACGGA
Found at i:4222489 original size:32 final size:31
Alignment explanation
Indices: 4222416--4222800 Score: 265
Period size: 32 Copynumber: 12.0 Consensus size: 31
4222406 GAAAAGGTTT
*
4222416 GGTTGCCACCAACTCGTGCGGACTTTTGAAAA
1 GGTTGCCACCAACTCGTGTGGAC-TTTGAAAA
* * * * * *
4222448 GATTACCACCAACTTGTGTGGGCTTAAGAAGA
1 GGTTGCCACCAACTCGTGTGGACTT-TGAAAA
* *
4222480 GGTTGCCACCAACTTGCGTGGA--TTGCTAAAA
1 GGTTGCCACCAACTCGTGTGGACTTTG--AAAA
* *
4222511 GGGTTTGGTTGCCACCGACTTGTGTGGACTTTGAAAA
1 ------GGTTGCCACCAACTCGTGTGGACTTTGAAAA
* * * *
4222548 -GTGTGCCACCAACTCATGTGGGCTTAAGAAGA
1 GGT-TGCCACCAACTCGTGTGGACTT-TGAAAA
* *
4222580 GGTTGCCAACAACTCATGTGGACTTTGGAAAA
1 GGTTGCCACCAACTCGTGTGGACTTT-GAAAA
*
4222612 GGTTGCCAGCAACTCGTGTGGACTTTGAAAA
1 GGTTGCCACCAACTCGTGTGGACTTTGAAAA
* * **
4222643 GGGTGCAAGTAACTCGTGTGGACTTTGAAAA
1 GGTTGCCACCAACTCGTGTGGACTTTGAAAA
* * * *
4222674 GGTTGCCACAAAATTGTGTGGACTTTGAAAT
1 GGTTGCCACCAACTCGTGTGGACTTTGAAAA
* *
4222705 GGTTGCCACCAACTCCTGTAGG-CTTTTAAAA
1 GGTTGCCACCAACTCGTGT-GGACTTTGAAAA
** **
4222736 TGGTTGCCACTGACTTTTGTGGACTTTGAAAA
1 -GGTTGCCACCAACTCGTGTGGACTTTGAAAA
* * ** *
4222768 GGCTGCCACTAACTTATGTGGGCTTTTGAAAA
1 GGTTGCCACCAACTCGTGTGGAC-TTTGAAAA
4222800 G
1 G
4222801 TGATGACAAC
Statistics
Matches: 282, Mismatches: 52, Indels: 38
0.76 0.14 0.10
Matches are distributed among these distances:
29 1 0.00
30 3 0.01
31 123 0.44
32 126 0.45
33 2 0.01
37 24 0.09
39 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (31 bp):
GGTTGCCACCAACTCGTGTGGACTTTGAAAA
Found at i:4222544 original size:100 final size:100
Alignment explanation
Indices: 4222407--4222593 Score: 279
Period size: 100 Copynumber: 1.9 Consensus size: 100
4222397 ATGGACTTTG
**
4222407 AAAAGGTTTGGTTGCCACCAACTCGTGCGGACTTTTGAAAAGAT-TACCACCAACTTGTGTGGGC
1 AAAAGGTTTGGTTGCCACCAACTCGTGCGGACTTTTGAAAAG-TGTACCACCAACTCATGTGGGC
*
4222471 TTAAGAAGAGGTTGCCACCAACTTGCGTGGATTGCT
65 TTAAGAAGAGGTTGCCAACAACTTGCGTGGATTGCT
* * * *
4222507 AAAAGGGTTTGGTTGCCACCGACTTGTGTGGAC-TTTGAAAAGTGTGCCACCAACTCATGTGGGC
1 AAAA-GGTTTGGTTGCCACCAACTCGTGCGGACTTTTGAAAAGTGTACCACCAACTCATGTGGGC
4222571 TTAAGAAGAGGTTGCCAACAACT
65 TTAAGAAGAGGTTGCCAACAACT
4222594 CATGTGGACT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
99 1 0.01
100 52 0.67
101 25 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (100 bp):
AAAAGGTTTGGTTGCCACCAACTCGTGCGGACTTTTGAAAAGTGTACCACCAACTCATGTGGGCT
TAAGAAGAGGTTGCCAACAACTTGCGTGGATTGCT
Found at i:4222568 original size:31 final size:31
Alignment explanation
Indices: 4222517--4222800 Score: 239
Period size: 31 Copynumber: 9.0 Consensus size: 31
4222507 AAAAGGGTTT
* **
4222517 GGTTGCCACCGACTTGTGTGGACTTTGAAAA
1 GGTTGCCACCAACTCATGTGGACTTTGAAAA
* * *
4222548 -GTGTGCCACCAACTCATGTGGGCTTAAGAAGA
1 GGT-TGCCACCAACTCATGTGGACTT-TGAAAA
*
4222580 GGTTGCCAACAACTCATGTGGACTTTGGAAAA
1 GGTTGCCACCAACTCATGTGGACTTT-GAAAA
* *
4222612 GGTTGCCAGCAACTCGTGTGGACTTTGAAAA
1 GGTTGCCACCAACTCATGTGGACTTTGAAAA
* * ** *
4222643 GGGTGCAAGTAACTCGTGTGGACTTTGAAAA
1 GGTTGCCACCAACTCATGTGGACTTTGAAAA
* * ** *
4222674 GGTTGCCACAAAATTGTGTGGACTTTGAAAT
1 GGTTGCCACCAACTCATGTGGACTTTGAAAA
* *
4222705 GGTTGCCACCAACTCCTGTAGG-CTTTTAAAA
1 GGTTGCCACCAACTCATGT-GGACTTTGAAAA
** **
4222736 TGGTTGCCACTGACTTTTGTGGACTTTGAAAA
1 -GGTTGCCACCAACTCATGTGGACTTTGAAAA
* * * *
4222768 GGCTGCCACTAACTTATGTGGGCTTTTGAAAA
1 GGTTGCCACCAACTCATGTGGAC-TTTGAAAA
4222800 G
1 G
4222801 TGATGACAAC
Statistics
Matches: 208, Mismatches: 37, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
30 2 0.01
31 118 0.57
32 86 0.41
33 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
GGTTGCCACCAACTCATGTGGACTTTGAAAA
Found at i:4222600 original size:63 final size:62
Alignment explanation
Indices: 4222533--4222800 Score: 184
Period size: 63 Copynumber: 4.3 Consensus size: 62
4222523 CACCGACTTG
* * *
4222533 TGTGGACTTTGAAAA-GTGTGCCACCAACTCATGTGGGCTTAAGAAGAGGTTGCCAA-CAACTCA
1 TGTGGACTTTGAAAAGGT-TGCCACCAACTCATGTGGACTT-AGAAAAGGGTG-CAAGCAACTCA
* * * * *
4222596 TGTGGACTTTGGAAAAGGTTGCCAGCAACTCGTGTGGACTTTGAAAAGGGTGCAAGTAACTCG
1 TGTGGACTTT-GAAAAGGTTGCCACCAACTCATGTGGACTTAGAAAAGGGTGCAAGCAACTCA
* * ** * * * * * *
4222659 TGTGGACTTTGAAAAGGTTGCCACAAAATTGTGTGGACTTTGAAATGGTTGCCACCAACTCC
1 TGTGGACTTTGAAAAGGTTGCCACCAACTCATGTGGACTTAGAAAAGGGTGCAAGCAACTCA
* ** ** * * * *
4222721 TGTAGG-CTTTTAAAATGGTTGCCACTGACTTTTGTGGACTTTGAAAAGGCTGCCA-CTAACTTA
1 TGT-GGACTTTGAAAA-GGTTGCCACCAACTCATGTGGACTTAGAAAAGGGTGCAAGC-AACTCA
*
4222784 TGTGGGCTTTTGAAAAG
1 TGTGGAC-TTTGAAAAG
4222801 TGATGACAAC
Statistics
Matches: 169, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
62 59 0.35
63 77 0.46
64 31 0.18
65 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (62 bp):
TGTGGACTTTGAAAAGGTTGCCACCAACTCATGTGGACTTAGAAAAGGGTGCAAGCAACTCA
Found at i:4222633 original size:132 final size:136
Alignment explanation
Indices: 4222375--4222633 Score: 301
Period size: 132 Copynumber: 1.9 Consensus size: 136
4222365 CTTTTGGAGA
* *
4222375 GGTTTGGTTGCCATCGACTTGTATGGACTTTGAAAAGGTTTGGTTGCCACCAACTCGTGCGGACT
1 GGTTTGGTTGCCACCGACTTGTATGGACTTTGAAAAGG-TTGGTTGCCACCAACTCATGCGGACT
** * ** * * *
4222440 TTTGAAAAGATTACCACCAACTTGTGTGGGCTTAAGAAGAGGTTGCCACCAACTTGCGTGGATTG
65 TAAGAAAAGATTACCAACAACTCATGTGGACTTAAGAAAAGGTTGCCACCAACTCGCGTGGATTG
4222505 CTAAAAG
130 CTAAAAG
* * *
4222512 GGTTTGGTTGCCACCGACTTGTGTGGACTTTGAAAA-G-T-G-TGCCACCAACTCATGTGGGCTT
1 GGTTTGGTTGCCACCGACTTGTATGGACTTTGAAAAGGTTGGTTGCCACCAACTCATGCGGACTT
* * * ** * *
4222573 AAGAAGAGGTTGCCAACAACTCATGTGGACTTTGGAAAAGGTTGCCAGCAACTCGTGTGGA
66 AAGAAAAGATTACCAACAACTCATGTGGACTTAAGAAAAGGTTGCCACCAACTCGCGTGGA
4222634 CTTTGAAAAG
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
132 65 0.64
133 1 0.01
134 1 0.01
136 1 0.01
137 34 0.33
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (136 bp):
GGTTTGGTTGCCACCGACTTGTATGGACTTTGAAAAGGTTGGTTGCCACCAACTCATGCGGACTT
AAGAAAAGATTACCAACAACTCATGTGGACTTAAGAAAAGGTTGCCACCAACTCGCGTGGATTGC
TAAAAG
Found at i:4227831 original size:42 final size:42
Alignment explanation
Indices: 4227776--4227894 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
4227766 TTCTTCTCTC
* *
4227776 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
4227818 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
4227860 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
4227895 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:4227835 original size:12 final size:11
Alignment explanation
Indices: 4227809--4227884 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
4227799 TCTATTATCT
*
4227809 CTCCTGTCTCTC
1 CTCCTATCTC-C
4227821 CTCCTATCATCC
1 CTCCTATC-TCC
4227833 CTCCTATCT--
1 CTCCTATCTCC
*
4227842 CTACTATCT--
1 CTCCTATCTCC
*
4227851 CTCCTGTCTCTC
1 CTCCTATCTC-C
4227863 CTCCTATCATCC
1 CTCCTATC-TCC
*
4227875 CTCCTCTCTC
1 CTCCTATCTC
4227885 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:4227836 original size:24 final size:24
Alignment explanation
Indices: 4227800--4227885 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
4227790 CCTCCTCTCT
* *
4227800 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
4227824 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
4227845 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
4227866 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
4227886 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:4227860 original size:18 final size:18
Alignment explanation
Indices: 4227791--4227861 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
4227781 CCTGTCATCC
* *
4227791 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
4227809 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
4227831 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
4227851 CTCCTGTCTCT
1 CTCCTGTCTCT
4227862 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:4229551 original size:32 final size:31
Alignment explanation
Indices: 4229510--4229639 Score: 154
Period size: 31 Copynumber: 4.1 Consensus size: 31
4229500 GTTTTCATCA
* *
4229510 AAAAGGTTGCCACCAACTTGTGTGGGCTATTG
1 AAAAGGTTGCCACCAACTCGTGTGGACT-TTG
*
4229542 AAAAGGTTGCCACCAACTCATGTGGACTTTG
1 AAAAGGTTGCCACCAACTCGTGTGGACTTTG
* * *
4229573 AAAAAGTTGCCATCAACTCTTGTGGACTTTG
1 AAAAGGTTGCCACCAACTCGTGTGGACTTTG
* *
4229604 -AAAGAGTTGCCATCAACTCGTGTGGGCTTTTG
1 AAAAG-GTTGCCACCAACTCGTGTGGAC-TTTG
4229636 AAAA
1 AAAA
4229640 TGATTATACC
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
30 3 0.03
31 51 0.59
32 29 0.34
33 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAAGGTTGCCACCAACTCGTGTGGACTTTG
Found at i:4229621 original size:62 final size:65
Alignment explanation
Indices: 4229509--4229639 Score: 164
Period size: 63 Copynumber: 2.1 Consensus size: 65
4229499 GGTTTTCATC
*
4229509 AAAAAGGTTGCCACCAACTTGTGTGGGCTATTGAAAAGGTTGCCACCAACTCATGTGGAC-TTTG
1 AAAAAGGTTGCCACCAACTTGTGTGGACTATTGAAAAGGTTGCCACCAACTCATGTGGACTTTTG
* * * *
4229573 AAAAA-GTTGCCATCAACTCT-TGTGGACT-TTG-AAAGAGTTGCCATCAACTCGTGTGGGCTTT
1 AAAAAGGTTGCCACCAACT-TGTGTGGACTATTGAAAAG-GTTGCCACCAACTCATGTGGACTTT
4229634 TG
64 TG
4229636 AAAA
1 AAAA
4229640 TGATTATACC
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
61 4 0.07
62 22 0.37
63 27 0.46
64 6 0.10
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (65 bp):
AAAAAGGTTGCCACCAACTTGTGTGGACTATTGAAAAGGTTGCCACCAACTCATGTGGACTTTTG
Found at i:4230126 original size:18 final size:18
Alignment explanation
Indices: 4230072--4230127 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 18
4230062 TGATGCTAAC
4230072 ACAATGATGATATGTGATG
1 ACAA-GATGATATGTGATG
*
4230091 ACAACATGA-ATGCATGATG
1 ACAAGATGATATG--TGATG
4230110 -CAAGATGATATGTTGATG
1 ACAAGATGATATG-TGATG
4230128 TTGTGGTTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 3 0.10
18 16 0.52
19 12 0.39
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (18 bp):
ACAAGATGATATGTGATG
Found at i:4230749 original size:33 final size:33
Alignment explanation
Indices: 4230703--4230768 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
4230693 AAAGGCCTAC
* * * * *
4230703 TTGACAAGGAAGGTGATAGAGTTTGGTTTATTT
1 TTGACAAGAAAGGTAATACAATTTGGTTCATTT
4230736 TTGACAAGAAAGGTAATACAATTTGGTTCATTT
1 TTGACAAGAAAGGTAATACAATTTGGTTCATTT
4230769 CCAACAAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (33 bp):
TTGACAAGAAAGGTAATACAATTTGGTTCATTT
Found at i:4234151 original size:31 final size:31
Alignment explanation
Indices: 4234113--4234226 Score: 165
Period size: 31 Copynumber: 3.7 Consensus size: 31
4234103 TTTTTCAATG
*
4234113 TCCACACGAGTTGGTGGCACCATAGTTAAAT
1 TCCACACGAGTTGGTGCCACCATAGTTAAAT
* * *
4234144 TCCACACGAGTTAGTGCCACCCTAGTCAAAT
1 TCCACACGAGTTGGTGCCACCATAGTTAAAT
* *
4234175 TCCACACGAGTTGGTGGCACCATAGTTAAAA
1 TCCACACGAGTTGGTGCCACCATAGTTAAAT
*
4234206 TGCACACGAGTTGGTGCCACC
1 TCCACACGAGTTGGTGCCACC
4234227 CCATTCAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (31 bp):
TCCACACGAGTTGGTGCCACCATAGTTAAAT
Found at i:4234235 original size:62 final size:62
Alignment explanation
Indices: 4234113--4234235 Score: 201
Period size: 62 Copynumber: 2.0 Consensus size: 62
4234103 TTTTTCAATG
* *
4234113 TCCACACGAGTTGGTGGCACCATAGTTAAATTCCACACGAGTTAGTGCCACCCTAGTCAAAT
1 TCCACACGAGTTGGTGGCACCATAGTTAAAATCCACACGAGTTAGTGCCACCCCAGTCAAAT
* * *
4234175 TCCACACGAGTTGGTGGCACCATAGTTAAAATGCACACGAGTTGGTGCCACCCCATTCAAA
1 TCCACACGAGTTGGTGGCACCATAGTTAAAATCCACACGAGTTAGTGCCACCCCAGTCAAA
4234236 ACTCACACAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (62 bp):
TCCACACGAGTTGGTGGCACCATAGTTAAAATCCACACGAGTTAGTGCCACCCCAGTCAAAT
Found at i:4234243 original size:62 final size:62
Alignment explanation
Indices: 4234113--4234255 Score: 198
Period size: 62 Copynumber: 2.3 Consensus size: 62
4234103 TTTTTCAATG
* * *
4234113 TCCACACGAGTTGGTGGCACCATAGTTAAATTCCACACGAGTTAGTGCCACCCTAGTCAAAT
1 TCCACACGAGTTGGTGGCACCATAGTTAAAATCCACACGAGTTAGTGCCACCCCAGTCAAAC
* * *
4234175 TCCACACGAGTTGGTGGCACCATAGTTAAAATGCACACGAGTTGGTGCCACCCCATTCAAAAC
1 TCCACACGAGTTGGTGGCACCATAGTTAAAATCCACACGAGTTAGTGCCACCCCAGTC-AAAC
* *
4234238 T-CACACAAGCTGGTGGCA
1 TCCACACGAGTTGGTGGCA
4234256 TCTCCTTCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
62 68 0.94
63 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (62 bp):
TCCACACGAGTTGGTGGCACCATAGTTAAAATCCACACGAGTTAGTGCCACCCCAGTCAAAC
Found at i:4234389 original size:79 final size:79
Alignment explanation
Indices: 4234258--4234800 Score: 480
Period size: 79 Copynumber: 6.6 Consensus size: 79
4234248 TGGTGGCATC
*
4234258 TCCTTCTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTCTACCCTAGTCATGTGAC
1 TCCTTCTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTCTACCCTAGTCATGCGAC
4234323 ATTTGTCAAAACCT
66 ATTTGTCAAAACCT
* *
4234337 TCCTTCTAAGCCCAATGTCATTGGCCTTGAATCAGCACATTGGCATTCTACCCTAGTCATGCAAC
1 TCCTTCTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTCTACCCTAGTCATGCGAC
4234402 ATTTGTCAAAACCT
66 ATTTGTCAAAACCT
** * *
4234416 TCCTTCTAAGCCCAATGTTGCTGGCCTTAAATCAGCAGCGCATTGGCATTCTACCCTAGTCATAC
1 TCCTTCTAAGCCCAATGTCACTGGCCTTGAATCAGCA---CATTGGCATTCTACCCTAGTCATGC
* *
4234481 -AGTATTTGTCAAAACTT
63 GA-CATTTGTCAAAACCT
* * * *
4234498 TCCTTCTAAGCCCAATGTCGTTGTGTGTTGCTGGCCTTGAATCAACACACTGGCATTCTGCCCTA
1 TCCTTCTAAGCCCAATGTC----------ACTGGCCTTGAATCAGCACATTGGCATTCTACCCTA
* *
4234563 CTCATGCGACATTTTTCAAAACCT
56 GTCATGCGACATTTGTCAAAACCT
* * * * * *
4234587 TCCTTCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTCTGCCCAAGTCATTCGGG
1 TCCTTCTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTCTACCCTAGTCATGC-GA
* * *
4234652 CGTCTATCAAAACC-
65 CATTTGTCAAAACCT
* * * * * * * ** ***
4234666 ACCTTTCTCAAGCCTAATATCGCTAGCCTTGAATCAACACATTGGCA-CCTTGCCTAGTCAAAAG
1 TCC-TTCT-AAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTCTACCCTAGTCATGCG
* * * *
4234730 GCATTTGTCGAATCAT
64 ACATTTGTCAAAACCT
** * *
4234746 CTCCTTCATTAAAGCCCAATGTTGCTAGCCTTGAATCAGCACATTGGCATCCTAC
1 -TCCTTC--T-AAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTCTAC
4234801 GCAATGTTAT
Statistics
Matches: 385, Mismatches: 56, Indels: 42
0.80 0.12 0.09
Matches are distributed among these distances:
79 158 0.41
80 28 0.07
81 37 0.10
82 90 0.23
83 3 0.01
89 52 0.14
90 1 0.00
92 16 0.04
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
TCCTTCTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTCTACCCTAGTCATGCGAC
ATTTGTCAAAACCT
Found at i:4234396 original size:39 final size:39
Alignment explanation
Indices: 4234274--4234396 Score: 101
Period size: 39 Copynumber: 3.1 Consensus size: 39
4234264 TAAGCCCAAT
*
4234274 GTCACTGGCCTTGAATCAGCACATTGGCATTCTACCCTA
1 GTCATTGGCCTTGAATCAGCACATTGGCATTCTACCCTA
* * ** * * *
4234313 GTCATGTGACATTTG--TCAAAACCTT--CCTTCTAAGCCCAA
1 GTCAT-TGGC-CTTGAATCAGCACATTGGCATTCT-A-CCCTA
4234352 TGTCATTGGCCTTGAATCAGCACATTGGCATTCTACCCTA
1 -GTCATTGGCCTTGAATCAGCACATTGGCATTCTACCCTA
4234392 GTCAT
1 GTCAT
4234397 GCAACATTTG
Statistics
Matches: 60, Mismatches: 15, Indels: 18
0.65 0.16 0.19
Matches are distributed among these distances:
37 5 0.08
38 4 0.07
39 23 0.38
40 19 0.32
41 4 0.07
42 5 0.08
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (39 bp):
GTCATTGGCCTTGAATCAGCACATTGGCATTCTACCCTA
Found at i:4234590 original size:89 final size:91
Alignment explanation
Indices: 4234431--4234606 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 91
4234421 CTAAGCCCAA
* * * *
4234431 TGTTGCTGGCCTTAAATCAGCAGCGCATTGGCATTCTACCCTAGTCATACAGTATTTGTCAAAAC
1 TGTTGCTGGCCTTAAATCA-CAGCACACTGGCATTCTACCCTACTCATACAGCATTTGTCAAAAC
*
4234496 TTTCCTTCTAAGCCCAATGTCGTTGTG
65 CTTCCTTCTAAGCCCAATGTCGTTGTG
* * * *
4234523 TGTTGCTGGCCTTGAATCA-A-CACACTGGCATTCTGCCCTACTCATGC-GACATTTTTCAAAAC
1 TGTTGCTGGCCTTAAATCACAGCACACTGGCATTCTACCCTACTCATACAG-CATTTGTCAAAAC
4234585 CTTCCTTCTAAGCCCAATGTCG
65 CTTCCTTCTAAGCCCAATGTCG
4234607 CTGGCCTTGA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
88 1 0.01
89 54 0.73
90 1 0.01
92 18 0.24
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (91 bp):
TGTTGCTGGCCTTAAATCACAGCACACTGGCATTCTACCCTACTCATACAGCATTTGTCAAAACC
TTCCTTCTAAGCCCAATGTCGTTGTG
Found at i:4240015 original size:60 final size:59
Alignment explanation
Indices: 4239922--4240173 Score: 264
Period size: 60 Copynumber: 4.3 Consensus size: 59
4239912 AAACTTTTCC
* *
4239922 AAAAGCCCACACAAGCTAGTGGCATCCTTTCTTAAAGCCCGCATGAGCTGATGACACCTA
1 AAAAGCCCACACAAGCTAGTGGCATCCTTTCTTAAAGCCCACATGAGCTGA-GACACCCA
4239982 AAAAGCCCACACAAGCTAGTGGCATCCTTTCTTAAAGCCCACATGAGCTG-GCAGCACCCA
1 AAAAGCCCACACAAGCTAGTGGCATCCTTTCTTAAAGCCCACATGAGCTGAG-A-CACCCA
* * * * ** *
4240042 AAAAGCCCACACAAGATGGTGGCATCTTTTC-T---GCCTACACAAGCTAGTGACACCC-
1 AAAAGCCCACACAAGCTAGTGGCATCCTTTCTTAAAGCCCACATGAGCT-GAGACACCCA
** * * * * * *
4240097 AAAAGCCCACATGAGCTGGTGGCATCTTTTCTCAATGCCCGCATGAACTGGAGACACCCA
1 AAAAGCCCACACAAGCTAGTGGCATCCTTTCTTAAAGCCCACATGAGCT-GAGACACCCA
4240157 AAAAGCCCACACAAGCT
1 AAAAGCCCACACAAGCT
4240174 GGTGACATTC
Statistics
Matches: 162, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
55 28 0.17
56 15 0.09
57 2 0.01
58 2 0.01
59 18 0.11
60 97 0.60
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (59 bp):
AAAAGCCCACACAAGCTAGTGGCATCCTTTCTTAAAGCCCACATGAGCTGAGACACCCA
Found at i:4240019 original size:32 final size:32
Alignment explanation
Indices: 4239923--4240024 Score: 106
Period size: 32 Copynumber: 3.3 Consensus size: 32
4239913 AACTTTTCCA
4239923 AAAGCCCACACAAGCTAGTGGCATCCTTTCTT
1 AAAGCCCACACAAGCTAGTGGCATCCTTTCTT
* ** * **
4239955 AAAGCCCGCATGAGCT-GATGACA-CC--T-AA
1 AAAGCCCACACAAGCTAG-TGGCATCCTTTCTT
4239983 AAAGCCCACACAAGCTAGTGGCATCCTTTCTT
1 AAAGCCCACACAAGCTAGTGGCATCCTTTCTT
4240015 AAAGCCCACA
1 AAAGCCCACA
4240025 TGAGCTGGCA
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
28 17 0.33
29 4 0.08
31 4 0.08
32 27 0.52
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (32 bp):
AAAGCCCACACAAGCTAGTGGCATCCTTTCTT
Found at i:4240419 original size:156 final size:156
Alignment explanation
Indices: 4240042--4240421 Score: 401
Period size: 156 Copynumber: 2.4 Consensus size: 156
4240032 GCAGCACCCA
* ** *
4240042 AAAAGCCCACACAAGATGGTGGCATC-TTT-TC--TGCCTACACAAGCTAGTGACACCCAAAAGC
1 AAAAGCCCACACGAGCGGGTGGCATCTTTTCTCAATGCCTACACAAGCTGGTGACACCCAAAAGC
* * * * **
4240103 CCACATGAGCTGGTGGCATCTTTTCTCAATGCCCGCATGAACTGGAGACACCCAAAAAGCCCACA
66 CCACACGAGCCGGTGGCATCCTTTCACAAAACCCGCATGAACTGGAGACACCCAAAAAGCCCACA
* *
4240168 CAAGCTGGTGACATTCAAACCTTTCC
131 CAAGCTAGTGACACTCAAACCTTTCC
** * *** * * * * *
4240194 AAAAGCGTACACGGGCTTTTGGCATCTTTTCTCAAAGCCCACACGAGCTGG-CAGCACCTAAAAG
1 AAAAGCCCACACGAGCGGGTGGCATCTTTTCTCAATGCCTACACAAGCTGGTGA-CACCCAAAAG
* * * * *
4240258 CCCACACGAGCCGGTGGCATCCTTTCACAAAACCCTCATGAGCTGGCGGCACCCAAAAAGTCCAC
65 CCCACACGAGCCGGTGGCATCCTTTCACAAAACCCGCATGAACTGGAGACACCCAAAAAGCCCAC
* * *
4240323 ACAAGTTAGTGGCACTCAAACCTTTTC
130 ACAAGCTAGTGACACTCAAACCTTTCC
* *
4240350 AAAAGCCCACATGAGCGGGTGGCATCTTTTCTCAATGCCTGCACAAGCTGGTGACACCCAAAAAG
1 AAAAGCCCACACGAGCGGGTGGCATCTTTTCTCAATGCCTACACAAGCTGGTGACACCC-AAAAG
4240415 CCACACA
65 CC-CACA
4240422 AGCTGTTGGC
Statistics
Matches: 178, Mismatches: 42, Indels: 10
0.77 0.18 0.04
Matches are distributed among these distances:
152 19 0.11
153 3 0.02
154 2 0.01
155 1 0.01
156 141 0.79
157 8 0.04
158 4 0.02
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.19
Consensus pattern (156 bp):
AAAAGCCCACACGAGCGGGTGGCATCTTTTCTCAATGCCTACACAAGCTGGTGACACCCAAAAGC
CCACACGAGCCGGTGGCATCCTTTCACAAAACCCGCATGAACTGGAGACACCCAAAAAGCCCACA
CAAGCTAGTGACACTCAAACCTTTCC
Found at i:4240469 original size:96 final size:97
Alignment explanation
Indices: 4240253--4240480 Score: 219
Period size: 96 Copynumber: 2.4 Consensus size: 97
4240243 GGCAGCACCT
* * * * ** ** *
4240253 AAAAGCCCACACGAGCCGGTGGCATCCTTTCACAAAACCCT-CATGAGCTGGCGGCACCCAAAAA
1 AAAAGCACACACAAGCGGGTGGCATCCTTTCTC-AATGCCTGCACAAGCTGGCGACACCCAAAAA
* * *
4240317 GTCCACACAAGTTAGTGGCACTCAAACCTTTTC
65 GTCCACACAAGCTAGTGGCACTCAAACCATTCC
* ** * *
4240350 AAAAGCCCACATGAGCGGGTGGCATCTTTTCTCAATGCCTGCACAAGCTGGTGACACCCAAAAAG
1 AAAAGCACACACAAGCGGGTGGCATCCTTTCTCAATGCCTGCACAAGCTGGCGACACCCAAAAAG
*
4240415 -CCACACAAGCT-GTTGGCATTCAAACCATTCC
66 TCCACACAAGCTAG-TGGCACTCAAACCATTCC
* ***
4240446 AAAAGCATACACAAGCTTTTGGCATCCTTTCTCAA
1 AAAAGCACACACAAGCGGGTGGCATCCTTTCTCAA
4240481 AGCCCACATG
Statistics
Matches: 107, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
95 1 0.01
96 57 0.53
97 49 0.46
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (97 bp):
AAAAGCACACACAAGCGGGTGGCATCCTTTCTCAATGCCTGCACAAGCTGGCGACACCCAAAAAG
TCCACACAAGCTAGTGGCACTCAAACCATTCC
Found at i:4240723 original size:252 final size:252
Alignment explanation
Indices: 4240095--4240703 Score: 911
Period size: 252 Copynumber: 2.4 Consensus size: 252
4240085 CTAGTGACAC
*
4240095 CCAAAAGCCCACATGAGCTGGTGGCATCTTTTCTCAATGCCCG-CATGAACTGGAGACACCCAAA
1 CCAAAAGCCCACATGAGCTGGTGGCATCTTTTCTCAATGCCCGACA--AGCTGGAGACACCCAAA
* * * *
4240159 AAGCCCACACAAGCTGGTGACATTCAAACCTTTCCAAAAGCGTACACGGGCTTTTGGCATCTTTT
64 AAGCCCACACAAGCTGGTGGCATTCAAACCTTTCCAAAAGCATACACGAGCTTTTGGCATCCTTT
* *
4240224 CTCAAAGCCCACACGAGCTGGCAGCACCTAAAAGCCCACACGAGCCGGTGGCATCCTTTCACAAA
129 CTCAAAGCCCACACGAGCAGGCAGCACCTAAAAGCCCACACGAACCGGTGGCATCCTTTCACAAA
* *
4240289 ACCCTCATGAGCTGGCGGCACCCAAAAAGTCCACACAAGTTAGTGGCACTCAAACCTTT
194 ACCCTCATGAGCTGGCAGCACCCAAAAAGTCCACAAAAGTTAGTGGCACTCAAACCTTT
* * * *
4240348 TCAAAAGCCCACATGAGCGGGTGGCATCTTTTCTCAATGCCTGCACAAGCTGGTGACACCCAAAA
1 CCAAAAGCCCACATGAGCTGGTGGCATCTTTTCTCAATGCCCG-ACAAGCTGGAGACACCCAAAA
* * *
4240413 AG-CCACACAAGCTGTTGGCATTCAAACCATTCCAAAAGCATACACAAGCTTTTGGCATCCTTTC
65 AGCCCACACAAGCTGGTGGCATTCAAACCTTTCCAAAAGCATACACGAGCTTTTGGCATCCTTTC
* * *
4240477 TCAAAGCCCACATGAGCAGGCAGCACCTAAAAGCCCATACGAACCGGTGGCATCCTTTCTCAAAA
130 TCAAAGCCCACACGAGCAGGCAGCACCTAAAAGCCCACACGAACCGGTGGCATCCTTTCACAAAA
4240542 CCCTCATGAGCTGGCAGCACCCAAAAAGTCCACAAAAGTTAGTGGCACTCAAACCTTT
195 CCCTCATGAGCTGGCAGCACCCAAAAAGTCCACAAAAGTTAGTGGCACTCAAACCTTT
* * * *
4240600 CCAAAAGCCCACACGAGCTAGTGGCATC-TTTCTTAAAGCCCAGACAAGCTGGCAG-CACCCAAA
1 CCAAAAGCCCACATGAGCTGGTGGCATCTTTTCTCAATGCCC-GACAAGCTGG-AGACACCCAAA
***
4240663 AAGCCCACACAAGCTGGTGGTGCTCAAACCTTTCCAAAAGC
64 AAGCCCACACAAGCTGGTGGCATTCAAACCTTTCCAAAAGC
4240704 CCACATGAGC
Statistics
Matches: 319, Mismatches: 32, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
251 30 0.09
252 229 0.72
253 58 0.18
255 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.19
Consensus pattern (252 bp):
CCAAAAGCCCACATGAGCTGGTGGCATCTTTTCTCAATGCCCGACAAGCTGGAGACACCCAAAAA
GCCCACACAAGCTGGTGGCATTCAAACCTTTCCAAAAGCATACACGAGCTTTTGGCATCCTTTCT
CAAAGCCCACACGAGCAGGCAGCACCTAAAAGCCCACACGAACCGGTGGCATCCTTTCACAAAAC
CCTCATGAGCTGGCAGCACCCAAAAAGTCCACAAAAGTTAGTGGCACTCAAACCTTT
Found at i:4240880 original size:97 final size:97
Alignment explanation
Indices: 4240505--4240917 Score: 515
Period size: 97 Copynumber: 4.2 Consensus size: 97
4240495 GGCAGCACCT
* * * * * * *
4240505 AAAAGCCCATACGAACCGGTGGCATCCTTTCTCAAAACCCTCATGAGCTGGCAGCACCCAAAAAG
1 AAAAGCCCACACGAGCTGGTGGCATCCTTTCTTAAAGCCCACATAAGCTGGCAGCACCCAAAAAG
* * *
4240570 TCCACAAAAGTTAGTGGCACTCAAACCTTTCC
66 CCCACACAAGCTAGTGGCACTCAAACCTTTCC
* * *
4240602 AAAAGCCCACACGAGCTAGTGGCAT-CTTTCTTAAAGCCCAGACAAGCTGGCAGCACCCAAAAAG
1 AAAAGCCCACACGAGCTGGTGGCATCCTTTCTTAAAGCCCACATAAGCTGGCAGCACCCAAAAAG
* **
4240666 CCCACACAAGCTGGTGGTGCTCAAACCTTTCC
66 CCCACACAAGCTAGTGGCACTCAAACCTTTCC
* * * * * *
4240698 AAAAGCCCACATGAGCTGGTGGCATCTTTTTTCTTAAAGCTCGCATGAGTTGGCAGCACCCAAAA
1 AAAAGCCCACACGAGCTGGTGGCATC--CTTTCTTAAAGCCCACATAAGCTGGCAGCACCCAAAA
* * * *
4240763 AGCTCACACCAGCTGGTGGCACTCAAACCTTTCT
64 AGCCCACACAAGCTAGTGGCACTCAAACCTTTCC
* *
4240797 AAAAGCCCACACGAGTTGGTGGCATCCTTTCTTAAAGCCCACATAAGTTGGC-GACACCCAAAAA
1 AAAAGCCCACACGAGCTGGTGGCATCCTTTCTTAAAGCCCACATAAGCTGGCAG-CACCCAAAAA
*
4240861 GCCCACACAAGCTAGTGGCACTTAAACCTTTCC
65 GCCCACACAAGCTAGTGGCACTCAAACCTTTCC
*
4240894 AAAAGCCCACATGAGCTGGTGGCA
1 AAAAGCCCACACGAGCTGGTGGCA
4240918 CCCAAAAAGC
Statistics
Matches: 269, Mismatches: 43, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
96 83 0.31
97 103 0.38
99 83 0.31
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (97 bp):
AAAAGCCCACACGAGCTGGTGGCATCCTTTCTTAAAGCCCACATAAGCTGGCAGCACCCAAAAAG
CCCACACAAGCTAGTGGCACTCAAACCTTTCC
Found at i:4240903 original size:196 final size:195
Alignment explanation
Indices: 4240546--4240917 Score: 568
Period size: 196 Copynumber: 1.9 Consensus size: 195
4240536 TCAAAACCCT
*
4240546 CATGAGCTGGCAGCACCCAAAAAGTCCACAAAAGTTAGTGGCACTCAAACCTTTCCAAAAGCCCA
1 CATGAGCTGGCAGCACCCAAAAAGTCCACAAAAGCTAGTGGCACTCAAACCTTTCCAAAAGCCCA
*
4240611 CACGAGCTAGTGGCATCTTTCTTAAAGCCCAGACAAGCTGGCAGCACCCAAAAAGCCCACACAAG
66 CACGAGCTAGTGGCATCTTTCTTAAAGCCCACACAAGCTGGCAGCACCCAAAAAGCCCACACAAG
* **
4240676 CTGGTGGTGCTCAAACCTTTCCAAAAGCCCACATGAGCTGGTGGCATCTTTTTTCTTAAAGCTCG
131 CTAGTGGCACTCAAACCTTTCCAAAAGCCCACATGAGCTGGTGGCATCTTTTTTCTTAAAGCTCG
* ** * *
4240741 CATGAGTTGGCAGCACCCAAAAAG-CTCACACCAGCTGGTGGCACTCAAACCTTTCTAAAAGCCC
1 CATGAGCTGGCAGCACCCAAAAAGTC-CACAAAAGCTAGTGGCACTCAAACCTTTCCAAAAGCCC
* * * *
4240805 ACACGAGTTGGTGGCATCCTTTCTTAAAGCCCACATAAGTTGGC-GACACCCAAAAAGCCCACAC
65 ACACGAGCTAGTGGCAT-CTTTCTTAAAGCCCACACAAGCTGGCAG-CACCCAAAAAGCCCACAC
*
4240869 AAGCTAGTGGCACTTAAACCTTTCCAAAAGCCCACATGAGCTGGTGGCA
128 AAGCTAGTGGCACTCAAACCTTTCCAAAAGCCCACATGAGCTGGTGGCA
4240918 CCCAAAAAGC
Statistics
Matches: 159, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
194 1 0.01
195 72 0.45
196 86 0.54
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (195 bp):
CATGAGCTGGCAGCACCCAAAAAGTCCACAAAAGCTAGTGGCACTCAAACCTTTCCAAAAGCCCA
CACGAGCTAGTGGCATCTTTCTTAAAGCCCACACAAGCTGGCAGCACCCAAAAAGCCCACACAAG
CTAGTGGCACTCAAACCTTTCCAAAAGCCCACATGAGCTGGTGGCATCTTTTTTCTTAAAGCTCG
Found at i:4240920 original size:65 final size:65
Alignment explanation
Indices: 4240830--4241001 Score: 283
Period size: 65 Copynumber: 2.7 Consensus size: 65
4240820 ATCCTTTCTT
*
4240830 AAAGCCCACATAAGTTGGCGACACCCAAAAAGCCCACACAAGCTAGTGGCACTTAAACCTTTCCA
1 AAAGCCCACATAAGCTGGCGACACCCAAAAAGCCCACACAAGCTAGTGGCACTTAAACCTTTCCA
* * *
4240895 AAAGCCCACATGAGCTGGTGGCACCCAAAAAGCCCACACAAGCTAGTGGCACTTAAACCTTTCCA
1 AAAGCCCACATAAGCTGGCGACACCCAAAAAGCCCACACAAGCTAGTGGCACTTAAACCTTTCCA
**
4240960 AAAGCCTGCATAAGCTGGCGACACCC-AAAAGCCCACACAAGC
1 AAAGCCCACATAAGCTGGCGACACCCAAAAAGCCCACACAAGC
4241002 CGTAGCATCT
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
64 16 0.16
65 82 0.84
ACGTcount: A:0.36, C:0.33, G:0.17, T:0.13
Consensus pattern (65 bp):
AAAGCCCACATAAGCTGGCGACACCCAAAAAGCCCACACAAGCTAGTGGCACTTAAACCTTTCCA
Found at i:4241457 original size:80 final size:80
Alignment explanation
Indices: 4241271--4241450 Score: 211
Period size: 80 Copynumber: 2.2 Consensus size: 80
4241261 CATAATGTTG
* *
4241271 TTGGCCTTGAATCAGCACATTGGCACCCTACTTATGTCAAAAGGCACTTGTCATACAGTTCTAGT
1 TTGGCCTTGAATCAGCACATTGGCACCCTACCTATGGCAAAAGGCACTTGTCATACAGTTCTAGT
* *
4241336 CTAAGCCCAATGTCG
66 CTAAGCCCAATATCA
* * * * **
4241351 CTAGTCTTGAATCAGCACATTGGCACCC-AGCCTATGGCAAAAGGCACTTGTCGTGTAGTTCTAG
1 TTGGCCTTGAATCAGCACATTGGCACCCTA-CCTATGGCAAAAGGCACTTGTCATACAGTTCTAG
**
4241415 T-TGAAGCTTAATATCA
65 TCT-AAGCCCAATATCA
*
4241431 TTGGCCTTGAATCAACACAT
1 TTGGCCTTGAATCAGCACAT
4241451 CAGCACCATG
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 2 0.02
80 80 0.98
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (80 bp):
TTGGCCTTGAATCAGCACATTGGCACCCTACCTATGGCAAAAGGCACTTGTCATACAGTTCTAGT
CTAAGCCCAATATCA
Found at i:4244281 original size:12 final size:11
Alignment explanation
Indices: 4244259--4244334 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
4244249 AGAGAAAGAA
*
4244259 GAGAGAGGAGG
1 GAGATAGGAGG
4244270 GATGATAGGAGG
1 GA-GATAGGAGG
*
4244282 AGAGACAGGA--
1 -GAGATAGGAGG
*
4244292 GAGATAGTA--
1 GAGATAGGAGG
4244301 GAGATAGGAGG
1 GAGATAGGAGG
4244312 GATGATAGGAGG
1 GA-GATAGGAGG
*
4244324 AGAGACAGGAG
1 -GAGATAGGAG
4244335 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:4244291 original size:24 final size:24
Alignment explanation
Indices: 4244258--4244343 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
4244248 AAGAGAAAGA
*
4244258 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
4244282 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
4244300 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
4244324 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
4244344 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:4244310 original size:42 final size:42
Alignment explanation
Indices: 4244249--4244367 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
4244239 TAGCCCTCAA
* *
4244249 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
4244291 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
4244333 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
4244368 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:4247257 original size:12 final size:12
Alignment explanation
Indices: 4247240--4247269 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
4247230 TCTTAAGGGT
4247240 AGAGTTCCTAGA
1 AGAGTTCCTAGA
4247252 AGAGTTCCTAGA
1 AGAGTTCCTAGA
4247264 AGAGTT
1 AGAGTT
4247270 TCCTTATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (12 bp):
AGAGTTCCTAGA
Found at i:4250267 original size:12 final size:11
Alignment explanation
Indices: 4250245--4250316 Score: 53
Period size: 12 Copynumber: 6.5 Consensus size: 11
4250235 AGAGAAAGAA
*
4250245 GAGAGAGGAGG
1 GAGATAGGAGG
4250256 GATGATAGGAGG
1 GA-GATAGGAGG
*
4250268 AGAGACAGGA--
1 -GAGATAGGAGG
*
4250278 GAGATAGTA--
1 GAGATAGGAGG
4250287 GAGATAGGAGG
1 GAGATAGGAGG
4250298 GATGATAGGAGG
1 GA-GATAGGAGG
4250310 AGAGATA
1 -GAGATA
4250317 ATAGAGAGAG
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
9 15 0.30
11 4 0.08
12 27 0.54
13 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.47, T:0.11
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:4250296 original size:42 final size:42
Alignment explanation
Indices: 4250235--4250314 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
4250225 TAGCCCTCAA
4250235 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
4250277 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGA
1 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGA
4250315 TAATAGAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.44, C:0.01, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:4250311 original size:33 final size:33
Alignment explanation
Indices: 4250274--4250344 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4250264 GAGGAGAGAC
* * *
4250274 AGGAGAGATAGTAGAGATAGGAGGGATGATAGG
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
4250307 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
4250340 AGGAG
1 AGGAG
4250345 GAGAGAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.01, G:0.46, T:0.11
Consensus pattern (33 bp):
AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
Found at i:4250323 original size:42 final size:42
Alignment explanation
Indices: 4250235--4250323 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
4250225 TAGCCCTCAA
*
4250235 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
* * * * *
4250277 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAAT
1 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
4250319 AGAGA
1 AGAGA
4250324 GAGGAGGGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.45, C:0.01, G:0.44, T:0.10
Consensus pattern (42 bp):
AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
Found at i:4263904 original size:32 final size:31
Alignment explanation
Indices: 4263835--4263929 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 31
4263825 CTGTAGAGTC
* * *
4263835 CTAATTAAACAAGAACAATCCT-ATCATAAT
1 CTAACTAAACAAGGACAATCCTAATCATAGT
*
4263865 CCTAACTAAACAAGGACAATCTTAATCATAGT
1 -CTAACTAAACAAGGACAATCCTAATCATAGT
* * *
4263897 CTGAACTAAACAAAGATAATCCTAATCACAGT
1 CT-AACTAAACAAGGACAATCCTAATCATAGT
4263929 C
1 C
4263930 CTAATAGTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 21 0.39
32 33 0.61
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.24
Consensus pattern (31 bp):
CTAACTAAACAAGGACAATCCTAATCATAGT
Found at i:4264237 original size:53 final size:53
Alignment explanation
Indices: 4264154--4264254 Score: 166
Period size: 53 Copynumber: 1.9 Consensus size: 53
4264144 TCACACAATG
* *
4264154 TAGAAAAGTGATCAATCTTGGCAATGCATCTGATTCATCTTGAACAACCTCCT
1 TAGAAAAGTGATCAATCTTGGCAATACATCTGATTCATCTTAAACAACCTCCT
* *
4264207 TAGAAAAGTGATCAATCTTTGCAATACATCTGATTCTTCTTAAACAAC
1 TAGAAAAGTGATCAATCTTGGCAATACATCTGATTCATCTTAAACAAC
4264255 TTCTTTTGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (53 bp):
TAGAAAAGTGATCAATCTTGGCAATACATCTGATTCATCTTAAACAACCTCCT
Found at i:4270294 original size:161 final size:162
Alignment explanation
Indices: 4270038--4270517 Score: 512
Period size: 149 Copynumber: 3.0 Consensus size: 162
4270028 CTTTATTTTT
* * * * *
4270038 AAAATACGAAGTTTTGTACTTCGTAAATGTTTT-TGGAGGGATTTTTCTTGGTTTCTAATTTTTA
1 AAAATACGAAGTTTTCTACTCCGTAAATGTTTTCGGGA-AGA--TTTCTT-GTTTTTAATTTTTA
*
4270102 AAATTTATCAAATATCATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCAT
62 AAATTTATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATT-ATTCATTTTCA-
*
4270167 TGAGTTTTTCATTTTTTCCTTAAAATTTC-CCTATTTCC
125 TGAG-TTTTCATTTTTTCCTTGAAATTTCTCCTATTTCC
4270205 AAAAT--GTAGAGTTTTCTACTCCGTAAATGTTTTCGGGAAGA-TT-TT-TTTTTAATTTTTAAA
1 AAAATACG-A-AGTTTTCTACTCCGTAAATGTTTTCGGGAAGATTTCTTGTTTTTAATTTTTAAA
*
4270265 ATTCATCAAATATTATTATTTAATTCATATTAAATCA-TTGTTC-AAAA--ATTCA--TTC---A
64 ATTTATCAAATATTATTATTTAATTCATATTAAATCAGTT-TTCAAAAATTATTCATTTTCATGA
** * **
4270321 -TTTTCATTTTTTCGGTGAAA-TTCTCCTGTTTTT
128 GTTTTCATTTTTTCCTTGAAATTTCTCCTATTTCC
* **
4270354 GAAATACGAAGTTTTCTACTCCGTAAATGTTTTCGGGGGGATTTTTCTTGGTTTTTAATTTTTAA
1 AAAATACGAAGTTTTCTACTCCGTAAATGTTTTCGGGAAGA--TTTCTT-GTTTTTAATTTTTAA
*
4270419 AATTTATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAAATTAATTTATTTTCAT
63 AATTTATCAAATATTATTATTTAATTCATATTAAATCAGTTTTC-AAAAATT-ATTCATTTTCAT
* * *
4270484 GAGTTTTAATTTTTTCTTTGAAATTT-TTCTATTT
126 GAGTTTTCATTTTTTCCTTGAAATTTCTCCTATTT
4270518 TTGAAAAACC
Statistics
Matches: 264, Mismatches: 23, Indels: 53
0.78 0.07 0.16
Matches are distributed among these distances:
148 3 0.01
149 57 0.22
150 1 0.00
151 2 0.01
152 2 0.01
153 2 0.01
155 57 0.22
156 2 0.01
157 9 0.03
160 10 0.04
161 52 0.20
162 3 0.01
163 2 0.01
164 2 0.01
165 2 0.01
166 24 0.09
167 31 0.12
168 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.50
Consensus pattern (162 bp):
AAAATACGAAGTTTTCTACTCCGTAAATGTTTTCGGGAAGATTTCTTGTTTTTAATTTTTAAAAT
TTATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTATTCATTTTCATGAGTT
TTCATTTTTTCCTTGAAATTTCTCCTATTTCC
Found at i:4271458 original size:12 final size:11
Alignment explanation
Indices: 4271439--4271510 Score: 62
Period size: 12 Copynumber: 6.5 Consensus size: 11
4271429 AGAGAAAGAA
4271439 GAGATAGGAGG
1 GAGATAGGAGG
4271450 GATGATAGGAGG
1 GA-GATAGGAGG
4271462 AGAGATAGGA--
1 -GAGATAGGAGG
*
4271472 GAGATA-G-TG
1 GAGATAGGAGG
*
4271481 GAGATAGGAGC
1 GAGATAGGAGG
4271492 GATGATAGGAGG
1 GA-GATAGGAGG
4271504 AGAGATA
1 -GAGATA
4271511 AGAGAGATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
8 1 0.02
9 12 0.24
10 1 0.02
11 4 0.08
12 28 0.56
13 4 0.08
ACGTcount: A:0.39, C:0.01, G:0.46, T:0.14
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:4271483 original size:11 final size:9
Alignment explanation
Indices: 4271459--4271561 Score: 51
Period size: 9 Copynumber: 12.1 Consensus size: 9
4271449 GGATGATAGG
4271459 AGGAGAGAT
1 AGGAGAGAT
4271468 AGGAGAGAT
1 AGGAGAGAT
4271477 AGTG-GAGAT
1 AG-GAGAGAT
*
4271486 AGGAGCGAT
1 AGGAGAGAT
* *
4271495 --GATAG-G
1 AGGAGAGAT
4271501 AGGAGAGAT
1 AGGAGAGAT
*
4271510 AAGAGAGAT
1 AGGAGAGAT
** *
4271519 AATAGAGAG
1 AGGAGAGAT
4271528 AGGA-AGGAT
1 AGGAGA-GAT
* *
4271537 --GACAG-G
1 AGGAGAGAT
4271543 AGGAGAGAT
1 AGGAGAGAT
4271552 AGGAGAGAT
1 AGGAGAGAT
4271561 A
1 A
4271562 ATAGAGAGAA
Statistics
Matches: 69, Mismatches: 15, Indels: 20
0.66 0.14 0.19
Matches are distributed among these distances:
7 6 0.09
8 11 0.16
9 51 0.74
10 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.43, T:0.12
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:4271488 original size:42 final size:42
Alignment explanation
Indices: 4271438--4271586 Score: 208
Period size: 42 Copynumber: 3.5 Consensus size: 42
4271428 AAGAGAAAGA
* * *
4271438 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAGT
1 AGAGAGAGGAGGGATGACAGGAGGAGAGATAGGAGAGATAAT
* * * * *
4271480 GGAGATAGGAGCGATGATAGGAGGAGAGATAAGAGAGATAAT
1 AGAGAGAGGAGGGATGACAGGAGGAGAGATAGGAGAGATAAT
*
4271522 AGAGAGAGGAAGGATGACAGGAGGAGAGATAGGAGAGATAAT
1 AGAGAGAGGAGGGATGACAGGAGGAGAGATAGGAGAGATAAT
*
4271564 AGAGAGAAGAGGGATGACAGGAG
1 AGAGAGAGGAGGGATGACAGGAG
4271587 AGAAGAAGAT
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 95 1.00
ACGTcount: A:0.43, C:0.02, G:0.44, T:0.11
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGACAGGAGGAGAGATAGGAGAGATAAT
Found at i:4271610 original size:84 final size:84
Alignment explanation
Indices: 4271428--4271610 Score: 205
Period size: 84 Copynumber: 2.2 Consensus size: 84
4271418 GTAGCCCTCA
* * * * * * *
4271428 AAGAGAAAG-A-AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAGTGGAGATAGGAG
1 AAGAGAAAGAATAGAGAGAGGAAGGATGACAGGAGGAGAGATAGGAGAGATAATAGAGAGAAGAG
* *
4271491 CGATGATAGGAGGAGAGAT
66 CGATGACAGGAGGAGAGAG
* *
4271510 AAGAGAGATAATAGAGAGAGGAAGGATGACAGGAGGAGAGATAGGAGAGATAATAGAGAGAAGAG
1 AAGAGAAAGAATAGAGAGAGGAAGGATGACAGGAGGAGAGATAGGAGAGATAATAGAGAGAAGAG
*
4271575 GGATGACAGGA-GAGA-AG
66 CGATGACAGGAGGAGAGAG
*
4271592 AAGATGAAAGAGT-GAGAGA
1 AAGA-GAAAGAATAGAGAGA
4271611 AAATGAGAGA
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
82 18 0.22
83 10 0.12
84 55 0.66
ACGTcount: A:0.46, C:0.02, G:0.42, T:0.10
Consensus pattern (84 bp):
AAGAGAAAGAATAGAGAGAGGAAGGATGACAGGAGGAGAGATAGGAGAGATAATAGAGAGAAGAG
CGATGACAGGAGGAGAGAG
Found at i:4276688 original size:24 final size:23
Alignment explanation
Indices: 4276655--4276746 Score: 79
Period size: 24 Copynumber: 4.2 Consensus size: 23
4276645 AAGAGAAAGA
*
4276655 AGAGAGAGGAGGGATGATAGCAGG
1 AGAGACAGGAGGGATGATAG-AGG
*
4276679 AGAGACAGGA--GA-GAT--AGT
1 AGAGACAGGAGGGATGATAGAGG
*
4276697 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATA-GAGG
* *
4276721 AGAGACAGGAGAGATAATAGA-G
1 AGAGACAGGAGGGATGATAGAGG
4276743 AGAG
1 AGAG
4276747 GAGGGATGAC
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
18 11 0.20
20 2 0.04
21 6 0.11
22 7 0.13
23 2 0.04
24 27 0.49
ACGTcount: A:0.42, C:0.03, G:0.45, T:0.10
Consensus pattern (23 bp):
AGAGACAGGAGGGATGATAGAGG
Found at i:4276707 original size:42 final size:42
Alignment explanation
Indices: 4276646--4276764 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
4276636 TAGCCCTCAA
* * *
4276646 AGAGAAAGAAGAGAGAGGAGGGATGATAGCAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
4276688 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
4276730 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
4276765 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.43, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:4284304 original size:42 final size:42
Alignment explanation
Indices: 4284249--4284409 Score: 268
Period size: 42 Copynumber: 3.8 Consensus size: 42
4284239 TTCTTCTCTC
* * *
4284249 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
4284291 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
4284333 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
* * *
4284375 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
4284410 TTGAGGGCTA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 113 1.00
ACGTcount: A:0.09, C:0.46, G:0.02, T:0.42
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
Found at i:4284308 original size:12 final size:11
Alignment explanation
Indices: 4284282--4284399 Score: 72
Period size: 12 Copynumber: 10.9 Consensus size: 11
4284272 TCTATTATCT
*
4284282 CTCCTGTCTCTC
1 CTCCTATCTC-C
4284294 CTCCTATCATCC
1 CTCCTATC-TCC
4284306 CTCCTATCT--
1 CTCCTATCTCC
*
4284315 CTACTATCT--
1 CTCCTATCTCC
*
4284324 CTCCTGTCTCTC
1 CTCCTATCTC-C
4284336 CTCCTATCATCC
1 CTCCTATC-TCC
4284348 CTCCTATCT--
1 CTCCTATCTCC
*
4284357 CTACTATCT--
1 CTCCTATCTCC
*
4284366 CTCCTGTCTCTC
1 CTCCTATCTC-C
4284378 CTCCTATCATCC
1 CTCCTATC-TCC
*
4284390 CTCCTCTCTC
1 CTCCTATCTC
4284400 TTCTTTCTCT
Statistics
Matches: 87, Mismatches: 10, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
9 30 0.34
11 4 0.05
12 47 0.54
13 6 0.07
ACGTcount: A:0.10, C:0.47, G:0.03, T:0.40
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:4284375 original size:9 final size:9
Alignment explanation
Indices: 4284277--4284379 Score: 65
Period size: 9 Copynumber: 12.1 Consensus size: 9
4284267 CTCTCTCTAT
4284277 TATCTCTCC
1 TATCTCTCC
*
4284286 TGTCTCTCC
1 TATCTCTCC
* *
4284295 T-CCTAT-C
1 TATCTCTCC
*
4284302 -ATCCCTCC
1 TATCTCTCC
*
4284310 TATCTCTAC
1 TATCTCTCC
4284319 TATCTCTCC
1 TATCTCTCC
*
4284328 TGTCTCTCC
1 TATCTCTCC
* *
4284337 T-CCTAT-C
1 TATCTCTCC
*
4284344 -ATCCCTCC
1 TATCTCTCC
*
4284352 TATCTCTAC
1 TATCTCTCC
4284361 TATCTCTCC
1 TATCTCTCC
*
4284370 TGTCTCTCC
1 TATCTCTCC
4284379 T
1 T
4284380 CCTATCATCC
Statistics
Matches: 69, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
7 6 0.09
8 8 0.12
9 55 0.80
ACGTcount: A:0.11, C:0.45, G:0.03, T:0.42
Consensus pattern (9 bp):
TATCTCTCC
Found at i:4294507 original size:12 final size:11
Alignment explanation
Indices: 4294485--4294560 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
4294475 AGAGAAAGAA
*
4294485 GAGAGAGGAGG
1 GAGATAGGAGG
4294496 GATGATAGGAGG
1 GA-GATAGGAGG
*
4294508 AGAGACAGGA--
1 -GAGATAGGAGG
*
4294518 GAGATAGTA--
1 GAGATAGGAGG
4294527 GAGATAGGAGG
1 GAGATAGGAGG
4294538 GATGATAGGAGG
1 GA-GATAGGAGG
*
4294550 AGAGACAGGAG
1 -GAGATAGGAG
4294561 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:4294517 original size:24 final size:24
Alignment explanation
Indices: 4294484--4294569 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
4294474 AAGAGAAAGA
*
4294484 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
4294508 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
4294526 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
4294550 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
4294570 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:4294536 original size:42 final size:42
Alignment explanation
Indices: 4294475--4294593 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
4294465 TAGCCCTCAA
* *
4294475 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
4294517 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
4294559 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
4294594 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:4305011 original size:15 final size:15
Alignment explanation
Indices: 4304991--4305021 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4304981 ATTTCGTTTG
*
4304991 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4305006 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4305021 G
1 G
4305022 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4308360 original size:20 final size:20
Alignment explanation
Indices: 4308335--4308386 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
4308325 TACAAGCCAA
**
4308335 TGTATCGATACAATTTTTGG
1 TGTATCGATACAATACTTGG
4308355 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
4308374 TGTATCGATACAA
1 TGTATCGATACAA
4308387 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:4308392 original size:19 final size:18
Alignment explanation
Indices: 4308335--4308392 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 18
4308325 TACAAGCCAA
4308335 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
*
4308355 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
4308374 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
4308393 CTACTGCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.59
20 12 0.35
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:4317270 original size:612 final size:612
Alignment explanation
Indices: 4316099--4317328 Score: 2002
Period size: 612 Copynumber: 2.0 Consensus size: 612
4316089 AAATTGCTCT
**
4316099 TAATAAGGTAATATGATACCTCGAGGACACAAAAATTAATCGACTAAGCGGTATATGTCAAACCA
1 TAATAAGGTAATATGATACCTCGAGGACACAAAAAGAAATCGACTAAGCGGTATATGTCAAACCA
* *
4316164 TGATTTGGATAGCATGACAGTTTATTGATGAGGTAATGCATTATGGTGATAGCATTTGCTTGCCA
66 TGATTTGGATAGCATGACAGTTTATTGATGAGGTAATGCATTATGGTGAGAGCATTCGCTTGCCA
* * * *
4316229 TCTCCCATTTGTTGACAAAGGTTAGCCATCAATCGGACAACATAACAACGTGCCCCAATAAAGGA
131 TCTCCCATTTGTTAACAAAGGTCAGCCATCAATCGGACAACATAACAACGTGCCCCAACAAAGAA
* *
4316294 AAATAAGGCATAATATGGAAATGCAAATGCAAGTGACGATGTTCGCACATTATCACCTATGTAAT
196 AAATAAGGCATAATATGAAAATACAAATGCAAGTGACGATGTTCGCACATTATCACCTATGTAAT
4316359 AATGGCAAATAAGAGTAAAAATTAAAAAACATTTCCCCGAGTGACCCTATTCTCTAGGTTATTCT
261 AATGGCAAATAAGAGTAAAAATTAAAAAACATTTCCCCGAGTGACCCTATTCTCTAGGTTATTCT
* *
4316424 AACAGCAACTCGATATCGTTGGACATGGTTTAACTCATAGGGAGCTATATGAGGTTTATGTTGAC
326 AACAGCAACTCGATATCGTTGGACATGATTTAACTCATAGGGACCTATATGAGGTTTATGTTGAC
*
4316489 ACCTAAATAGGTATCCAAATCATTCCTCTATTTGGTGATAGTCGAGGCACCCTAATTTTGGGCCC
391 ACCTAAATAGGTATCCAAATCATTCCTCTATCTGGTGATAGTCGAGGCACCCTAATTTTGGGCCC
*
4316554 ATCACGGGTTTAGCAAAACAGGTTTAATTCAATGGATGTATTTCCCTATGCAACTAGAGAAGGTT
456 ATCACGGGTTTAGCAAAACAGGTTCAATTCAATGGATGTATTTCCCTATGCAACTAGAGAAGGTT
* *
4316619 ACTCACAAGAGACATAAGTAATTTACATTCTGAAAGTTATTGCTATGCCTATACGGAGGGTTACT
521 ACTCACAAGAAACATAAGTAATTTACATTCCGAAAGTTATTGCTATGCCTATACGGAGGGTTACT
4316684 CACGAAGGAAAATAGCTAACTTCCTCC
586 CACGAAGGAAAATAGCTAACTTCCTCC
*
4316711 TAATAAGGTAATATGATACCTCGAGGACACAAAAAGAAATCGACTAAGCGGTATATGTCAAGCCA
1 TAATAAGGTAATATGATACCTCGAGGACACAAAAAGAAATCGACTAAGCGGTATATGTCAAACCA
* *
4316776 TGATTTGGATAGCATGTCAGTTTGTTGATGAGGTAATGCATTATGGTGACGA-CATTCGCTTGCC
66 TGATTTGGATAGCATGACAGTTTATTGATGAGGTAATGCATTATGGTGA-GAGCATTCGCTTGCC
4316840 ATCTCCCATTTGTTAACAAAGGTCAGCCATCAATCGGACAACATAACAACGTGCCCCAACAAAGA
130 ATCTCCCATTTGTTAACAAAGGTCAGCCATCAATCGGACAACATAACAACGTGCCCCAACAAAGA
* *
4316905 AAAATGAGGCATAATATGAAAATACAAATGCAAGTGATGATGTTCGCACATTATCACCTATGTAA
195 AAAATAAGGCATAATATGAAAATACAAATGCAAGTGACGATGTTCGCACATTATCACCTATGTAA
* * ** *
4316970 TAATGGTAAATAAGAGTAAAATTTAAAAAATGTTTCCCCGAGTGACCTTATTCTCTAGGTTATTC
260 TAATGGCAAATAAGAGTAAAAATTAAAAAACATTTCCCCGAGTGACCCTATTCTCTAGGTTATTC
* * *
4317035 TAACAGCAACTTGATATGGTTGGACATGATTTAACTCATAGGGCTCCTATATGAGGTTTATGTTG
325 TAACAGCAACTCGATATCGTTGGACATGATTTAACTCATAGGG-ACCTATATGAGGTTTATGTTG
*
4317100 ACACCTAAATAGGTATCCAAATCATTCCTCTATCTGGTGATAG-CTGAGGCA-CCTCGATTTTGG
389 ACACCTAAATAGGTATCCAAATCATTCCTCTATCTGGTGATAGTC-GAGGCACCCT-AATTTTGG
* * * *** *
4317163 GCCCATCACGGGTTTGGCGAAATAGGTTCAATTTGGTGGATGTATTTTCCTATGCAACTATG-GA
452 GCCCATCACGGGTTTAGCAAAACAGGTTCAATTCAATGGATGTATTTCCCTATGCAACTA-GAGA
* * **
4317227 AGGTTACTCACGAGAAACATAAGTAATTTATATTCCG-AAGTTATTGCTATGCCTATGTGGAGGG
516 AGGTTACTCACAAGAAACATAAGTAATTTACATTCCGAAAGTTATTGCTATGCCTATACGGAGGG
*
4317291 TTACTCACGAAGGCAAATAGCTAACTTCCTCC
581 TTACTCACGAAGGAAAATAGCTAACTTCCTCC
4317323 TAATAA
1 TAATAA
4317329 TTGGGTGGTA
Statistics
Matches: 571, Mismatches: 42, Indels: 10
0.92 0.07 0.02
Matches are distributed among these distances:
612 408 0.71
613 162 0.28
614 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (612 bp):
TAATAAGGTAATATGATACCTCGAGGACACAAAAAGAAATCGACTAAGCGGTATATGTCAAACCA
TGATTTGGATAGCATGACAGTTTATTGATGAGGTAATGCATTATGGTGAGAGCATTCGCTTGCCA
TCTCCCATTTGTTAACAAAGGTCAGCCATCAATCGGACAACATAACAACGTGCCCCAACAAAGAA
AAATAAGGCATAATATGAAAATACAAATGCAAGTGACGATGTTCGCACATTATCACCTATGTAAT
AATGGCAAATAAGAGTAAAAATTAAAAAACATTTCCCCGAGTGACCCTATTCTCTAGGTTATTCT
AACAGCAACTCGATATCGTTGGACATGATTTAACTCATAGGGACCTATATGAGGTTTATGTTGAC
ACCTAAATAGGTATCCAAATCATTCCTCTATCTGGTGATAGTCGAGGCACCCTAATTTTGGGCCC
ATCACGGGTTTAGCAAAACAGGTTCAATTCAATGGATGTATTTCCCTATGCAACTAGAGAAGGTT
ACTCACAAGAAACATAAGTAATTTACATTCCGAAAGTTATTGCTATGCCTATACGGAGGGTTACT
CACGAAGGAAAATAGCTAACTTCCTCC
Found at i:4320623 original size:20 final size:22
Alignment explanation
Indices: 4320598--4320652 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
4320588 AAAACCCAGA
* *
4320598 ATGTATCGATACAA-TG-AGAT
1 ATGTATCGATACAATTGTAAAC
* *
4320618 ATGTATTGAAACAATTGTAAAC
1 ATGTATCGATACAATTGTAAAC
4320640 ATGTATCGATACA
1 ATGTATCGATACA
4320653 TTTAGTAATG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 12 0.44
21 2 0.07
22 13 0.48
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (22 bp):
ATGTATCGATACAATTGTAAAC
Found at i:4320715 original size:13 final size:13
Alignment explanation
Indices: 4320699--4320724 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4320689 TAGGGTAGTT
4320699 TTGTATCGATACA
1 TTGTATCGATACA
4320712 TTGTATCGATACA
1 TTGTATCGATACA
4320725 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4320737 original size:19 final size:20
Alignment explanation
Indices: 4320713--4320766 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
4320703 ATCGATACAT
4320713 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
** *
4320732 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACTGTA
4320753 TGTATCGATACAAA
1 TGTATCGATACAAA
4320767 TTATAAAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Found at i:4321541 original size:61 final size:61
Alignment explanation
Indices: 4321374--4321541 Score: 156
Period size: 61 Copynumber: 2.8 Consensus size: 61
4321364 AGAAAAGAAG
* * * * * ** *
4321374 AGTGCCAATGTGTTGATTCAAGGTCAGCGACATTGGACTTAAGGATGCGAAGAATGATAAA
1 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTAAAGATAAGAAAAATGATAAA
* ** * * * ** *
4321435 AGTACCAATATGCCGATTCATGACCAACGATATCAGGCTTGAAGATAAGAAAAATGATAAA
1 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTAAAGATAAGAAAAATGATAAA
* * *
4321496 GGTGCCTATATGTTGATTCAAGGCCAGCGATATTGGGCCTAAAGAT
1 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT
4321542 GACAAATGTG
Statistics
Matches: 78, Mismatches: 29, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
61 78 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (61 bp):
AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTAAAGATAAGAAAAATGATAAA
Found at i:4321593 original size:52 final size:52
Alignment explanation
Indices: 4321498--4321623 Score: 128
Period size: 52 Copynumber: 2.4 Consensus size: 52
4321488 ATGATAAAGG
* * * * * * *
4321498 TGCCTATATGTTGATTCAAGGCCAGCGATATTGGGCCTAAAGATGACAA-ATG
1 TGCCAATATGCTGATTCAAGGCCAGCGACAGTAGACCTAAAGATGACAAGA-A
* * * *
4321550 TGCCAATGTGCTGATTCAAGGCCAGCGACAGTAGACTTGAAGATGAGAAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACAGTAGACCTAAAGATGACAAGAA
*
4321602 TGCCAATATGTTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGC
4321624 TAATGATATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
52 59 0.98
53 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (52 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACAGTAGACCTAAAGATGACAAGAA
Found at i:4321799 original size:52 final size:52
Alignment explanation
Indices: 4321706--4322176 Score: 556
Period size: 52 Copynumber: 9.1 Consensus size: 52
4321696 TGCTGATCAG
* * *
4321706 CAGCGATATTGGACTTAATA-AAGA-AAAGGTGCCAATCTGCTGATTCACGGC
1 CAGCGATATTGGACTTAA-AGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * * *
4321757 CAGCGACATTAGACTTAAAGATGATAAAGGTGCTAATATGCTGATTCAAGGC
1 CAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * * * * *
4321809 CAACGATATTGGACTTCAAA-AAGAAAAAAGTGCCAATGTGCTAATTCAAGGC
1 CAGCGATATTGGACTT-AAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * * *
4321861 CAGTGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTAATTCAAGGC
1 CAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * *
4321913 CAGCGATATTGGACTT-AAGAAAGAAAAAAGGTGCCAATGTGCTGATTCAAGGC
1 CAGCGATATTGGACTTAAAG-ATG-ACAAAGGTGCCAATATGCTGATTCAAGGC
* * * *
4321966 CAACGATAATGGACTTAAATATGACAAAGGTGCCAATATGCTGATTTAAGGC
1 CAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* *
4322018 CAGCGATATCGG-GTGTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
1 CAGCGATATTGGACT-TAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * **
4322070 CAGTGACATTGGACTTAAAGATGGTAAAGGTGCCAATATGCTGATTCAAGGC
1 CAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * * *
4322122 CAGCGATATCGGGCGTAAAGATGACAAAGGTGCCAATGTGCTGATTCAAGGC
1 CAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
4322174 CAG
1 CAG
4322177 TGACATTAGG
Statistics
Matches: 354, Mismatches: 57, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
50 1 0.00
51 26 0.07
52 280 0.79
53 45 0.13
54 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (52 bp):
CAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
Found at i:4321869 original size:104 final size:103
Alignment explanation
Indices: 4321706--4322192 Score: 620
Period size: 104 Copynumber: 4.7 Consensus size: 103
4321696 TGCTGATCAG
* * * *
4321706 CAGCGATATTGGACTTAATAAAG-AAAAGGTGCCAATCTGCTGATTCACGGCCAGCGACATTAGA
1 CAGCGATATTGGACTTAA-AAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGA
* *
4321770 CTTAAAGATGATAAAGGTGCTAATATGCTGATTCAAGGC
65 CTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * *
4321809 CAACGATATTGGACTTCAAAAAGAAAAAAGTGCCAATGTGCTAATTCAAGGCCAGTGACATTGGA
1 CAGCGATATTGGACTT-AAAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGA
* *
4321874 CTTAAAGATGACAAAGGCGCCAATATGCTAATTCAAGGC
65 CTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
** * *
4321913 CAGCGATATTGGACTTAAGAAAGAAAAAAGGTGCCAATGTGCTGATTCAAGGCCAACGATAATGG
1 CAGCGATATTGGACTTAA-AAAG-AAAAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGG
* *
4321978 ACTTAAATATGACAAAGGTGCCAATATGCTGATTTAAGGC
64 ACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * * * *
4322018 CAGCGATATCGG-GTGTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGG
1 CAGCGATATTGGACT-TAAA-AAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGG
**
4322082 ACTTAAAGATGGTAAAGGTGCCAATATGCTGATTCAAGGC
64 ACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * * * *
4322122 CAGCGATATCGGGCGTAAAGATGACAAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTAGG
1 CAGCGATATTGGACTTAAA-AAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATT-GG
4322187 -CTTAAA
64 ACTTAAA
4322193 AGGGTTGCTA
Statistics
Matches: 338, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
103 21 0.06
104 228 0.67
105 89 0.26
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (103 bp):
CAGCGATATTGGACTTAAAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGAC
TTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
Found at i:4322067 original size:209 final size:207
Alignment explanation
Indices: 4321706--4322175 Score: 622
Period size: 209 Copynumber: 2.3 Consensus size: 207
4321696 TGCTGATCAG
* * * *
4321706 CAGCGATATTGGACTTAATAAAG-AAAAGGTGCCAATCTGCTGATTCACGGCCAGCGACATTAGA
1 CAGCGATATTGGACTTAA-AAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACAATAGA
* * *
4321770 CTTAAAGATGATAAAGGTGCTAATATGCTGATTCAAGGCCAACGATATTGGACTTCAAAAAGAAA
65 CTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTCAAAAAGAAA
*
4321835 AAAGTGCCAATGTGCTAATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGCGCCAATAT
130 AAAGTGCCAATATGCTAATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGCGCCAATAT
4321900 GCTAATTCAAGGC
195 GCTAATTCAAGGC
* *
4321913 CAGCGATATTGGACTTAAGAAAGAAAAAAGGTGCCAATGTGCTGATTCAAGGCCAACGATAATGG
1 CAGCGATATTGGACTTAA-AAAG-AAAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACAATAG
* * * * *
4321978 ACTTAAATATGACAAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATCGG-GTGT-AAAGATG
64 ACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACT-TCAAA-AAG
* * * ** *
4322041 ACAAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGGTAAAGGTGCCAA
127 AAAAAAGTGCCAATATGCTAATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGCGCCAA
*
4322106 TATGCTGATTCAAGGC
192 TATGCTAATTCAAGGC
* * * * *
4322122 CAGCGATATCGGGCGTAAAGATGACAAAGGTGCCAATGTGCTGATTCAAGGCCA
1 CAGCGATATTGGACTTAAA-AAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCA
4322176 GTGACATTAG
Statistics
Matches: 230, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
207 22 0.10
208 35 0.15
209 173 0.75
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (207 bp):
CAGCGATATTGGACTTAAAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACAATAGAC
TTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTCAAAAAGAAAA
AAGTGCCAATATGCTAATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGCGCCAATATG
CTAATTCAAGGC
Found at i:4322229 original size:33 final size:33
Alignment explanation
Indices: 4322192--4322316 Score: 175
Period size: 32 Copynumber: 3.9 Consensus size: 33
4322182 TTAGGCTTAA
* *
4322192 AAGGGTTGCTACTAACTTGTGTGGGCTTTAGAG
1 AAGGGTTGCCACTGACTTGTGTGGGCTTTAGAG
*
4322225 AAGGGTTGCCACTGACTTGTGTAGGCTTTAGA-
1 AAGGGTTGCCACTGACTTGTGTGGGCTTTAGAG
*
4322257 AAGGGTTGCCACCGACTTGTGTGGGCTTTAG-G
1 AAGGGTTGCCACTGACTTGTGTGGGCTTTAGAG
* *
4322289 AAGGG-TGGCACTGACTTGTGTGGCCTTT
1 AAGGGTTGCCACTGACTTGTGTGGGCTTT
4322317 GAAAAGAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
31 20 0.24
32 34 0.41
33 29 0.35
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.31
Consensus pattern (33 bp):
AAGGGTTGCCACTGACTTGTGTGGGCTTTAGAG
Found at i:4322285 original size:65 final size:61
Alignment explanation
Indices: 4322183--4322309 Score: 182
Period size: 65 Copynumber: 2.0 Consensus size: 61
4322173 CCAGTGACAT
* *
4322183 TAGGCTTAAAAGGGTTGCTACTAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTGACTTGTG
1 TAGGCTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAG-GAAGGG-TGCCACTGACTTGTG
* *
4322246 TAGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGTGGCACTGACTTGTG
1 TAGGC-TTA-AAAGGGTTGCCACCAACTTGTGTGGGCTTTAGGAAGGGTGCCACTGACTTGTG
4322309 T
1 T
4322310 GGCCTTTGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
63 20 0.34
64 9 0.16
65 29 0.50
ACGTcount: A:0.20, C:0.15, G:0.34, T:0.31
Consensus pattern (61 bp):
TAGGCTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAGGAAGGGTGCCACTGACTTGTG
Found at i:4322394 original size:34 final size:35
Alignment explanation
Indices: 4322350--4322854 Score: 176
Period size: 34 Copynumber: 15.5 Consensus size: 35
4322340 TTGTGGACTT
* **
4322350 AAAAGGGTGCCATGGAGTTATGGGCTTTGAAAAG-
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGA
4322384 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGA
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGA
** *
4322419 AAAAAGGTGCCACAGAGTGGTGGAC-TT-AAAAG-
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGA
* * * *
4322451 -----GGTGCCACAGAGTTGTGGAC-CTAAAAAGA
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGA
4322480 AAAAAGGTGCCAC-GAAGTTATGGGC-TT-AAAAG-
1 AAAAAGGTGCCACAG-AGTTATGGGCTTTGAAAAGA
* * **
4322512 -----GGTGCCATAGAGTTGTGTAC-TT-AAAAGGAA
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAA-G-A
* *
4322542 AAAAAGGATGCCATAGAGTTAT-GGATTT-AAAAG-
1 AAAAAGG-TGCCACAGAGTTATGGGCTTTGAAAAGA
* * * *
4322575 -----GGTGCCAAAGAGTTGTGGAC-TT-AAAAGG
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGA
* *
4322603 AAAAAGGATGCCACAGAGTTGTGGAC-TT-AAAAGGA
1 AAAAAGG-TGCCACAGAGTTATGGGCTTTGAAAA-GA
* * *
4322638 AAAAGGGTGCCACAGAGTTGT-GGATTT-AAAAGGAA
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAA-G-A
* * *
4322673 AAAAAGGTGCTA-TGAAGTTATGGAC-TT-AAAAGGA
1 AAAAAGGTGCCACAG-AGTTATGGGCTTTGAAAA-GA
* * **
4322707 AAAAAGGTGCCACGGAGTTGTAAGCTTTGAAAAG-
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGA
* * *
4322741 AAAAAGGTGCCACGGAGTTATGGAC-CT-------
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGA
* *
4322768 AAAAAGGTGCCAC-GAAGTTATGGAC-TT-AAAACAA
1 AAAAAGGTGCCACAG-AGTTATGGGCTTTGAAAA-GA
** *
4322802 AAAAAGGTGCCATGGAGTTGTGGGCTTTGAAAAG-
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGA
*
4322836 AATAAGGTGCCACAGAGTT
1 AAAAAGGTGCCACAGAGTT
4322855 GTGGACTTAA
Statistics
Matches: 371, Mismatches: 53, Indels: 94
0.72 0.10 0.18
Matches are distributed among these distances:
26 1 0.00
27 83 0.22
28 10 0.03
33 15 0.04
34 171 0.46
35 63 0.17
36 28 0.08
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.21
Consensus pattern (35 bp):
AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGA
Found at i:4322446 original size:96 final size:95
Alignment explanation
Indices: 4322313--4322506 Score: 275
Period size: 96 Copynumber: 2.0 Consensus size: 95
4322303 CTTGTGTGGC
* * ** * *
4322313 CTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTATGGGCTTT
1 CTTTGAAAAGAAAAAGGTGCCACAGAGTGGTGGACTTAAAAGGGTGCCACAGAGTTATGGAC-CT
*
4322378 GAAAAG-AAAAAGGTGCCAC-AGAGTTATGGG
65 AAAAAGAAAAAAGGTGCCACGA-AGTTATGGG
*
4322408 CTTTGAAAAGAAAAAAGGTGCCACAGAGTGGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACCT
1 CTTTGAAAAG-AAAAAGGTGCCACAGAGTGGTGGACTTAAAAGGGTGCCACAGAGTTATGGACCT
4322473 AAAAAGAAAAAAGGTGCCACGAAGTTATGGG
65 AAAAAGAAAAAAGGTGCCACGAAGTTATGGG
4322504 CTT
1 CTT
4322507 AAAAGGGTGC
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
95 16 0.18
96 71 0.81
97 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (95 bp):
CTTTGAAAAGAAAAAGGTGCCACAGAGTGGTGGACTTAAAAGGGTGCCACAGAGTTATGGACCTA
AAAAGAAAAAAGGTGCCACGAAGTTATGGG
Found at i:4322457 original size:27 final size:27
Alignment explanation
Indices: 4322419--4322478 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
4322409 TTTGAAAAGA
*
4322419 AAAAAGGTGCCACAGAGTGGTGGACTT
1 AAAAAGGTGCCACAGAGTGGTGGACCT
* *
4322446 AAAAGGGTGCCACAGAGTTGTGGACCT
1 AAAAAGGTGCCACAGAGTGGTGGACCT
4322473 AAAAAG
1 AAAAAG
4322479 AAAAAAGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.32, T:0.17
Consensus pattern (27 bp):
AAAAAGGTGCCACAGAGTGGTGGACCT
Found at i:4322525 original size:27 final size:27
Alignment explanation
Indices: 4322495--4322602 Score: 81
Period size: 27 Copynumber: 3.7 Consensus size: 27
4322485 GGTGCCACGA
*
4322495 AGTTATGGGCTTAAAAGGGTGCCATAG
1 AGTTATGGACTTAAAAGGGTGCCATAG
* *
4322522 AGTTGTGTACTTAAAAGGAAAAAAAGGATGCCATAG
1 AGTTATGGACTTAAAA-G-------GG-TGCCATAG
* *
4322558 AGTTATGGATTTAAAAGGGTGCCAAAG
1 AGTTATGGACTTAAAAGGGTGCCATAG
*
4322585 AGTTGTGGACTTAAAAGG
1 AGTTATGGACTTAAAAGG
4322603 AAAAAGGATG
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
27 36 0.57
28 3 0.05
35 3 0.05
36 21 0.33
ACGTcount: A:0.37, C:0.08, G:0.30, T:0.25
Consensus pattern (27 bp):
AGTTATGGACTTAAAAGGGTGCCATAG
Found at i:4322655 original size:68 final size:65
Alignment explanation
Indices: 4322350--4322868 Score: 364
Period size: 61 Copynumber: 8.0 Consensus size: 65
4322340 TTGTGGACTT
* * * * *
4322350 AAAAGGGTGCCATGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGGCTTTGAA
1 AAAAAGGTGCCACGGAGTTATGGAC-TT-AAAAGAAAAAGGTGCCACAGAGTTGTGGAC-TT-AA
*
4322415 AAGA
62 AAGG
* ** *
4322419 AAAAAGGTGCCACAGAGTGGTGGACTTAAAAG-----GGTGCCACAGAGTTGTGGACCTAAAAAG
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGAAAAAGGTGCCACAGAGTTGTGGA-CTTAAAAG
*
4322479 A
65 G
* * * *
4322480 AAAAAGGTGCCACGAAGTTATGGGCTTAAAAG-----GGTGCCATAGAGTTGTGTACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
** * *
4322540 AAAAAAAGGATGCCATAGAGTTATGGATTTAAAAG-----GGTGCCAAAGAGTTGTGGACTTAAA
1 --AAAAAGG-TGCCACGGAGTTATGGACTTAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAA
4322600 AGG
63 AGG
* * *
4322603 AAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACAGAGTTGTGGATTTAAA
1 AAAAAGG-TGCCACGGAGTTATGGACTTAAAA-GAAAAA-GGTGCCACAGAGTTGTGGACTTAAA
4322668 AGG
63 AGG
* * * * *
4322671 AAAAAAAGGTGCTATGAAGTTATGGACTTAAAAGGAAAAAAGGTGCCACGGAGTTGT-AAGCTTT
1 --AAAAAGGTGCCACGGAGTTATGGACTTAAAA-G-AAAAAGGTGCCACAGAGTTGTGGA-C-TT
4322735 GAAAA-G
60 -AAAAGG
* *
4322741 AAAAAGGTGCCACGGAGTTATGGACCT-----AAAAAGGTGCCAC-GAAGTTATGGACTTAAAAC
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGAAAAAGGTGCCACAG-AGTTGTGGACTTAAAA-
**
4322800 AA
64 GG
* * * *
4322802 AAAAAGGTGCCATGGAGTTGTGGGCTTTGAAAAGAATAAGGTGCCACAGAGTTGTGGACTTAAAA
1 AAAAAGGTGCCACGGAGTTATGGAC-TT-AAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAA
4322867 GG
64 GG
4322869 GTGCCATGGA
Statistics
Matches: 368, Mismatches: 53, Indels: 60
0.77 0.11 0.12
Matches are distributed among these distances:
59 4 0.01
60 10 0.03
61 120 0.33
62 28 0.08
63 47 0.13
67 5 0.01
68 79 0.21
69 56 0.15
70 15 0.04
71 4 0.01
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.21
Consensus pattern (65 bp):
AAAAAGGTGCCACGGAGTTATGGACTTAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:4322718 original size:103 final size:101
Alignment explanation
Indices: 4322585--4322868 Score: 318
Period size: 95 Copynumber: 2.9 Consensus size: 101
4322575 GGTGCCAAAG
* *
4322585 AGTTGTGGACTTAAAAGG-AAAAAGGATGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAAGGGTG
1 AGTTATGGACTTAAAAGGAAAAAAGG-TGCCACGGAGTTGTGGACTTTGAAAA-GAAAAA-GGTG
* * *
4322647 CCACAGAGTTGTGGATTTAAAAGGAAAAAAAGGTGCTATGA
63 CCACAGAGTTGTGGACTTAAAAGG--AAAAAGGTGCCACGA
*
4322688 AGTTATGGACTTAAAAGGAAAAAAGGTGCCACGGAGTTGT-AAGCTTTGAAAAGAAAAAGGTGCC
1 AGTTATGGACTTAAAAGGAAAAAAGGTGCCACGGAGTTGTGGA-CTTTGAAAAGAAAAAGGTGCC
* * *
4322752 ACGGAGTTATGGACCT------AAAAAGGTGCCACGA
65 ACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGA
** * * *
4322783 AGTTATGGACTTAAAACAAAAAAAGGTGCCATGGAGTTGTGGGCTTTGAAAAGAATAAGGTGCCA
1 AGTTATGGACTTAAAAGGAAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCA
4322848 CAGAGTTGTGGACTTAAAAGG
66 CAGAGTTGTGGACTTAAAAGG
4322869 GTGCCATGGA
Statistics
Matches: 152, Mismatches: 18, Indels: 24
0.78 0.09 0.12
Matches are distributed among these distances:
95 83 0.55
102 1 0.01
103 49 0.32
104 15 0.10
105 4 0.03
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (101 bp):
AGTTATGGACTTAAAAGGAAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCA
CAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGA
Found at i:4322779 original size:27 final size:27
Alignment explanation
Indices: 4322741--4322798 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
4322731 CTTTGAAAAG
*
4322741 AAAAAGGTGCCACGGAGTTATGGACCT
1 AAAAAGGTGCCACGAAGTTATGGACCT
*
4322768 AAAAAGGTGCCACGAAGTTATGGACTT
1 AAAAAGGTGCCACGAAGTTATGGACCT
4322795 AAAA
1 AAAA
4322799 CAAAAAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.26, T:0.19
Consensus pattern (27 bp):
AAAAAGGTGCCACGAAGTTATGGACCT
Found at i:4322785 original size:95 final size:95
Alignment explanation
Indices: 4322673--4322890 Score: 310
Period size: 95 Copynumber: 2.3 Consensus size: 95
4322663 TTAAAAGGAA
* **
4322673 AAAAAGGTGCTATGAAGTTATGGACTTAAAAGGAAAAAAGGTGCCACGGAGTTGTAAGCTTTGAA
1 AAAAAGGTGCCATGAAGTTATGGACTTAAAACAAAAAAAGGTGCCACGGAGTTGTAAGCTTTGAA
*
4322738 AAGAAAAAGGTGCCACGGAGTTATGGACCT
66 AAGAAAAAGGTGCCACAGAGTTATGGACCT
* * **
4322768 AAAAAGGTGCCACGAAGTTATGGACTTAAAACAAAAAAAGGTGCCATGGAGTTGTGGGCTTTGAA
1 AAAAAGGTGCCATGAAGTTATGGACTTAAAACAAAAAAAGGTGCCACGGAGTTGTAAGCTTTGAA
* * *
4322833 AAGAATAAGGTGCCACAGAGTTGTGGACTT
66 AAGAAAAAGGTGCCACAGAGTTATGGACCT
* * *
4322863 AAAAGGGTGCCATGGAGTTGTGGACTTA
1 AAAAAGGTGCCATGAAGTTATGGACTTA
4322891 GAGAAGAGAT
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 108 1.00
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (95 bp):
AAAAAGGTGCCATGAAGTTATGGACTTAAAACAAAAAAAGGTGCCACGGAGTTGTAAGCTTTGAA
AAGAAAAAGGTGCCACAGAGTTATGGACCT
Found at i:4322916 original size:30 final size:30
Alignment explanation
Indices: 4322872--4322945 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
4322862 TAAAAGGGTG
*
4322872 CCATGGAGTTGTGGACTTAGAGAAGAGATT
1 CCATGGAGTCGTGGACTTAGAGAAGAGATT
* * *
4322902 CCATGTAGTCGTGGACTTGGAGAAGAGATG
1 CCATGGAGTCGTGGACTTAGAGAAGAGATT
* *
4322932 CCACGGAGTTGTGG
1 CCATGGAGTCGTGG
4322946 GCTTTAGGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.26, C:0.14, G:0.36, T:0.24
Consensus pattern (30 bp):
CCATGGAGTCGTGGACTTAGAGAAGAGATT
Found at i:4323018 original size:33 final size:32
Alignment explanation
Indices: 4322978--4323112 Score: 127
Period size: 33 Copynumber: 4.2 Consensus size: 32
4322968 GTCATGGGCT
* *
4322978 TTTGGAAGAAGAGATGCCACTAAATCGTGGAC
1 TTTGGAAGAAAAGATGCCACTAAGTCGTGGAC
**
4323010 TTTAGGAAG---AGATGCCACTAAGTTATGGAC
1 TTT-GGAAGAAAAGATGCCACTAAGTCGTGGAC
* *
4323040 -TTGGAAGAAAAAGGATGCCAATGAGTCGTGGAC
1 TTTGGAAG-AAAA-GATGCCACTAAGTCGTGGAC
* *
4323073 -TTGAAAGAAAAGATGCCACTGAGTCGTGGAC
1 TTTGGAAGAAAAGATGCCACTAAGTCGTGGAC
4323104 TTTCGGAAG
1 TTT-GGAAG
4323113 GGTTGCCGCA
Statistics
Matches: 85, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
28 5 0.06
29 2 0.02
30 18 0.21
31 19 0.22
32 10 0.12
33 31 0.36
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (32 bp):
TTTGGAAGAAAAGATGCCACTAAGTCGTGGAC
Found at i:4323039 original size:30 final size:30
Alignment explanation
Indices: 4322923--4323041 Score: 89
Period size: 30 Copynumber: 3.9 Consensus size: 30
4322913 TGGACTTGGA
** ** *
4322923 GAAGAGATGCCACGGAGTTGTGGGCTTTAG
1 GAAGAGATGCCACTAAGTCATGGACTTTAG
* * *
4322953 GAAG-GGTGCCAC-AGAGTCATGGGCTTTTGGAA
1 GAAGAGATGCCACTA-AGTCATGGAC-TTT--AG
* *
4322985 GAAGAGATGCCACTAAATCGTGGACTTTAG
1 GAAGAGATGCCACTAAGTCATGGACTTTAG
*
4323015 GAAGAGATGCCACTAAGTTATGGACTT
1 GAAGAGATGCCACTAAGTCATGGACTT
4323042 GGAAGAAAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
29 15 0.21
30 32 0.46
32 8 0.11
33 14 0.20
34 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.24
Consensus pattern (30 bp):
GAAGAGATGCCACTAAGTCATGGACTTTAG
Found at i:4324376 original size:13 final size:13
Alignment explanation
Indices: 4324358--4324395 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
4324348 TGCACTTTCC
4324358 TTTTTTTTTTTGT
1 TTTTTTTTTTTGT
*
4324371 TTTTTTGTTTTGT
1 TTTTTTTTTTTGT
4324384 TTTTTTTCTTTT
1 TTTTTTT-TTTT
4324396 TTTCATCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:4341613 original size:90 final size:89
Alignment explanation
Indices: 4341443--4341859 Score: 374
Period size: 90 Copynumber: 4.6 Consensus size: 89
4341433 ATTGTGGAGT
*
4341443 CCACACATTCCCCAATCATATCCCTCTTTCTCAACCACTAGATGGTATTGATGCATCATAAAGCC
1 CCACACATTCCCCAATCATAT-CCTCTTTCTCAACCACTAGATGGTATTGATGCATCACAAAGCC
* * *
4341508 TAATTTTCTTGGGGCAAGGTGTAGC
65 TGATTTCCTTAGGGCAAGGTGTAGC
* *
4341533 CCACACATTCCCCAATCATATACCTCTTTCTCAATCACTAGATGGTATTGATGCATCACAAAGTC
1 CCACACATTCCCCAATCATAT-CCTCTTTCTCAACCACTAGATGGTATTGATGCATCACAAAGCC
*
4341598 TGATTTCCTTAGGGCAAGGTGAAGC
65 TGATTTCCTTAGGGCAAGGTGTAGC
* * * * * * * * *
4341623 CCCCATATTCCTCAATCATAT-CTTTTTCACTCAGCCCCTAGATCGTATTGACGCATCGCAAAGC
1 CCACACATTCCCCAATCATATCCTCTTT--CTCAACCACTAGATGGTATTGATGCATCACAAAGC
* * **
4341687 TTGATTTCCTAAGGGCAAAATGTAGC
64 CTGATTTCCTTAGGGCAAGGTGTAGC
* * * * * * * *
4341713 CCACGCATT-CCCAATCGTATTCCT-TTCACCCAGCCATTAGATGGTACTGATACATCACAAAGC
1 CCACACATTCCCCAATCATA-TCCTCTT-TCTCAACCACTAGATGGTATTGATGCATCACAAAGC
* * * * *
4341776 CCGATATCCTTAGGGCAAGGATATCTTGA
64 CTGATTTCCTTAGGGCAAGG---TGTAGC
* * * * *
4341805 CCACTCATT-CCCAATCATATCCTTTTCTCTCCACCACTAGATGGTACTAATGCAT
1 CCACACATTCCCCAATCATATCCTCTT-TCTCAACCACTAGATGGTATTGATGCAT
4341860 TACATGACCA
Statistics
Matches: 262, Mismatches: 56, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
88 5 0.02
89 49 0.19
90 158 0.60
91 6 0.02
92 44 0.17
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.29
Consensus pattern (89 bp):
CCACACATTCCCCAATCATATCCTCTTTCTCAACCACTAGATGGTATTGATGCATCACAAAGCCT
GATTTCCTTAGGGCAAGGTGTAGC
Found at i:4342156 original size:44 final size:44
Alignment explanation
Indices: 4342093--4343295 Score: 578
Period size: 44 Copynumber: 27.4 Consensus size: 44
4342083 CTCTCCTGTC
* * *
4342093 TGACATATGGTTACCACCCTGGTTAGATTCTTTTCATTCTGATT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTGATT
* * * * * *
4342137 TGACATATGGTTACCACCCTAGTCAAATCTGCCTCTC-TTTTG-TC
1 TGACGTATGGTTACCACCCTAGTCAGAT-T-CTTTTCATTCTGATT
* * *
4342181 TGACGTATGGCTACCACCCTAGTTAGATTTTTTTCATT-TCGATT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCT-GATT
* * * *
4342225 TGATGTATGGTTACCACCCTAGTCAAATCTACCTCTC-TTCT-ATT
1 TGACGTATGGTTACCACCCTAGTCAGAT-T-CTTTTCATTCTGATT
* * *
4342269 TGACGTATGGTTACCACCCTGGTCAGATTATTTTTATT-TCGATT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCT-GATT
* * * * *
4342313 TGACATATGGTTACCACCCTAGTCA-AATCTACCTTCTTTTTG-TCT
1 TGACGTATGGTTACCACCCTAGTCAGATTCT--TTTCATTCTGAT-T
* * * * * **
4342358 AGA-GTATGGTCACCACCTTGGTCAGTTTCTTTTCATTCCAATT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTGATT
* * * *
4342401 TGACGTATGGTTACCACCCTGGTCA-AATCAGTTTCCTTTCT-ATT
1 TGACGTATGGTTACCACCCTAGTCAGATTC--TTTTCATTCTGATT
* * * *
4342445 TAATGTATGGTTACCACCCTGGTTAGATTCTTTTCATTCTGATT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTGATT
* * * * * * * * * *
4342489 TAATGTATGGTTACCACCTTGGTTAAATCTACCTCTC-TCCT-ATC
1 TGACGTATGGTTACCACCCTAGTCAGAT-T-CTTTTCATTCTGATT
*
4342533 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTGATT
* * * * * ** *
4342577 TGATGTGTGGTTAACACCTTAGTCA-AATCTGCCTC-TCTCTTG-TC
1 TGACGTATGGTTACCACCCTAGTCAGATTCT-TTTCAT-TC-TGATT
* * * * *
4342621 TAACGTATGGTTACCACCCTGGTCAAATCTGCCTTCTC-TT-TG-TC
1 TGACGTATGGTTACCACCCTAGTCAGAT-T--CTTTTCATTCTGATT
* *
4342665 T-AGCGTATGGTTACCACCCTAGTCAAATTCTTTTCGTTCTGATT
1 TGA-CGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTGATT
* * * * *
4342709 TGACATATAGTTACCACCCTAGTTAAATCTGCTTTTTC-TTGTG--T
1 TGACGTATGGTTACCACCCTAGTCAGAT-T-C-TTTTCATTCTGATT
* **
4342753 AG-CGTATGGTTACCACCCTAGTCAGATTCTTTTTGTTCTGATT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTGATT
* * * * * * * * *
4342796 TGACATATAGTTACCAGCCTGGTTA-AATCTGCCTTC-TTCTTATC
1 TGACGTATGGTTACCACCCTAGTCAGATTCT--TTTCATTCTGATT
* *
4342840 T-AGTGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAATT
1 TGA-CGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTGATT
* * * * * *
4342884 TGACTTATGGTTACCATCCTAGTTA-AATCAATTTCTTTCCT-ATT
1 TGACGTATGGTTACCACCCTAGTCAGATTC-TTTTCATT-CTGATT
* *
4342928 TGATGTATGGTTACCA-CCTTGTTCAGATTCTTTTCATTCTGATT
1 TGACGTATGGTTACCACCCTAG-TCAGATTCTTTTCATTCTGATT
* * * ** * *
4342972 TGACATATGGTTACCACCCTAGTTA-ACTCTACCTCTTTCCT-ATC
1 TGACGTATGGTTACCACCCTAGTCAGATTCT-TTTCATT-CTGATT
** * *
4343016 TGACGTATGGTTATGACCCTGGTTAGATTCTTTTCATT-TCGATT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCT-GATT
** * ** * * * * * *
4343060 TGAAATATGATTATTACCCTGGTCAAATCTACCTCTC-TCCTG-TC
1 TGACGTATGGTTACCACCCTAGTCAGAT-T-CTTTTCATTCTGATT
* *
4343104 TGACGTATGGTTACCACCCTGGTCAGATTATTTTCATT-TCGATT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCT-GATT
* * * * * * *
4343148 TGACGTATGGTTACTACCCTAGTCA-AATCTGCCTCCTTTTTG-TA
1 TGACGTATGGTTACCACCCTAGTCAGATTCT--TTTCATTCTGATT
* * * *
4343192 TGATGTATGGTTAGCACCTTGGTCAGATTCTTTTCATTCTGATT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTGATT
* * ** * *
4343236 TGAC-AATGGTTACCACCCTAGTCA-AATCTGCCTCTTTCTGGTT
1 TGACGTATGGTTACCACCCTAGTCAGATTCT-TTTCATTCTGATT
*
4343279 TGACATATGGTTACCAC
1 TGACGTATGGTTACCAC
4343296 ACTGGTCAAA
Statistics
Matches: 870, Mismatches: 214, Indels: 150
0.71 0.17 0.12
Matches are distributed among these distances:
40 4 0.00
41 10 0.01
42 23 0.03
43 125 0.14
44 599 0.69
45 72 0.08
46 26 0.03
47 9 0.01
48 2 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (44 bp):
TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTGATT
Found at i:4343510 original size:43 final size:42
Alignment explanation
Indices: 4343463--4343736 Score: 203
Period size: 43 Copynumber: 6.4 Consensus size: 42
4343453 TGCCTGTCGA
* *
4343463 CTTAGACCCGAGAGACTTTCTTTATTTTTCATCTTCCAATCGG
1 CTTAGACCCG-GAGACTTTCTTTATCTTTCATCTTCCCATCGG
* * * * * * *
4343506 CTTAGACTCGGAAGACATCCTTTATCTATCGTCTACCCATCAG
1 CTTAGACCCGG-AGACTTTCTTTATCTTTCATCTTCCCATCGG
* * * * ** *
4343549 CTTAGACCCGGGAGACCTTATTTATCTTTCGTCTACTTATC-A
1 CTTAGACCC-GGAGACTTTCTTTATCTTTCATCTTCCCATCGG
** * * * * **
4343591 CTTAGACTTGGAAGACCTCCTTTATCTTTCATCTGCCCGTTAG
1 CTTAGACCCGG-AGACTTTCTTTATCTTTCATCTTCCCATCGG
* *
4343634 CTTAGACCCGGCAGACTTTCTTTATCTTTCGTCTTCCAATCGG
1 CTTAGACCCGG-AGACTTTCTTTATCTTTCATCTTCCCATCGG
* *
4343677 CTTAGACCTGGGAGACTTT-TTTATCTTTCAT-TTGCCCATTGG
1 CTTAGACC-CGGAGACTTTCTTTATCTTTCATCTT-CCCATCGG
4343719 CTTAGACCCTGGAGACTT
1 CTTAGACCC-GGAGACTT
4343737 CTTCATCACT
Statistics
Matches: 180, Mismatches: 44, Indels: 15
0.75 0.18 0.06
Matches are distributed among these distances:
41 4 0.02
42 62 0.34
43 110 0.61
44 4 0.02
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (42 bp):
CTTAGACCCGGAGACTTTCTTTATCTTTCATCTTCCCATCGG
Found at i:4343700 original size:85 final size:84
Alignment explanation
Indices: 4343463--4343736 Score: 300
Period size: 85 Copynumber: 3.2 Consensus size: 84
4343453 TGCCTGTCGA
* *
4343463 CTTAGACCCGAGAGACTTTCTTTATTTTTCATCTTCCAATCGGCTTAGA-CTCGGAAGACATCCT
1 CTTAGACCCG-GAGACTTTCTTTATCTTTCGTCTTCCAATCGGCTTAGACCT-GGAAGAC-TCCT
* * * *
4343527 TTATCTATCGTCTACCCATCAG
63 TTATCTTTCATCTGCCCATTAG
* * * ** * *
4343549 CTTAGACCCGGGAGACCTTATTTATCTTTCGTCTACTTATC-ACTTAGACTTGGAAGACCTCCTT
1 CTTAGACCC-GGAGACTTTCTTTATCTTTCGTCTTCCAATCGGCTTAGACCTGGAAGA-CTCCTT
*
4343613 TATCTTTCATCTGCCCGTTAG
64 TATCTTTCATCTGCCCATTAG
* **
4343634 CTTAGACCCGGCAGACTTTCTTTATCTTTCGTCTTCCAATCGGCTTAGACCTGGGAGACTTTTTT
1 CTTAGACCCGG-AGACTTTCTTTATCTTTCGTCTTCCAATCGGCTTAGACCTGGAAGACTCCTTT
* *
4343699 ATCTTTCATTTGCCCATTGG
65 ATCTTTCATCTGCCCATTAG
4343719 CTTAGACCCTGGAGACTT
1 CTTAGACCC-GGAGACTT
4343737 CTTCATCACT
Statistics
Matches: 155, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
84 2 0.01
85 103 0.66
86 49 0.32
87 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (84 bp):
CTTAGACCCGGAGACTTTCTTTATCTTTCGTCTTCCAATCGGCTTAGACCTGGAAGACTCCTTTA
TCTTTCATCTGCCCATTAG
Found at i:4343754 original size:43 final size:42
Alignment explanation
Indices: 4343591--4343756 Score: 122
Period size: 43 Copynumber: 3.9 Consensus size: 42
4343581 CTACTTATCA
* * * * * * *
4343591 CTTAGACTTGGAAGACCTCCTTTATCTTTCATCTGCCCGTTAG
1 CTTAGACCTGGGAGA-CTTCTTCATCTTTCATTTGCCCATTGG
* * * * * *
4343634 CTTAGACCCGGCAGACTTTCTTTATCTTTCGTCTT-CCAATCGG
1 CTTAGACCTGGGAGAC-TTCTTCATCTTTCAT-TTGCCCATTGG
* *
4343677 CTTAGACCTGGGAGACTTTTTTATCTTTCATTTGCCCATTGG
1 CTTAGACCTGGGAGACTTCTTCATCTTTCATTTGCCCATTGG
4343719 CTTAGACCCT-GGAGACTTCTTCATCACTTT-ATTTGCCC
1 CTTAGA-CCTGGGAGACTTCTTCAT--CTTTCATTTGCCC
4343757 GTCAGCTCAG
Statistics
Matches: 99, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 38 0.38
43 54 0.55
44 5 0.05
ACGTcount: A:0.17, C:0.28, G:0.16, T:0.39
Consensus pattern (42 bp):
CTTAGACCTGGGAGACTTCTTCATCTTTCATTTGCCCATTGG
Done.