Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 16 of 438
Found at i:4541376 original size:88 final size:91
Alignment explanation
Indices: 4541157--4541376 Score: 225
Period size: 89 Copynumber: 2.5 Consensus size: 91
4541147 TTAGTTTATA
* * * ** ** ** * *
4541157 TTTTTCAAAAAAATCAACTCATTTTGCGAGAGGTGAGTTGAGCCTCAGAGCAC--ACTGAGGTAT
1 TTTTTCAAGAAAATCAACCCATATTGCGAGAAATGAGTTGAGCCTTGGCTCACGTGCTGAGCTAT
* *
4541220 TTTCAATTTCTTCTTTTTAATTTTTG
66 TTTCAATTTCTTCTTTTTAATGTCTG
**
4541246 TTTTTCAAGAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTAT
1 TTTTTCAAGAAAATCAACCCATATTGCGAGAAATGAGTTGAGCCTTGGCTCACGTGCTGAGCTAT
*
4541311 TTTCAATTTC-TGTTTTTAATGTCTG
66 TTTCAATTTCTTCTTTTTAATGTCTG
* * **
4541336 TTTTT-AA-AGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTTTCAAGAAAATCAACCCATATTGCGAGAAATGAGTTGAGC
4541377 TCAAGATCAC
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
88 28 0.25
89 48 0.43
90 17 0.15
91 18 0.16
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (91 bp):
TTTTTCAAGAAAATCAACCCATATTGCGAGAAATGAGTTGAGCCTTGGCTCACGTGCTGAGCTAT
TTTCAATTTCTTCTTTTTAATGTCTG
Found at i:4542502 original size:17 final size:18
Alignment explanation
Indices: 4542475--4542508 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
4542465 GTAAAATGTA
4542475 AAAAAATATATATAAAAC
1 AAAAAATATATATAAAAC
4542493 AAAAAA-ATATATAAAA
1 AAAAAATATATATAAAA
4542509 TTTTTACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAATATATATAAAAC
Found at i:4543091 original size:3 final size:3
Alignment explanation
Indices: 4543083--4543131 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
4543073 TTAATTTTGC
*
4543083 TAT TAT TAT TAT TA- TAT TAT TGT TACT TAT TAT TAT T-T T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
4543126 ATAT TA
1 -TAT TA
4543132 GTGTATATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 6 0.15
3 28 0.70
4 6 0.15
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4543096 original size:21 final size:24
Alignment explanation
Indices: 4543071--4543119 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4543061 AAATTTGTAA
4543071 TATTA-ATT-TTGCTA-TTATTAT
1 TATTATATTATTGCTACTTATTAT
*
4543092 TATTATATTATTGTTACTTATTAT
1 TATTATATTATTGCTACTTATTAT
4543116 TATT
1 TATT
4543120 TTTTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 3 0.12
23 5 0.21
24 11 0.46
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (24 bp):
TATTATATTATTGCTACTTATTAT
Found at i:4543314 original size:15 final size:15
Alignment explanation
Indices: 4543294--4543344 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
4543284 TTTCATACAG
*
4543294 TATTATCATTTCTAT
1 TATTATCATATCTAT
*
4543309 TATTATTATATCTAT
1 TATTATCATATCTAT
*
4543324 TATTTTCACTAT-TAT
1 TATTATCA-TATCTAT
4543339 TATTAT
1 TATTAT
4543345 TTTTTATCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 27 0.90
16 3 0.10
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATCATATCTAT
Found at i:4543404 original size:22 final size:22
Alignment explanation
Indices: 4543365--4543431 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
4543355 CATTATACAT
*
4543365 GTATATATATATAGATATTTTTTA
1 GTAT-TATGTATA-ATATTTTTTA
4543389 GTACTTAT-TATAATATTTTCTTA
1 GTA-TTATGTATAATATTTT-TTA
* *
4543412 TTATTATGTATATTATTTTT
1 GTATTATGTATAATATTTTT
4543432 ACTCATTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 12 0.32
23 19 0.50
24 6 0.16
25 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (22 bp):
GTATTATGTATAATATTTTTTA
Found at i:4544049 original size:2 final size:2
Alignment explanation
Indices: 4544042--4544066 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4544032 ATATGTTATG
4544042 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4544067 TATGAACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4545481 original size:19 final size:19
Alignment explanation
Indices: 4545457--4545497 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
4545447 ATGATTATCT
4545457 GTATAATTTATTTAATGGG
1 GTATAATTTATTTAATGGG
4545476 GTATAATTTATTTAATGGG
1 GTATAATTTATTTAATGGG
4545495 GTA
1 GTA
4545498 AAACGGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (19 bp):
GTATAATTTATTTAATGGG
Found at i:4545928 original size:16 final size:16
Alignment explanation
Indices: 4545907--4545945 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
4545897 TTGATGATCA
4545907 AAAGTGTTAATTGCCT
1 AAAGTGTTAATTGCCT
4545923 AAAGTGTTAATTGCCT
1 AAAGTGTTAATTGCCT
4545939 AAAGTGT
1 AAAGTGT
4545946 AACTTAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (16 bp):
AAAGTGTTAATTGCCT
Found at i:4548067 original size:67 final size:69
Alignment explanation
Indices: 4547958--4548096 Score: 219
Period size: 67 Copynumber: 2.0 Consensus size: 69
4547948 AAAGAATCAT
* *
4547958 ATTCCTAAAAAAAGCATATATCCTTTAACATCATGCTCTCTCTC-TCTATGTATATATGTCAAAC
1 ATTCCTAAAAAAAGCATATAACCTTTAACATCATGCTCTCTCTCATCTATGCATATATGTCAAAC
4548022 AAAA
66 AAAA
* *
4548026 ATTCCT-AAAAAAGCATATAACCTTTAATATCATGCTCTCTCTCTATCTATGCATGTATGTCAAA
1 ATTCCTAAAAAAAGCATATAACCTTTAACATCATGCTCTCTCTC-ATCTATGCATATATGTCAAA
4548090 CAAAA
65 CAAAA
4548095 AT
1 AT
4548097 GAGGAGTTTG
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
67 35 0.54
68 6 0.09
69 24 0.37
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (69 bp):
ATTCCTAAAAAAAGCATATAACCTTTAACATCATGCTCTCTCTCATCTATGCATATATGTCAAAC
AAAA
Found at i:4549371 original size:2 final size:2
Alignment explanation
Indices: 4549364--4549396 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4549354 AATCGTGCCT
4549364 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4549397 GAAGATGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4549470 original size:14 final size:14
Alignment explanation
Indices: 4549451--4549482 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4549441 TGTTAATTAA
4549451 TTAGGGTAGATGGT
1 TTAGGGTAGATGGT
*
4549465 TTAGGGTAGGTGGT
1 TTAGGGTAGATGGT
4549479 TTAG
1 TTAG
4549483 AAGGACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.38
Consensus pattern (14 bp):
TTAGGGTAGATGGT
Found at i:4553963 original size:18 final size:18
Alignment explanation
Indices: 4553940--4553982 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
4553930 GTTTAAGGTG
4553940 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
4553958 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
4553976 TAATTAA
1 TAATTAA
4553983 AAACATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:4555030 original size:3 final size:3
Alignment explanation
Indices: 4555022--4555054 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4555012 ATTAAATTAA
4555022 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4555055 TTGCCAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4556690 original size:20 final size:20
Alignment explanation
Indices: 4556665--4556704 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4556655 GTATATGTAT
4556665 ATACATAGTTTATTTTAAGC
1 ATACATAGTTTATTTTAAGC
4556685 ATACATAGTTTATTTTAAGC
1 ATACATAGTTTATTTTAAGC
4556705 CTTTTATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
ATACATAGTTTATTTTAAGC
Found at i:4561741 original size:139 final size:138
Alignment explanation
Indices: 4561457--4561855 Score: 421
Period size: 126 Copynumber: 3.0 Consensus size: 138
4561447 TCAACTTTGT
* *
4561457 CTGACACTTTTGGGTCGACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATACGCTTTGACCA
1 CTGACAC-TTTGGGCCGACACTTTCCTAAGTGTTGGGATAAACTTGTCAACATACGCTTTGACCA
* * * *
4561522 ACTCTTTGTTTAAGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTTC
65 AATCTTTGTATAAGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAATCGACTTTGTCC
*
4561587 AACATTATG
130 AACACTATG
* * ** *
4561596 CCGACACTTTGGGCCGACATTTTCCTAAGTGTTGGGATAAACTTGTCGTCATACGCTTTGGCCAA
1 CTGACACTTTGGGCCGACACTTTCCTAAGTGTTGGGATAAACTTGTCAACATACGCTTTGACCAA
* * *
4561661 ATCTTTGTATAAGGGTTGGGATATGCCTGCCTAAGGCAACACTTAAATAATAATTGACTTTGTCC
66 ATCTTTGTATAA-GGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAATCGACTTTGTCC
4561726 AACACTA--
130 AACACTATG
** * * * **
4561733 -TG-----TT-----GACACTTTCCTAAGTAATGGGATAAACTTATCAACAGACACTTTGGTCAA
1 CTGACACTTTGGGCCGACACTTTCCTAAGTGTTGGGATAAACTTGTCAACATACGCTTTGACCAA
* * * *
4561787 CTCTTTATATAAGAGTTGGGATATGCATGCATAAGGCAACACTTAAATAAGAGTCTG-CTTTGTC
66 ATCTTTGTATAAG-GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAATC-GACTTTGTC
*
4561851 GAACA
129 CAACA
4561856 TTGTGCCGAA
Statistics
Matches: 224, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
125 1 0.00
126 98 0.44
127 1 0.00
131 2 0.01
136 1 0.00
138 62 0.28
139 59 0.26
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (138 bp):
CTGACACTTTGGGCCGACACTTTCCTAAGTGTTGGGATAAACTTGTCAACATACGCTTTGACCAA
ATCTTTGTATAAGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAATCGACTTTGTCCA
ACACTATG
Found at i:4562778 original size:23 final size:25
Alignment explanation
Indices: 4562752--4562798 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
4562742 TATCATTCAT
*
4562752 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
4562775 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
4562799 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:4562959 original size:13 final size:13
Alignment explanation
Indices: 4562941--4562970 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4562931 TTCTTGTAAA
4562941 CATTTCATACAAC
1 CATTTCATACAAC
*
4562954 CATTTCATATAAC
1 CATTTCATACAAC
4562967 CATT
1 CATT
4562971 CGTCATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCATACAAC
Found at i:4563119 original size:46 final size:46
Alignment explanation
Indices: 4563059--4563362 Score: 363
Period size: 46 Copynumber: 7.0 Consensus size: 46
4563049 TTTGACGTGA
* * * * * *
4563059 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
4563105 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
4563151 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
4563197 TGCCATGGTATCTTTCAACCATGGTCTAACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4563243 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4563281 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4563319 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
4563363 AGAGCACACT
Statistics
Matches: 234, Mismatches: 15, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
38 71 0.30
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 149 0.64
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:4563289 original size:38 final size:38
Alignment explanation
Indices: 4563238--4563351 Score: 228
Period size: 38 Copynumber: 3.0 Consensus size: 38
4563228 CATTTCATAT
4563238 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
4563276 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
4563314 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
4563352 TTTCATATCA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 76 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:4568820 original size:143 final size:141
Alignment explanation
Indices: 4568568--4568984 Score: 533
Period size: 143 Copynumber: 3.0 Consensus size: 141
4568558 GAGATGAAGT
* * * * *
4568568 TGGTGGCTTCAATTTGCTCCACTATAACTTCAGGAAGATAAGATTCGCCATAGTTTATAACTTTA
1 TGGTGGCTTCAATTTGCTCCACTGTAACTTCAGGAAGATAAGATTC-CCATAATTTGTAGCTTCA
* * * * * *
4568633 ATATGTTCCACTGCAACGTCAGGGAAATAAGAATTGCTGCCTTCAGTCTATTCCACTGCAACTTT
65 ATCTGTTCCACTGCAACTTCAGGGAAATAAG-ATTGCTGTCTTCAGTCTACTCCACTACAACTTC
*
4568698 AGGGAGATAAGGC
129 AGGAAGATAAGGC
*
4568711 TGGTGGCTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATAATTTGTAGCTTCA
1 TGGTGGCTTCAATTTGCTCCACTGTAACTTCAGGAAGATAAGATTC-CCATAATTTGTAGCTTCA
* * * * **
4568776 ATCTGTTCCATTGCAACTTCAAGGAAATAAGATTAGCTGTCTTCAATCTGCTCTGCTACAACTTC
65 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATT-GCTGTCTTCAGTCTACTCCACTACAACTTC
4568841 AGGAAGATAAGGC
129 AGGAAGATAAGGC
*
4568854 TGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGAT--G----CCATAATTTGTAGCTTCAA
1 TGGTGGCTTCAATTTGCTCCACTGTAACTTCAGGAAGATAAGATTCCCATAATTTGTAGCTTCAA
*
4568913 TCTGTTCCACTGCAACTTCAGGGAAATAAAATTTGCTGTCTTC-GATCTACTCCACTACAACTTC
66 TCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTGCTGTCTTCAG-TCTACTCCACTACAACTTC
*
4568977 AAGAAGAT
129 AGGAAGAT
4568985 TTACAACTTC
Statistics
Matches: 241, Mismatches: 30, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
136 79 0.33
137 2 0.01
141 1 0.00
142 3 0.01
143 156 0.65
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (141 bp):
TGGTGGCTTCAATTTGCTCCACTGTAACTTCAGGAAGATAAGATTCCCATAATTTGTAGCTTCAA
TCTGTTCCACTGCAACTTCAGGGAAATAAGATTGCTGTCTTCAGTCTACTCCACTACAACTTCAG
GAAGATAAGGC
Found at i:4570101 original size:6 final size:6
Alignment explanation
Indices: 4570092--4570138 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
4570082 TGGCCTCTCA
* * * *
4570092 TTTTTC TTTTTT TTTTTC CTTTTC TTTTTC CTTTTC TTTTTG TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
4570139 TTATATTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:4570138 original size:12 final size:12
Alignment explanation
Indices: 4570092--4570132 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
4570082 TGGCCTCTCA
* *
4570092 TTTTTCTTTTTT
1 TTTTTCCTTTTC
4570104 TTTTTCCTTTTC
1 TTTTTCCTTTTC
4570116 TTTTTCCTTTTC
1 TTTTTCCTTTTC
4570128 TTTTT
1 TTTTT
4570133 GTTTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:4572232 original size:49 final size:49
Alignment explanation
Indices: 4572176--4572407 Score: 286
Period size: 49 Copynumber: 4.7 Consensus size: 49
4572166 TTGGTACGCA
* ** *
4572176 TAGTAGCCTGCACTTAGTACTACATATATGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** ** *
4572225 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * *
4572275 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-GG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* *
4572325 ATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGGTACACG
1 -TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
4572375 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
4572408 TCACAATAGA
Statistics
Matches: 154, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 70 0.45
50 47 0.31
51 37 0.24
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:4572404 original size:100 final size:99
Alignment explanation
Indices: 4572176--4572407 Score: 297
Period size: 100 Copynumber: 2.3 Consensus size: 99
4572166 TTGGTACGCA
* **
4572176 TAGTAGCCTGCACTTAGTACTACATATATGACCAATTATCCAGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACGTAGTAGCCTACACTTA
* **
4572241 GTACTACACACGTGACCTAACCATTTGATACACG
66 GTACTACACACGTGACCTAACAATCCGATACACG
* ** * *
4572275 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-GGATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCAGTACACG-TAGTAGCCTACAC
* * *
4572339 TTAGTACTACACATGTGACC-AATAATCCGGTACACG
63 TTAGTACTACACACGTGACCTAACAATCCGATACACG
4572375 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
4572408 TCACAATAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
99 29 0.25
100 46 0.40
101 40 0.35
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACGTAGTAGCCTACACTTA
GTACTACACACGTGACCTAACAATCCGATACACG
Found at i:4577495 original size:50 final size:49
Alignment explanation
Indices: 4577377--4577604 Score: 305
Period size: 49 Copynumber: 4.6 Consensus size: 49
4577367 CTGGTACGCA
* *
4577377 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
4577426 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * *
4577476 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-GG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* * *
4577526 ATAGTAGCCTGCACTAAGTACTACACATGTGACCAATAATCCGGTACACG
1 -TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
4577576 TAGTAGCCTGCACTTAGTACTACACACGT
1 TAGTAGCCTGCACTTAGTACTACACACGT
4577605 TACCTCACAA
Statistics
Matches: 154, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
49 67 0.44
50 50 0.32
51 37 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:4578769 original size:41 final size:41
Alignment explanation
Indices: 4578724--4578807 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
4578714 ATGTAATCAT
*
4578724 TTCGTGAAATATTAGACCATAAAAATATAATAAAAATGAAA
1 TTCGTGAAATAGTAGACCATAAAAATATAATAAAAATGAAA
*
4578765 TTCGTGAAATCGTAGACCATAAAAATATAATAAAAATGAAA
1 TTCGTGAAATAGTAGACCATAAAAATATAATAAAAATGAAA
4578806 TT
1 TT
4578808 TTTCTCATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.27
Consensus pattern (41 bp):
TTCGTGAAATAGTAGACCATAAAAATATAATAAAAATGAAA
Found at i:4581314 original size:27 final size:27
Alignment explanation
Indices: 4581284--4581339 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
4581274 GCACGAGAAC
4581284 GATACCAATATTACCGAGGAGATGGCT
1 GATACCAATATTACCGAGGAGATGGCT
4581311 GATACCAATATTACCGAGGAGATGGCT
1 GATACCAATATTACCGAGGAGATGGCT
4581338 GA
1 GA
4581340 AAATCAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (27 bp):
GATACCAATATTACCGAGGAGATGGCT
Found at i:4585140 original size:3 final size:3
Alignment explanation
Indices: 4585132--4585192 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
4585122 TATTGGTCCA
4585132 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4585180 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
4585193 TCTTCATCAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4586885 original size:18 final size:17
Alignment explanation
Indices: 4586846--4586932 Score: 59
Period size: 18 Copynumber: 4.8 Consensus size: 17
4586836 TCCATTTCTC
*
4586846 TTTATATTTATATTT-ATA
1 TTTAT-TTTAT-TTTAATT
4586864 TTTATTTTAATTTTAATT
1 TTTATTTT-ATTTTAATT
*
4586882 TTTATCTTTATTGTAATT
1 TTTAT-TTTATTTTAATT
* *
4586900 TTTCTTTTTATGTTTATTT
1 TTT-ATTTTAT-TTTAATT
*
4586919 TTTCTTTCTATTTT
1 TTTATTT-TATTTT
4586933 GGACTATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
17 6 0.11
18 36 0.63
19 15 0.26
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTATTTTATTTTAATT
Found at i:4586885 original size:24 final size:24
Alignment explanation
Indices: 4586858--4586919 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
4586848 TATATTTATA
4586858 TTTATATTTATTTTAATTTTAATT
1 TTTATATTTATTTTAATTTTAATT
* * **
4586882 TTTATCTTTATTGTAATTTTTCTT
1 TTTATATTTATTTTAATTTTAATT
*
4586906 TTTATGTTTATTTT
1 TTTATATTTATTTT
4586920 TTCTTTCTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTATATTTATTTTAATTTTAATT
Found at i:4593166 original size:3 final size:3
Alignment explanation
Indices: 4593158--4593210 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
4593148 AAATAAGACA
4593158 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4593206 AAT AA
1 AAT AA
4593211 AAGGACACAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4593301 original size:13 final size:13
Alignment explanation
Indices: 4593285--4593318 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4593275 TTTTTATTAG
*
4593285 AAATAAACAAATT
1 AAATAAAAAAATT
4593298 AAATAAAAAAATT
1 AAATAAAAAAATT
4593311 AAATAAAA
1 AAATAAAA
4593319 CATTTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAAAAATT
Found at i:4595692 original size:46 final size:46
Alignment explanation
Indices: 4595635--4595810 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
4595625 TATTTGGGCA
4595635 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
4595681 TCCGAATTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
4595728 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
4595774 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4595811 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:4595790 original size:93 final size:93
Alignment explanation
Indices: 4595631--4595802 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
4595621 GGGATATTTG
* * *
4595631 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAATTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
4595696 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
4595724 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
4595789 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
4595803 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:4599536 original size:104 final size:103
Alignment explanation
Indices: 4599320--4599571 Score: 308
Period size: 104 Copynumber: 2.4 Consensus size: 103
4599310 CGCCATACGG
* * * *
4599320 CCAGGGACATGGGCGTGTGCCTAGGCTATGTGAGCCACACGGGCAAAGACATGACGTGTGTCTAA
1 CCAGGGACATGGGCGTGTGCCCAGGCTGTGTGAGCCACACAGGCAAAGACATGACGTGTGTCCAA
** * *
4599385 GTCGTGTAACTCACTGTTTATGCTTTAGAACCACATGG
66 GTCGTGTAACTCACTGTTTACACTTTAGAACCACACGA
* * * * *
4599423 CCAGAGACATGGGCGTGTGCCCAGGCCGTGTGAGCCACATAGGTAAGGACATGGACGTGTGTCC-
1 CCAGGGACATGGGCGTGTGCCCAGGCTGTGTGAGCCACACAGGCAAAGACAT-GACGTGTGTCCA
* **
4599487 AGGCTGTGTAACTCGTTGTTTACACTTTAGAACCACACGA
65 AGTC-GTGTAACTCACTGTTTACACTTTAGAACCACACGA
* * *
4599527 CCAGGGACATGTGCGTGTGCCCAAGCTGTGTGAGCCACACGGGCA
1 CCAGGGACATGGGCGTGTGCCCAGGCTGTGTGAGCCACACAGGCA
4599572 TGGGAAGCAA
Statistics
Matches: 124, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
103 47 0.38
104 77 0.62
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.22
Consensus pattern (103 bp):
CCAGGGACATGGGCGTGTGCCCAGGCTGTGTGAGCCACACAGGCAAAGACATGACGTGTGTCCAA
GTCGTGTAACTCACTGTTTACACTTTAGAACCACACGA
Found at i:4600413 original size:15 final size:15
Alignment explanation
Indices: 4600380--4600413 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4600370 TCTTCTCTGT
* *
4600380 TCTGTTCTGTTCTGT
1 TCTGTTCTGTGCTGC
4600395 TCTGTTCTGTGCTGC
1 TCTGTTCTGTGCTGC
4600410 TCTG
1 TCTG
4600414 CTTTTTACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.53
Consensus pattern (15 bp):
TCTGTTCTGTGCTGC
Found at i:4600415 original size:5 final size:5
Alignment explanation
Indices: 4600375--4600404 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
4600365 TTTGCTCTTC
4600375 TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT
1 TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT
4600405 GCTGCTCTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.20, T:0.60
Consensus pattern (5 bp):
TCTGT
Found at i:4609708 original size:18 final size:18
Alignment explanation
Indices: 4609687--4609727 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4609677 ATTTTCAAAA
4609687 AAATATAATAATAAAT-TT
1 AAATATAAT-ATAAATATT
*
4609705 AAATATAATATTAATATT
1 AAATATAATATAAATATT
4609723 AAATA
1 AAATA
4609728 AATGTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATAATATAAATATT
Found at i:4610227 original size:16 final size:16
Alignment explanation
Indices: 4610206--4610238 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4610196 CCACTCCTTC
4610206 TATCTAATGAGAAAGT
1 TATCTAATGAGAAAGT
4610222 TATCTAATGAGAAAGT
1 TATCTAATGAGAAAGT
4610238 T
1 T
4610239 CAATACAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.33
Consensus pattern (16 bp):
TATCTAATGAGAAAGT
Found at i:4614799 original size:26 final size:28
Alignment explanation
Indices: 4614765--4614833 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
4614755 CTCGGCTTGA
4614765 ATAT-ATTATATTATAAA-AATAATTAT
1 ATATAATTATATTATAAATAATAATTAT
*
4614791 AT-TAATTATATATGTTAAATAATAATTAT
1 ATATAATTATAT-T-ATAAATAATAATTAT
*
4614820 ATATATTTATATTA
1 ATATAATTATATTA
4614834 AATTATTAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.03
26 9 0.26
27 1 0.03
28 4 0.11
29 12 0.34
30 8 0.23
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
ATATAATTATATTATAAATAATAATTAT
Found at i:4614837 original size:20 final size:19
Alignment explanation
Indices: 4614787--4614839 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
4614777 ATAAAAATAA
4614787 TTATATT-AATTATATATG
1 TTATATTAAATTATATATG
* * *
4614805 TTAAATAATAATTATATATAT
1 TTATATTA-AATTATATAT-G
4614826 TTATATTAAATTAT
1 TTATATTAAATTAT
4614840 TAACCCAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 5 0.19
20 16 0.59
21 6 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTATATTAAATTATATATG
Found at i:4614862 original size:16 final size:16
Alignment explanation
Indices: 4614841--4614878 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
4614831 TTAAATTATT
4614841 AACCCAATAACAATTA
1 AACCCAATAACAATTA
4614857 AACCCAATAACAATTA
1 AACCCAATAACAATTA
4614873 AACCCA
1 AACCCA
4614879 TTAATCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (16 bp):
AACCCAATAACAATTA
Found at i:4623403 original size:21 final size:23
Alignment explanation
Indices: 4623363--4623404 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
4623353 AACCTAGAGA
*
4623363 TTAAAAATCTTGGACTTGCATGG
1 TTAAAAATATTGGACTTGCATGG
4623386 TTAAAAA-ATTGG-CTTGCAT
1 TTAAAAATATTGGACTTGCAT
4623405 TCAATTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (23 bp):
TTAAAAATATTGGACTTGCATGG
Found at i:4624900 original size:13 final size:13
Alignment explanation
Indices: 4624882--4624909 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4624872 TCTATCAAAC
4624882 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
4624895 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
4624908 AA
1 AA
4624910 GAAGCTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:4624903 original size:16 final size:16
Alignment explanation
Indices: 4624882--4624912 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4624872 TCTATCAAAC
4624882 AAAAAAAAAAAAGAAA
1 AAAAAAAAAAAAGAAA
*
4624898 AAAAAAAAAGAAGAA
1 AAAAAAAAAAAAGAA
4624913 GCTATCTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAGAAA
Found at i:4627126 original size:11 final size:10
Alignment explanation
Indices: 4627104--4627136 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
4627094 ATAATCTGGA
4627104 AAGAG-AAGG
1 AAGAGAAAGG
4627113 AAGAGAAGAGG
1 AAGAGAA-AGG
4627124 AAGAGAAAGG
1 AAGAGAAAGG
4627134 AAG
1 AAG
4627137 GATTACCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.23
10 7 0.32
11 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (10 bp):
AAGAGAAAGG
Found at i:4639905 original size:3 final size:3
Alignment explanation
Indices: 4639890--4639967 Score: 140
Period size: 3 Copynumber: 26.0 Consensus size: 3
4639880 GTTATTTTCA
4639890 TAT TAT TGA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4639935 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4639968 GTGCTTTTGT
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 1 0.01
3 71 0.97
4 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4640612 original size:22 final size:23
Alignment explanation
Indices: 4640550--4640613 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
4640540 ATTATATGTG
* *
4640550 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AATATGCTTTAA
4640574 TATTATATTAT-ATATATGCTTT-A
1 TA-TATATTATGA-ATATGCTTTAA
4640597 TATATATTATGAATATG
1 TATATATTATGAATATG
4640614 TATTTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 13 0.37
23 5 0.14
24 9 0.26
25 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAATATGCTTTAA
Found at i:4641614 original size:27 final size:27
Alignment explanation
Indices: 4641578--4641629 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4641568 TAAACTTTGC
*
4641578 TTTTCAAATAAA-ATAAGTAGACTAATT
1 TTTTCAAATAAAGAAAAG-AGACTAATT
*
4641605 TTTTGAAATAAAGAAAAGAGACTAA
1 TTTTCAAATAAAGAAAAGAGACTAA
4641630 ATTTCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.31
Consensus pattern (27 bp):
TTTTCAAATAAAGAAAAGAGACTAATT
Found at i:4645259 original size:24 final size:24
Alignment explanation
Indices: 4645215--4645265 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
4645205 CCTTTTAATA
*
4645215 ATATATAATTTTTTAATAATTTTCT
1 ATATATAAGTTTTTAATAATTTT-T
4645240 ATAT-TAAGTTTTT-ATGAATTTTT
1 ATATATAAGTTTTTAAT-AATTTTT
4645263 ATA
1 ATA
4645266 AGTTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 14 0.58
25 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (24 bp):
ATATATAAGTTTTTAATAATTTTT
Found at i:4645926 original size:20 final size:19
Alignment explanation
Indices: 4645882--4645935 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
4645872 TTTATAATTT
4645882 TTTTTATAA-TTTTCTATA
1 TTTTTATAAGTTTTCTATA
4645900 TTATTTATAAGTTTTC-ATCAA
1 TT-TTTATAAGTTTTCTAT--A
4645921 TTTTTATAAGCTTTT
1 TTTTTATAAG-TTTT
4645936 AAATATGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.06
19 9 0.29
20 13 0.42
21 7 0.23
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTTATAAGTTTTCTATA
Found at i:4646466 original size:648 final size:643
Alignment explanation
Indices: 4645099--4646597 Score: 1497
Period size: 648 Copynumber: 2.3 Consensus size: 643
4645089 GATCGAGAAT
* * ** * * * * *
4645099 ATTTTATTCAACATGAAAAATGATCCCAACGATTTAAC-GATTATTCCTATTATCTAAAGGTTGG
1 ATTTTATTCAACATG-AAAATAATCCTAATAATTTGACTAACTATTCCTAATATCTAAAAGTTGG
* * * * * *
4645163 TCTGGTGTCCTGTGTTTATTATGATTTTAGGGGTTTAAATGTCCTTTT-AATAATATATAATTTT
65 TCTAGTGTCGTGTGCTCATTATGATTTTAGGGGTTTAAATATCCTTTTCAATAATTTATAATTTT
* *
4645227 TTAATAATTTTCTATATTAAGTTTTTATGAA-TTTTTATAAGTTTTTA-AA-CATGTTATTATAT
130 TTTATAATTTTCTATATT-A---TTTAT-AAGTTTTTATAA-TTTTTATAAGC-TCTTA-TATAT
* * *
4645289 GTTTTGTTAATTTTATAAAAAAACTATAATTTATTAAAATTTATTAGAATGTATTATATATTTTT
187 GTTTTATTAATTGTATAAAAAAACTATAATTTATTAAAATTTATTAGAATCTA-TATATATTTTT
* *
4645354 ATAATATTTCTAAGTTTTTATATATATTTTTTATAATTTTCTATAAGTTTGATAAGTTTATATAA
251 ATAATATTTATAAGTTTTTATATATATTTTTTATAATTTTCTATAACTTTGATAAGTTTATATAA
*
4645419 AATTTCAAGATTTTAATATATTTTTAAATACTTTTAATAAATTTTTTTATAATTTTTATGTGAAA
316 AATTTCAAGATTTT-ATATATTTTTAAATACTTTTAATAAATTTTTTTATAATCTTTATGTGAAA
* *
4645484 AATATAAGATTAAATCATATAAGCTGTCAGTGTCACCATATGTTTTGTCCATTAATTTATTTTCA
380 AATATAAGATTAAATCATATAAGCTGTCAGTGTCACCATATGCTTTGTCCA-TAATTTATTTTAA
* * * ** * *
4645549 CAATTAACATGATCAAAGATGGAAATCGTTAATAGAGGGATTCAATTAATTTTTTTGATTAGTGG
444 CAA-TAACATGATCAAAGATAGAAACCATTAATAGAAAGATTCAATTAATTTTTTTGACTAGCGG
* * * * * * *
4645614 GGGCTAAACTGGGTACGAATAGTGTAGGGGCTCAATACTTTACTATATTTTAAAAATTGGAGATA
508 GGACTAAACTAGGTACGAATAGTGCA---G-TCAATACTGTAATATATTTTAAAAACTGGAAATA
* * * ** * *
4645679 AAAATTTGAAAAATAATTTATCAATAAAAAGAGAATGTCTTGTAATTATCGTTTTATTTGTGAAA
569 AAAATTTAAAAAATAATTTACCAATAAAAAGAGAATATCTCATAATTACCGTTTTATTTATGAAA
** * *
4645744 GATCGAGAAT
634 GATAAAAAAC
* *
4645754 ATTTTATTCAACATGAGAATAATCCTAATAATTTGACTAACTATTCCTATTATCTAAAAGTTGGT
1 ATTTTATTCAACATGAAAATAATCCTAATAATTTGACTAACTATTCCTAATATCTAAAAGTTGGT
*
4645819 -TCAGTGTCGTGTGCTCATTATAATTTTAGGGGTTTAAATATCCTTTTCAATAATTTATAATTTT
66 CT-AGTGTCGTGTGCTCATTATGATTTTAGGGGTTTAAATATCCTTTTCAATAATTTATAA-TTT
* * *
4645883 TTTTATAATTTTCTATATTATTTATAAGTTTTCATCAATTTTTATAAGCTTTTAAATATGTTTTA
129 TTTTATAATTTTCTATATTATTTATAAGTTTTTAT-AATTTTTATAAGCTCTTATATATGTTTTA
4645948 TTAATTGTAT-AAAAAA-TAT-ATTTATTAAAATTTATTAGAA-CTA-ATATATTTTTATAATAT
193 TTAATTGTATAAAAAAACTATAATTTATTAAAATTTATTAGAATCTATATATATTTTTATAATAT
* * * **
4646008 TTATAAGTTTTT-TTTGGTTTTTTTTTATAATTTTCTATAACTTTTTTAAGTTTATATAAAATTT
258 TTATAAGTTTTTATAT--ATATTTTTTATAATTTTCTATAACTTTGATAAGTTTATATAAAATTT
* * *
4646072 TAAGA-TTT-TGTATTTTTAAATA-TTTGTAA-GAATTTTTTTATAATCTTTATGTG-AAAAT-T
321 CAAGATTTTATATATTTTTAAATACTTT-TAATAAATTTTTTTATAATCTTTATGTGAAAAATAT
* *
4646131 AAGATTAAATCA-A-AAGTTGTCA-TGTGCTATCATTGGATTGCTTTGT-C-T-ATTTATTTTAA
385 AAGATTAAATCATATAAGCTGTCAGTGT-C-ACCA-T--A-TGCTTTGTCCATAATTTATTTTAA
* * *
4646190 CGGAA-AACGTGATTAAAGATAGAAACCATTAAT-GAAAAGACTT-AATTGATTTTTTT-AGCTA
444 C--AATAACATGATCAAAGATAGAAACCATTAATAG-AAAGA-TTCAATTAATTTTTTTGA-CTA
*
4646251 GCGACAGGGACTAAACTAGGTGCGAATAGTGCA-TC-ATACTGTAATATATTTTAAAAACTGGAA
504 GCG---GGGACTAAACTAGGTACGAATAGTGCAGTCAATACTGTAATATATTTTAAAAACTGGAA
4646314 ATAAAAATTATAAAAATAAAAAATAATAATTTACCAATAAAAAGGAGAATATCTCATAATTACCG
566 ATAAAAA-T-T-----T--AAAA-AATAATTTACCAATAAAAA-GAGAATATCTCATAATTACCG
4646379 TTTTATTTATGGAAA-ATAAAAAAC
620 TTTTATTTAT-GAAAGATAAAAAAC
* ** * * ** *
4646403 ATTTTATTTAATTTGAAAATGA-CCTTAATAGTTTGA-TGGCTATTTCTAATATC-AAATAGTTG
1 ATTTTATTCAACATGAAAATAATCC-TAATAATTTGACTAACTATTCCTAATATCTAAA-AGTTG
* * * * * * *
4646465 GTCTGGTGTTGTGTGTTTAGTATGATTTTAGGAGTTTAAATATCTTTTTCAATAATTTATAA-TT
64 GTCTAGTGTCGTGTGCTCATTATGATTTTAGGGGTTTAAATATCCTTTTCAATAATTTATAATTT
*
4646529 TTTT-TAATTTTCTATATTATTTATAAGTTTTTATGAATTTTTATAAGC-CTTATACATGTTTTA
129 TTTTATAATTTTCTATATTATTTATAAGTTTTTAT-AATTTTTATAAGCTCTTATATATGTTTTA
4646592 TTAATT
193 TTAATT
4646598 TTTTTTAAAA
Statistics
Matches: 714, Mismatches: 90, Indels: 91
0.80 0.10 0.10
Matches are distributed among these distances:
638 31 0.04
639 6 0.01
640 12 0.02
641 57 0.08
642 17 0.02
643 7 0.01
644 68 0.10
645 66 0.09
646 8 0.01
647 37 0.05
648 136 0.19
649 61 0.09
650 25 0.04
651 3 0.00
652 8 0.01
653 35 0.05
654 25 0.04
655 79 0.11
656 12 0.02
657 21 0.03
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (643 bp):
ATTTTATTCAACATGAAAATAATCCTAATAATTTGACTAACTATTCCTAATATCTAAAAGTTGGT
CTAGTGTCGTGTGCTCATTATGATTTTAGGGGTTTAAATATCCTTTTCAATAATTTATAATTTTT
TTATAATTTTCTATATTATTTATAAGTTTTTATAATTTTTATAAGCTCTTATATATGTTTTATTA
ATTGTATAAAAAAACTATAATTTATTAAAATTTATTAGAATCTATATATATTTTTATAATATTTA
TAAGTTTTTATATATATTTTTTATAATTTTCTATAACTTTGATAAGTTTATATAAAATTTCAAGA
TTTTATATATTTTTAAATACTTTTAATAAATTTTTTTATAATCTTTATGTGAAAAATATAAGATT
AAATCATATAAGCTGTCAGTGTCACCATATGCTTTGTCCATAATTTATTTTAACAATAACATGAT
CAAAGATAGAAACCATTAATAGAAAGATTCAATTAATTTTTTTGACTAGCGGGGACTAAACTAGG
TACGAATAGTGCAGTCAATACTGTAATATATTTTAAAAACTGGAAATAAAAATTTAAAAAATAAT
TTACCAATAAAAAGAGAATATCTCATAATTACCGTTTTATTTATGAAAGATAAAAAAC
Found at i:4646544 original size:19 final size:19
Alignment explanation
Indices: 4646520--4646575 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
4646510 TTTTCAATAA
*
4646520 TTTATAATTTTTTTAA-TT
1 TTTATAATTTTTATAAGTT
4646538 TTCTAT-ATTATTTATAAGTT
1 TT-TATAATT-TTTATAAGTT
4646558 TTTATGAATTTTTATAAG
1 TTTAT-AATTTTTATAAG
4646576 CCTTATACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 5 0.16
19 12 0.38
20 12 0.38
21 3 0.09
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTATAATTTTTATAAGTT
Found at i:4646551 original size:28 final size:29
Alignment explanation
Indices: 4646519--4646573 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
4646509 TTTTTCAATA
*
4646519 ATTTATAA-TTTTT-TTAATTTTCTATATT
1 ATTTATAAGTTTTTATGAATTTT-TATATT
4646547 ATTTATAAGTTTTTATGAATTTTTATA
1 ATTTATAAGTTTTTATGAATTTTTATA
4646574 AGCCTTATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 9 0.38
30 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (29 bp):
ATTTATAAGTTTTTATGAATTTTTATATT
Found at i:4646569 original size:10 final size:9
Alignment explanation
Indices: 4646520--4646574 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
4646510 TTTTCAATAA
4646520 TTTATAATT
1 TTTATAATT
*
4646529 TTTTTAATT
1 TTTATAATT
4646538 TTCTAT-ATT
1 TT-TATAATT
4646547 ATTTATAAGTT
1 -TTTATAA-TT
4646558 TTTATGAATT
1 TTTAT-AATT
4646568 TTTATAA
1 TTTATAA
4646575 GCCTTATACA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 18 0.46
10 17 0.44
11 4 0.10
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:4646639 original size:22 final size:23
Alignment explanation
Indices: 4646613--4646671 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
4646603 TAAAATTATA
4646613 TATTTTATAATATTTTTAAT-AT
1 TATTTTATAATATTTTTAATAAT
*
4646635 TATTTT-TAAGTATTTCTAATAAT
1 TATTTTATAA-TATTTTTAATAAT
4646658 T-TTTTATAAT-TTTT
1 TATTTTATAATATTTT
4646672 ATGTGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 6 0.19
22 20 0.62
23 6 0.19
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTTTATAATATTTTTAATAAT
Found at i:4648994 original size:30 final size:25
Alignment explanation
Indices: 4648959--4649012 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
4648949 ATATTTGTAT
4648959 ATATTAATTTATTATATGTTTATGATATTC
1 ATATT-ATTT-TT-TAT-TTTATG-TATTC
4648989 ATATTATTTTTTATTTTATGTATT
1 ATATTATTTTTTATTTTATGTATT
4649013 TTTGTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 4 0.17
26 6 0.25
27 3 0.12
28 2 0.08
29 4 0.17
30 5 0.21
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (25 bp):
ATATTATTTTTTATTTTATGTATTC
Found at i:4649318 original size:13 final size:13
Alignment explanation
Indices: 4649300--4649324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4649290 ATTGAAATGC
4649300 ATTTTAAAATTAA
1 ATTTTAAAATTAA
4649313 ATTTTAAAATTA
1 ATTTTAAAATTA
4649325 TATTAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTAAAATTAA
Found at i:4651570 original size:27 final size:25
Alignment explanation
Indices: 4651512--4651575 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 25
4651502 ATATGAATTT
4651512 TAAAATAAAAAGTAAGACAATAATA
1 TAAAATAAAAAGTAAGACAATAATA
*
4651537 AATAAATAAATAAGTAAGTA-AATAATA
1 TA-AAATAAA-AAGTAAG-ACAATAATA
4651564 GTAAAATAAAAA
1 -TAAAATAAAAA
4651576 AAATGCATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 1 0.03
26 9 0.27
27 21 0.64
28 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (25 bp):
TAAAATAAAAAGTAAGACAATAATA
Found at i:4652492 original size:15 final size:15
Alignment explanation
Indices: 4652469--4652503 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4652459 GTACGAAAAT
* *
4652469 AAAACAAAAGGAAGA
1 AAAAAAAAAAGAAGA
4652484 AAAAAAAAAAGAAGA
1 AAAAAAAAAAGAAGA
4652499 AAAAA
1 AAAAA
4652504 TCACCTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAAGA
Found at i:4653176 original size:44 final size:44
Alignment explanation
Indices: 4653128--4653243 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
4653118 TAGTGCTATG
* * * * *
4653128 ATCTACTCCATTGTAACTTCAGGAAGATTAGGCTTGTAGCTTTA
1 ATCTACTCCATTGAAACTTCAGGAAGATGAGACTCGTAGCTTCA
*
4653172 ATCTACTCCATTGAAACTTCAAGG-AGATGAGACTCGTATCTTCA
1 ATCTACTCCATTGAAACTTC-AGGAAGATGAGACTCGTAGCTTCA
* * * *
4653216 ATCTTCTTCACTGCAACTTCAGGAAGAT
1 ATCTACTCCATTGAAACTTCAGGAAGAT
4653244 AAGATTTGTG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 3 0.05
44 54 0.90
45 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (44 bp):
ATCTACTCCATTGAAACTTCAGGAAGATGAGACTCGTAGCTTCA
Found at i:4653655 original size:234 final size:233
Alignment explanation
Indices: 4653261--4653814 Score: 750
Period size: 234 Copynumber: 2.4 Consensus size: 233
4653251 GTGGTTTGTA
* * * *
4653261 GCTTTAATCTGTTCTACTGCAACTTTAAGGAGATAAGATTTGCCACGATGACTTCAATCTATCCC
1 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGCCACGATGACTTCAATCCATCCC
* * * * *
4653326 ATTGTAATTTCAGGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTATAACTTCAGAGAGATC
65 ACTGTAACTTCAGGGG-TATAAGACTTGTAACTTCAATATGCTCCACTACAACTTCAGAGAGATC
* * *
4653391 AGATTTGTAATTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCCCTATCTT
129 AGATTTGTAATTTGTAGCCTTAATCTATTCCACTGCAACTTCAAGGAAATAAGATTACCTATCTT
* * * * *
4653456 CAGTCTACTCTACTGCAACTTCAGGGAGGTAAGGCTTGTG
194 CAGTCCACTCCACTGCAACTTCAGGGAGATAAGACTTATG
* * *
4653496 GGTTTAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTCGCCACAATGACTTCAATCCATCCC
1 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-GCCACGATGACTTCAATCCATCCC
* * * * * *
4653561 ACTATAACTTCAGGGGTATACA-ATTTGTAACTTTAATATGCTCTACTGCAACTTTAGAGAGATC
65 ACTGTAACTTCAGGGGTATA-AGACTTGTAACTTCAATATGCTCCACTACAACTTCAGAGAGATC
*
4653625 AGATTTGTAATTTGTAGCCTTAATCTATTCCACTGCAACTTCAAGGAAATAAGATTAGCTATCTT
129 AGATTTGTAATTTGTAGCCTTAATCTATTCCACTGCAACTTCAAGGAAATAAGATTACCTATCTT
* *
4653690 CAGTCCGCTCCACTGCAACTTCAGTGAGATAAGACTTATG
194 CAGTCCACTCCACTGCAACTTCAGGGAGATAAGACTTATG
* * * *
4653730 GCTTTAATCTGCTCCATTGCAACATCAGGGAGATAAGATTGACCACGGTGACTTCAATCCATCCC
1 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTG-CCACGATGACTTCAATCCATCCC
*
4653795 ACTGTAACTTCAGAGGTATA
65 ACTGTAACTTCAGGGGTATA
4653815 GGATTTGTGG
Statistics
Matches: 278, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
233 1 0.00
234 208 0.75
235 69 0.25
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (233 bp):
GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGCCACGATGACTTCAATCCATCCCA
CTGTAACTTCAGGGGTATAAGACTTGTAACTTCAATATGCTCCACTACAACTTCAGAGAGATCAG
ATTTGTAATTTGTAGCCTTAATCTATTCCACTGCAACTTCAAGGAAATAAGATTACCTATCTTCA
GTCCACTCCACTGCAACTTCAGGGAGATAAGACTTATG
Found at i:4657663 original size:3 final size:3
Alignment explanation
Indices: 4657655--4657798 Score: 57
Period size: 3 Copynumber: 48.0 Consensus size: 3
4657645 AGTAAAAGCG
* * * * *
4657655 ATA ATA ATA ATG ATA CTAA ATA ATA GTT GTA ATA A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
4657700 ACA A-A TATA ACA ATA A-A AT- GTA ATA ATA TTGA A-A ATA CTA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * * * *
4657743 GTA ATA A-C ATA TTA ATA ATA ATA ATA ATA TACA ATA ATA ATA TGTAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -AT-A
4657790 ATA ATA ATA
1 ATA ATA ATA
4657799 GTAAATGGTA
Statistics
Matches: 102, Mismatches: 27, Indels: 24
0.67 0.18 0.16
Matches are distributed among these distances:
2 9 0.09
3 84 0.82
4 8 0.08
5 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4657764 original size:23 final size:22
Alignment explanation
Indices: 4657690--4657784 Score: 72
Period size: 23 Copynumber: 4.3 Consensus size: 22
4657680 GTTGTAATAA
*
4657690 AATAATAATAACAAATATAACAAT
1 AATAATAATAA-TAATAT-ACAAT
* **
4657714 AA-AAT-GTAATAATATTGAA-
1 AATAATAATAATAATATACAAT
* *
4657733 AATACTAATAGTAATA-ACATATT
1 AATAATAATAATAATATACA-A-T
4657756 AATAATAATAATAATATACAAT
1 AATAATAATAATAATATACAAT
4657778 AATAATA
1 AATAATA
4657785 TGTAAATAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
19 2 0.04
20 5 0.09
21 13 0.24
22 11 0.20
23 18 0.33
24 5 0.09
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (22 bp):
AATAATAATAATAATATACAAT
Found at i:4657767 original size:20 final size:19
Alignment explanation
Indices: 4657738--4657784 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
4657728 TTGAAAATAC
* *
4657738 TAATAGTAATAACATATTAA
1 TAATAATAATAACATA-CAA
*
4657758 TAATAATAATAATATACAA
1 TAATAATAATAACATACAA
4657777 TAATAATA
1 TAATAATA
4657785 TGTAAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (19 bp):
TAATAATAATAACATACAA
Found at i:4657780 original size:13 final size:13
Alignment explanation
Indices: 4657762--4657804 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
4657752 TATTAATAAT
4657762 AATAATAATA-TA
1 AATAATAATAGTA
4657774 CAATAATAATATGTA
1 -AATAATAATA-GTA
4657789 AATAATAATAGTA
1 AATAATAATAGTA
4657802 AAT
1 AAT
4657805 GGTAAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 16 0.57
14 10 0.36
15 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (13 bp):
AATAATAATAGTA
Found at i:4664334 original size:19 final size:20
Alignment explanation
Indices: 4664318--4664362 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
4664308 TTATGAAACT
*
4664318 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
4664337 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
4664357 -AATGCA
1 TAATGCA
4664363 AAAATGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:4664370 original size:17 final size:17
Alignment explanation
Indices: 4664329--4664383 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
4664319 AATGCATATG
*
4664329 ATGAAATGTAATGCAGATGA
1 ATGAAATG-AATGCA-A-AA
4664349 ATGAAATGAATGCAAAA
1 ATGAAATGAATGCAAAA
*
4664366 ATGAAATCAATGCAAAA
1 ATGAAATGAATGCAAAA
4664383 A
1 A
4664384 GAGGCAGTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 18 0.55
18 1 0.03
19 6 0.18
20 8 0.24
ACGTcount: A:0.55, C:0.07, G:0.18, T:0.20
Consensus pattern (17 bp):
ATGAAATGAATGCAAAA
Found at i:4669697 original size:18 final size:18
Alignment explanation
Indices: 4669661--4669703 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4669651 TGAAATTTAA
*
4669661 AATAAAAAGTAAGACAAT
1 AATAAAAAGTAAGAAAAT
4669679 AATAAATAAGTAA-AAAAT
1 AATAAA-AAGTAAGAAAAT
*
4669697 AGTAAAA
1 AATAAAA
4669704 TATAAAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (18 bp):
AATAAAAAGTAAGAAAAT
Found at i:4670728 original size:18 final size:15
Alignment explanation
Indices: 4670690--4670732 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 15
4670680 CAAGATTATT
4670690 TTTTGTTTTTTTGCC
1 TTTTGTTTTTTTGCC
4670705 -TTTGTTTTCTATTGCTC
1 TTTTGTTTT-T-TTGC-C
4670722 TTTTGTTTTTT
1 TTTTGTTTTTT
4670733 CTTTGCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.33
15 1 0.04
16 5 0.21
17 2 0.08
18 8 0.33
ACGTcount: A:0.02, C:0.12, G:0.12, T:0.74
Consensus pattern (15 bp):
TTTTGTTTTTTTGCC
Found at i:4677005 original size:20 final size:22
Alignment explanation
Indices: 4676980--4677031 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
4676970 TTTCTAGATA
*
4676980 TTTTTAA-A-ATATCTTTTCCT
1 TTTTTAATACATATCATTTCCT
*
4677000 TTTTTAATACATATGATTTCCTT
1 TTTTTAATACATATCATTTCC-T
4677023 TTTTTAATA
1 TTTTTAATA
4677032 TATAATACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 1 0.04
22 9 0.33
23 10 0.37
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTAATACATATCATTTCCT
Found at i:4677480 original size:24 final size:24
Alignment explanation
Indices: 4677444--4677496 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4677434 AATGTTTTTT
*
4677444 GTAT-TATATATTTAAAAATGAAA
1 GTATATATATATTTAAAAAGGAAA
4677467 GTATATATATATTTAAAAAGGAAA
1 GTATATATATATTTAAAAAGGAAA
*
4677491 ATATAT
1 GTATAT
4677497 TTTTTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (24 bp):
GTATATATATATTTAAAAAGGAAA
Found at i:4679987 original size:39 final size:39
Alignment explanation
Indices: 4679925--4680025 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
4679915 ATCGTGATCT
** * * *
4679925 GAAGCCCGAAATCTAGCTAAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAATGCTAAACG
4679964 GAAGCCCGAAGGCTAACTGAAGCACATAAATGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAATGCTAAACG
4680003 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
4680026 TCATCAGAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAATGCTAAACG
Found at i:4680007 original size:21 final size:21
Alignment explanation
Indices: 4679944--4680007 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
4679934 AATCTAGCTA
*
4679944 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAATGCTAAACGG
** * *
4679965 AAGC-C-CGAAGGCT-AACTG
1 AAGCACATAAATGCTAAACGG
4679983 AAGCACATAAATGCTAAACGG
1 AAGCACATAAATGCTAAACGG
4680004 AAGC
1 AAGC
4680008 CCGAAGGCTA
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
18 8 0.26
19 5 0.16
20 6 0.19
21 12 0.39
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.12
Consensus pattern (21 bp):
AAGCACATAAATGCTAAACGG
Found at i:4687223 original size:20 final size:21
Alignment explanation
Indices: 4687188--4687226 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4687178 CTTAATTGAC
*
4687188 TAACTGACATTAACTAACTTT
1 TAACTGACAATAACTAACTTT
4687209 TAACT-ACAATAACTAACT
1 TAACTGACAATAACTAACT
4687227 ACATTGCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (21 bp):
TAACTGACAATAACTAACTTT
Found at i:4688575 original size:26 final size:26
Alignment explanation
Indices: 4688544--4688651 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
4688534 TGATACAAAT
4688544 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4688570 TAATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4688596 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4688622 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4688648 TGAT
1 TGAT
4688652 TGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4690688 original size:137 final size:137
Alignment explanation
Indices: 4690437--4690723 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
4690427 GAGTAGTCTC
*
4690437 CCCAGATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
*
4690502 TGTTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
4690567 ACTGTTA
131 ACTGTTA
*
4690574 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
*
4690639 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
4690704 ACTGTTA
131 ACTGTTA
**
4690711 CCTGAATGGGCTT
1 CCCAAATGGGCTT
4690724 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:4692502 original size:20 final size:20
Alignment explanation
Indices: 4692479--4692517 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4692469 CCCATGTATA
*
4692479 TATTATTATTACATTTATTT
1 TATTACTATTACATTTATTT
* *
4692499 TATTCCTATTATATTTATT
1 TATTACTATTACATTTATT
4692518 ATTAGTACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTACTATTACATTTATTT
Found at i:4692754 original size:2 final size:2
Alignment explanation
Indices: 4692747--4692777 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4692737 TTAAATATGT
*
4692747 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4692778 GTATTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4695145 original size:13 final size:13
Alignment explanation
Indices: 4695112--4695145 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4695102 TAAATTAAAT
*
4695112 AATTAATCCTATA
1 AATTAATTCTATA
4695125 AATTAATTCTATA
1 AATTAATTCTATA
4695138 AATTAATT
1 AATTAATT
4695146 TAATTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTAATTCTATA
Found at i:4696661 original size:21 final size:22
Alignment explanation
Indices: 4696620--4696661 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4696610 TATCTTTATA
*
4696620 TTTATTTTTAATTCGGATTGAG
1 TTTATTTTTAATTAGGATTGAG
*
4696642 TTTATTTTTATTTAGG-TTGA
1 TTTATTTTTAATTAGGATTGA
4696662 ATTTTGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.21, C:0.02, G:0.17, T:0.60
Consensus pattern (22 bp):
TTTATTTTTAATTAGGATTGAG
Found at i:4696678 original size:23 final size:23
Alignment explanation
Indices: 4696652--4696702 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
4696642 TTTATTTTTA
*
4696652 TTTAGGTTGAATTTTGAATAAAG
1 TTTAAGTTGAATTTTGAATAAAG
*
4696675 TTTAATTTGAATTTTGAATAAAG
1 TTTAAGTTGAATTTTGAATAAAG
4696698 TTTAA
1 TTTAA
4696703 TTTGGACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (23 bp):
TTTAAGTTGAATTTTGAATAAAG
Found at i:4696703 original size:23 final size:23
Alignment explanation
Indices: 4696658--4696706 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
4696648 TTTATTTAGG
4696658 TTGAATTTTGAATAAAGTTTAAT
1 TTGAATTTTGAATAAAGTTTAAT
4696681 TTGAATTTTGAATAAAGTTTAAT
1 TTGAATTTTGAATAAAGTTTAAT
4696704 TTG
1 TTG
4696707 GACTTAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (23 bp):
TTGAATTTTGAATAAAGTTTAAT
Found at i:4698210 original size:10 final size:10
Alignment explanation
Indices: 4698195--4698219 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4698185 CCATAATTTA
4698195 TGATACAAAT
1 TGATACAAAT
4698205 TGATACAAAT
1 TGATACAAAT
4698215 TGATA
1 TGATA
4698220 ATAGGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
TGATACAAAT
Found at i:4706281 original size:26 final size:26
Alignment explanation
Indices: 4706244--4706301 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
4706234 TGATACAAAT
4706244 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
4706270 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
4706296 TGATAA
1 TGATAA
4706302 GAATTTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:4710457 original size:13 final size:13
Alignment explanation
Indices: 4710439--4710469 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
4710429 AATATATGGT
4710439 TAATAGAAATAAA
1 TAATAGAAATAAA
4710452 TAATAGAAATAAA
1 TAATAGAAATAAA
4710465 TAATA
1 TAATA
4710470 CACACGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (13 bp):
TAATAGAAATAAA
Found at i:4710927 original size:2 final size:2
Alignment explanation
Indices: 4710915--4711000 Score: 55
Period size: 2 Copynumber: 47.5 Consensus size: 2
4710905 AATATTGAAA
* *
4710915 AT AT AT GT AT AT A- AT AT AT AT AT AT AT AT A- AC AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
4710954 -T A- AA AT AC AT AT AT AT A- AT AT AT A- AA AA AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4710991 AT AT A- AT AT A
1 AT AT AT AT AT A
4711001 ATACATAAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
1 9 0.13
2 59 0.87
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (2 bp):
AT
Found at i:4711001 original size:23 final size:25
Alignment explanation
Indices: 4710923--4711003 Score: 92
Period size: 25 Copynumber: 3.1 Consensus size: 25
4710913 AAATATATGT
*
4710923 ATATAATATATATATATATATAACATA
1 ATATAA-A-ATATATATATATAATATA
*
4710950 ATATTAAAATACATATATATAATAT-
1 ATA-TAAAATATATATATATAATATA
*
4710975 ATAAAAAATTATATATATATAATATA
1 ATATAAAA-TATATATATATAATATA
4711001 ATA
1 ATA
4711004 CATAAGTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
24 4 0.09
25 18 0.38
26 18 0.38
27 4 0.09
28 3 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATAAAATATATATATATAATATA
Found at i:4711002 original size:30 final size:33
Alignment explanation
Indices: 4710917--4711008 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 33
4710907 TATTGAAAAT
4710917 ATATGTATATA-ATAT-ATATATATATATAACATA
1 ATAT-TATATATATATAATATA-ATATATAACATA
* *
4710950 ATATTA-AAATACATATATATAATATATAA-A-A
1 ATATTATATATATATA-ATATAATATATAACATA
*
4710981 A-ATTATATATATATAATATAATACATAA
1 ATATTATATATATATAATATAATATATAA
4711009 GTATATTACA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
30 16 0.32
31 11 0.22
32 6 0.12
33 12 0.24
34 5 0.10
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (33 bp):
ATATTATATATATATAATATAATATATAACATA
Found at i:4711084 original size:9 final size:9
Alignment explanation
Indices: 4711054--4711086 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4711044 ACACTAAGAC
4711054 ATATAATAA
1 ATATAATAA
*
4711063 ATACAATAA
1 ATATAATAA
4711072 ATATAATAA
1 ATATAATAA
4711081 ATATAA
1 ATATAA
4711087 ATATTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
ATATAATAA
Found at i:4711086 original size:15 final size:16
Alignment explanation
Indices: 4711054--4711105 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
4711044 ACACTAAGAC
4711054 ATATAATAAATACAATAA
1 ATATAATAAAT--AATAA
4711072 ATATAATAAAT-ATAA
1 ATATAATAAATAATAA
* *
4711087 ATATTATAATTAATAA
1 ATATAATAAATAATAA
4711103 ATA
1 ATA
4711106 ACAGAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 13 0.42
16 7 0.23
18 11 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAATAAATAATAA
Found at i:4711094 original size:18 final size:18
Alignment explanation
Indices: 4711054--4711103 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
4711044 ACACTAAGAC
*
4711054 ATATAATAAATACAATAA
1 ATATAATAAATAAAATAA
4711072 ATATAATAAATATAAAT-A
1 ATATAATAAATA-AAATAA
* *
4711090 TTATAATTAATAAA
1 ATATAATAAATAAA
4711104 TAACAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.07
18 23 0.82
19 3 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATAATAAATAAAATAA
Found at i:4711704 original size:2 final size:2
Alignment explanation
Indices: 4711697--4711723 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4711687 TAGTATAATG
4711697 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4711724 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4713214 original size:89 final size:87
Alignment explanation
Indices: 4712898--4713692 Score: 655
Period size: 89 Copynumber: 8.9 Consensus size: 87
4712888 AACATATACT
* * **
4712898 AAAAACAGAAATTGAAAATAGCTCAGCGCATGAGCC-AAGGCTCAACTCATTTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGCAT---CCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
4712962 GTTGATTCTTGACAAATAGAAATTTG
63 GTTGATTTTTGAAAAATAGAAA-TTG
* * *
4712988 AAAAACAGAAACTGAAAATACCTCAGCGTGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC--G-CATCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
4713052 GTTGATTTTTTTGAAAAATACAAA-TC
63 GTTGA--TTTTTGAAAAATAGAAATTG
* * * *
4713078 AAAAACA-AAATTTGAAAATATCTCAGCGTGAACC-AAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAA-TTGAAAATACCTCAGCG-CATCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
4713141 TTGATTTTTTGAAAAATATAAATTG
64 TTGA-TTTTTGAAAAATAGAAATTG
* *
4713166 AAAGAACAGAAATTGAAAATACCTCAGCACATCCTGAGGCTCAACTCACCTCTCACAATATGAGT
1 AAA-AACAGAAATTGAAAATACCTCAGCGCATCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
** *
4713231 TGA-TTTTGAAAAGCAGAAATTA
65 TGATTTTTGAAAAATAGAAATTG
** ** *
4713253 AAAAACAGATTTTGAAAATACCTCAGCGGGTCCT-AGGGCTCAACTCACCTCTAGCAATATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCGCATCCTGA-GGCTCAACTCACCTCTCGCAATATGAGT
**
4713317 TGATTTTTTTGAAAACCAGAAATTG
65 TGA--TTTTTGAAAAATAGAAATTG
* * ** * *
4713342 AAAACCAGAAATTGAAATTACCTCAGCGTGTCCTGATGCTCAACTCACCTCTCGCAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGCATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
4713407 GATTTTGGAAAAATAGAAATTG
66 GATTTTTGAAAAATAGAAATTG
* ** ** * **
4713429 -AAAACAGAATTTGAACAACAGAATTTGAAAATACCTCGGCAT-ATGACTCGAGGCTCAACTCAC
1 AAAAACAGAAATTG----A-A-AA--T--ACCT-CAGC-GCATCCTGA-GG----CTCAACTCAC
* * *
4713492 TTCTCGCAATATGAGTTGATTTTTGAAAAATACAGATT-
49 CTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTG
* * ** *
4713530 AAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGCATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
4713595 GATTTTTGAAAACAT-G-AATT-
66 GATTTTTGAAAA-ATAGAAATTG
* * * *
4713615 AAAAACAGAAATTGAAAATACCTCGGCATGCGAGCC-AAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC--GC-ATCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
4713679 GTTGATTTCTGAAA
63 GTTGATTTTTGAAA
4713693 GCACAAATAA
Statistics
Matches: 581, Mismatches: 86, Indels: 79
0.78 0.12 0.11
Matches are distributed among these distances:
85 28 0.05
86 104 0.18
87 93 0.16
88 47 0.08
89 127 0.22
90 86 0.15
91 6 0.01
92 18 0.03
93 1 0.00
94 2 0.00
96 4 0.01
97 6 0.01
98 4 0.01
102 55 0.09
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCGCATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAATAGAAATTG
Found at i:4713300 original size:175 final size:174
Alignment explanation
Indices: 4712898--4713686 Score: 795
Period size: 175 Copynumber: 4.4 Consensus size: 174
4712888 AACATATACT
* * * *
4712898 AAAAACAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCATTTCTCGCAATATGAG
1 AAAAACAGAATTTGAAAATACCTCAGCG---GATCCAAGGCTCAACTCACTTCTCGCAATATGAG
* * * *
4712963 TTGA-TTCTTGACAAATAGAAATTTGAAAAACAGAAACTGAAAATACCTCAGCGTGTGAGCC-GA
63 TTGATTTTTTGAAAAATAGAAA-TTGAAAAACAGAAATTGAAAATACCTCAGC--GT-ATCCTGA
* * *
4713026 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATACAAA-TC
124 GGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTA
* * * *
4713078 AAAAACAAAATTTGAAAATATCTCAGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAATTTGAAAATACCTCAGCG-GATCCAAGGCTCAACTCACTTCTCGCAATATGAGTT
* **
4713143 GATTTTTTGAAAAATATAAATTGAAAGAACAGAAATTGAAAATACCTCAGCACATCCTGAGGCTC
65 GATTTTTTGAAAAATAGAAATTGAAA-AACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTC
* *
4713208 AACTCACCTCTCACAATATGAGTTGA-TTTTGAAAAGCAGAAATTA
129 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTA
* * * * *
4713253 AAAAACAGATTTTGAAAATACCTCAGCGGGTCCTAGGGCTCAACTCACCTCTAGCAATATGAGTT
1 AAAAACAGAATTTGAAAATACCTCAGCGGATCC-AAGGCTCAACTCACTTCTCGCAATATGAGTT
** * * * *
4713318 GATTTTTTTGAAAACCAGAAATTGAAAACCAGAAATTGAAATTACCTCAGCGTGTCCTGATGCTC
65 GA-TTTTTTGAAAAATAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTC
* * *
4713383 AACTCACCTCTCGCAATATGAATTGATTTTGGAAAAATAGAAATTGAAAACAGA
129 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--------A
* ** *
4713437 ATTTGAACAACAGAATTTGAAAATACCTCGGCATATGACTCGAGGCTCAACTCACTTCTCGCAAT
1 A----AA-AACAGAATTTGAAAATACCTCAGCGGAT--C-CAAGGCTCAACTCACTTCTCGCAAT
* * * * *
4713502 ATGAGTTGA-TTTTTGAAAAATACAGATT-AAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTG
58 ATGAGTTGATTTTTTGAAAAATAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTG
*
4713565 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACATG-AATT-
123 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-GAAATTA
* * *
4713615 AAAAACAGAAATTGAAAATACCTCGGCATGCGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAATTTGAAAATACCTCAGC--G-GATCCAAGGCTCAACTCACTTCTCGCAATATGAG
4713680 TTGATTT
63 TTGATTT
4713687 CTGAAAGCAC
Statistics
Matches: 517, Mismatches: 64, Indels: 62
0.80 0.10 0.10
Matches are distributed among these distances:
173 56 0.11
174 21 0.04
175 113 0.22
176 40 0.08
177 32 0.06
178 43 0.08
179 37 0.07
180 25 0.05
184 2 0.00
187 9 0.02
188 70 0.14
189 38 0.07
191 30 0.06
192 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (174 bp):
AAAAACAGAATTTGAAAATACCTCAGCGGATCCAAGGCTCAACTCACTTCTCGCAATATGAGTTG
ATTTTTTGAAAAATAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTA
Found at i:4713344 original size:14 final size:14
Alignment explanation
Indices: 4713325--4713358 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
4713315 GTTGATTTTT
4713325 TTGAAAACCAGAAA
1 TTGAAAACCAGAAA
4713339 TTGAAAACCAGAAA
1 TTGAAAACCAGAAA
4713353 TTGAAA
1 TTGAAA
4713359 TTACCTCAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAACCAGAAA
Found at i:4713448 original size:14 final size:13
Alignment explanation
Indices: 4713416--4713459 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
4713406 TGATTTTGGA
* *
4713416 AAAATAGAAATTG
1 AAAACAGAATTTG
4713429 AAAACAGAATTTG
1 AAAACAGAATTTG
4713442 AACAACAGAATTTG
1 AA-AACAGAATTTG
4713456 AAAA
1 AAAA
4713460 TACCTCGGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (13 bp):
AAAACAGAATTTG
Found at i:4713488 original size:277 final size:271
Alignment explanation
Indices: 4713170--4713686 Score: 684
Period size: 277 Copynumber: 1.9 Consensus size: 271
4713160 AAATTGAAAG
*
4713170 AACAGAAATTGAAAATACCTCAGCACATCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCACATACTGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
* * * *
4713234 TTTTGAAAAGCAGAAATTAAAAAACAGATTTTGAAAATACCTCAGCGGGTCCT-AGGGCTCAACT
66 TTTTGAAAAACACAAATT-AAAAACAGAATTTGAAAATACCTCAGCGGGTCCTGA-AGCTCAACT
* *
4713298 CACCTCTAGCAATATGAGTTGATTTTTTTGAAAACCA-GAAATTGAAAACCAGAAATTGAAATTA
129 CACCTCTAGCAATATGAGTTGA--TTTTTGAAAA-CATG-AATT-AAAAACAGAAATTGAAAATA
* * *
4713362 CCT-CA-GCGTGTCCTGATGCTCAACTCACCTCTCGCAATATGAATTGATTTTGGAAAAATAGAA
189 CCTGCATGCGAG-CC-AAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGGAAAAATAGAA
4713425 ATTGAAAACAGAATTTGAAC
252 ATTGAAAACAGAATTTGAAC
* * * * *
4713445 AACAGAATTTGAAAATACCTCGGCATATGACTCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAATACCTCAGCACAT-ACT-GAGGCTCAACTCACCTCTCACAATATGAGTTG
* * * *
4713510 ATTTTTGAAAAATACAGATTAAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTGAAGCTCAACT
64 ATTTTTGAAAAACACAAATTAAAAACAGAATTTGAAAATACCTCAGCGGGTCCTGAAGCTCAACT
*
4713575 CACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAAACAGAAATTGAAAATACCTCG
129 CACCTCTAGCAATATGAGTTGATTTTTGAAAACATGAATTAAAAACAGAAATTGAAAATACCT--
* *
4713640 GCATGCGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
192 GCATGCGAGCCAAGGCTCAACTCACCTCTCGCAATATGAATTGATTT
4713687 CTGAAAGCAC
Statistics
Matches: 211, Mismatches: 22, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
273 21 0.10
274 6 0.03
275 68 0.32
276 6 0.03
277 95 0.45
278 15 0.07
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (271 bp):
AACAGAAATTGAAAATACCTCAGCACATACTGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
TTTTGAAAAACACAAATTAAAAACAGAATTTGAAAATACCTCAGCGGGTCCTGAAGCTCAACTCA
CCTCTAGCAATATGAGTTGATTTTTGAAAACATGAATTAAAAACAGAAATTGAAAATACCTGCAT
GCGAGCCAAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGGAAAAATAGAAATTGAAAAC
AGAATTTGAAC
Found at i:4713581 original size:188 final size:189
Alignment explanation
Indices: 4713289--4713630 Score: 510
Period size: 188 Copynumber: 1.8 Consensus size: 189
4713279 CGGGTCCTAG
* *
4713289 GGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAACCAGAAATTGAAAACCAGAAAT
1 GGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTTGAAAAACACAAATTGAAAACCAGAAAT
* *
4713354 TGAAATTACCTCAGCGTGTCCTGATGCTCAACTCACCTCTCGCAATATGAATTGATTTTGGAAAA
65 TGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTGGAAAA
* *
4713419 -ATAGAAATTGAAAACAGAATTTGAACAACAGAATTTGAAAATACCTCGGCATATGACTCGA
130 CAT-G-AATTAAAAACAGAAATTGAACAACAGAATTTGAAAATACCTCGGCATATGACTCGA
* * * * * *
4713480 GGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAAATACAGATT-AAAAGCAGAATTT
1 GGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAACACAAATTGAAAACCAGAAATT
* *
4713543 GAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC
66 GAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTGGAAAAC
4713608 ATGAATTAAAAACAGAAATTGAA
131 ATGAATTAAAAACAGAAATTGAA
4713631 AATACCTCGG
Statistics
Matches: 136, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
187 18 0.13
188 72 0.53
189 17 0.12
191 29 0.21
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (189 bp):
GGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAACACAAATTGAAAACCAGAAATT
GAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTGGAAAAC
ATGAATTAAAAACAGAAATTGAACAACAGAATTTGAAAATACCTCGGCATATGACTCGA
Found at i:4713682 original size:87 final size:87
Alignment explanation
Indices: 4713426--4713692 Score: 321
Period size: 86 Copynumber: 3.1 Consensus size: 87
4713416 AAAATAGAAA
* ** *
4713426 TTGAAAACA-GAATTTGAACAACAGAATTTGAAAATACCTCGGCATATGA-CTCGAGGCTCAACT
1 TTGAAAACATGAA-TT-AAAAACAGAATTTGAAAATACCTCGGCATGCGAGC-CAAGGCTCAACT
4713489 CACTTCTCGCAATATGAGTTGATTT
63 CACTTCTCGCAATATGAGTTGATTT
* * * * **
4713514 TTGAAAA-ATACAGATTAAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTG--AA-GCTCAACT
1 TTGAAAACAT-GA-ATTAAAAACAGAATTTGAAAATACCTCGGCATG-CGAGCCAAGGCTCAACT
*
4713575 CACCTCTCGCAATATGAGTTGATTT
63 CACTTCTCGCAATATGAGTTGATTT
*
4713600 TTGAAAACATGAATTAAAAACAGAAATTGAAAATACCTCGGCATGCGAGCCAAGGCTCAACTCAC
1 TTGAAAACATGAATTAAAAACAGAATTTGAAAATACCTCGGCATGCGAGCCAAGGCTCAACTCAC
4713665 TTCTCGCAATATGAGTTGATTT
66 TTCTCGCAATATGAGTTGATTT
*
4713687 CTGAAA
1 TTGAAA
4713693 GCACAAATAA
Statistics
Matches: 150, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
84 2 0.01
85 29 0.19
86 42 0.28
87 41 0.27
88 32 0.21
89 3 0.02
90 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (87 bp):
TTGAAAACATGAATTAAAAACAGAATTTGAAAATACCTCGGCATGCGAGCCAAGGCTCAACTCAC
TTCTCGCAATATGAGTTGATTT
Found at i:4726105 original size:13 final size:13
Alignment explanation
Indices: 4726087--4726116 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4726077 ATATATGGTT
4726087 AATAGAAATAAAA
1 AATAGAAATAAAA
4726100 AATAGAAATAAAA
1 AATAGAAATAAAA
4726113 AATA
1 AATA
4726117 TACACGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (13 bp):
AATAGAAATAAAA
Found at i:4726595 original size:14 final size:13
Alignment explanation
Indices: 4726565--4726644 Score: 55
Period size: 13 Copynumber: 6.3 Consensus size: 13
4726555 TAATATTGAA
* *
4726565 AATATATGTATAT
1 AATATATATAAAT
4726578 AATATATATAACAT
1 AATATATATAA-AT
4726592 AATAT-TA-AAAT
1 AATATATATAAAT
4726603 ACATATATAT-AAT
1 A-ATATATATAAAT
4726616 -ATATA-A-AAATT
1 AATATATATAAA-T
*
4726627 TATATATATAATAT
1 AATATATATAA-AT
4726641 AATA
1 AATA
4726645 CATAAGTATA
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
10 3 0.06
11 9 0.17
12 11 0.20
13 17 0.31
14 13 0.24
15 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (13 bp):
AATATATATAAAT
Found at i:4726624 original size:23 final size:23
Alignment explanation
Indices: 4726579--4726641 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
4726569 TATGTATATA
*
4726579 ATATATATAACATAATATTAAAATAC
1 ATATATAT-A-AT-ATATAAAAATAC
**
4726605 ATATATATAATATATAAAAATTT
1 ATATATATAATATATAAAAATAC
4726628 ATATATATAATATA
1 ATATATATAATATA
4726642 ATACATAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 23 0.68
24 2 0.06
25 1 0.03
26 8 0.24
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATATATAATATATAAAAATAC
Found at i:4726727 original size:15 final size:16
Alignment explanation
Indices: 4726695--4726746 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
4726685 ACACTAAGAC
4726695 ATATAATAAATGCAATAA
1 ATATAATAAAT--AATAA
4726713 ATATAATAAAT-ATAA
1 ATATAATAAATAATAA
* *
4726728 ATATTATAATTAATAA
1 ATATAATAAATAATAA
4726744 ATA
1 ATA
4726747 ACAGAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 13 0.42
16 7 0.23
18 11 0.35
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
ATATAATAAATAATAA
Found at i:4730290 original size:27 final size:26
Alignment explanation
Indices: 4730250--4730315 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
4730240 ATGAATATGG
* * * *
4730250 TAATAATAATAATAATAACAGTTAAAA
1 TAAT-ATAAAAATAAAAAAAGTAAAAA
*
4730277 TAATGCTAAAAATAAAAAAAGTAAAAA
1 TAAT-ATAAAAATAAAAAAAGTAAAAA
4730304 TAATATAAAAAT
1 TAATATAAAAAT
4730316 CAGATTAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 7 0.22
27 25 0.78
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (26 bp):
TAATATAAAAATAAAAAAAGTAAAAA
Found at i:4732592 original size:41 final size:41
Alignment explanation
Indices: 4732547--4732628 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
4732537 TGGCTCAATT
* **
4732547 TGGTCGGTTGAGTCAGTTTTAATTGCTAACTATAATAGATG
1 TGGTCAGTTGAGTCAGTTTTAATCACTAACTATAATAGATG
* **
4732588 TGGTCAGTTGATTTGGTTTTAATCACTAACTATAATAGATG
1 TGGTCAGTTGAGTCAGTTTTAATCACTAACTATAATAGATG
4732629 ATATTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (41 bp):
TGGTCAGTTGAGTCAGTTTTAATCACTAACTATAATAGATG
Found at i:4734692 original size:2 final size:2
Alignment explanation
Indices: 4734685--4734716 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4734675 CTAACTTTAA
4734685 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4734717 TTGATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4738852 original size:56 final size:56
Alignment explanation
Indices: 4738782--4738888 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 56
4738772 TGGGAGCTCT
* * * *
4738782 CTGACTTGGATCACATGGCCAAGCCACACGCCCGTGTGCTAGGCCGTGTGAGTATA
1 CTGACTTGGATCACACGGCCAAACCACACACCCGTGTGCTAGGCCATGTGAGTATA
4738838 CTGACTTAGG-TCACACGGCCAAACCACACACCCGTGTGCTAGGCCATGTGA
1 CTGACTT-GGATCACACGGCCAAACCACACACCCGTGTGCTAGGCCATGTGA
4738889 AAAATTTGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 44 0.96
57 2 0.04
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (56 bp):
CTGACTTGGATCACACGGCCAAACCACACACCCGTGTGCTAGGCCATGTGAGTATA
Found at i:4739821 original size:21 final size:21
Alignment explanation
Indices: 4739781--4739866 Score: 95
Period size: 21 Copynumber: 4.2 Consensus size: 21
4739771 CATCGTTAAC
*
4739781 AGAAGCTCGT-A-AGCTGAAT
1 AGAAGCTCGTAAGAGTTGAAT
4739800 AGAAGCTCGTAAGAGTTGAAT
1 AGAAGCTCGTAAGAGTTGAAT
* * * *
4739821 AAAAACTCATAAGAGTTAAAT
1 AGAAGCTCGTAAGAGTTGAAT
* *
4739842 AGAAGCTCGTGAGAGATGAAT
1 AGAAGCTCGTAAGAGTTGAAT
4739863 AGAA
1 AGAA
4739867 AGTAAAGCAC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.19
20 1 0.02
21 43 0.80
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.21
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGTTGAAT
Found at i:4742350 original size:31 final size:31
Alignment explanation
Indices: 4742312--4742378 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
4742302 TAGGCCTTTA
4742312 GCGGCGCTTTTAAGCGCCACTAAAACTATTC
1 GCGGCGCTTTTAAGCGCCACTAAAACTATTC
4742343 GCGGCGCTTTTAAGCGCCACTAAAACTATTC
1 GCGGCGCTTTTAAGCGCCACTAAAACTATTC
4742374 GCGGC
1 GCGGC
4742379 ATTTTTGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (31 bp):
GCGGCGCTTTTAAGCGCCACTAAAACTATTC
Found at i:4742528 original size:2 final size:2
Alignment explanation
Indices: 4742521--4742553 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4742511 AAATTTAAAA
4742521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4742554 AATTAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4742687 original size:19 final size:19
Alignment explanation
Indices: 4742642--4742688 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
4742632 ATCAAATTAA
*
4742642 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
4742661 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
4742680 AATAAAAAT
1 AATAAAAAT
4742689 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:4746812 original size:13 final size:13
Alignment explanation
Indices: 4746794--4746818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4746784 AAATCAAAGG
4746794 GATGGAGATTTAA
1 GATGGAGATTTAA
4746807 GATGGAGATTTA
1 GATGGAGATTTA
4746819 GAGAAGCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (13 bp):
GATGGAGATTTAA
Found at i:4746909 original size:14 final size:14
Alignment explanation
Indices: 4746890--4746920 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4746880 AATGGTGGAA
*
4746890 GGATTTTGATTTGG
1 GGATTTCGATTTGG
4746904 GGATTTCGATTTGG
1 GGATTTCGATTTGG
4746918 GGA
1 GGA
4746921 AATTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.39, T:0.42
Consensus pattern (14 bp):
GGATTTCGATTTGG
Found at i:4746963 original size:13 final size:13
Alignment explanation
Indices: 4746945--4746978 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4746935 TGGGGATACC
4746945 GATTTTAGGGGGA
1 GATTTTAGGGGGA
4746958 GATTTTAGGGGGA
1 GATTTTAGGGGGA
*
4746971 AATTTTAG
1 GATTTTAG
4746979 ACGTTCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.35
Consensus pattern (13 bp):
GATTTTAGGGGGA
Found at i:4748396 original size:21 final size:22
Alignment explanation
Indices: 4748360--4748400 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4748350 TGTTTTTTGG
4748360 AGTTTAGGGTTTTAGGGGTTAT
1 AGTTTAGGGTTTTAGGGGTTAT
*
4748382 AGTTTAGTG-TTTAGGGGTT
1 AGTTTAGGGTTTTAGGGGTT
4748401 TTTAGGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (22 bp):
AGTTTAGGGTTTTAGGGGTTAT
Found at i:4748593 original size:42 final size:41
Alignment explanation
Indices: 4748488--4748616 Score: 170
Period size: 41 Copynumber: 3.1 Consensus size: 41
4748478 ATTATATGAC
* * * *
4748488 TTTTAGCGGCGTTTTATC-GAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCCACTAATGCTCT-GT
4748529 TTTTAGCGGCGTTTTAACAAAAAACGCCACTAATGCTCTGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCCACTAATGCTCTGT
* * *
4748570 TTTTAGCGGCGTTTTAACAAAAAACGCCTCTATTGCTCCGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCCACTAATGCTCTGT
4748611 GTTTTA
1 -TTTTA
4748617 TAATTTTTGT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
41 57 0.72
42 22 0.28
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTAACAAAAAACGCCACTAATGCTCTGT
Found at i:4750996 original size:30 final size:30
Alignment explanation
Indices: 4750961--4751019 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4750951 TATTTTATTG
4750961 TTAATTTTGTTATTACATTAAAGACATTTA
1 TTAATTTTGTTATTACATTAAAGACATTTA
** *
4750991 TTAATTTTGTTATTATTTTAGAGACATTT
1 TTAATTTTGTTATTACATTAAAGACATTT
4751020 GCTTGTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (30 bp):
TTAATTTTGTTATTACATTAAAGACATTTA
Found at i:4751166 original size:11 final size:12
Alignment explanation
Indices: 4751144--4751177 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4751134 TATATATTCT
*
4751144 AAATTTATATAA
1 AAATTAATATAA
4751156 AAA-TAATATAA
1 AAATTAATATAA
4751167 AAATTAATATA
1 AAATTAATATA
4751178 GACGGGCAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATTAATATAA
Done.