Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold185
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: 1073966
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 182459 characters in sequence are not A, C, G, or T
File 7 of 7
Found at i:933991 original size:20 final size:20
Alignment explanation
Indices: 933926--933993 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
933916 CAGAACATGC
* *
933926 ATTGTATCCATACAA-GGCT
1 ATTGTATCGATACAATGCCT
*
933945 ATGTTGTATCGATACAATGCCC
1 A--TTGTATCGATACAATGCCT
*
933967 GTTGTATCGATACAATGCCT
1 ATTGTATCGATACAATGCCT
933987 ATTGTAT
1 ATTGTAT
933994 AAATACAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 24 0.60
21 13 0.32
22 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACAATGCCT
Found at i:933999 original size:20 final size:20
Alignment explanation
Indices: 933956--934002 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
933946 TGTTGTATCG
* **
933956 ATACAATGCCCGTTGTATCG
1 ATACAATGCCCATTGTATAA
*
933976 ATACAATGCCTATTGTATAA
1 ATACAATGCCCATTGTATAA
933996 ATACAAT
1 ATACAAT
934003 TTCATATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (20 bp):
ATACAATGCCCATTGTATAA
Found at i:937410 original size:8 final size:8
Alignment explanation
Indices: 937397--937426 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
937387 TCCAGCAAAA
937397 AAAAAATG
1 AAAAAATG
937405 AAAAAAATG
1 -AAAAAATG
937414 AAAAAATG
1 AAAAAATG
937422 AAAAA
1 AAAAA
937427 GAAAAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:937410 original size:9 final size:9
Alignment explanation
Indices: 937396--937426 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
937386 GTCCAGCAAA
937396 AAAAAAATG
1 AAAAAAATG
937405 AAAAAAATG
1 AAAAAAATG
937414 -AAAAAATG
1 AAAAAAATG
937422 AAAAA
1 AAAAA
937427 GAAAAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:944803 original size:20 final size:20
Alignment explanation
Indices: 944773--944831 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 20
944763 GCTACTGCTA
944773 GTTTCATGTATCGATACAATT
1 GTTT-ATGTATCGATACAATT
944794 GTTTATGTATCGATACAA-T
1 GTTTATGTATCGATACAATT
**
944813 GAATATGTATCGATACAAT
1 GTTTATGTATCGATACAAT
944832 GTATCGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 17 0.49
20 14 0.40
21 4 0.11
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (20 bp):
GTTTATGTATCGATACAATT
Found at i:944835 original size:13 final size:13
Alignment explanation
Indices: 944817--944843 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
944807 TACAATGAAT
944817 ATGTATCGATACA
1 ATGTATCGATACA
944830 ATGTATCGATACA
1 ATGTATCGATACA
944843 A
1 A
944844 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:944839 original size:32 final size:33
Alignment explanation
Indices: 944798--944862 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
944788 ACAATTGTTT
*
944798 ATGTATCGATACAATGAAT-ATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
*
944830 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
944863 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:947372 original size:20 final size:21
Alignment explanation
Indices: 947342--947389 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
947332 CAATATGGTT
947342 TTGTATCGATACATTCACTTA
1 TTGTATCGATACATTCACTTA
*
947363 -TGTATTGATACATTCACTTA
1 TTGTATCGATACATTCACTTA
947383 TTGTATC
1 TTGTATC
947390 TGTAGACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (21 bp):
TTGTATCGATACATTCACTTA
Found at i:947710 original size:13 final size:13
Alignment explanation
Indices: 947692--947748 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
947682 CATAAAGTGT
947692 TGTATCGATACAA
1 TGTATCGATACAA
947705 TGTATCGATACATAA
1 TGTATCGATAC--AA
947720 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
947737 TGTATCGATACA
1 TGTATCGATACA
947749 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:947729 original size:19 final size:19
Alignment explanation
Indices: 947670--947767 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 19
947660 ATTTCAACAA
947670 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACAT-AAGT
*
947690 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
947705 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
947722 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
947737 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
947754 TTTGTATCGATACA
1 TTTGTATCGATACA
947768 ATGTAAGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 25
0.71 0.01 0.27
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 23 0.35
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:947732 original size:32 final size:32
Alignment explanation
Indices: 947672--947772 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
947662 TTCAACAATT
*
947672 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTTTTGTATCGATACAA
947705 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
947737 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
947769 TGTA
1 TGTA
947773 AGCTACTGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 54 0.81
33 13 0.19
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:947807 original size:13 final size:13
Alignment explanation
Indices: 947789--947813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
947779 TGCCAAAAAA
947789 TGTATCGATACAT
1 TGTATCGATACAT
947802 TGTATCGATACA
1 TGTATCGATACA
947814 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:947880 original size:52 final size:52
Alignment explanation
Indices: 947822--947950 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
947812 CACTGATCTT
947822 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
947874 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
947926 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
947951 TCATATTTTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:952149 original size:33 final size:33
Alignment explanation
Indices: 952112--952178 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
952102 TTCAACGATT
952112 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
952145 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
952178 T
1 T
952179 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:952150 original size:13 final size:13
Alignment explanation
Indices: 952132--952156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
952122 CATAAAATGT
952132 TGTATCGATACAA
1 TGTATCGATACAA
952145 TGTATCGATACA
1 TGTATCGATACA
952157 TATTTTTTTG
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:952237 original size:13 final size:13
Alignment explanation
Indices: 952219--952294 Score: 56
Period size: 13 Copynumber: 5.9 Consensus size: 13
952209 ATTACTCAAA
952219 TGTATCGATACAT
1 TGTATCGATACAT
952232 TGTATCGATACACT
1 TGTATCGATACA-T
*
952246 GATCTTATCGATACA-
1 --T-GTATCGATACAT
952261 T-TACTC-A-A-A-
1 TGTA-TCGATACAT
952270 TGTATCGATACAT
1 TGTATCGATACAT
952283 TGTATCGATACA
1 TGTATCGATACA
952295 CTGATCTTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 20
0.71 0.01 0.27
Matches are distributed among these distances:
9 4 0.08
10 4 0.08
11 4 0.08
12 3 0.06
13 25 0.48
14 1 0.02
16 1 0.02
17 10 0.19
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:952263 original size:51 final size:51
Alignment explanation
Indices: 952200--952302 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
952190 CCAAAAAATG
952200 TATCGATACATTACTCAAATGTATCGATACATTGTATCGATACACTGATCT
1 TATCGATACATTACTCAAATGTATCGATACATTGTATCGATACACTGATCT
952251 TATCGATACATTACTCAAATGTATCGATACATTGTATCGATACACTGATCT
1 TATCGATACATTACTCAAATGTATCGATACATTGTATCGATACACTGATCT
952302 T
1 T
952303 TGTATCGATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (51 bp):
TATCGATACATTACTCAAATGTATCGATACATTGTATCGATACACTGATCT
Found at i:952338 original size:51 final size:49
Alignment explanation
Indices: 952283--952426 Score: 182
Period size: 52 Copynumber: 2.8 Consensus size: 49
952273 ATCGATACAT
*
952283 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAATTTGCCCAGA
*
952334 TGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATT---ATGTATCGATACATGCAGGC-AATTTGCCCAGA
*
952386 TGTATCGATACACTATTAAATGTATCGATACATGCAAGCAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAA
952427 CTTTTCATAT
Statistics
Matches: 84, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 1 0.01
51 33 0.39
52 45 0.54
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (49 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAATTTGCCCAGA
Found at i:952396 original size:52 final size:52
Alignment explanation
Indices: 952303--952426 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
952293 CACTGATCTT
*
952303 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
952354 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
952406 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
952427 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 19 0.28
52 47 0.68
53 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:955633 original size:163 final size:163
Alignment explanation
Indices: 955356--955682 Score: 555
Period size: 163 Copynumber: 2.0 Consensus size: 163
955346 CGGTCACTTC
955356 GTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCCTTAATCAACA
1 GTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCCTTAATCAACA
* * *
955421 CACTTCCCATCATGCCACATAAATCCCCAATCATGAGGGATACTAAGTCGAGCGTGCCTCATTTG
66 CACTTCCCATCATGCCACAGAAATCCCCAAACACGAGGGATACTAAGTCGAGCGTGCCTCATTTG
955486 CCCTATCGCCGGGGTCGAGCGCACGTTACGACA
131 CCCTATCGCCGGGGTCGAGCGCACGTTACGACA
* **
955519 GTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTGCTGATCTTCCCCTTTTAATCAACA
1 GTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCCTTAATCAACA
* * * *
955584 CACTTCCCATCATGCCATAGAAATCCCTAAACGCGAGGGATATTAAGTCGAGCGTGCCTCATTTG
66 CACTTCCCATCATGCCACAGAAATCCCCAAACACGAGGGATACTAAGTCGAGCGTGCCTCATTTG
*
955649 CCCTATCGTCGGGGTCGAGCGCACGTTACGACA
131 CCCTATCGCCGGGGTCGAGCGCACGTTACGACA
955682 G
1 G
955683 CTTGGCGACT
Statistics
Matches: 153, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
163 153 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (163 bp):
GTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCCTTAATCAACA
CACTTCCCATCATGCCACAGAAATCCCCAAACACGAGGGATACTAAGTCGAGCGTGCCTCATTTG
CCCTATCGCCGGGGTCGAGCGCACGTTACGACA
Found at i:959508 original size:15 final size:14
Alignment explanation
Indices: 959488--959538 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
959478 GAGTTCCCTT
*
959488 AAAAAAAACAAAAAC
1 AAAAAAAA-AAACAC
*
959503 AAAAAAAAACACAC
1 AAAAAAAAAAACAC
959517 AAAAAAAAAACACAC
1 AAAAAAAAAA-ACAC
959532 AAAAAAA
1 AAAAAAA
959539 GTGCAAAGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 13 0.41
15 19 0.59
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAC
Found at i:959529 original size:13 final size:13
Alignment explanation
Indices: 959489--959538 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 13
959479 AGTTCCCTTA
*
959489 AAAAAAACAAAAAC
1 AAAAAAA-AAACAC
959503 AAAAAAAAACACAC
1 AAAAAAAAA-ACAC
959517 AAAAAAAAAACAC
1 AAAAAAAAAACAC
959530 ACAAAAAAA
1 A-AAAAAAA
959539 GTGCAAAGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
13 7 0.21
14 26 0.79
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAC
Found at i:960932 original size:68 final size:69
Alignment explanation
Indices: 960844--961124 Score: 297
Period size: 66 Copynumber: 4.1 Consensus size: 69
960834 ATGGCACCTT
* *
960844 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT-AAGTCCACGACCCCGTGGCATC
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTT-TTCCTTTTAAAGTCCACAACCCCGTGGCACC
960908 TTGTTC
64 TTGTTC
* * * * *** *
960914 CTTTT-AAGCCCACAACTCCGTGGTACCCTTTTTCTTTTTAAAGCCCACAACTTTGTGACACCTT
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGTCCACAACCCCGTGGCACCTT
*
960978 -TTT
66 GTTC
* * * *
960981 CTTTTCAAAGCCCACCACTCCGTGGCAC-C-TTTT-CTTTTTAAGTCCACGACCCTGTGGCACCT
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGTCCACAACCCCGTGGCACCT
961043 TGTT-
65 TGTTC
* * * *
961047 CTTTTCAAAGTCTACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGACCACAACTCCGTGGCACC
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAAGTCCACAACCCCGTGGCACC
961112 TTGTTC
64 TTGTTC
961118 CTTTTAA
1 CTTTTAA
961125 GTACACAACT
Statistics
Matches: 174, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
66 48 0.28
67 21 0.12
68 46 0.26
69 19 0.11
70 35 0.20
71 5 0.03
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (69 bp):
CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGTCCACAACCCCGTGGCACCTT
GTTC
Found at i:960978 original size:34 final size:34
Alignment explanation
Indices: 960842--961124 Score: 261
Period size: 34 Copynumber: 8.3 Consensus size: 34
960832 CCATGGCACC
*
960842 TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
1 TTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTT
* * * * * *
960877 GTTCCTTTT-AAGTCCACGACCCCGTGGCATCTTG
1 -TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
* *
960911 TTCCTTTT-AAGCCCACAACTCCGTGGTACCCTTT
1 TTCTTTTTAAAGCCCACAACTCCGTGGCA-CCTTT
** *
960945 TTCTTTTTAAAGCCCACAACTTTGTGACACCTTT
1 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
* *
960979 TTCTTTTCAAAGCCCACCACTCCGTGGCACC-TT
1 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
* * *
961012 TTCTTTTT-AAGTCCACGAC-CCTGTGGCACCTTG
1 TTCTTTTTAAAGCCCACAACTCC-GTGGCACCTTT
* * *
961045 TTCTTTTCAAAGTCTACAACTCCGTGGCACTCTTT
1 TTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTT
* * *
961080 TTCCCTTTTAAAGACCACAACTCCGTGGCACCTTG
1 TT-CTTTTTAAAGCCCACAACTCCGTGGCACCTTT
*
961115 TTCCTTTTAA
1 TTCTTTTTAA
961125 GTACACAACT
Statistics
Matches: 203, Mismatches: 36, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
31 2 0.01
32 17 0.08
33 41 0.20
34 68 0.33
35 45 0.22
36 30 0.15
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (34 bp):
TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
Found at i:961108 original size:102 final size:103
Alignment explanation
Indices: 960842--961134 Score: 346
Period size: 102 Copynumber: 2.9 Consensus size: 103
960832 CCATGGCACC
* * *
960842 TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT-AAGTCCACGACCCCGTGGCA
1 TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT-TTCCTTTTAAAGACCACAACTCCGTGGCA
* * * *
960906 TCTTGTTCCTTTTAAGCCCACAACTCCGTGGTACCCTTT
65 CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTG
* ** * * *
960945 TTCTTTTTAAAGCCCACAACTTTGTGACAC-CTTTTT-CTTTTCAAAGCCCACCACTCCGTGGCA
1 TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT-AAAGACCACAACTCCGTGGCA
* *
961008 CCTT-TTCTTTTTAAGTCCACGAC-CCTGTGGCA-CCTTG
65 CCTTGTTCCTTTTAAGTCCACAACTCC-GTGGCACCCTTG
* *
961045 TTCTTTTCAAAGTCTACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGACCACAACTCCGTGGCA
1 TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAAGACCACAACTCCGTGGCA
*
961110 CCTTGTTCCTTTTAAGTACACAACT
65 CCTTGTTCCTTTTAAGTCCACAACT
961135 TTGTGGCATC
Statistics
Matches: 158, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
100 35 0.22
101 29 0.18
102 47 0.30
103 47 0.30
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (103 bp):
TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGACCACAACTCCGTGGCAC
CTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTG
Found at i:961142 original size:33 final size:34
Alignment explanation
Indices: 960812--961134 Score: 256
Period size: 34 Copynumber: 9.6 Consensus size: 34
960802 TCTTCAAATA
* * *
960812 CCTTCTTAAAGTTCACGACTCCATGGCACC---TT
1 CCTT-TTAAAGTCCACAACTCCGTGGCACCTTGTT
*
960844 -CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTGTT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC-C-TTGTT
* * *
960880 CCTTTT-AAGTCCACGACCCCGTGGCATCTTGTT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTGTT
* * *
960913 CCTTTT-AAGCCCACAACTCCGTGGTACCCTTTTT
1 CCTTTTAAAGTCCACAACTCCGTGGCA-CCTTGTT
* * ** *
960947 CTTTTTAAAGCCCACAACTTTGTGACACCTT-TT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTGTT
* * *
960980 TCTTTTCAAAGCCCACCACTCCGTGGCACCTT-TT
1 CCTTTT-AAAGTCCACAACTCCGTGGCACCTTGTT
* *
961014 -CTTTTTAAGTCCACGAC-CCTGTGGCACCTTGTT
1 CCTTTTAAAGTCCACAACTCC-GTGGCACCTTGTT
* *
961047 -CTTTTCAAAGTCTACAACTCCGTGGCACTCTTTTT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC-CTTGTT
*
961082 CCCTTTTAAAGACCACAACTCCGTGGCACCTTGTT
1 -CCTTTTAAAGTCCACAACTCCGTGGCACCTTGTT
*
961117 CCTTTT-AAGTACACAACT
1 CCTTTTAAAGTCCACAACT
961135 TTGTGGCATC
Statistics
Matches: 237, Mismatches: 37, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
30 2 0.01
31 23 0.10
32 20 0.08
33 55 0.23
34 60 0.25
35 45 0.19
36 22 0.09
37 10 0.04
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (34 bp):
CCTTTTAAAGTCCACAACTCCGTGGCACCTTGTT
Found at i:961158 original size:69 final size:69
Alignment explanation
Indices: 960842--961167 Score: 206
Period size: 68 Copynumber: 4.8 Consensus size: 69
960832 CCATGGCACC
* * *** * * *
960842 TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT-AAGTCCACGACCCCGTGGCA
1 TTCTTTT-AAAGTCTACAACTCCGTGGCACTCTTTCACCCTTTTAAAGACCACAACTCCGTGGCA
*
960906 TCTTG
65 CCTTG
* * * * ** * * ** *
960911 TTCCTTTT-AAGCCCACAACTCCGTGGTACCCTTT-TTCTTTTTAAAGCCCACAACTTTGTGACA
1 TT-CTTTTAAAGTCTACAACTCCGTGGCACTCTTTCACCCTTTTAAAGACCACAACTCCGTGGCA
*
960974 CCTTT
65 CCTTG
* * * * * * *
960979 TTCTTTTCAAAGCCCACCACTCCGTGGCAC-CTTT---TCTTTTTAAGTCCACGAC-CCTGTGGC
1 TTCTTTT-AAAGTCTACAACTCCGTGGCACTCTTTCACCCTTTTAAAGACCACAACTCC-GTGGC
961039 ACCTTG
64 ACCTTG
**
961045 TTCTTTTCAAAGTCTACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGACCACAACTCCGTGGCA
1 TTCTTTT-AAAGTCTACAACTCCGTGGCACTCTTTCACCCTTTTAAAGACCACAACTCCGTGGCA
961110 CCTTG
65 CCTTG
** *
961115 TTCCTTTT-AAGTAC-ACAACTTTGTGGCA-TCTTTCACCCTTTTTAAAGCCCACA
1 TT-CTTTTAAAGT-CTACAACTCCGTGGCACTCTTTCACCC-TTTTAAAGACCACA
961168 CAAGTCGGTG
Statistics
Matches: 210, Mismatches: 34, Indels: 26
0.78 0.13 0.10
Matches are distributed among these distances:
66 49 0.23
67 16 0.08
68 55 0.26
69 50 0.24
70 33 0.16
71 7 0.03
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (69 bp):
TTCTTTTAAAGTCTACAACTCCGTGGCACTCTTTCACCCTTTTAAAGACCACAACTCCGTGGCAC
CTTG
Found at i:961291 original size:33 final size:33
Alignment explanation
Indices: 961149--961317 Score: 256
Period size: 32 Copynumber: 5.2 Consensus size: 33
961139 GGCATCTTTC
*
961149 ACCCTT-TTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
961181 ACCCTTCTC-AAAGCCTACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
961213 ACCCTTCTC-AAAGCCTACACAAGTCAGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
961245 ACCC-TCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
961277 ACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
961310 ACCCTTCT
1 ACCCTTCT
961318 AAGCCTAATA
Statistics
Matches: 125, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
31 4 0.03
32 86 0.69
33 35 0.28
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.20
Consensus pattern (33 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:961392 original size:49 final size:49
Alignment explanation
Indices: 961324--962159 Score: 707
Period size: 52 Copynumber: 16.9 Consensus size: 49
961314 TTCTAAGCCT
* *
961324 AATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCC
* *
961373 AATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCC
* * * *
961416 AATATCGCTGGCCTTGAATTAGCATATTGGCACCATCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCC
* * *
961465 AATGTAGCTGGCCTTGAATAAGCACATTGGCA-C-----CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCC
* *
961508 AATATTGCTGGCCTTGAATCAGCATATTGGCA-CTTTCATCTTTAAATCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTTTAAGTCC
* * *
961557 AATGTAGCTGGCCTTGAATCAGCATATTGACATCTTTTTTCTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA-C---CTT-T-ATCTTTAAGTCC
** *
961612 AATATAGCTGGCCTTGAATCAATATATTGGCACCTCTT-TCTTTAAGTCT
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCT-TTATCTTTAAGTCC
* *
961661 AATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCC
**
961704 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTT
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCC
* * * * * *
961756 AATGTAGTTGGCCTTGAATCAGCACATTGACATCATTTTTTTCACCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA-C----CTTT-ATCTTTAAGTCC
*
961811 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCC
* * * * * *
961863 AATGTAGTTGGCCTTGAATCAGCACATTGACATCATTTTTTTCACCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA-C----CTTT-ATCTTTAAGTCC
* * * * *
961918 AATATTGCTGGCCTTGAATCAACATATTGGCACCCTCATCTTTTAAGCCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC-TTTAAGTCC
* * *
961968 AATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCC
* * *
962011 AATATCGCTGGCCTTGAATCAGTATATTGGCGCCTCTGTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCT-T-T-ATCTTTAAGTCC
* * *
962063 AATATCGCTGGCCTTGAATCAGCATATTGTCATCTTTGTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTT-T-ATCTTTAAGTCC
* * * *
962115 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAA
962160 CATTCCTAAG
Statistics
Matches: 648, Mismatches: 88, Indels: 102
0.77 0.11 0.12
Matches are distributed among these distances:
43 152 0.23
44 4 0.01
48 3 0.00
49 153 0.24
50 37 0.06
51 8 0.01
52 160 0.25
53 4 0.01
54 5 0.01
55 116 0.18
56 6 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (49 bp):
AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCC
Found at i:961426 original size:43 final size:43
Alignment explanation
Indices: 961363--961740 Score: 324
Period size: 43 Copynumber: 8.1 Consensus size: 43
961353 GCACCTTTAT
*
961363 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
961406 CTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG---CA-C
* *
961453 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATAAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
961498 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACTTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
961545 ATCTTTAAATCCAATGTAGCTGGCCTTGAATCAGCATATTGACATCTTTTTTCTC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----------C
** *
961600 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAATATATTGGCACCTC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---C
* *
961648 TTTCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 ---CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
961694 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
961737 CTTT
1 CTTT
961741 TCCATCTTTA
Statistics
Matches: 283, Mismatches: 33, Indels: 38
0.80 0.09 0.11
Matches are distributed among these distances:
43 118 0.42
45 1 0.00
46 5 0.02
47 2 0.01
48 3 0.01
49 112 0.40
55 42 0.15
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:961481 original size:92 final size:92
Alignment explanation
Indices: 961324--962159 Score: 828
Period size: 92 Copynumber: 8.5 Consensus size: 92
961314 TTCTAAGCCT
* *
961324 AATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
961389 AATCAGCACATTGGCACCTTTAAGTCC
66 AATCAGCACATTGGCACCTTTAAGTCC
* *
961416 AATATCGCTGGCCTTGAATTAGCATATTGGCACCATCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
*
961481 AATAAGCACATTGGCACCTTTAAGTCC
66 AATCAGCACATTGGCACCTTTAAGTCC
* * *
961508 AATATTGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAATCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
* *
961573 AATCAGCATATTGACATCTTTTTTCTCATCTTTAAGTCC
66 AATCAGCACATTGGCA----------C--CTTTAAGTCC
* ** * *
961612 AATATAGCTGGCCTTGAATCAATATATTGGCACC-TCTTTCTTTAAGTCTAATGTAGCTGGCCTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC-ATCTTTAAGTCCAATGTAGCTGGCCTT
961676 GAATCAGCACATTGGCACCTTTAAGTCC
65 GAATCAGCACATTGGCACCTTTAAGTCC
* ** *
961704 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTTAATGTAGTTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGCC
*
961769 TTGAATCAGCACATTGACATCATTTTTTTCACCTTTAAGTCC
63 TTGAATCAGCACATTG------------GCACCTTTAAGTCC
* * *
961811 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGTTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGCC
*
961876 TTGAATCAGCACATTGACATCATTTTTTTCACCTTTAAGTCC
63 TTGAATCAGCACATTG------------GCACCTTTAAGTCC
* * * * *
961918 AATATTGCTGGCCTTGAATCAACATATTGGCACCCTCATCTTTTAAGCCCAATGTCGCTGGCCTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TTTAAGTCCAATGTAGCTGGCCTT
961983 GAATCAGCACATTGGCACCTTTAAGTCC
65 GAATCAGCACATTGGCACCTTTAAGTCC
* * * *
962011 AATATCGCTGGCCTTGAATCAGTATATTGGCGCCTCTGTCATCTTTAAGTCCAATATCGCTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGC-AC-CT-TCATCTTTAAGTCCAATGTAGCTGGCC
* *
962076 TTGAATCAGCATATTGTCATCTTTGTCATCTTTAAGTCC
63 TTGAATCAGC--A----CA---TTGGCACCTTTAAGTCC
* *
962115 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
962160 CATTCCTAAG
Statistics
Matches: 652, Mismatches: 50, Indels: 75
0.84 0.06 0.10
Matches are distributed among these distances:
92 202 0.31
93 41 0.06
94 2 0.00
95 70 0.11
96 6 0.01
97 1 0.00
101 12 0.02
102 3 0.00
103 3 0.00
104 126 0.19
105 35 0.05
107 151 0.23
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (92 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
AATCAGCACATTGGCACCTTTAAGTCC
Found at i:961877 original size:107 final size:103
Alignment explanation
Indices: 961691--962159 Score: 541
Period size: 107 Copynumber: 4.6 Consensus size: 103
961681 AGCACATTGG
**
961691 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATCTTTAAGTCC
*
961756 AATGTAGTTGGCCTTGAATCAGCACATTGACATCATTTTTTT
65 AATGTAGCTGGCCTTGAATCAGCACATTG---TCATTTTTTT
*
961798 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATCTTTAAGTCC
*
961863 AATGTAGTTGGCCTTGAATCAGCACATTGACATCATTTTTTT
65 AATGTAGCTGGCCTTGAATCAGCACATTG---TCATTTTTTT
* * * *
961905 CACCTTTAAGTCCAATATTGCTGGCCTTGAATCAACATATTGGCACC--CTCATCTTTTAAGCCC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATC-TTTAAGTCC
* *
961968 AATGTCGCTGGCCTTGAATCAGCACATTG---------G
65 AATGTAGCTGGCCTTGAATCAGCACATTGTCATTTTTTT
* * * *
961998 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCGCCTCTGTCATCTTTAAGTCC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-TTTCATCTTTAAGTCC
* * * * *
962063 AATATCGCTGGCCTTGAATCAGCATATTGTCATCTTTGT
65 AATGTAGCTGGCCTTGAATCAGCACATTGTCATTTTTTT
* * * *
962102 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--TTCATCTTTAA
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAA
962160 CATTCCTAAG
Statistics
Matches: 325, Mismatches: 24, Indels: 32
0.85 0.06 0.08
Matches are distributed among these distances:
93 43 0.13
95 35 0.11
96 5 0.02
101 10 0.03
104 46 0.14
105 35 0.11
107 151 0.46
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (103 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCA
ATGTAGCTGGCCTTGAATCAGCACATTGTCATTTTTTT
Found at i:962040 original size:200 final size:197
Alignment explanation
Indices: 961798--962157 Score: 524
Period size: 200 Copynumber: 1.8 Consensus size: 197
961788 TCATTTTTTT
* *
961798 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-TTTCCATCTTTAAGTT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTGT-CATCTTTAAGTC
* * * * *
961862 CAATGTAGTTGGCCTTGAATCAGCACATTGACATCATTTTTTTCACCTTTAAGTCCAATATTGCT
65 CAATATAGCTGGCCTTGAATCAGCACATTG---TCATCTTTGTCACCTTTAAGTCCAATATCGCT
*
961927 GGCCTTGAATCAACATATTGGCACCCTCATCTTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCA
127 GGCCTTGAATCAACACATTGGCACCCTCATCTTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCA
961992 CATTGG
192 CATTGG
* * *
961998 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCGCCTCTGTCATCTTTAAGTCC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTGTCATCTTTAAGTCC
* * * *
962063 AATATCGCTGGCCTTGAATCAGCATATTGTCATCTTTGTCATCTTTAAGTCCAATGTCGCTGGCC
66 AATATAGCTGGCCTTGAATCAGCACATTGTCATCTTTGTCACCTTTAAGTCCAATATCGCTGGCC
* *
962128 TTGAATCAGCACATTGGCACCTTCATCTTT
131 TTGAATCAACACATTGGCACCCTCATCTTT
962158 AACATTCCTA
Statistics
Matches: 142, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
197 58 0.41
200 82 0.58
201 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (197 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTGTCATCTTTAAGTCC
AATATAGCTGGCCTTGAATCAGCACATTGTCATCTTTGTCACCTTTAAGTCCAATATCGCTGGCC
TTGAATCAACACATTGGCACCCTCATCTTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATT
GG
Found at i:963042 original size:13 final size:13
Alignment explanation
Indices: 963024--963080 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
963014 CATAAAGTGT
963024 TGTATCGATACAA
1 TGTATCGATACAA
963037 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
963052 GTGTTGTATTGATACAA
1 ----TGTATCGATACAA
963069 TGTATCGATACA
1 TGTATCGATACA
963081 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:963059 original size:32 final size:32
Alignment explanation
Indices: 963004--963104 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
962994 TTCAACGATT
*
963004 TGTATTGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
963037 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
963069 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
963101 TGTA
1 TGTA
963105 AGCTACAGCC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 52 0.81
33 12 0.19
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:963093 original size:19 final size:18
Alignment explanation
Indices: 963002--963099 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
962992 ATTTCAACGA
*
963002 TTTGTATTGATACATAAAG
1 TTTGTATCGATACAT-AAG
963021 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
963037 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
963053 TGTTGTATTGATAC--AA-
1 T-TTGTATCGATACATAAG
963069 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
963085 TTTTGTATCGATACA
1 -TTTGTATCGATACA
963100 ATGTAAGCTA
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.37
20 11 0.17
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:963160 original size:13 final size:13
Alignment explanation
Indices: 963142--963166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
963132 ATTACTCAAA
963142 TGTATCGATACAT
1 TGTATCGATACAT
963155 TGTATCGATACA
1 TGTATCGATACA
963167 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:963219 original size:52 final size:51
Alignment explanation
Indices: 963155--963326 Score: 256
Period size: 52 Copynumber: 3.3 Consensus size: 51
963145 ATCGATACAT
** *
963155 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATCGATACATGCAGGAAAATTTGCCCAGA
963207 TGTATCGATACACTA-CAAAATGTATCGATACATGCAGGAAAATTTGCCCAGA
1 TGTATCGATACACTATC--AATGTATCGATACATGCAGGAAAATTTGCCCAGA
* *
963259 TGTATCGATACACTATGAAATGTATCGATACATGCAGGTAAATTTGCCCAGA
1 TGTATCGATACACTAT-CAATGTATCGATACATGCAGGAAAATTTGCCCAGA
963311 TGTATCGATACACTAT
1 TGTATCGATACACTAT
963327 GAAATGTTTT
Statistics
Matches: 111, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
50 1 0.01
51 1 0.01
52 109 0.98
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATCGATACATGCAGGAAAATTTGCCCAGA
Found at i:963327 original size:52 final size:52
Alignment explanation
Indices: 963175--963333 Score: 282
Period size: 52 Copynumber: 3.1 Consensus size: 52
963165 CACTGATCTT
* **
963175 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTACAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
963227 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
*
963279 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
963331 TGT
1 TGT
963334 TTTTTACATC
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:963353 original size:16 final size:16
Alignment explanation
Indices: 963332--963380 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
963322 ACTATGAAAT
963332 GTTTTTTACATCATAA
1 GTTTTTTACATCATAA
* *
963348 GTTTTTTACA-AACAA
1 GTTTTTTACATCATAA
963363 GTTTTTTACATCATAA
1 GTTTTTTACATCATAA
963379 GT
1 GT
963381 GGTCAGGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (16 bp):
GTTTTTTACATCATAA
Found at i:963364 original size:15 final size:16
Alignment explanation
Indices: 963332--963373 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
963322 ACTATGAAAT
* *
963332 GTTTTTTACATCATAA
1 GTTTTTTACATAACAA
963348 GTTTTTTACA-AACAA
1 GTTTTTTACATAACAA
963363 GTTTTTTACAT
1 GTTTTTTACAT
963374 CATAAGTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (16 bp):
GTTTTTTACATAACAA
Found at i:966713 original size:36 final size:36
Alignment explanation
Indices: 966629--966744 Score: 108
Period size: 36 Copynumber: 3.2 Consensus size: 36
966619 TCGTCGAGTT
* * * *
966629 ATCTTTAAATTATTACTTCCGC-CTAGATCACCTTCTC
1 ATCTTTAAACTATTAATTCC-CTC-AGGTCATCTTCTC
** * *
966666 ATCTTTAAACTATTAATTCTGTCATGTCATTTTCTC
1 ATCTTTAAACTATTAATTCCCTCAGGTCATCTTCTC
* * *
966702 ATCTTTGAACTATTAGTTCCCTTAGGTCATCTTCTC
1 ATCTTTAAACTATTAATTCCCTCAGGTCATCTTCTC
966738 ATCTTTA
1 ATCTTTA
966745 GATTATTGGT
Statistics
Matches: 62, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
36 44 0.71
37 18 0.29
ACGTcount: A:0.23, C:0.24, G:0.07, T:0.46
Consensus pattern (36 bp):
ATCTTTAAACTATTAATTCCCTCAGGTCATCTTCTC
Found at i:968369 original size:13 final size:13
Alignment explanation
Indices: 968328--968380 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
968318 CCGTTAGAAG
968328 CAATGTATCGATA
1 CAATGTATCGATA
968341 CAA--T-TC-AT-
1 CAATGTATCGATA
968349 C-ATGTATCGATA
1 CAATGTATCGATA
*
968361 CATTGTATCGATA
1 CAATGTATCGATA
968374 CAATGTA
1 CAATGTA
968381 CCATGTATCG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 19 0.59
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:968373 original size:33 final size:33
Alignment explanation
Indices: 968331--968395 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
968321 TTAGAAGCAA
*
968331 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
968364 TGTATCGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
968396 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:968450 original size:20 final size:19
Alignment explanation
Indices: 968425--968462 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
968415 CTGCCAGTTT
968425 CATGTATCGATACAATTGTC
1 CATGTATCGATAC-ATTGTC
968445 CATGTATCGATACATTGT
1 CATGTATCGATACATTGT
968463 ATTGATACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (19 bp):
CATGTATCGATACATTGTC
Found at i:969785 original size:17 final size:18
Alignment explanation
Indices: 969752--969786 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
969742 TATTGAAAGA
969752 TTGATAATATTTGTTTGAG
1 TTGATAATA-TTGTTTGAG
969771 TTGATAATA-TGTTTGA
1 TTGATAATATTGTTTGA
969787 TGAAATGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (18 bp):
TTGATAATATTGTTTGAG
Found at i:975413 original size:41 final size:41
Alignment explanation
Indices: 975357--975637 Score: 201
Period size: 41 Copynumber: 6.9 Consensus size: 41
975347 CCTTAGTTGA
* * **
975357 AAAAGAGTTGGCTAGGACAAAACCATATGAACCAACAAGTT
1 AAAAGGGTTGACTAGGACAAAACCATATGAGTCAACAAGTT
* **
975398 AGAAGGGTTGACTAGGACAAAACCATATGAGTCAATGAGTT
1 AAAAGGGTTGACTAGGACAAAACCATATGAGTCAACAAGTT
* * * *
975439 AAAAGGGTTGACCAAGACGAAACCATATGAGTCATCAAGTT
1 AAAAGGGTTGACTAGGACAAAACCATATGAGTCAACAAGTT
* * *
975480 AAAAGGGTTGA-TTGAGACAAAACCATACGAGTCAATAAGTT
1 AAAAGGGTTGACTAG-GACAAAACCATATGAGTCAACAAGTT
* * ** *
975521 AAAAAGGTTGA-TCGGGATGAAACCATATG-GTCAATGAA-TT
1 AAAAGGGTTGACT-AGGACAAAACCATATGAGTCAA-CAAGTT
* * * * * * * **
975561 AGAGGGGTTGACCAGAATAATACCATATAAGTCAATGAGTT
1 AAAAGGGTTGACTAGGACAAAACCATATGAGTCAACAAGTT
* * * ** *
975602 AGAGGGGTTGACTGGGATGAAACCATATGAGCCAAC
1 AAAAGGGTTGACTAGGACAAAACCATATGAGTCAAC
975638 GACTTAGAAA
Statistics
Matches: 188, Mismatches: 46, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
40 27 0.14
41 160 0.85
42 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.21
Consensus pattern (41 bp):
AAAAGGGTTGACTAGGACAAAACCATATGAGTCAACAAGTT
Found at i:975499 original size:82 final size:80
Alignment explanation
Indices: 975376--975632 Score: 259
Period size: 82 Copynumber: 3.1 Consensus size: 80
975366 GGCTAGGACA
** *
975376 AAACCATATGAACCAACAAGTTAGAAGGGTTGACTAGGACAAAACCATATGAGTCAATGAGTTAA
1 AAACCATATGAGTCATCAAGTTAGAAGGGTTGA-TA-GACAAAACCATATGAGTCAATGAGTTAA
** *
975441 AAGGGTTGACCAAGACG
64 AAGGGTTGACCGGGATG
* * *
975458 AAACCATATGAGTCATCAAGTTAAAAGGGTTGATTGAGACAAAACCATACGAGTCAATAAGTTAA
1 AAACCATATGAGTCATCAAGTTAGAAGGGTTGA-T-AGACAAAACCATATGAGTCAATGAGTTAA
* *
975523 AAAGGTTGATCGGGATG
64 AAGGGTTGACCGGGATG
* * * *
975540 AAACCATATG-GTCAATGAA-TTAGAGGGGTTGACCAGA-ATAATACCATATAAGTCAATGAGTT
1 AAACCATATGAGTC-ATCAAGTTAGAAGGGTTGA-TAGACA-AA-ACCATATGAGTCAATGAGTT
* * *
975602 AGAGGGGTTGACTGGGATG
62 AAAAGGGTTGACCGGGATG
975621 AAACCATATGAG
1 AAACCATATGAG
975633 CCAACGACTT
Statistics
Matches: 145, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
79 1 0.01
80 5 0.03
81 55 0.38
82 83 0.57
83 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (80 bp):
AAACCATATGAGTCATCAAGTTAGAAGGGTTGATAGACAAAACCATATGAGTCAATGAGTTAAAA
GGGTTGACCGGGATG
Found at i:975997 original size:41 final size:41
Alignment explanation
Indices: 975708--976005 Score: 164
Period size: 41 Copynumber: 7.3 Consensus size: 41
975698 ACCTAAATCA
* * *
975708 AAAAGTAGTTGGTCAGGATGAAACCATACGA-ACTAATAAGTA-
1 AAAAG-AGTTGATCAAGATGAAACCATACGAGTC-AATAAG-AG
* * * * *
975750 AGAAGGGTTGACCAAGATGAATCCATACGAGTCAATGAGAG
1 AAAAGAGTTGATCAAGATGAAACCATACGAGTCAATAAGAG
* * *
975791 AAAAGAGCTGATCAGGATGAAACCATACAAGTCAAT--GAG
1 AAAAGAGTTGATCAAGATGAAACCATACGAGTCAATAAGAG
* * * * * * *
975830 CAAAAGAGTTAACCAAAATGAAACCATATGACTC-ATCTAGTG
1 -AAAAGAGTTGATCAAGATGAAACCATACGAGTCAAT-AAGAG
* * * * * * * *
975872 GAAAGAATT-AACTAGAATGGAACCATACAATTCAACAA-AGG
1 AAAAGAGTTGATCAAG-ATGAAACCATACGAGTCAATAAGA-G
* * * * *
975913 AAAA-ATGTTG-TCTAGGATGAAACCATACGAATAAATGATAG
1 AAAAGA-GTTGATC-AAGATGAAACCATACGAGTCAATAAGAG
975954 AAAAGAGTTGATCAAGATGAAACCATACGAGTCAATAAGAG
1 AAAAGAGTTGATCAAGATGAAACCATACGAGTCAATAAGAG
*
975995 AAAATAGTTGA
1 AAAAGAGTTGA
976006 CTGAAACGAA
Statistics
Matches: 188, Mismatches: 53, Indels: 31
0.69 0.19 0.11
Matches are distributed among these distances:
39 5 0.03
40 30 0.16
41 140 0.74
42 13 0.07
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (41 bp):
AAAAGAGTTGATCAAGATGAAACCATACGAGTCAATAAGAG
Found at i:976039 original size:41 final size:41
Alignment explanation
Indices: 975969--976192 Score: 189
Period size: 41 Copynumber: 5.5 Consensus size: 41
975959 AGTTGATCAA
* * * * *
975969 GATGAAACCATACGAGTCAATAAGAGAAAATAGTTGACTGA
1 GATGAAACCATATGAGTCAACAAGGGAAAAGAGTTGACTGG
* * * * ** *
976010 AACGAAACCATATGAGTTAACGAGGGAAAAGAGTCAACGGG
1 GATGAAACCATATGAGTCAACAAGGGAAAAGAGTTGACTGG
* * * * * *
976051 GATGAAAACATATGGGTTAACGAGGGAAAAAAGTTGATTGG
1 GATGAAACCATATGAGTCAACAAGGGAAAAGAGTTGACTGG
** * ** * *
976092 GACAAAACCTTACAAGTCAACAAGGG-AAATAGTTGACTAG
1 GATGAAACCATATGAGTCAACAAGGGAAAAGAGTTGACTGG
* *
976132 AATGAAACCATACGAGTCAACAAGGGAAAAGAGTTGACTGG
1 GATGAAACCATATGAGTCAACAAGGGAAAAGAGTTGACTGG
*
976173 GATGAAACCATATGAATCAA
1 GATGAAACCATATGAGTCAA
976193 TGAAAGAAAA
Statistics
Matches: 139, Mismatches: 43, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
40 32 0.23
41 107 0.77
ACGTcount: A:0.45, C:0.13, G:0.25, T:0.17
Consensus pattern (41 bp):
GATGAAACCATATGAGTCAACAAGGGAAAAGAGTTGACTGG
Found at i:976126 original size:40 final size:41
Alignment explanation
Indices: 976073--976184 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 41
976063 TGGGTTAACG
* *
976073 AGGGAAAAAAGTTGATTGGGACAAAACCTTACAAGTCAACA
1 AGGGAAAAAAGTTGACTGGGACAAAACCATACAAGTCAACA
* * * ** *
976114 AGGG-AAATAGTTGACTAGAATGAAACCATACGAGTCAACA
1 AGGGAAAAAAGTTGACTGGGACAAAACCATACAAGTCAACA
* **
976154 AGGGAAAAGAGTTGACTGGGATGAAACCATA
1 AGGGAAAAAAGTTGACTGGGACAAAACCATA
976185 TGAATCAATG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 32 0.54
41 27 0.46
ACGTcount: A:0.45, C:0.13, G:0.25, T:0.17
Consensus pattern (41 bp):
AGGGAAAAAAGTTGACTGGGACAAAACCATACAAGTCAACA
Found at i:976202 original size:41 final size:41
Alignment explanation
Indices: 975765--976202 Score: 176
Period size: 41 Copynumber: 10.7 Consensus size: 41
975755 GGTTGACCAA
* * *
975765 GATGAATCCATACGAGTCAATG-AGAGAAAAGAGCTGA-TCAG
1 GATGAAACCATACGAGTCAATGAAG-GAAAAGAGTTGACT-GG
* * * ***
975806 GATGAAACCATACAAGTCAATG-AGCAAAAGAGTTAACCAA
1 GATGAAACCATACGAGTCAATGAAGGAAAAGAGTTGACTGG
* * * ** * * * *
975846 AATGAAACCATATGACTC-ATCTAGTGGAAAGAATTAACTAG
1 GATGAAACCATACGAGTCAATGAAG-GAAAAGAGTTGACTGG
* * * * ** * *
975887 AATGGAACCATACAATTCAACAAAGGAAAA-ATGTTGTCTAG
1 GATGAAACCATACGAGTCAATGAAGGAAAAGA-GTTGACTGG
* * **
975928 GATGAAACCATACGAATAAATGATA-GAAAAGAGTTGA-TCAA
1 GATGAAACCATACGAGTCAATGA-AGGAAAAGAGTTGACT-GG
* *
975969 GATGAAACCATACGAGTCAAT-AAGAGAAAATAGTTGACTGA
1 GATGAAACCATACGAGTCAATGAAG-GAAAAGAGTTGACTGG
* * * * * * ** *
976010 AACGAAACCATATGAGTTAACGAGGGAAAAGAGTCAACGGG
1 GATGAAACCATACGAGTCAATGAAGGAAAAGAGTTGACTGG
* * * * * * * *
976051 GATGAAAACATATGGGTTAACGAGGGAAAAAAGTTGATTGG
1 GATGAAACCATACGAGTCAATGAAGGAAAAGAGTTGACTGG
** * * * * * *
976092 GACAAAACCTTACAAGTCAA-CAAGGGAAATAGTTGACTAG
1 GATGAAACCATACGAGTCAATGAAGGAAAAGAGTTGACTGG
* *
976132 AATGAAACCATACGAGTCAA-CAAGGGAAAAGAGTTGACTGG
1 GATGAAACCATACGAGTCAATGAA-GGAAAAGAGTTGACTGG
* * *
976173 GATGAAACCATATGAATCAATGAAAGAAAA
1 GATGAAACCATACGAGTCAATGAAGGAAAA
976203 AAATCGACCA
Statistics
Matches: 295, Mismatches: 88, Indels: 28
0.72 0.21 0.07
Matches are distributed among these distances:
39 3 0.01
40 61 0.21
41 221 0.75
42 10 0.03
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.18
Consensus pattern (41 bp):
GATGAAACCATACGAGTCAATGAAGGAAAAGAGTTGACTGG
Found at i:976202 original size:122 final size:123
Alignment explanation
Indices: 975882--976204 Score: 310
Period size: 123 Copynumber: 2.6 Consensus size: 123
975872 GAAAGAATTA
* * * * * * *
975882 ACTAGAATGGAACCATACAATTCAACAAAGGAAAA-ATGTTGTCTAGGATGAAACCATACGAATA
1 ACTAGAATGAAACCATACGAGTCAACAAGGGAAAAGA-GTTGACTGGGATGAAACCATATGAATA
* * ** * *
975946 AATGATAGAAAAGAGTTGATCAAGATGAAACCATACGAGTCAATAAGAGAAAATAGTTG
65 AATGAAAGAAAAAAGTTGATCAAGACAAAACCATACAAGTCAACAAGAGAAAATAGTTG
* * * * ** * * ** *
976005 ACT-GAAACGAAACCATATGAGTTAACGAGGGAAAAGAGTCAACGGGGATGAAAACATATGGGTT
1 ACTAG-AATGAAACCATACGAGTCAACAAGGGAAAAGAGTTGACTGGGATGAAACCATATGAATA
* ** *** * *
976069 AACGAGGGAAAAAAGTTGATTGGGACAAAACCTTACAAGTCAACAAG-GGAAATAGTTG
65 AATGAAAGAAAAAAGTTGATCAAGACAAAACCATACAAGTCAACAAGAGAAAATAGTTG
*
976127 ACTAGAATGAAACCATACGAGTCAACAAGGGAAAAGAGTTGACTGGGATGAAACCATATGAATCA
1 ACTAGAATGAAACCATACGAGTCAACAAGGGAAAAGAGTTGACTGGGATGAAACCATATGAATAA
976192 ATGAAAGAAAAAA
66 ATGAAAGAAAAAA
976205 ATCGACCAAG
Statistics
Matches: 152, Mismatches: 45, Indels: 7
0.75 0.22 0.03
Matches are distributed among these distances:
122 73 0.48
123 78 0.51
124 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.23, T:0.18
Consensus pattern (123 bp):
ACTAGAATGAAACCATACGAGTCAACAAGGGAAAAGAGTTGACTGGGATGAAACCATATGAATAA
ATGAAAGAAAAAAGTTGATCAAGACAAAACCATACAAGTCAACAAGAGAAAATAGTTG
Found at i:976222 original size:122 final size:123
Alignment explanation
Indices: 975882--976225 Score: 325
Period size: 122 Copynumber: 2.8 Consensus size: 123
975872 GAAAGAATTA
* * * * * * *
975882 ACTAGAATGGAACCATACAATTCAACAAAGGAAAA-ATGTTGTCTAGGATGAAACCATACGAATA
1 ACTAGAATGAAACCATACGAGTCAACAAGGGAAAAGA-GTTGACTGGGATGAAACCATATGAATA
* * * *
975946 AATGATAGAAAAGAGTTGATCAAGATGAAACCATACGAGTCAATAAGAGAAAATAGTTG
65 AATGAAAGAAAAAAGTTGATCAAGATGAAACCATACAAGTCAACAAGAGAAAATAGTTG
* * * * ** * * ** *
976005 ACT-GAAACGAAACCATATGAGTTAACGAGGGAAAAGAGTCAACGGGGATGAAAACATATGGGTT
1 ACTAG-AATGAAACCATACGAGTCAACAAGGGAAAAGAGTTGACTGGGATGAAACCATATGAATA
* ** *** ** * *
976069 AACGAGGGAAAAAAGTTGATTGGGACAAAACCTTACAAGTCAACAAG-GGAAATAGTTG
65 AATGAAAGAAAAAAGTTGATCAAGATGAAACCATACAAGTCAACAAGAGAAAATAGTTG
*
976127 ACTAGAATGAAACCATACGAGTCAACAAGGGAAAAGAGTTGACTGGGATGAAACCATATGAATCA
1 ACTAGAATGAAACCATACGAGTCAACAAGGGAAAAGAGTTGACTGGGATGAAACCATATGAATAA
* * *
976192 ATGAAAGAAAAAAATCGACCAAGATGAAACCATA
66 ATGAAAGAAAAAAGTTGATCAAGATGAAACCATA
976226 AAAGAGTTGA
Statistics
Matches: 164, Mismatches: 54, Indels: 7
0.73 0.24 0.03
Matches are distributed among these distances:
122 85 0.52
123 78 0.48
124 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.18
Consensus pattern (123 bp):
ACTAGAATGAAACCATACGAGTCAACAAGGGAAAAGAGTTGACTGGGATGAAACCATATGAATAA
ATGAAAGAAAAAAGTTGATCAAGATGAAACCATACAAGTCAACAAGAGAAAATAGTTG
Found at i:976307 original size:41 final size:40
Alignment explanation
Indices: 976262--976423 Score: 139
Period size: 41 Copynumber: 4.0 Consensus size: 40
976252 CAAGTCAACG
* * *
976262 AGTTAAAAGGGTTGGTTGAAATAAAGCCATATAAACCAATA
1 AGTTAAAAGGGTTGGTCGAGATAAA-CCATATGAACCAATA
* * * *
976303 AGTTAGAGGGGTTGGTCGAGACAAAACCATATGAACCAAGA
1 AGTTAAAAGGGTTGGTCGAGA-TAAACCATATGAACCAATA
* * * * *
976344 AGTTAGAGGGGTTAGCCGAGATGAAACCATATGAACAAATA
1 AGTTAAAAGGGTTGGTCGAGAT-AAACCATATGAACCAATA
*
976385 AGTT-AAAGAGGTTGGTC-AGGATGAACCCATATGAACCAA
1 AGTTAAAAG-GGTTGGTCGA-GAT-AAACCATATGAACCAA
976424 CAAGGCAGAA
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
40 3 0.03
41 93 0.94
42 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.20
Consensus pattern (40 bp):
AGTTAAAAGGGTTGGTCGAGATAAACCATATGAACCAATA
Found at i:976438 original size:82 final size:82
Alignment explanation
Indices: 976288--976439 Score: 189
Period size: 82 Copynumber: 1.9 Consensus size: 82
976278 TGAAATAAAG
* * * * ** *
976288 CCATATAAACCAATAAGTTAGAGGGGTTGGTCGAGACAAAACCATATGAACCAAGAAGTTAGAGG
1 CCATATAAACAAATAAGTTAAAGAGGTTGGTCGAGACAAAACCATATGAACCAACAAGGCAGAAG
976353 GGTTAGCCGAGATGAAA
66 GGTTAGCCGAGATGAAA
* ** *
976370 CCATATGAACAAATAAGTTAAAGAGGTTGGTC-AGGATGAACCCATATGAACCAACAAGGCAGAA
1 CCATATAAACAAATAAGTTAAAGAGGTTGGTCGA-GACAAAACCATATGAACCAACAAGGCAGAA
976434 GGGTTA
65 GGGTTA
976440 ATTAGGACAA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 1 0.02
82 57 0.98
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (82 bp):
CCATATAAACAAATAAGTTAAAGAGGTTGGTCGAGACAAAACCATATGAACCAACAAGGCAGAAG
GGTTAGCCGAGATGAAA
Found at i:976624 original size:41 final size:41
Alignment explanation
Indices: 976569--977167 Score: 232
Period size: 41 Copynumber: 14.9 Consensus size: 41
976559 ACTATAAGTT
* * *
976569 AACAAGTTAGAAGGGTTGGCTAAAATGAAACCATACGAACC
1 AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
* ** * *
976610 AACAAATTAAAAGGGTTAGCTGGGATAAAACCATATGAACC
1 AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
* * *
976651 AACAAGTTAAAAGGGTTAGCCAAGAGGAAACCATACAAACC
1 AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
** * ** *
976692 AACAAGTTAAAAAAGTTAACTGGGATAAAACCATA-GAA--
1 AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
* * *** *
976730 AGCAA-TGAGGCCGGG---G-T---A--AAACCATATGAACC
1 AACAAGTTA-AAAGGGTTAGCTAAGATGAAACCATACGAACC
* * * * **
976762 AACGAGTTAG-AGAGGTTA-ATCGAGATGAAACCATATAAACC
1 AACAAGTTAAAAG-GGTTAGCT-AAGATGAAACCATACGAACC
* * **
976803 AACAAGTTAGAAGGGTTGGCCGAGATGAAACCATACGAACC
1 AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
* * ** * *
976844 AACAAGTTAAAAGGGTTGGTTGGGATGAAAACATACGAGCC
1 AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
** *
976885 AACAAGTTAAAAGGGTTAGCTGGGATGAAAACATACGAACC
1 AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
** * * * * * * *
976926 AATGAGTTTAAGGGGTTGGTTAGGGTGAAACCATACAAACC
1 AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
* * * * * * * *
976967 AACTAGTT-AGAGAGGTTGGCTGAGA-CAAATTCAGATGAACC
1 AACAAGTTAAAAG-GGTTAGCTAAGATGAAA-CCATACGAACC
* * * * *
977008 AA-TATTTAAAAGGGTTGGCTAGGACT-AAACCATACAAACC
1 AACAAGTTAAAAGGGTTAGCTAAGA-TGAAACCATACGAACC
* * ** ** * *
977048 AACGAGTTAAAAGGGTTGGCCGAGACAAAATCATATGAACC
1 AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
* * * * * * * *
977089 AACAAGTTAGAGGGGTTGGCTAGGACGAATCTATACGAATC
1 AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
* * *
977130 AACAAGCTT-AAGGGGTT-GATTGAGATGAAACCATACGA
1 AACAAG-TTAAAAGGGTTAG-CTAAGATGAAACCATACGA
977168 GTTAATGAAA
Statistics
Matches: 419, Mismatches: 112, Indels: 54
0.72 0.19 0.09
Matches are distributed among these distances:
29 8 0.02
30 3 0.01
31 2 0.00
32 6 0.01
33 2 0.00
34 1 0.00
35 1 0.00
37 2 0.00
38 5 0.01
39 1 0.00
40 31 0.07
41 353 0.84
42 4 0.01
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.19
Consensus pattern (41 bp):
AACAAGTTAAAAGGGTTAGCTAAGATGAAACCATACGAACC
Found at i:976665 original size:82 final size:82
Alignment explanation
Indices: 976569--977097 Score: 288
Period size: 82 Copynumber: 6.6 Consensus size: 82
976559 ACTATAAGTT
* * *
976569 AACAAGTTAGAAGGGTTGGCTAAAATGAAACCATACGAACCAACAAATTAAAAGGGTTAGCTGGG
1 AACAAGTTAAAAGGGTTGGCTAAGATGAAACCATACGAACCAACAAGTTAAAAGGGTTAGCTGGG
976634 ATAAAACCATATGAACC
66 ATAAAACCATATGAACC
* * * * ** *
976651 AACAAGTTAAAAGGGTTAGCCAAGAGGAAACCATACAAACCAACAAGTTAAAAAAGTTAACTGGG
1 AACAAGTTAAAAGGGTTGGCTAAGATGAAACCATACGAACCAACAAGTTAAAAGGGTTAGCTGGG
976716 ATAAAACCATA-GAA--
66 ATAAAACCATATGAACC
* * ** * * * * * *
976730 AGCAA--T--GA-GGCCGG----GGTAAAACCATATGAACCAACGAGTT-AGAGAGGTTA-ATCG
1 AACAAGTTAAAAGGGTTGGCTAAGATGAAACCATACGAACCAACAAGTTAAAAG-GGTTAGCT-G
* * *
976784 AGATGAAACCATATAAACC
64 GGATAAAACCATATGAACC
* ** * *
976803 AACAAGTTAGAAGGGTTGGCCGAGATGAAACCATACGAACCAACAAGTTAAAAGGGTTGGTTGGG
1 AACAAGTTAAAAGGGTTGGCTAAGATGAAACCATACGAACCAACAAGTTAAAAGGGTTAGCTGGG
* *
976868 ATGAAAA-CATACGAGCC
66 AT-AAAACCATATGAACC
* ** * ** * * * *
976885 AACAAGTTAAAAGGGTTAGCTGGGATGAAAACATACGAACCAATGAGTTTAAGGGGTTGGTTAGG
1 AACAAGTTAAAAGGGTTGGCTAAGATGAAACCATACGAACCAACAAGTTAAAAGGGTTAGCT-GG
* **
976950 G-TGAAACCATACAAACC
65 GATAAAACCATATGAACC
* * * * * * * * * * *
976967 AACTAGTT-AGAGAGGTTGGCTGAGA-CAAATTCAGATGAACCAA-TATTTAAAAGGGTTGGCTA
1 AACAAGTTAAAAG-GGTTGGCTAAGATGAAA-CCATACGAACCAACAAGTTAAAAGGGTTAGCTG
**
977029 GGACT-AAACCATACAAACC
64 GGA-TAAAACCATATGAACC
* ** ** * *
977048 AACGAGTTAAAAGGGTTGGCCGAGACAAAATCATATGAACCAACAAGTTA
1 AACAAGTTAAAAGGGTTGGCTAAGATGAAACCATACGAACCAACAAGTTA
977098 GAGGGGTTGG
Statistics
Matches: 344, Mismatches: 77, Indels: 52
0.73 0.16 0.11
Matches are distributed among these distances:
69 3 0.01
70 36 0.10
71 2 0.01
73 4 0.01
74 3 0.01
75 2 0.01
77 2 0.01
78 4 0.01
79 4 0.01
80 2 0.01
81 69 0.20
82 203 0.59
83 10 0.03
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (82 bp):
AACAAGTTAAAAGGGTTGGCTAAGATGAAACCATACGAACCAACAAGTTAAAAGGGTTAGCTGGG
ATAAAACCATATGAACC
Found at i:977143 original size:81 final size:80
Alignment explanation
Indices: 976788--977147 Score: 272
Period size: 82 Copynumber: 4.4 Consensus size: 80
976778 TAATCGAGAT
* ** * * *
976788 GAAACCATATAAACCAACAAGTTAGAAGGGTTGGCCGAGATGAAACCATACGAACCAACAAGTTA
1 GAAACCATACAAACCAACAAGTTA-AAGGGTTGGCCGAGACAAAATCAGATGAACCAA-AAGTTA
* * *
976853 AAAGGGTTGGTTGGGAT
64 AAAGGGTTGGCTAGGAC
* * * * * * * * * *
976870 GAAAACATACGAGCCAACAAGTTAAAAGGGTTAGCTGGGATGAAAA-CATACGAACCAATGAGTT
1 GAAACCATACAAACCAACAAGTT-AAAGGGTTGGCCGAGA-CAAAATCAGATGAACCAA-AAGTT
* * * **
976934 TAAGGGGTTGGTTAGGGT
63 AAAAGGGTTGGCTAGGAC
* * * * * *
976952 GAAACCATACAAACCAACTAGTTAGAGAGGTTGGCTGAGACAAATTCAGATGAACCAATATTTAA
1 GAAACCATACAAACCAACAAGTTAAAG-GGTTGGCCGAGACAAAATCAGATGAACCAAAAGTTAA
977017 AAGGGTTGGCTAGGAC
65 AAGGGTTGGCTAGGAC
* * *
977033 TAAACCATACAAACCAACGAGTTAAAAGGGTTGGCCGAGACAAAATCATATGAACCAACAAGTTA
1 GAAACCATACAAACCAACAAGTT-AAAGGGTTGGCCGAGACAAAATCAGATGAACCAA-AAGTTA
* *
977098 GAGGGGTTGGCTAGGAC
64 AAAGGGTTGGCTAGGAC
* * * * *
977115 GAATCTATACGAATCAACAAGCTTAAGGGGTTG
1 GAAACCATACAAACCAACAAG-TTAAAGGGTTG
977148 ATTGAGATGA
Statistics
Matches: 221, Mismatches: 50, Indels: 14
0.78 0.18 0.05
Matches are distributed among these distances:
81 70 0.32
82 145 0.66
83 6 0.03
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.20
Consensus pattern (80 bp):
GAAACCATACAAACCAACAAGTTAAAGGGTTGGCCGAGACAAAATCAGATGAACCAAAAGTTAAA
AGGGTTGGCTAGGAC
Found at i:977389 original size:65 final size:65
Alignment explanation
Indices: 977219--977407 Score: 172
Period size: 64 Copynumber: 2.9 Consensus size: 65
977209 AGTTGACCAA
* * *
977219 GACTAAACCAGTATAGTTAACTAAAGATGACTAGGATGAAACCTAAGTCGAGAAGGGTTGATGAG
1 GACTAAACCAGTATAGTCAACTAAAGATGACTAGGATGAAACCCAAGTCGAGAAGGGTTGAAGAG
* * * *
977284 GA-TAAACCCA-TAAAATCAACTAAAGATGACAAGGACGAAACCCAAGT-GTTA-AAGGGTT-AA
1 GACTAAA-CCAGTATAGTCAACTAAAGATGACTAGGATGAAACCCAAGTCG--AGAAGGGTTGAA
977344 GAAG
63 G-AG
* * * * ** * *
977348 TACTAAACCAGTATAGTCAAGTAAAGGTAACTAGGATGAAACTTAAGTTGAGAATGGTTG
1 GACTAAACCAGTATAGTCAACTAAAGATGACTAGGATGAAACCCAAGTCGAGAAGGGTTG
977408 TTTGGAGGAT
Statistics
Matches: 97, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
63 3 0.03
64 49 0.51
65 44 0.45
66 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (65 bp):
GACTAAACCAGTATAGTCAACTAAAGATGACTAGGATGAAACCCAAGTCGAGAAGGGTTGAAGAG
Found at i:979646 original size:42 final size:41
Alignment explanation
Indices: 979596--979691 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 41
979586 TATTCCCACA
*
979596 TTTTTTTCATTTTTTTCTTTTTTACTATCTG-TTTTTTTT-CT
1 TTTTTTTCATTTTTTT-TGTTTTAC-ATCTGTTTTTTTTTGCT
** *
979637 TTTCTTTTCATGCTTTTTGTTTTACATGTGTTTTTTTTTGCT
1 TTT-TTTTCATTTTTTTTGTTTTACATCTGTTTTTTTTTGCT
979679 TTTTTTTCATTTT
1 TTTTTTTCATTTT
979692 GATTTTTCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
40 4 0.09
41 26 0.57
42 16 0.35
ACGTcount: A:0.07, C:0.11, G:0.06, T:0.75
Consensus pattern (41 bp):
TTTTTTTCATTTTTTTTGTTTTACATCTGTTTTTTTTTGCT
Found at i:984296 original size:98 final size:95
Alignment explanation
Indices: 984118--984330 Score: 250
Period size: 98 Copynumber: 2.2 Consensus size: 95
984108 CGGAGGAATG
* *
984118 GGGTTGGAGTAT-CCCGACGATGATAATTTAAGCAAAAATAAGAATTATCTTAACAAGTTTAAAA
1 GGGTTGGAGTATCCCCAATGATGATAATTTAAGCAAAAATAAGAATTATCTTAACAAGTTTAAAA
* *
984182 ATGGGGTTGGAGTATCCCCTC-AAAATAATA
66 ATGGGGTTGAAATATCCCCTCGAAAA-AATA
* * ** * **
984212 GGGTTTGAGTATCCCCAATGATGATAATTTAAGCAAAATTAAGGTTTAAATCTTGATCATTTTTA
1 GGGTTGGAGTATCCCCAATGATGATAATTTAAGCAAAAATAAGAATT--ATCTT-AACAAGTTTA
* *
984277 AAAATGTGGTTGAAATATCCCCTCGAAAAAATG
63 AAAATGGGGTTGAAATATCCCCTCGAAAAAATA
*
984310 GGGTTGGAGTATCCCTAATGA
1 GGGTTGGAGTATCCCCAATGA
984331 AGGAAATTTT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
94 11 0.11
95 29 0.29
97 5 0.05
98 50 0.51
99 4 0.04
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (95 bp):
GGGTTGGAGTATCCCCAATGATGATAATTTAAGCAAAAATAAGAATTATCTTAACAAGTTTAAAA
ATGGGGTTGAAATATCCCCTCGAAAAAATA
Found at i:997041 original size:1 final size:1
Alignment explanation
Indices: 997031--997087 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
997021 TGGCAATTGG
* * * ** * *
997031 AAAAAGAAAAAAACAAAACAAAAAAAAGGAAAAAGAAAAAAAAAACAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
997088 GTGAAGATTT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:997070 original size:17 final size:16
Alignment explanation
Indices: 997031--997087 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
997021 TGGCAATTGG
*
997031 AAAAAGAAAAAAACAA
1 AAAAAAAAAAAAACAA
**
997047 AACAAAAAAAAGGA-AA
1 AA-AAAAAAAAAAACAA
*
997063 AAGAAAAAAAAAACAA
1 AAAAAAAAAAAAACAA
997079 AAAAAAAAA
1 AAAAAAAAA
997088 GTGAAGATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 8 0.25
16 16 0.50
17 8 0.25
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAACAA
Found at i:997077 original size:27 final size:29
Alignment explanation
Indices: 997029--997084 Score: 98
Period size: 27 Copynumber: 2.0 Consensus size: 29
997019 CATGGCAATT
997029 GGAAAAAGAAAAAAACAAAACAAAAAAAA
1 GGAAAAAGAAAAAAACAAAACAAAAAAAA
997058 GGAAAAAG-AAAAAA-AAAACAAAAAAAA
1 GGAAAAAGAAAAAAACAAAACAAAAAAAA
997085 AAAGTGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 13 0.48
28 6 0.22
29 8 0.30
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (29 bp):
GGAAAAAGAAAAAAACAAAACAAAAAAAA
Found at i:997085 original size:29 final size:29
Alignment explanation
Indices: 997029--997088 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
997019 CATGGCAATT
*
997029 GGAAAAAGAAAAAAACAAAACAAAAAAAA
1 GGAAAAAGAAAAAAACAAAAAAAAAAAAA
*
997058 GGAAAAAGAAAAAAAAAACAAAAAAAAAAA
1 GGAAAAAGAAAAAAACAA-AAAAAAAAAAA
997088 G
1 G
997089 TGAAGATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (29 bp):
GGAAAAAGAAAAAAACAAAAAAAAAAAAA
Found at i:999684 original size:14 final size:13
Alignment explanation
Indices: 999655--999680 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
999645 TGATATTTGT
999655 TTATATTGTAAAA
1 TTATATTGTAAAA
999668 TTATATTGTAAAA
1 TTATATTGTAAAA
999681 ATTAAATAGA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TTATATTGTAAAA
Found at i:1000581 original size:20 final size:21
Alignment explanation
Indices: 1000556--1000598 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1000546 AATAGAAAAA
1000556 TACTTAAAAATTGAT-TTTTT
1 TACTTAAAAATTGATCTTTTT
* *
1000576 TACTTAAATATTTATCTTTTT
1 TACTTAAAAATTGATCTTTTT
1000597 TA
1 TA
1000599 TTTGATATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (21 bp):
TACTTAAAAATTGATCTTTTT
Found at i:1003612 original size:39 final size:38
Alignment explanation
Indices: 1003413--1003612 Score: 86
Period size: 39 Copynumber: 5.1 Consensus size: 38
1003403 TTTTAATGCA
*
1003413 AAAATCACTAAAATGACCTTATAGACATATTTTGATATG
1 AAAAT-ACTAAAATGACCTTATGGACATATTTTGATATG
* ** * ** * * *
1003452 AAAGTGTTAATATGATCC-TAAAGAC-TCAGTTTTAATGTA
1 AAAATACTAAAATGA-CCTTATGGACAT-A-TTTTGATATG
* * *
1003491 AAAATTAC-AAAATTGACCTCATGAACACATTTTGATATG
1 AAAA-TACTAAAA-TGACCTTATGGACATATTTTGATATG
* ** * * * **
1003530 AAAGTGGTAATATGATCTTAAGGATTTGATTTT-A-ATG
1 AAAATACTAAAATGACCTTATGGACAT-ATTTTGATATG
1003567 CAAAAATCACTAAAATGACCTTATGGACATATTTTGATATG
1 --AAAAT-ACTAAAATGACCTTATGGACATATTTTGATATG
1003608 AAAAT
1 AAAAT
1003613 GCAAATATGA
Statistics
Matches: 108, Mismatches: 39, Indels: 28
0.62 0.22 0.16
Matches are distributed among these distances:
37 4 0.04
38 24 0.22
39 53 0.49
40 24 0.22
41 3 0.03
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (38 bp):
AAAATACTAAAATGACCTTATGGACATATTTTGATATG
Found at i:1003620 original size:78 final size:78
Alignment explanation
Indices: 1003328--1003643 Score: 304
Period size: 78 Copynumber: 4.1 Consensus size: 78
1003318 AACATGGTCC
* * * * * * *
1003328 TAATGCTAAAATGACTAAAGTGA-CTCTAAGGACATGTTTTGACATGAGAGTGCTACATA--A-C
1 TAATGCAAAAATCACTAAAATGACCT-TATGGACATATTTTGATATGAAAGTGCTA-ATATGATC
* *
1003389 CTTAAAAGACTAAGTTT
64 C-T-AAGGACTCAGTTT
* *
1003406 TAATGCAAAAATCACTAAAATGACCTTATAGACATATTTTGATATGAAAGTGTTAATATGATCCT
1 TAATGCAAAAATCACTAAAATGACCTTATGGACATATTTTGATATGAAAGTGCTAATATGATCCT
*
1003471 AAAGACTCAGTTT
66 AAGGACTCAGTTT
* * * * * * *
1003484 TAATGTAAAAATTAC-AAAATTGACCTCATGAACACATTTTGATATGAAAGTGGTAATATGATCT
1 TAATGCAAAAATCACTAAAA-TGACCTTATGGACATATTTTGATATGAAAGTGCTAATATGATCC
**
1003548 TAAGGA-TTTGATTT
65 TAAGGACTCAG-TTT
* *
1003562 TAATGCAAAAATCACTAAAATGACCTTATGGACATATTTTGATATGAAAATGCAAATATGATCCT
1 TAATGCAAAAATCACTAAAATGACCTTATGGACATATTTTGATATGAAAGTGCTAATATGATCCT
* *
1003627 AAGAACTCA-ATT
66 AAGGACTCAGTTT
1003639 TAATG
1 TAATG
1003644 TGGAAATTAT
Statistics
Matches: 196, Mismatches: 34, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
77 16 0.08
78 169 0.86
79 9 0.05
80 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (78 bp):
TAATGCAAAAATCACTAAAATGACCTTATGGACATATTTTGATATGAAAGTGCTAATATGATCCT
AAGGACTCAGTTT
Found at i:1003671 original size:78 final size:79
Alignment explanation
Indices: 1003575--1003769 Score: 198
Period size: 79 Copynumber: 2.5 Consensus size: 79
1003565 TGCAAAAATC
* ** * * * *
1003575 ACTAAAATGACCTT-ATGGACATATTTTGATATGAAAATGCAAATATGATCCTAAGAACTC-AAT
1 ACTAAAATGACATTAATGGACATACATTGATATAAAAATACAAACATGACCCTAAGAACTCGAAT
1003638 TTAATGTGGAA-ATT
66 TTAATGT-GAATATT
* * * * * *
1003652 ATTATAATGACATTAATGGACATGCATTGATATAAAAATACCAACATGACCCTAAGGACTCGACT
1 ACTAAAATGACATTAATGGACATACATTGATATAAAAATACAAACATGACCCTAAGAACTCGAAT
1003717 TTAATGTGAATATT
66 TTAATGTGAATATT
* * * * *
1003731 ACTAAAATAACATTAAGGGATATGCATTGATATAGAAAT
1 ACTAAAATGACATTAATGGACATACATTGATATAAAAAT
1003770 GCGAATGTGA
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
77 11 0.11
78 40 0.42
79 45 0.47
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (79 bp):
ACTAAAATGACATTAATGGACATACATTGATATAAAAATACAAACATGACCCTAAGAACTCGAAT
TTAATGTGAATATT
Found at i:1003708 original size:156 final size:155
Alignment explanation
Indices: 1003403--1003709 Score: 352
Period size: 156 Copynumber: 2.0 Consensus size: 155
1003393 AAAGACTAAG
* **
1003403 TTTTAATGCAAAAATCACTAAAATGACCTTATAGACATATTTTGATATGAAAGTGTTAATATGAT
1 TTTTAATGCAAAAATCACTAAAATGACCTTATAGACATATTTTGATATGAAAATGCAAATATGAT
* * *
1003468 CCTAAAGACTCAGTTTTAATGTAAAAATTACAAAATTGACCTCATGAACACATTTTGATATGAAA
66 CCTAAAGACTCAGATTTAATGTAAAAATTACAAAATTGACCTAATGAACACA-TTTGATATAAAA
* *** * * *
1003533 GTGGTAATATGATCTTAAGGATTTGA
130 ATACCAACATGACCCTAAGGATTTGA
*
1003559 TTTTAATGCAAAAATCACTAAAATGACCTTATGGACATATTTTGATATGAAAATGCAAATATGAT
1 TTTTAATGCAAAAATCACTAAAATGACCTTATAGACATATTTTGATATGAAAATGCAAATATGAT
** * * * *
1003624 CCT-AAGAACTCA-ATTTAATGTGGAAATTATTATAA-TGACATTAATGGACATGCA-TTGATAT
66 CCTAAAG-ACTCAGATTTAATGTAAAAATTA-CAAAATTGAC-CTAATGAACA--CATTTGATAT
1003685 AAAAATACCAACATGACCCTAAGGA
126 AAAAATACCAACATGACCCTAAGGA
1003710 CTCGACTTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
155 21 0.17
156 103 0.82
158 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (155 bp):
TTTTAATGCAAAAATCACTAAAATGACCTTATAGACATATTTTGATATGAAAATGCAAATATGAT
CCTAAAGACTCAGATTTAATGTAAAAATTACAAAATTGACCTAATGAACACATTTGATATAAAAA
TACCAACATGACCCTAAGGATTTGA
Found at i:1003781 original size:79 final size:78
Alignment explanation
Indices: 1003600--1003810 Score: 203
Period size: 79 Copynumber: 2.7 Consensus size: 78
1003590 TGGACATATT
* * * *
1003600 TTGATAT-GAAAATGCAAATATGATCCTAAGAACTCAATTTAATGTGGAAATTATTATAATGACA
1 TTGATATAG-AAATGCAAATATGACCCTAAGAACTCAATTTAATGTGGAAATTACTAAAATAACA
*
1003664 TTAATGGACATGCA
65 TTAAGGGACATGCA
* * * * * *
1003678 TTGATATAAAAATACCAACATGACCCTAAGGACTCGACTTTAATGT-GAATATTACTAAAATAAC
1 TTGATATAGAAATGCAAATATGACCCTAAGAACTC-AATTTAATGTGGAA-ATTACTAAAATAAC
*
1003742 ATTAAGGGATATGCA
64 ATTAAGGGACATGCA
* * * * *
1003757 TTGATATAGAAATGCGAATGTGACCCTACA-TACTCCATTTTAATGTTGAAATTA
1 TTGATATAGAAATGCAAATATGACCCTA-AGAACT-CAATTTAATGTGGAAATTA
1003811 TCAAAATGAC
Statistics
Matches: 108, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
78 31 0.29
79 72 0.67
80 5 0.05
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (78 bp):
TTGATATAGAAATGCAAATATGACCCTAAGAACTCAATTTAATGTGGAAATTACTAAAATAACAT
TAAGGGACATGCA
Found at i:1003903 original size:28 final size:28
Alignment explanation
Indices: 1003850--1003904 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
1003840 GTTATGCATT
* *
1003850 AAATGACCAAATGACCATTGATTATGCC
1 AAATGACCAAATGACCATAGAGTATGCC
*
1003878 AAATGACTCAAATGACCCTAG-GTATGC
1 AAATGAC-CAAATGACCATAGAGTATGC
1003905 ATATTGAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (28 bp):
AAATGACCAAATGACCATAGAGTATGCC
Found at i:1005347 original size:2 final size:2
Alignment explanation
Indices: 1005340--1005374 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1005330 ATTAAAACTC
1005340 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1005375 CAAAAGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1008752 original size:2 final size:2
Alignment explanation
Indices: 1008745--1008777 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1008735 AAAGAAAATG
1008745 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
1008778 AATTGTAAGA
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:1012563 original size:34 final size:29
Alignment explanation
Indices: 1012476--1012552 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
1012466 GTTTCGTTGG
* *
1012476 TGTCTTCATTGC-AGTAGCAGTTTCTTTTT
1 TGTCTTCATTGCTA-CAGCTGTTTCTTTTT
1012505 TGTCTTCATTGCTACAGCTGTTTCTTTTT
1 TGTCTTCATTGCTACAGCTGTTTCTTTTT
1012534 TGTCTTCATTGCTACAGCT
1 TGTCTTCATTGCTACAGCT
1012553 TAATTGTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 44 0.98
30 1 0.02
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.51
Consensus pattern (29 bp):
TGTCTTCATTGCTACAGCTGTTTCTTTTT
Found at i:1012565 original size:25 final size:25
Alignment explanation
Indices: 1012536--1012603 Score: 111
Period size: 25 Copynumber: 2.7 Consensus size: 25
1012526 TTCTTTTTTG
*
1012536 TCTTCATTGC-TACAGCTTAATTGTT
1 TCTTCATTGCAT-CAGCTTAATTGCT
1012561 TCTTCATTGCATCAGCTTAATTGCT
1 TCTTCATTGCATCAGCTTAATTGCT
1012586 TCTTCATTGCATCAGCTT
1 TCTTCATTGCATCAGCTT
1012604 TCATTTATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 40 0.98
26 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.46
Consensus pattern (25 bp):
TCTTCATTGCATCAGCTTAATTGCT
Found at i:1013091 original size:21 final size:21
Alignment explanation
Indices: 1013033--1013077 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1013023 TAATTAATTA
*
1013033 ATTA-ATTATTACTATTTTATT
1 ATTATATTATTA-TTTTTTATT
1013054 ATTATATTATTATTTTTTATT
1 ATTATATTATTATTTTTTATT
1013075 ATT
1 ATT
1013078 GTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTATATTATTATTTTTTATT
Found at i:1016476 original size:13 final size:13
Alignment explanation
Indices: 1016458--1016482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1016448 CAAAGATCAG
1016458 TGTATCGATACAA
1 TGTATCGATACAA
1016471 TGTATCGATACA
1 TGTATCGATACA
1016483 TTTGAGTAAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1016545 original size:13 final size:13
Alignment explanation
Indices: 1016527--1016578 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1016517 AGCTTCATAG
1016527 CGATACATTGTAT
1 CGATACATTGTAT
1016540 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1016559 CGATACATTGTAT
1 CGATACATTGTAT
1016572 CGATACA
1 CGATACA
1016579 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1016559 original size:19 final size:19
Alignment explanation
Indices: 1016535--1016599 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
1016525 AGCGATACAT
1016535 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1016554 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
1016567 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1016586 TGTATCGATACAAA
1 TGTATCGATACAAA
1016600 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1016568 original size:32 final size:32
Alignment explanation
Indices: 1016527--1016597 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1016517 AGCTTCATAG
1016527 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1016559 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1016591 CGATACA
1 CGATACA
1016598 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1022897 original size:6 final size:6
Alignment explanation
Indices: 1022857--1022913 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
1022847 AAAGTTAGGT
**
1022857 AAAAA- AAAAAG AAAGAAG ATGAAG AAGAAAG --AAAG AAAAAG AAAAA-
1 AAAAAG AAAAAG AAA-AAG AAAAAG AA-AAAG AAAAAG AAAAAG AAAAAG
1022903 AAAAAG AAAAA
1 AAAAAG AAAAA
1022914 ATATAAAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
4 4 0.10
5 10 0.24
6 21 0.50
7 7 0.17
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:1022921 original size:17 final size:17
Alignment explanation
Indices: 1022878--1022913 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1022868 AAAGAAGATG
* *
1022878 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
1022895 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
1022912 AA
1 AA
1022914 ATATAAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:1030764 original size:27 final size:27
Alignment explanation
Indices: 1030727--1031632 Score: 1328
Period size: 27 Copynumber: 33.0 Consensus size: 27
1030717 GTGGCATTTT
* *
1030727 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1030755 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1030782 CTTTTAAAGTCCACAACTCCGTGCCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1030810 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1030837 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1030864 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1030891 CTTTTAAGTCCACAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1030919 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1030946 CTTTTAAGTCTACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** * *
1030973 CTTTTAAGTCCACAACTCTTTAGCATGC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1031001 C-TTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1031027 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1031054 CTTTTTAAGTCCACAACTCCGTGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
1031082 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
1031110 CTTTTAAGACCACTACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1031137 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1031164 CTTTTAAGTCCATAACTCCGTGACATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1031192 CTTTTAAGTCCACAACTCTGTGGCACG
1 CTTTTAAGTCCACAACTCCGTGGCACC
1031219 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1031247 CTTTTAAGACCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
1031274 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1031301 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1031329 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1031356 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1031384 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1031411 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1031438 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1031466 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1031493 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1031521 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1031549 CTTTTAAGTCCACAACTCGGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1031576 CTTTTAAAATCCACAACTCCGTGGCTCT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1031604 CTTTTAAAATCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1031632 C
1 C
1031633 ATTTCAAAGC
Statistics
Matches: 797, Mismatches: 67, Indels: 28
0.89 0.08 0.03
Matches are distributed among these distances:
26 2 0.00
27 473 0.59
28 322 0.40
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1030795 original size:55 final size:54
Alignment explanation
Indices: 1030727--1031632 Score: 1328
Period size: 55 Copynumber: 16.5 Consensus size: 54
1030717 GTGGCATTTT
* * * *
1030727 CTTTTAAAGTCCACAACTCTGTGGCATCTTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1030782 CTTTTAAAGTCCACAACTCCGTGCCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1030837 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1030891 CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* ** * *
1030946 CTTTTAAGTCTACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTTTAGCATGC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
1031001 C-TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1031054 CTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 C-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
1031110 CTTTTAAGACCACTACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * * *
1031164 CTTTTAAGTCCATAACTCCGTGACATCTCTTTTAAGTCCACAACTCTGTGGCACG
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1031219 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1031274 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
1031329 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
*
1031384 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
1031438 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1031493 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * * *
1031549 CTTTTAAGTCCACAACTCGGTAGCACCCTTTTAAAATCCACAACTCCGTGGCTCT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
1031604 CTTTTAAAATCCACAACTCTGTGGCACCC
1 CTTTT-AAGTCCACAACTCCGTGGCACCC
1031633 ATTTCAAAGC
Statistics
Matches: 776, Mismatches: 61, Indels: 27
0.90 0.07 0.03
Matches are distributed among these distances:
53 2 0.00
54 253 0.33
55 419 0.54
56 102 0.13
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1031197 original size:137 final size:137
Alignment explanation
Indices: 1030727--1031641 Score: 1394
Period size: 137 Copynumber: 6.7 Consensus size: 137
1030717 GTGGCATTTT
* * * * *
1030727 CTTTTAAAGTCCACAACTCTGTGGCATCTTTTTAAGTCCACAACTCTGTGGCA-CCCTTTTAAAG
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTT-AAG
* * * *
1030791 TCCACAACTCCGTGCCACCCTTTT-AAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTC
64 TCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTC
1030855 CGTGGCACC
129 CGTGGCACC
1030864 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTC
* * * **
1030929 CACAACTCCGTGGCACCCTTTT-AAGTCTACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTT
66 CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCG
* *
1030993 TAGCATGC
131 TGGCA-CC
*
1031001 C-TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTC-TTTTAAGT
* *
1031064 CCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACTACTC
65 CCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGACCACAACTC
*
1031128 TGTGGCACC
129 CGTGGCACC
* *
1031137 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGACATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTC
*
1031202 CACAACTCTGTGGCACGCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCG
66 CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCG
*
1031267 TGGCACT
131 TGGCACC
*
1031274 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTC
1031339 CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCG
66 CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCG
1031404 TGGCACC
131 TGGCACC
*
1031411 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTC
* *
1031476 CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCG
66 CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCG
*
1031541 TGGCATCT
131 TGGCA-CC
* * * *
1031549 CTTTTAAGTCCACAACTCGGTAGCACCCTTTTAAAATCCACAACTCCGTGGC-TCTCTTTTAAAA
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCTCTTTT-AAG
*
1031613 TCCACAACTCTGTGGCACCCATTTCAAAG
64 TCCACAACTCTGTGGCACCC-TTTTAAAG
1031642 CCCAAACAAG
Statistics
Matches: 728, Mismatches: 39, Indels: 19
0.93 0.05 0.02
Matches are distributed among these distances:
135 2 0.00
136 213 0.29
137 406 0.56
138 61 0.08
139 39 0.05
140 7 0.01
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (137 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTC
CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCG
TGGCACC
Found at i:1031666 original size:32 final size:32
Alignment explanation
Indices: 1031615--1032600 Score: 1638
Period size: 32 Copynumber: 30.8 Consensus size: 32
1031605 TTTTAAAATC
* *
1031615 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1031646 AACAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1031678 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1031710 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1031742 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1031774 CACAAGTCGGTGGCAA-TCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
*
1031806 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
1031838 CACAAGTCGGTGGCAACCCA-TTCTTTAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
1031870 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1031902 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1031934 CACAAGTCAGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1031966 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1031998 CAGAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1032030 CAGAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1032062 CACAAGTCGGTGGCAACCAATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1032094 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1032126 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1032158 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1032190 CACAAGTCAGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1032222 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1032254 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1032286 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1032318 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1032350 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1032382 CACAAGTCGGTGGCAACCCATTTCAAATCGCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
1032414 CACAAGTCGGTGGTAACCCATTCCAAAGCCTA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1032446 CAAAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1032478 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1032510 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1032542 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* **
1032574 CGCAAGTTAGTGGCAA-CCATTTTCAAA
1 CACAAGTCGGTGGCAACCCA-TTTCAAA
1032601 TCACCATTTT
Statistics
Matches: 900, Mismatches: 49, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
31 18 0.02
32 878 0.98
33 4 0.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1033855 original size:17 final size:15
Alignment explanation
Indices: 1033835--1033884 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
1033825 TTAGGTAAAA
1033835 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
1033852 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
*
1033866 AA-AAAGAAA-AAAA
1 AAGAAAGAAAGAAAG
1033879 AAGAAA
1 AAGAAA
1033885 AAATATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.17
14 12 0.40
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:1033881 original size:20 final size:20
Alignment explanation
Indices: 1033831--1033884 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1033821 AAAGTTAGGT
* *
1033831 AAAAAAGAAAGAAAGAAGATG
1 AAAAAA-AAAGAAAGAAAAAG
* *
1033852 AAGAAGAAAGAAAGAAAAAG
1 AAAAAAAAAGAAAGAAAAAG
1033872 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
1033885 AAATATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAGAAAAAG
Found at i:1033885 original size:10 final size:10
Alignment explanation
Indices: 1033858--1033887 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1033848 GATGAAGAAG
*
1033858 AAAGAAAGAA
1 AAAGAAAAAA
1033868 AAAGAAAAAA
1 AAAGAAAAAA
1033878 AAAGAAAAAA
1 AAAGAAAAAA
1033888 TATAAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:1033894 original size:16 final size:16
Alignment explanation
Indices: 1033832--1033886 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
1033822 AAGTTAGGTA
*
1033832 AAAAAGAAAGAAAGAAG
1 AAAAAGAAA-AAAAAAG
** *
1033849 ATGAAGAAGAAAGAAAG
1 AAAAAGAA-AAAAAAAG
1033866 AAAAAGAAAAAAAAAG
1 AAAAAGAAAAAAAAAG
1033882 AAAAA
1 AAAAA
1033887 ATATAAAATG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
16 12 0.40
17 17 0.57
18 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:1039833 original size:42 final size:43
Alignment explanation
Indices: 1039787--1040048 Score: 187
Period size: 42 Copynumber: 6.2 Consensus size: 43
1039777 ATTCTTCCCA
* *
1039787 GTCAAAGCCAATGGGCAGAC-AAAAGGT-GGAAAAGTCTCTATG
1 GTCAAAGCCAATAGGCAGACTAAAAGGTAGGAAAA-TCTCTAGG
* * *
1039829 GTCAAAGCCAATAGGCAGACTTAAGGGTATGAAAATCTCTAGG
1 GTCAAAGCCAATAGGCAGACTAAAAGGTAGGAAAATCTCTAGG
* * ** * ** * *
1039872 GTCAAAGCCGACAAACAGATTTTAGGGTAAGG-AAGTCTCTAGG
1 GTCAAAGCCAATAGGCAGACTAAAAGGT-AGGAAAATCTCTAGG
** *
1039915 GTCAAAGCCAATAGGCAGACT-TTAGGTACGG-CAATCTCTAGG
1 GTCAAAGCCAATAGGCAGACTAAAAGGTA-GGAAAATCTCTAGG
** * *
1039957 GTCAAAGCTGATAGGCAGACT-AAAGGTAGGAAACTCTCCAGG
1 GTCAAAGCCAATAGGCAGACTAAAAGGTAGGAAAATCTCTAGG
* * * * * * * *
1039999 TTCAAAGCCGACAGGCTGACT-AAAGGTAAGAAAGTCTCCAGA
1 GTCAAAGCCAATAGGCAGACTAAAAGGTAGGAAAATCTCTAGG
1040041 GTCAAAGC
1 GTCAAAGC
1040049 TGACAGGCAG
Statistics
Matches: 178, Mismatches: 37, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
41 3 0.02
42 108 0.61
43 60 0.34
44 7 0.04
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (43 bp):
GTCAAAGCCAATAGGCAGACTAAAAGGTAGGAAAATCTCTAGG
Found at i:1039899 original size:43 final size:43
Alignment explanation
Indices: 1039815--1040091 Score: 184
Period size: 42 Copynumber: 6.5 Consensus size: 43
1039805 ACAAAAGGTG
* * *
1039815 GAAAAGTCTCTATGGTCAAAGCCAATAGGCAGACTTAAGGGTAT
1 GAAAA-TCTCTAGGGTCAAAGCCAATAGGCAGACTTTAGGGTAA
* * ** *
1039859 GAAAATCTCTAGGGTCAAAGCCGACAAACAGATTTTAGGGTAA
1 GAAAATCTCTAGGGTCAAAGCCAATAGGCAGACTTTAGGGTAA
* * *
1039902 GGAAGTCTCTAGGGTCAAAGCCAATAGGCAGACTTTA-GGTAC
1 GAAAATCTCTAGGGTCAAAGCCAATAGGCAGACTTTAGGGTAA
** ** * * *
1039944 GGCAATCTCTAGGGTCAAAGCTGATAGGCAGAC-TAAAGGTAG
1 GAAAATCTCTAGGGTCAAAGCCAATAGGCAGACTTTAGGGTAA
* * * * * * * *
1039986 GAAACTCTCCAGGTTCAAAGCCGACAGGCTGAC-TAAAGGTAA
1 GAAAATCTCTAGGGTCAAAGCCAATAGGCAGACTTTAGGGTAA
* * * ** * * *
1040028 GAAAGTCTCCAGAGTCAAAGCTGACAGGCAGACTTGA-GGTGA
1 GAAAATCTCTAGGGTCAAAGCCAATAGGCAGACTTTAGGGTAA
* * *
1040070 GATAGTCTCTAAGGTCAAAGCC
1 GAAAATCTCTAGGGTCAAAGCC
1040092 GGCAGGTAGA
Statistics
Matches: 188, Mismatches: 43, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
41 2 0.01
42 119 0.63
43 62 0.33
44 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.20
Consensus pattern (43 bp):
GAAAATCTCTAGGGTCAAAGCCAATAGGCAGACTTTAGGGTAA
Found at i:1040054 original size:42 final size:41
Alignment explanation
Indices: 1039957--1040187 Score: 194
Period size: 42 Copynumber: 5.5 Consensus size: 41
1039947 AATCTCTAGG
* * * *
1039957 GTCAAAGCTGATAGGCAGACTAAAGGTAGGAAACTCTCCAG
1 GTCAAAGCTGACAGGCAGACTAAAGGTAAGAAAGTCTCCAA
* *
1039998 GTTCAAAGCCGACAGGCTGACTAAAGGTAAGAAAGTCTCCAGA
1 G-TCAAAGCTGACAGGCAGACTAAAGGTAAGAAAGTCTCCA-A
** * * *
1040041 GTCAAAGCTGACAGGCAGACTTGAGGTGAGATAGTCTCTAA
1 GTCAAAGCTGACAGGCAGACTAAAGGTAAGAAAGTCTCCAA
* * * * *
1040082 GGTCAAAGCCGGCAGGTAGACTGAAGGTAGGAAAGTCTCCAAA
1 -GTCAAAGCTGACAGGCAGACTAAAGGTAAGAAAGTCTCC-AA
* * * * * *
1040125 GACAAAGC-CAGCAGGCATACTGAGGGTAAGAAAGTCTTCAA
1 GTCAAAGCTGA-CAGGCAGACTAAAGGTAAGAAAGTCTCCAA
*
1040166 GGTCAAAGCTGATAGGCAGACT
1 -GTCAAAGCTGACAGGCAGACT
1040188 TTATATGAAG
Statistics
Matches: 149, Mismatches: 34, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
41 4 0.03
42 141 0.95
43 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (41 bp):
GTCAAAGCTGACAGGCAGACTAAAGGTAAGAAAGTCTCCAA
Found at i:1040062 original size:126 final size:125
Alignment explanation
Indices: 1039821--1040190 Score: 334
Period size: 126 Copynumber: 2.9 Consensus size: 125
1039811 GGTGGAAAAG
* * * * * *
1039821 TCTCTATGGTCAAAGCCAATAGGCAGACTTAAGGGTATGAAAATCTCTAGGGTCAAAGCCGACAA
1 TCTCTAAGGTCAAAGCCGATAGGCAGAC-TAAAGGTAGGAAAATCTCCA-GGTCAAAGCCGACAG
* * * * * * * ** *
1039886 ACAGATTTTAGGGTAAGGAAGTCTCTAGGGTCAAAGCCAATAGGCAGACTTTAGGT-ACGGCAA
64 GCTGA-CTAAGGGTAAGAAAGTCTCCAGAGTCAAAGCTGATAGGCAGACTTTAGGTGA-GACAA
* * *
1039949 TCTCTAGGGTCAAAGCTGATAGGCAGACTAAAGGTAGGAAACTCTCCAGGTTCAAAGCCGACAGG
1 TCTCTAAGGTCAAAGCCGATAGGCAGACTAAAGGTAGGAAAATCTCCAGG-TCAAAGCCGACAGG
* * * * *
1040014 CTGACTAAAGGTAAGAAAGTCTCCAGAGTCAAAGCTGACAGGCAGACTTGAGGTGAGATAG
65 CTGACTAAGGGTAAGAAAGTCTCCAGAGTCAAAGCTGATAGGCAGACTTTAGGTGAGACAA
** * * * * *
1040075 TCTCTAAGGTCAAAGCCGGCAGGTAGACTGAAGGTAGGAAAGTCTCCAAAGACAAAGCC-AGCAG
1 TCTCTAAGGTCAAAGCCGATAGGCAGACTAAAGGTAGGAAAATCTCC-AGGTCAAAGCCGA-CAG
* *
1040139 GCAT-ACTGAGGGTAAGAAAGTCTTCA-AGGTCAAAGCTGATAGGCAGACTTTA
64 GC-TGACTAAGGGTAAGAAAGTCTCCAGA-GTCAAAGCTGATAGGCAGACTTTA
1040191 TATGAAGTAG
Statistics
Matches: 199, Mismatches: 37, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
125 2 0.01
126 137 0.69
127 35 0.18
128 25 0.13
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (125 bp):
TCTCTAAGGTCAAAGCCGATAGGCAGACTAAAGGTAGGAAAATCTCCAGGTCAAAGCCGACAGGC
TGACTAAGGGTAAGAAAGTCTCCAGAGTCAAAGCTGATAGGCAGACTTTAGGTGAGACAA
Found at i:1040187 original size:84 final size:84
Alignment explanation
Indices: 1039817--1040187 Score: 221
Period size: 84 Copynumber: 4.4 Consensus size: 84
1039807 AAAAGGTGGA
* * * * * * * ** * *
1039817 AAAGTCTCTATGGTCAAAGCCAATAGGCAGACTTAAGGGTATGAAAATCTCTAGGGTCAAAGCCG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGAC-TAAAGGTAAGAAAGTCTCCAAAGACAAAGCAG
** * *
1039882 ACAAACAGATTTTAGGGTAAG
65 ACAGGCAGACTTGA-GGTAAG
* * * * ** * * * ** * *
1039903 GAAGTCTCTAGGGTCAAAGCCAATAGGCAGACTTTAGGTACGGCAA-TCTCTAGGGTCAAAGCTG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGGTA-AGAAAGTCTCCAAAGACAAAGCAG
* ** *
1039967 ATAGGCAGACTAAAGGTAGG
65 ACAGGCAGACTTGAGGTAAG
* * * * * *
1039987 AAACTCTC-CAGGTTCAAAGCCGACAGGCTGACTAAAGGTAAGAAAGTCTCCAGAGTCAAAGCTG
1 AAAGTCTCTAAGG-TCAAAGCCGACAGGCAGACTAAAGGTAAGAAAGTCTCCAAAGACAAAGCAG
*
1040051 ACAGGCAGACTTGAGGTGAG
65 ACAGGCAGACTTGAGGTAAG
* * * * *
1040071 ATAGTCTCTAAGGTCAAAGCCGGCAGGTAGACTGAAGGTAGGAAAGTCTCCAAAGACAAAGCCAG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAGAAAGTCTCCAAAGACAAAG-CAG
*
1040136 -CAGGCATAC-TGAGGGTAAG
65 ACAGGCAGACTTGA-GGTAAG
* *
1040155 AAAGTCT-TCAAGGTCAAAGCTGATAGGCAGACT
1 AAAGTCTCT-AAGGTCAAAGCCGACAGGCAGACT
1040188 TTATATGAAG
Statistics
Matches: 227, Mismatches: 51, Indels: 16
0.77 0.17 0.05
Matches are distributed among these distances:
83 9 0.04
84 150 0.66
85 35 0.15
86 33 0.15
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (84 bp):
AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAGAAAGTCTCCAAAGACAAAGCAGA
CAGGCAGACTTGAGGTAAG
Found at i:1040202 original size:126 final size:126
Alignment explanation
Indices: 1039949--1040227 Score: 307
Period size: 126 Copynumber: 2.2 Consensus size: 126
1039939 GGTACGGCAA
* * * * *
1039949 TCTCTAGGGTCAAAGCTGATAGGCAGACTAAAGGTAGGAAACTCTCCAGGTTCAAAGCCGACAGG
1 TCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGGTAGGAAACTCTCCAAGTACAAAGCCGACAGG
* *
1040014 CTGACTAAAGGTAAGAAAGTCTCCAGAGTCAAAGCTGACAGGCAGACTTGAGGTGAGATAG
66 CTGACTAAAGGTAAGAAAGTCTCAAGAGTCAAAGCTGACAGGCAGACTTGAGATGAGATAG
* * * *
1040075 TCTCTAAGGTCAAAGCCGGCAGGTAGACTGAAGGTAGGAAAGTCTCCAAAG-ACAAAGCC-AGCA
1 TCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGGTAGGAAACTCTCC-AAGTACAAAGCCGA-CA
* * * * *
1040138 GGCAT-ACTGAGGGTAAGAAAGTCTTCAAG-GTCAAAGCTGATAGGCAGACTTTATATGA-AGTA
64 GGC-TGACTAAAGGTAAGAAAGTC-TCAAGAGTCAAAGCTGACAGGCAGACTTGAGATGAGA-TA
1040200 G
126 G
* * *
1040201 TCTCCAAGGTCAAGGCCGACAGACAGA
1 TCTCTAAGGTCAAAGCCGACAGGCAGA
1040228 TTGAGGGTAA
Statistics
Matches: 127, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
125 2 0.02
126 118 0.93
127 7 0.06
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (126 bp):
TCTCTAAGGTCAAAGCCGACAGGCAGACTAAAGGTAGGAAACTCTCCAAGTACAAAGCCGACAGG
CTGACTAAAGGTAAGAAAGTCTCAAGAGTCAAAGCTGACAGGCAGACTTGAGATGAGATAG
Found at i:1054735 original size:29 final size:29
Alignment explanation
Indices: 1054692--1054751 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1054682 TAATTTCATT
1054692 TTGCAGCAGCTGTTTCATTGGTGTCTTCA
1 TTGCAGCAGCTGTTTCATTGGTGTCTTCA
* **
1054721 TTGCAGCAG-TAGTTTCTTTTTTGTCTTCA
1 TTGCAGCAGCT-GTTTCATTGGTGTCTTCA
1054750 TT
1 TT
1054752 ACTGCAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.13, C:0.18, G:0.20, T:0.48
Consensus pattern (29 bp):
TTGCAGCAGCTGTTTCATTGGTGTCTTCA
Found at i:1054833 original size:25 final size:25
Alignment explanation
Indices: 1054769--1054836 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
1054759 CTATTTCTTG
*
1054769 TCTTCATTGCTAT-AACTTAATTGCT
1 TCTTCATTGC-ATCAGCTTAATTGCT
* *
1054794 TCTTCACTACATCAGCTTAATTGCT
1 TCTTCATTGCATCAGCTTAATTGCT
1054819 TCTTCATTGCATCAGCTT
1 TCTTCATTGCATCAGCTT
1054837 TCATTTCTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 2 0.05
25 35 0.95
ACGTcount: A:0.22, C:0.25, G:0.09, T:0.44
Consensus pattern (25 bp):
TCTTCATTGCATCAGCTTAATTGCT
Found at i:1055016 original size:59 final size:58
Alignment explanation
Indices: 1054943--1055054 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 58
1054933 CATTTGCTCC
1054943 ATGTTCACGTGTGAAA-ACATGCATAAAAGCATGCATGAAATGC-ATGAAATGTTTCGCTG
1 ATGTTCACGTGTGAAATACATGCATAAAAGCA---ATGAAATGCAATGAAATGTTTCGCTG
* * * *
1055002 ATGTTCATGTGTGAAATGCATGCATGAAAGCAATGAAATGCAATGCAATGTTT
1 ATGTTCACGTGTGAAATACATGCATAAAAGCAATGAAATGCAATGAAATGTTT
1055055 TTGCCGTTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 9 0.19
58 10 0.21
59 15 0.32
60 13 0.28
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (58 bp):
ATGTTCACGTGTGAAATACATGCATAAAAGCAATGAAATGCAATGAAATGTTTCGCTG
Found at i:1055112 original size:12 final size:13
Alignment explanation
Indices: 1055097--1055125 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1055087 CGTGTGAACA
1055097 CATGCATGAAA-G
1 CATGCATGAAATG
1055109 CATGCATGAAATG
1 CATGCATGAAATG
1055122 CATG
1 CATG
1055126 AAATGTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (13 bp):
CATGCATGAAATG
Found at i:1055318 original size:6 final size:6
Alignment explanation
Indices: 1055278--1055335 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
1055268 TAATTAACTA
* * * * *
1055278 TTTTAT TATTA- TATTAT TCTTAT TATGAT TATTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT
1055326 TTTTAT TTTT
1 TTTTAT TTTT
1055336 TTGTTTTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
5 5 0.11
6 35 0.80
7 4 0.09
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:1056281 original size:21 final size:21
Alignment explanation
Indices: 1056256--1056312 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
1056246 AAAAAATTTA
*
1056256 AATGTATCGATACATTTGTAGG
1 AATGTATCGATACATTCGT-GG
1056278 -ATGTATCGATACATTCGTGG
1 AATGTATCGATACATTCGTGG
1056298 AATGTATCGATACAT
1 AATGTATCGATACAT
1056313 CCTACAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTCGTGG
Found at i:1056392 original size:19 final size:19
Alignment explanation
Indices: 1056368--1056435 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1056358 AATTCAACAA
1056368 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1056387 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1056402 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1056419 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1056436 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1056407 original size:13 final size:13
Alignment explanation
Indices: 1056389--1056413 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1056379 ACATAAGTTT
1056389 TGTATCGATACAA
1 TGTATCGATACAA
1056402 TGTATCGATACA
1 TGTATCGATACA
1056414 TAAGTATTGT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1056411 original size:32 final size:32
Alignment explanation
Indices: 1056370--1056432 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1056360 TTCAACAATT
*
1056370 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1056402 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1056433 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1056480 original size:20 final size:20
Alignment explanation
Indices: 1056455--1056509 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1056445 GCCAAGGAAA
*
1056455 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTATCTG
** *
1056475 TGTATCGATACATGGATCTT
1 TGTATCGATACATTTATCTG
1056495 TGTATCGATACATTT
1 TGTATCGATACATTT
1056510 GGAAATTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTATCTG
Found at i:1059042 original size:52 final size:51
Alignment explanation
Indices: 1058969--1059138 Score: 186
Period size: 52 Copynumber: 3.3 Consensus size: 51
1058959 TTATTTTCGA
*
1058969 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCCACAATC
* **
1059021 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTA-TTTCAAAACACCAATTTTTCC-ACAATC
* *
1059073 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCCACAATC
*
1059125 GAGGATACTCCAAC
1 GGGGATACTCCAAC
1059139 CTCGTTATTT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
51 14 0.14
52 69 0.69
53 13 0.13
54 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCCACAATC
Found at i:1059158 original size:28 final size:28
Alignment explanation
Indices: 1059122--1059198 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
1059112 ATTTTTCACA
* * *
1059122 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1059150 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1059178 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1059199 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1059272 original size:28 final size:28
Alignment explanation
Indices: 1059232--1059285 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
1059222 TCTCATAATT
1059232 AGGGATACTCCAACCCCG-TTATTTTCGA
1 AGGGATACTCCAACCCCGATT-TTTTCGA
*
1059260 AGGGATACTCCAATCCCGATTTTTTC
1 AGGGATACTCCAACCCCGATTTTTTC
1059286 TAATCATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (28 bp):
AGGGATACTCCAACCCCGATTTTTTCGA
Found at i:1059331 original size:76 final size:78
Alignment explanation
Indices: 1059152--1059353 Score: 223
Period size: 76 Copynumber: 2.6 Consensus size: 78
1059142 GTTATTTCAT
* * * *
1059152 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
1059217 TGATTTCTCATAAT
65 CGATTTCTCACAAC
** * * *
1059231 TAGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTT-TT-TC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
1059293 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* *
1059307 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
1059354 TTATTATCTC
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
75 8 0.08
76 50 0.48
77 2 0.02
78 4 0.04
79 40 0.38
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:1071769 original size:1 final size:1
Alignment explanation
Indices: 1071763--1071804 Score: 57
Period size: 1 Copynumber: 42.0 Consensus size: 1
1071753 CCTTCTCTTC
* * *
1071763 AAAAAAAAAAAAAAAAAAGAAAAAAAAAACAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1071805 CAAAGAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.93, C:0.05, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:1072880 original size:55 final size:54
Alignment explanation
Indices: 1072795--1073580 Score: 1145
Period size: 55 Copynumber: 14.3 Consensus size: 54
1072785 TCCGCTTTTT
*
1072795 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1072850 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
1072905 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
1072960 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
1073015 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1073070 AGTCCCCAAAGAGTAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
1073125 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
1073180 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1073235 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1073290 AGTCCTCAAAGAGCAGGACACCTTTCAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
1073344 AGTCCTCAAAGAACAGGACACCTTTAAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
1073399 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
1073454 ATTCCCCAAAGAGCAGGACACTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
1073509 AGTCCTCAAAGAGCAGGACGCCTTTCAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1073563 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1073581 TACAATTTAT
Statistics
Matches: 682, Mismatches: 32, Indels: 35
0.91 0.04 0.05
Matches are distributed among these distances:
53 5 0.01
54 102 0.15
55 557 0.82
56 16 0.02
57 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:1073509 original size:29 final size:29
Alignment explanation
Indices: 1073417--1073509 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 29
1073407 AAGAGCAGGA
*
1073417 CACCTCTT-AAAGCCCACACAAGTTGGTGG
1 CACCT-TTCAAAGCCCACACAAGTGGGTGG
** * * *
1073446 CACCTTTC-ATTCCC-CA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
1073472 CACTTTTCAAAGCCCACACAAGTGGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
1073501 CACCTTTCA
1 CACCTTTCA
1073510 GTCCTCAAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 12
0.64 0.19 0.17
Matches are distributed among these distances:
26 11 0.24
27 7 0.16
28 9 0.20
29 18 0.40
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (29 bp):
CACCTTTCAAAGCCCACACAAGTGGGTGG
Done.