Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167931.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_194, whole genome shotgun sequence
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: 53419
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
File 1 of 2
Found at i:87 original size:13 final size:12
Alignment explanation
Indices: 66--117 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
56 TTACATATTG
66 TATAA-ATTTAT
1 TATAATATTTAT
77 TATAAATATTTAT
1 TAT-AATATTTAT
*
90 TATAATATTTAA
1 TATAATATTTAT
*
102 AACTAATATTTAT
1 TA-TAATATTTAT
115 TAT
1 TAT
118 TTATAAAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 3 0.09
12 12 0.35
13 19 0.56
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAATATTTAT
Found at i:770 original size:181 final size:178
Alignment explanation
Indices: 194--781 Score: 646
Period size: 181 Copynumber: 3.3 Consensus size: 178
184 TTAGTTTTTT
* * * * * *
194 GAACATGTTCAAATAATTCTGACTATTTGAAAAATTATTTATTTCAAATAGTTATGACCTTTTCT
1 GAACAAGTTCAAAT-AGTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGT
* * **
259 TTTGTGATAAACCAATTGTTTCTATCCATACAAGCTTATTCCGAATAAAATAAT--TAAATTTAT
65 TTTGTGATAAACCAATTGTTTCTATTCATATAAGCTTATTCAAAATAAAATAATACT-AATTTAT
* * **
322 TAATATTCTAAAATTTAATAAGTAAAAATTTTAAAAATAAATTTATGTT-TT
129 TAATATTCTAAAA-TTAATAAGTAAAAATTTAAAAAATAAATATAT-TTACC
* * *
373 GAACATGTTCAAATAGATTTGACTATTTGAATAATTATCTATTTCAAATAGTTATGACCTTTTTG
1 GAACAAGTTCAAATAG-TATGACTATTTGAACAATTATCTATTTCAAATAGTTATGACC-TTTTG
438 TTTTGTGATAAACCAATTG-TT-TATGTCTATATAAGCTTATTCAAAATAAAATAATACTAATTT
64 TTTTGTGATAAACCAATTGTTTCTAT-TC-ATATAAGCTTATTCAAAATAAAATAATACTAATTT
* * * *
501 AATAATATTCCAACAATTAATAAGTAAAAAATTTAAAAAATAAATCTGTTTACC
127 ATTAATATTCTAA-AATTAATAAGT-AAAAATTTAAAAAATAAATATATTTACC
** * * * * * * * *
555 GAGTAAGCTCAAATAGTTATAACTATTTGAACAATTTTTTATTTCTAGTAGTTGTGATCTTTTGT
1 GAACAAGTTCAAATAG-TATGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGT
* * * *
620 TTTGTCATAAAACAATTGTTTCTATTCATATAAGTTTATTCAAAATAAAATAATACTACTTTATT
65 TTTGTGATAAACCAATTGTTTCTATTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATT
* * *
685 AATATTTTACAAATTAATAGGTAGAAGATTTAAAAAATAAATATATTTACC
130 AATATTCTA-AAATTAATAAGTA-AAAATTTAAAAAATAAATATATTTACC
* * *
736 GAACAAGTTCAAATAGTCATGTCCATTAGAACAATTATCTATTTCA
1 GAACAAGTTCAAATAGT-ATGACTATTTGAACAATTATCTATTTCA
782 TAAAAAAATT
Statistics
Matches: 344, Mismatches: 51, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
178 4 0.01
179 56 0.16
180 49 0.14
181 159 0.46
182 73 0.21
183 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (178 bp):
GAACAAGTTCAAATAGTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTT
TTGTGATAAACCAATTGTTTCTATTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTA
ATATTCTAAAATTAATAAGTAAAAATTTAAAAAATAAATATATTTACC
Found at i:1045 original size:20 final size:21
Alignment explanation
Indices: 999--1064 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
989 AGTATTATTG
*
999 ATAATT-ATTATTATTAAGTA
1 ATAATTAATTTTTATTAAGTA
*
1019 ATCATTAATTTTTA-TAAGTA
1 ATAATTAATTTTTATTAAGTA
* *
1039 TTAATTATATTTTAATTAAGATA
1 ATAATTA-ATTTTTATTAAG-TA
1062 ATA
1 ATA
1065 CCTTTAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 16 0.44
21 12 0.33
22 4 0.11
23 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (21 bp):
ATAATTAATTTTTATTAAGTA
Found at i:1050 original size:21 final size:22
Alignment explanation
Indices: 1004--1064 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
994 TATTGATAAT
* *
1004 TATTATTATTAAGTAATCATTA
1 TATTTTTATTAAGTAATAATTA
*
1026 -ATTTTTA-TAAGTATTAATTA
1 TATTTTTATTAAGTAATAATTA
*
1046 TATTTTAATTAAGATAATA
1 TATTTTTATTAAG-TAATA
1065 CCTTTAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 11 0.35
21 12 0.39
22 4 0.13
23 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (22 bp):
TATTTTTATTAAGTAATAATTA
Found at i:1413 original size:26 final size:26
Alignment explanation
Indices: 1386--1437 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
1376 AATCAAAGTA
*
1386 TTTAA-TAATAATATAGTTATTATATAT
1 TTTAATTAAT-ATATA-TTATAATATAT
1413 TTTAATTAATATATATTATAATATA
1 TTTAATTAATATATATTATAATATA
1438 ATATAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 10 0.43
28 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTTAATTAATATATATTATAATATAT
Found at i:1645 original size:28 final size:29
Alignment explanation
Indices: 1592--1662 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
1582 AAAATATTTA
* *
1592 ATAATATTAATATATTATTTTAATTAATT
1 ATAATATTAATATACTATTATAATTAATT
1621 ATAA-ATTAATAATACTATTAT-ATTAATATT
1 ATAATATTAAT-ATACTATTATAATT-A-ATT
1651 ATAATGATTAAT
1 ATAAT-ATTAAT
1663 TGTAATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 9 0.26
29 13 0.37
30 7 0.20
32 6 0.17
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
ATAATATTAATATACTATTATAATTAATT
Found at i:1763 original size:20 final size:20
Alignment explanation
Indices: 1738--1800 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
1728 TATTTACTAT
1738 TTAATAATTATATATTAATA
1 TTAATAATTATATATTAATA
*
1758 TTAATAATTATTTA-T-ATA
1 TTAATAATTATATATTAATA
*
1776 TTAACAA-TATATATTAATAA
1 TTAATAATTATATATTAAT-A
1796 TTAAT
1 TTAAT
1801 GATCTTACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 5 0.14
18 10 0.28
19 3 0.08
20 18 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAATAATTATATATTAATA
Found at i:1827 original size:15 final size:14
Alignment explanation
Indices: 1741--1838 Score: 68
Period size: 15 Copynumber: 7.2 Consensus size: 14
1731 TTACTATTTA
1741 ATAATT-ATATATT
1 ATAATTAATATATT
1754 A-ATATTAATA-ATT
1 ATA-ATTAATATATT
1767 AT--TT-ATATATT
1 ATAATTAATATATT
*
1778 A-ACAAT-ATATATT
1 ATA-ATTAATATATT
*
1791 AATAATTAATGATCTT
1 -ATAATTAAT-ATATT
*
1807 ACAATTAATATAGTT
1 ATAATTAATATA-TT
1822 ATAATTAATATATT
1 ATAATTAATATATT
1836 ATA
1 ATA
1839 GATACTATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 23
0.70 0.06 0.24
Matches are distributed among these distances:
10 3 0.04
11 6 0.09
12 1 0.01
13 16 0.24
14 13 0.19
15 24 0.36
16 4 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (14 bp):
ATAATTAATATATT
Found at i:1895 original size:19 final size:19
Alignment explanation
Indices: 1866--1916 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
1856 ATTATATTTA
*
1866 ATTAAATTATTAACTACAAT
1 ATTATATTATTAA-TACAAT
**
1886 -TTATATTATTAATAGTAT
1 ATTATATTATTAATACAAT
1904 ATTATATTATTAA
1 ATTATATTATTAA
1917 ATATTAGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTATATTATTAATACAAT
Found at i:1986 original size:10 final size:10
Alignment explanation
Indices: 1971--2000 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
1961 AAATATTAAT
1971 ATAATAATTA
1 ATAATAATTA
1981 ATAATAATTA
1 ATAATAATTA
1991 ATAATAATTA
1 ATAATAATTA
2001 TTATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAATAATTA
Found at i:2003 original size:13 final size:13
Alignment explanation
Indices: 1952--2004 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1942 TTTGGATAAG
* *
1952 ATTAATTATAAAT
1 ATTAATAATAATT
*
1965 ATTAAT-ATAATA
1 ATTAATAATAATT
1977 ATTAATAATAATT
1 ATTAATAATAATT
* *
1990 AATAATAATTATT
1 ATTAATAATAATT
2003 AT
1 AT
2005 ATTTTTATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 10 0.30
13 23 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAATAATAATT
Found at i:2842 original size:34 final size:35
Alignment explanation
Indices: 2779--2844 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
2769 AATAATATTA
*
2779 TAAACAATATTAATTTACTTAATTCATTAATAAAG
1 TAAACAATATTAATTTACTTAATTAATTAATAAAG
2814 TAAACAAT-TTAA-TTA-TTAACTTAAATTAATA
1 TAAACAATATTAATTTACTTAA-TT-AATTAATA
2845 TAATTAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 4 0.14
33 5 0.18
34 11 0.39
35 8 0.29
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.41
Consensus pattern (35 bp):
TAAACAATATTAATTTACTTAATTAATTAATAAAG
Found at i:2859 original size:15 final size:15
Alignment explanation
Indices: 2839--2882 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
2829 TTAACTTAAA
2839 TTAATATAATTA-ACT
1 TTAATATAATTATA-T
2854 TTAATATAATTATAT
1 TTAATATAATTATAT
*
2869 TGAATATAATTATA
1 TTAATATAATTATA
2883 ATTATACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
TTAATATAATTATAT
Found at i:3456 original size:21 final size:21
Alignment explanation
Indices: 3427--3469 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
3417 TAATAAAAAT
*
3427 TAATTATTATTAT-ATAGTTAA
1 TAATAATTATTATAATA-TTAA
3448 TAATAATTATTATAATATTAA
1 TAATAATTATTATAATATTAA
3469 T
1 T
3470 TTTAATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TAATAATTATTATAATATTAA
Found at i:3475 original size:21 final size:24
Alignment explanation
Indices: 3425--3480 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
3415 AATAATAAAA
3425 ATTAATTATTATTATATAGTTAAT
1 ATTAATTATTATTATATAGTTAAT
*
3449 AATAATTATTA-TA-ATA-TTAAT
1 ATTAATTATTATTATATAGTTAAT
*
3470 TTTAATCTATT
1 ATTAAT-TATT
3481 TTTAATCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 9 0.32
22 7 0.25
23 2 0.07
24 10 0.36
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTAATTATTATTATATAGTTAAT
Found at i:3754 original size:27 final size:27
Alignment explanation
Indices: 3724--3830 Score: 96
Period size: 30 Copynumber: 3.8 Consensus size: 27
3714 GAAATTATAC
3724 AATTAATATACTTAATAATTAT-TAATA
1 AATTAATATA-TTAATAATTATATAATA
*
3751 AATTAAT-TAAT-ATAATTATACTAATA
1 AATTAATATATTAATAATTATA-TAATA
*
3777 ATATTAATTTATTATATAATTAATATAA-A
1 A-ATTAATATATTA-ATAATT-ATATAATA
3806 AATTATATATTATTAATAAATTATA
1 AATTA-ATA-TATTAAT-AATTATA
3831 AATTAGTATT
Statistics
Matches: 67, Mismatches: 3, Indels: 18
0.76 0.03 0.20
Matches are distributed among these distances:
24 8 0.12
25 1 0.01
26 8 0.12
27 13 0.19
28 7 0.10
29 9 0.13
30 18 0.27
31 3 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTAATATATTAATAATTATATAATA
Found at i:3768 original size:9 final size:9
Alignment explanation
Indices: 3724--3804 Score: 50
Period size: 9 Copynumber: 9.2 Consensus size: 9
3714 GAAATTATAC
3724 AATTAATAT
1 AATTAATAT
*
3733 ACTT-A-AT
1 AATTAATAT
3740 AATT-AT-T
1 AATTAATAT
*
3747 AATAAAT-T
1 AATTAATAT
3755 AATTAATAT
1 AATTAATAT
3764 AATT-ATACT
1 AATTAATA-T
3773 AA-TAATATT
1 AATTAATA-T
3782 AATTTATTATAT
1 AA-TTA--ATAT
3794 AATTAATAT
1 AATTAATAT
3803 AA
1 AA
3805 AAATTATATA
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
7 10 0.17
8 14 0.24
9 23 0.40
11 5 0.09
12 3 0.05
13 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTAATAT
Found at i:3812 original size:18 final size:17
Alignment explanation
Indices: 3791--3850 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
3781 TAATTTATTA
3791 TATAATTAATATAA-AAAT
1 TATAATT-AT-TAATAAAT
3809 TATATATTATTAATAAAT
1 TATA-ATTATTAATAAAT
* *
3827 TATAAATTAGTATTAAAT
1 TAT-AATTATTAATAAAT
3845 T-TAATT
1 TATAATT
3851 TATACATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 4 0.11
17 4 0.11
18 25 0.68
19 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TATAATTATTAATAAAT
Found at i:3812 original size:20 final size:20
Alignment explanation
Indices: 3751--3835 Score: 79
Period size: 18 Copynumber: 4.2 Consensus size: 20
3741 ATTATTAATA
3751 AATTAATTAATATAATTATACT
1 AATTAATTAATA-AATTATA-T
* **
3773 AATAATATTAATTTATTATAT
1 AATTA-ATTAATAAATTATAT
3794 AATTAATATAA-AAATTATAT
1 AATTAAT-TAATAAATTATAT
3814 -ATT-ATTAATAAATTATA-
1 AATTAATTAATAAATTATAT
3831 AATTA
1 AATTA
3836 GTATTAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
17 3 0.06
18 13 0.25
19 3 0.06
20 9 0.17
21 8 0.15
22 10 0.19
23 6 0.12
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTAATTAATAAATTATAT
Found at i:3975 original size:20 final size:19
Alignment explanation
Indices: 3928--3976 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
3918 ATTTATCAAT
*
3928 ATAATAAATTATATTAGTA
1 ATAATAATTTATATTAGTA
*
3947 ATAATTAATTTATAGTTATTA
1 ATAA-TAATTTATA-TTAGTA
*
3968 TTAATAATT
1 ATAATAATT
3977 GTTAATACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
ATAATAATTTATATTAGTA
Found at i:4110 original size:19 final size:18
Alignment explanation
Indices: 4073--4111 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4063 ATATTTATTG
* *
4073 TTTATTAAATTATATATA
1 TTTATAAAATTATAAATA
4091 TTTATAAAATATATAAATA
1 TTTATAAAAT-TATAAATA
4110 TT
1 TT
4112 AAGTAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATAAAATTATAAATA
Found at i:4171 original size:22 final size:22
Alignment explanation
Indices: 4146--4199 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
4136 ATTATAATAC
* *
4146 TATATTTATATATAATAATTAT
1 TATATATATATATAACAATTAT
*
4168 TATAGA-ATAATATAACAATTAT
1 TATATATAT-ATATAACAATTAT
4190 TATATATATA
1 TATATATATA
4200 ATTAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TATATATATATATAACAATTAT
Found at i:4229 original size:11 final size:11
Alignment explanation
Indices: 4207--4263 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
4197 ATAATTAAAA
4207 AATATAATAATT
1 AATAT-ATAATT
*
4219 AATTTATAATT
1 AATATATAATT
4230 AATATATAATT
1 AATATATAATT
* *
4241 -ATAAAATATTT
1 AAT-ATATAATT
4252 AATACTATAATT
1 AATA-TATAATT
4264 GTTATTAGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
10 2 0.06
11 23 0.64
12 11 0.31
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
AATATATAATT
Found at i:5092 original size:20 final size:18
Alignment explanation
Indices: 5058--5095 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
5048 CTATTAAGAA
5058 TAATAATTAATAAATTAT
1 TAATAATTAATAAATTAT
5076 TAATAGATTAGATAAATTAT
1 TAATA-ATTA-ATAAATTAT
5096 ATAACATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TAATAATTAATAAATTAT
Found at i:5099 original size:29 final size:28
Alignment explanation
Indices: 5020--5105 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
5010 AATAAACATA
5020 TAATA-ATTAGATTAATTAATAAATTAATC
1 TAATAGATTAGA-TAATTAATAAATT-ATC
* *
5049 TATTAAGAATA-ATAATTAATAAATTAT-
1 TAAT-AGATTAGATAATTAATAAATTATC
5076 TAATAGATTAGATAAATTATATAACATTAT
1 TAATAGATTAGAT-AATTA-ATAA-ATTAT
5106 GACATTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
26 5 0.11
27 5 0.11
28 7 0.15
29 20 0.43
30 7 0.15
31 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (28 bp):
TAATAGATTAGATAATTAATAAATTATC
Found at i:6954 original size:23 final size:23
Alignment explanation
Indices: 6928--6987 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 23
6918 ATAAATAATT
6928 ATTATAATTAATTTA-ACTAATAA
1 ATTATAATTAATTTATACT-ATAA
*
6951 ATTAGATATT-A-TTATACTATAA
1 ATTATA-ATTAATTTATACTATAA
6973 ATTATAATCTAATTT
1 ATTATAAT-TAATTT
6988 TAAGTTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 2 0.07
22 13 0.43
23 10 0.33
24 5 0.17
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTATAATTAATTTATACTATAA
Found at i:7457 original size:14 final size:14
Alignment explanation
Indices: 7411--7459 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
7401 ATATATAAAG
7411 TAATTATTATTA-A
1 TAATTATTATTATA
*
7424 TAA-TA--ATAATA
1 TAATTATTATTATA
*
7435 TAATAATTATTATA
1 TAATTATTATTATA
7449 TAATTATTATT
1 TAATTATTATT
7460 TCAATAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
10 3 0.11
11 4 0.14
12 3 0.11
13 3 0.11
14 15 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATTATTATTATA
Found at i:7696 original size:27 final size:27
Alignment explanation
Indices: 7661--7720 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
7651 TATTAGGTTA
* *
7661 TAATT-ATTAATATATTTAATTATAAT
1 TAATTAATTAATATATCTAATAATAAT
* *
7687 TAATTAATTATTATATCTAATAATCAT
1 TAATTAATTAATATATCTAATAATAAT
7714 T-ATTAAT
1 TAATTAAT
7721 AACTATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TAATTAATTAATATATCTAATAATAAT
Found at i:7922 original size:37 final size:37
Alignment explanation
Indices: 7863--7948 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 37
7853 GTTAATTGTT
* *
7863 TAATAAATATTAAT--TAAATTAAATATTAATAGT-AA
1 TAATAAATATTTATGATAAATTAAA-ATTAATAATAAA
* * *
7898 TTATTAATATTTATGATAAATTAAAATTTATAATAAA
1 TAATAAATATTTATGATAAATTAAAATTAATAATAAA
7935 TAATAAATATTTAT
1 TAATAAATATTTAT
7949 TGTTAATAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
35 11 0.27
36 7 0.17
37 23 0.56
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (37 bp):
TAATAAATATTTATGATAAATTAAAATTAATAATAAA
Found at i:7926 original size:17 final size:17
Alignment explanation
Indices: 7877--7935 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
7867 AAATATTAAT
* *
7877 TAAATTAAATATTAATAG
1 TAAATTAAA-ATTTATAA
* *
7895 TAATTATTAATATTTATGA
1 TAA--ATTAAAATTTATAA
7914 TAAATTAAAATTTATAA
1 TAAATTAAAATTTATAA
7931 TAAAT
1 TAAAT
7936 AATAAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 17 0.52
18 3 0.09
19 8 0.24
20 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TAAATTAAAATTTATAA
Found at i:8327 original size:12 final size:12
Alignment explanation
Indices: 8303--8351 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
8293 GAAATCTAAG
8303 ATAATTAATAATA
1 ATAATT-ATAATA
*
8316 TTAATTATAATA
1 ATAATTATAATA
8328 ATAATTA-AAT-
1 ATAATTATAATA
*
8338 A-AATTATATTA
1 ATAATTATAATA
8349 ATA
1 ATA
8352 TAATTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 4 0.13
12 13 0.43
13 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:8348 original size:14 final size:14
Alignment explanation
Indices: 8304--8358 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
8294 AAATCTAAGA
*
8304 TAAT-TAATAATAT
1 TAATATAATTATAT
*
8317 TAATTATAATAATAAT
1 TAA-TATAATTAT-AT
8333 TAA-ATAAATTATAT
1 TAATAT-AATTATAT
8347 TAATATAATTAT
1 TAATATAATTAT
8359 TTATTGAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 3 0.08
14 14 0.39
15 14 0.39
16 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATATAATTATAT
Found at i:8374 original size:30 final size:30
Alignment explanation
Indices: 8313--8395 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
8303 ATAATTAATA
* *
8313 ATATTAATTATAA-TAATAATTAAATAAATT
1 ATATTAA-TATAATTATTTATTAAATAAATT
* *
8343 ATATTAATATAATTATTTATTGAATAGATT
1 ATATTAATATAATTATTTATTAAATAAATT
*
8373 ATAATTTATAT-ATTATTTTATTA
1 AT-ATTAATATAATTA-TTTATTA
8396 TCTAATTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 5 0.11
30 26 0.59
31 13 0.30
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
ATATTAATATAATTATTTATTAAATAAATT
Found at i:9120 original size:21 final size:21
Alignment explanation
Indices: 9103--9144 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9093 ATTTATTAGT
9103 ACATTATAATAATATATTATA
1 ACATTATAATAATATATTATA
* *
9124 ATATTATAATAAAATAGTTAT
1 ACATTATAATAATATA-TTAT
9145 TTTATTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ACATTATAATAATATATTATA
Found at i:9401 original size:31 final size:32
Alignment explanation
Indices: 9343--9404 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
9333 ATAATTTATA
*
9343 TAATTTTGATATTAATAACATTAATATTTCAT
1 TAATTTTAATATTAATAACATTAATATTTCAT
*
9375 TAATTTTAATA-TAATAATTATT-ATATTTCA
1 TAATTTTAATATTAATAA-CATTAATATTTCA
9405 CATTGTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (32 bp):
TAATTTTAATATTAATAACATTAATATTTCAT
Found at i:9431 original size:16 final size:18
Alignment explanation
Indices: 9410--9457 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 18
9400 TTTCACATTG
9410 TAATATTATAATTA-TA-
1 TAATATTATAATTATTAT
*
9426 TAATATTATAACTATTAT
1 TAATATTATAATTATTAT
9444 TAATAGTTATAATT
1 TAATA-TTATAATT
9458 TAATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 13 0.48
17 2 0.07
18 5 0.19
19 7 0.26
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATATTATAATTATTAT
Found at i:9456 original size:9 final size:8
Alignment explanation
Indices: 9410--9456 Score: 51
Period size: 8 Copynumber: 5.5 Consensus size: 8
9400 TTTCACATTG
9410 TAATATTA
1 TAATATTA
9418 TAAT-TATA
1 TAATAT-TA
9426 TAATATTA
1 TAATATTA
9434 TAACTATTA
1 TAA-TATTA
9443 TTAATAGTTA
1 -TAATA-TTA
9453 TAAT
1 TAAT
9457 TTAATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
7 1 0.03
8 15 0.44
9 12 0.35
10 6 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (8 bp):
TAATATTA
Found at i:9475 original size:29 final size:30
Alignment explanation
Indices: 9364--9475 Score: 95
Period size: 31 Copynumber: 3.6 Consensus size: 30
9354 TTAATAACAT
* *
9364 TAATATTTCATTAATTTTAATATAATAATTA
1 TAATATTTCACT-ATTTTAATATTATAATTA
* *
9395 TTATATTTCAC-ATTGTAATATTATAATTATA
1 TAATATTTCACTATTTTAATATTATAA-T-TA
*
9426 TAATATTATAACTATTATTAATAGTTATAATT-
1 TAATATT-TCACTATT-TTAATA-TTATAATTA
*
9458 TAATATTTTA-TATTTTAA
1 TAATATTTCACTATTTTAA
9476 AAAATATATT
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
29 17 0.25
30 5 0.07
31 19 0.28
32 10 0.15
33 4 0.06
34 6 0.09
35 6 0.09
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (30 bp):
TAATATTTCACTATTTTAATATTATAATTA
Found at i:9715 original size:19 final size:19
Alignment explanation
Indices: 9693--9729 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9683 TTTTAATATT
9693 AATAA-TTATTATTATAATG
1 AATAACTTATTA-TATAATG
9712 AATAACTTATTATATAAT
1 AATAACTTATTATATAAT
9730 ATTCTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
AATAACTTATTATATAATG
Found at i:9959 original size:20 final size:21
Alignment explanation
Indices: 9921--9970 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
9911 GATTAAATTT
*
9921 ATTAA-AATAATTAAATATAG
1 ATTAATAATAATTAAATATAA
*
9941 ATTAATAATAATT-ATTATAA
1 ATTAATAATAATTAAATATAA
*
9961 AATAATAATA
1 ATTAATAATA
9971 TATTTGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
ATTAATAATAATTAAATATAA
Found at i:10217 original size:28 final size:28
Alignment explanation
Indices: 10153--10217 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
10143 AATATAATAT
* *
10153 TATATTTATTGTTTAATATATTTATTAC
1 TATATTTATTGTTTAATATATGTATTAA
*
10181 TACTA-TTATTGTCTTATTATATGT-TTAA
1 TA-TATTTATTGT-TTAATATATGTATTAA
10209 TATATTTAT
1 TATATTTAT
10218 AAATAATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.06
28 18 0.58
29 11 0.35
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (28 bp):
TATATTTATTGTTTAATATATGTATTAA
Found at i:10460 original size:22 final size:22
Alignment explanation
Indices: 10425--10488 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
10415 GTTATTATAC
*
10425 ATATTATTTA-ATAAATATTTTT
1 ATATT-TTTATATAAATATTTAT
* *
10447 ATATTTTTATATAATTAATTAT
1 ATATTTTTATATAAATATTTAT
**
10469 ATATAATTATATACAATATT
1 ATATTTTTATATA-AATATT
10489 AATTTAATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 4 0.12
22 25 0.76
23 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATTTTTATATAAATATTTAT
Found at i:11533 original size:18 final size:17
Alignment explanation
Indices: 11510--11558 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
11500 ACCAAACAAG
11510 TTTGAATAATTATGGTTA
1 TTTGAATAATTAT-GTTA
*
11528 TTTGAACAATTAT-TTA
1 TTTGAATAATTATGTTA
*
11544 TTTAAAATAATTATG
1 TTT-GAATAATTATG
11559 ACCATTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.23
17 8 0.31
18 12 0.46
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (17 bp):
TTTGAATAATTATGTTA
Found at i:11862 original size:542 final size:542
Alignment explanation
Indices: 10641--11910 Score: 1328
Period size: 542 Copynumber: 2.3 Consensus size: 542
10631 AGTATTTAAA
* * * * * *** * * * *
10641 TCAAATTGTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTTTTCATATAAGCCTATTCATA
1 TCAAATTGTTTTGACCTTTGTTTTCTCATAAAACAATTATTTCTCAACATACAAGCTTATTGAAA
* * * *
10706 TTAAA-TAATACCCTAATTTAATAATATTCCAAAAATTAGTAAGTAAGAGATT-TAAAAATATAA
66 TAAAATTAATA-CC-AATTTAATAATATTTCAAAAA-T--TAA-TAAGACATTCAAAAAATA-AA
** * * * * * *
10769 TGTGTTTGTCGGA-CAGTTC-AATAGTTAAGACTATTAGGATAATTATCTATTTCAGTATCATTT
124 TGCATTTATTGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCA-AATCATTC
* * * * * * *
10832 TGACCTTTTGTTTAGTCACAAAACAATTATTTCAATCCATATAAGCTTATTTAGAACAAATTAAT
188 TGACATTTTCTTTAGTCACAAAACAATTACTTCAATCCATACAAGCTTATTTAAAAAAAAATAAT
* *
10897 ACTAATTTATTCACATTCGAAAAATTAATAAGCAATGAGATTTAAAAAAATTAAAATCCGTTTAT
253 ACTAATTTATTAACATTCGAAAAATTAATAAGCAATGAGATTTAAAAAAATTAAAATCCGTTTAC
* * * ** *
10962 CGAATAAATTAAAATAGATTTGATTATTTAAACAATTATCTATTTAAAGTCGTTATGACCTTTTA
318 CAAACAAATTAAAATAGATTTGATTATTTAAACAATTATCTATTTAAAATAATTATGACCATTTA
* *** *
11027 TTTTGTCATAAAACAATTGTTTCAGTTTATAAAAATTTATTTGAAATAAAATAATACTAATTTAT
383 TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAATTTATCCAAAATAAAATAATACTAATTTAG
* * *
11092 TAATATTTTAAAAATTAATAAACAAGATTTTTAAAAACTAAAATTGTTTTCCAAATCAGTTCAAA
448 TAATATTTTAAAAATTAATAAACAAGATATTTAAAAAATAAAATTGTTTACCAAATCAGTTCAAA
* * * *
11157 TAATTATGGCTATTTGAATAAATATCAATC
513 TAATTATAGCCATTTAAACAAATATCAATC
* * * * * *
11187 TCAAATTGTTTTGATCTTTGTTTTCTCATAAAATAATTATTTCTGATCATACAAGCTTATTTAGA
1 TCAAATTGTTTTGACCTTTGTTTTCTCATAAAACAATTATTTCTCAACATACAAGCTTATTGAAA
* * * *
11252 TAAAATTATTACTAATTTAATAATATTTCAAAAATTAATAAGAGATTCAAAAAATAAATGTATTT
66 TAAAATTAATACCAATTTAATAATATTTCAAAAATTAATAAGACATTCAAAAAATAAATGCATTT
*
11317 ATTGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCAATTTCAAATCATTCTGACATTT
131 ATTGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTCTGACATTT
**** * * *
11382 TCTTTAGTCGTGTAATAATTGCTTCAATTCATACAAGCTTATTTGAAAAAAAAATAATACTAATT
196 TCTTTAGTCACAAAACAATTACTTCAATCCATACAAGCTTATTT-AAAAAAAAATAATACTAA-T
* * *
11447 TTATTAACATTC-AAAAATTAATAATC-TTGAGATTTAAAAAAA-T-AAATCTGTTTACCAAACA
259 TTATTAACATTCGAAAAATTAATAAGCAATGAGATTTAAAAAAATTAAAATCCGTTTACCAAACA
* ** * * * *
11508 AGTTTGAATA-ATTATGGTTATTTGAACAATTATTTATTTAAAATAATTATGACCATTTGTTTTG
324 AATTAAAATAGATT-TGATTATTTAAACAATTATCTATTTAAAATAATTATGACCATTTATTTTG
* * * * *
11572 TCATAAAATAATTGTTTTAGTTCATCAAAGTTTATCCAAAATAAAATAATACTACTTTAGTAATA
388 TCATAAAACAATTGTTTCAGTTCATAAAAATTTATCCAAAATAAAATAATACTAATTTAGTAATA
* ** *
11637 TTTTGAAAATTAATAAGTAA-CTAATTTAAAAGAAT-AAATTAGTTTA-CACAATCAGTTCAAAT
453 TTTTAAAAATTAATAAACAAGAT-ATTTAAAA-AATAAAATT-GTTTACCA-AATCAGTTCAAAT
* * *
11699 AATTATAGCCATTTAAACAACTATCTATT
514 AATTATAGCCATTTAAACAAATATCAATC
* * * *
11728 TCAAATTGTTATT-ACCTTCTGTTTTGTTATAAAACAATTGTTTTTCAACATACAAGCTTAGTTG
1 TCAAATTGTT-TTGACCTT-TGTTTTCTCATAAAACAATTATTTCTCAACATACAAGCTTA-TTG
* * * *
11792 AAATAAAA-TAATACCAATTTATTAATATTTTAAGAATTAATAAGACATTTAAAAAATAAAT-CA
63 AAATAAAATTAATACCAATTTAATAATATTTCAAAAATTAATAAGACATTCAAAAAATAAATGCA
* * * * *
11855 GTTTATTGAACTAGTTCAAATAGTTATGACTATTTGAACAATTTTCTATTTCAAAT
128 -TTTATTGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAAT
11911 TGTTACAACC
Statistics
Matches: 605, Mismatches: 104, Indels: 34
0.81 0.14 0.05
Matches are distributed among these distances:
539 4 0.01
540 149 0.25
541 77 0.13
542 209 0.35
543 70 0.12
544 13 0.02
545 20 0.03
546 59 0.10
547 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (542 bp):
TCAAATTGTTTTGACCTTTGTTTTCTCATAAAACAATTATTTCTCAACATACAAGCTTATTGAAA
TAAAATTAATACCAATTTAATAATATTTCAAAAATTAATAAGACATTCAAAAAATAAATGCATTT
ATTGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTCTGACATTT
TCTTTAGTCACAAAACAATTACTTCAATCCATACAAGCTTATTTAAAAAAAAATAATACTAATTT
ATTAACATTCGAAAAATTAATAAGCAATGAGATTTAAAAAAATTAAAATCCGTTTACCAAACAAA
TTAAAATAGATTTGATTATTTAAACAATTATCTATTTAAAATAATTATGACCATTTATTTTGTCA
TAAAACAATTGTTTCAGTTCATAAAAATTTATCCAAAATAAAATAATACTAATTTAGTAATATTT
TAAAAATTAATAAACAAGATATTTAAAAAATAAAATTGTTTACCAAATCAGTTCAAATAATTATA
GCCATTTAAACAAATATCAATC
Found at i:11983 original size:13 final size:14
Alignment explanation
Indices: 11960--12014 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 14
11950 ATTTAATTGT
*
11960 TAATTATATATATA
1 TAATTAAATATATA
11974 -AATTAAATATAATA
1 TAATTAAATAT-ATA
11988 TAATTATAATATA-A
1 TAATTA-AATATATA
*
12002 TAATAAAAT-TATA
1 TAATTAAATATATA
12015 AAATAGAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 2 0.06
13 13 0.37
14 9 0.26
15 6 0.17
16 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATTAAATATATA
Found at i:12006 original size:19 final size:18
Alignment explanation
Indices: 11978--12034 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
11968 TATATAAATT
11978 AAATATAATATAATTATA
1 AAATATAATATAATTATA
* *
11996 ATATAATAATAAAATTATA
1 AAAT-ATAATATAATTATA
* *
12015 AAATAGAATATAATTTTA
1 AAATATAATATAATTATA
12033 AA
1 AA
12035 TGTTATATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATATAATATAATTATA
Found at i:13152 original size:14 final size:15
Alignment explanation
Indices: 13135--13164 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13125 AAATAGCAAT
13135 AATTAAT-ATAAACA
1 AATTAATAATAAACA
13149 AATTAATAATAAACA
1 AATTAATAATAAACA
13164 A
1 A
13165 TATATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
AATTAATAATAAACA
Found at i:13285 original size:13 final size:13
Alignment explanation
Indices: 13228--13285 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
13218 ACAAATAAGT
*
13228 TAATTATAAATAA
1 TAATTATAAATTA
13241 TAA-TAT-AATTA
1 TAATTATAAATTA
*
13252 TAA-TATTATATTA
1 TAATTA-TAAATTA
13265 TATTATTATAAATTA
1 TA--ATTATAAATTA
13280 TAATTA
1 TAATTA
13286 ACTTATTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
11 9 0.24
12 4 0.11
13 13 0.35
15 9 0.24
16 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTATAAATTA
Found at i:13292 original size:21 final size:21
Alignment explanation
Indices: 13243--13281 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13233 ATAAATAATA
*
13243 ATATAATTATAATATTATATT
1 ATATTATTATAATATTATATT
13264 ATATTATTATAA-ATTATA
1 ATATTATTATAATATTATA
13282 ATTAACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTATTATAATATTATATT
Found at i:13600 original size:16 final size:15
Alignment explanation
Indices: 13581--13610 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13571 TAGTTATGAC
13581 TTTTAATTATTACAAA
1 TTTTAATTA-TACAAA
13597 TTTTAATTATACAA
1 TTTTAATTATACAA
13611 TTAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAATTATACAAA
Found at i:14173 original size:179 final size:179
Alignment explanation
Indices: 13706--14264 Score: 608
Period size: 181 Copynumber: 3.1 Consensus size: 179
13696 TGGTAAATAG
** * * * *
13706 ATTTATTTTTTAAATCTCCTACCTATT-AATTTGTAAAATATTAATAAAATAGTATTATTTTATT
1 ATTTATTTTTTAAAT-TTTTACTTATTAAATGT-TAGAATATTAATAAATTAG-ATTATTTTATT
* * * * * * *
13770 TTGAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAACTATTAGA
63 TTGAATAAGCTTGTATGGACAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTATTTGA
* * * * * * * *** *
13835 AATAAAAAATTGTTCAAACAATT-ATAACTATTTGAGCTTACTT-GGTAAACAG
128 AATAAATAATTATTCAAA-TATTCAGAACTATTTGAACAT-GTTCAAAAAACAA
* * * *
13887 ATTTATTTTTAAAATTTTTTACTTATTAATTGTTGGAATATTATTAAATTAGTATTATTTTATTT
1 ATTTATTTTTTAAA-TTTTTACTTATTAAATGTTAGAATATTAATAAATTAG-ATTATTTTATTT
* * * *
13952 TGAATAAGCTTATATAGACAGAAACAATTGGTTCATCACAAAACAAAAGGCCATAACTATTTGAA
64 TGAATAAGCTTGTATGGACAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTATTTGAA
* * *
14017 ATAGATAATTATTTAAATATTCA-AATCTATTTGAACATGTTCAAAAAATAA
129 ATAAATAATTATTCAAATATTCAGAA-CTATTTGAACATGTTCAAAAAACAA
*
14068 ATTTATTTTTTAAATTTTTATTTATTAAAAT-TTAGAATATTAATAAATTTA-ATTATTTTATTT
1 ATTTATTTTTTAAATTTTTACTTATT-AAATGTTAGAATATTAATAAA-TTAGATTATTTTATTT
* *
14131 GGAATAAGCTTGTATGGACAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTGTTTGAA
64 TGAATAAGCTTGTATGGACAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTATTTGAA
* * **
14196 ATAAATAATCATTCAAATAGTCAGAACTATTCAAACATGTTCAAAAAACAA
129 ATAAATAATTATTCAAATATTCAGAACTATTTGAACATGTTCAAAAAACAA
14247 ATTTATTTTTTAAATTTT
1 ATTTATTTTTTAAATTTT
14265 GGAATATTAA
Statistics
Matches: 318, Mismatches: 52, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
179 130 0.41
180 34 0.11
181 150 0.47
182 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (179 bp):
ATTTATTTTTTAAATTTTTACTTATTAAATGTTAGAATATTAATAAATTAGATTATTTTATTTTG
AATAAGCTTGTATGGACAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTATTTGAAAT
AAATAATTATTCAAATATTCAGAACTATTTGAACATGTTCAAAAAACAA
Found at i:14423 original size:15 final size:17
Alignment explanation
Indices: 14389--14427 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
14379 TATAACTAAG
*
14389 TAAAAATTAAATATTAT
1 TAAAAATGAAATATTAT
14406 TAAAAATGAAA-A-TAT
1 TAAAAATGAAATATTAT
14421 TAAAAAT
1 TAAAAAT
14428 TTAATATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 1 0.05
17 10 0.48
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAAATGAAATATTAT
Found at i:14588 original size:17 final size:16
Alignment explanation
Indices: 14562--14664 Score: 85
Period size: 17 Copynumber: 6.6 Consensus size: 16
14552 CAAATTAGTT
14562 TTATA-ATTATAATTA
1 TTATATATTATAATTA
14577 TTATATACTTATAATT-
1 TTATATA-TTATAATTA
* *
14593 TTATGAAATTATTAATGA
1 TTAT-ATATTA-TAATTA
14611 TTATATATTAT--TGTA
1 TTATATATTATAAT-TA
14626 TTA-ATATTATTAATTA
1 TTATATATTA-TAATTA
*
14642 TTTTATA-T-TAATTA
1 TTATATATTATAATTA
14656 TTATATATT
1 TTATATATT
14665 GAAATAAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
14 19 0.27
15 11 0.15
16 14 0.20
17 23 0.32
18 4 0.06
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (16 bp):
TTATATATTATAATTA
Found at i:14650 original size:14 final size:14
Alignment explanation
Indices: 14602--14664 Score: 72
Period size: 14 Copynumber: 4.3 Consensus size: 14
14592 TTTATGAAAT
*
14602 TATTAATGATTATA
1 TATTAATTATTATA
*
14616 TATTATTGTATTAATA
1 TATTAAT-TATT-ATA
*
14632 TTATTAATTATTTTA
1 -TATTAATTATTATA
14647 TATTAATTATTATA
1 TATTAATTATTATA
14661 TATT
1 TATT
14665 GAAATAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
14 23 0.56
15 5 0.12
16 7 0.17
17 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TATTAATTATTATA
Found at i:15212 original size:26 final size:26
Alignment explanation
Indices: 15183--15232 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
15173 ATTTATTATT
15183 ATTATAAATATTAATAATAATATTTG
1 ATTATAAATATTAATAATAATATTTG
* * *
15209 ATTATTATTATTTATAATAATATT
1 ATTATAAATATTAATAATAATATT
15233 AGGAATAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
ATTATAAATATTAATAATAATATTTG
Found at i:15230 original size:32 final size:32
Alignment explanation
Indices: 15156--15230 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
15146 TCAAATAATC
15156 TTATAATAATAATAATAATTTATTATTATTAT
1 TTATAATAATAATAATAATTTATTATTATTAT
** *
15188 AAATATTAATAATAAT-ATTTGATTATTATTAT
1 TTATAATAATAATAATAATTT-ATTATTATTAT
15220 TTATAATAATA
1 TTATAATAATA
15231 TTAGGAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (32 bp):
TTATAATAATAATAATAATTTATTATTATTAT
Found at i:15499 original size:22 final size:23
Alignment explanation
Indices: 15466--15514 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
15456 CTTTTAGTTA
*
15466 TATTCAAATAATACTATAAT-AT
1 TATTCAAATAATACAATAATAAT
15488 TATT-AAATTAATACAATAATAAT
1 TATTCAAA-TAATACAATAATAAT
15511 TATT
1 TATT
15515 TATAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 3 0.12
22 15 0.62
23 6 0.25
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
TATTCAAATAATACAATAATAAT
Found at i:15613 original size:22 final size:21
Alignment explanation
Indices: 15574--15627 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
15564 ACTTATCATT
15574 ATTAATAGTTAATAATTATAA
1 ATTAATAGTTAATAATTATAA
* * *
15595 ATTAATATTATAATTATTATAT
1 ATTAATAGT-TAATAATTATAA
15617 ATTAAATAGTT
1 ATT-AATAGTT
15628 TTGTTATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 14 0.52
23 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
ATTAATAGTTAATAATTATAA
Found at i:16086 original size:181 final size:181
Alignment explanation
Indices: 15899--16325 Score: 412
Period size: 180 Copynumber: 2.4 Consensus size: 181
15889 TGGCCATAAT
*
15899 TATTTGAACTGATTCGATAAACTA-ATTTATGTTTTAAATCTCTAACTTATCAATTTTTAT-AAT
1 TATTTGAACTGATTCGATAAACTACATTTAT-TTTTAAATCTCTTACTTAT-AATTTTTATGAAT
* * * *
15962 ATTAATAAAGTAATATTATTTTATTTC-AGATAAGCTTTTATGAATTGAAACAATTGTTTTATGA
64 ATTAATAAAGTAATATTATTTTATTTCGA-ATAACCATATATGAATTGAAACAATTATTTTATGA
* * ** *
16026 -T-AACTTATAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATAGTCAAAAA
128 CTAAAC--AAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGTCAAAAA
* * * * *
16080 TATTTGAACTTGCTT-GGTAAA-TAGATTT-TTTTTCTAATTTCTTACTTAATAATTTTT-TGAA
1 TATTTGAAC-TGATTCGATAAACTACATTTATTTTT-AAATCTCTTACTT-ATAATTTTTATGAA
* * * * *
16141 TGTTAATAAATTAGTATTATTTTATTTCGAATAACCATATATGAGTTGAAGCAATTATTTTATGA
63 TATTAATAAAGTAATATTATTTTATTTCGAATAACCATATATGAATTGAAACAATTATTTTATGA
* ** *
16206 CTAAACAAAAGGTCAAAACAATTTGAAATAGATAATTGTTCTAATAGTCTTAAC
128 CTAAACAAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGTCAAAAA
* * * *
16260 TACTTGAACTGATTC-AGCAAAC-ACATTTATTTTTTAAATC-CTTACTTATTAATGTTTA-GAG
1 TATTTGAACTGATTCGA-TAAACTACATTTA-TTTTTAAATCTCTTACTTA-TAATTTTTATGAA
16321 TATTA
63 TATTA
16326 TTAATTTAGC
Statistics
Matches: 198, Mismatches: 33, Indels: 31
0.76 0.13 0.12
Matches are distributed among these distances:
179 10 0.05
180 151 0.76
181 25 0.13
182 12 0.06
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (181 bp):
TATTTGAACTGATTCGATAAACTACATTTATTTTTAAATCTCTTACTTATAATTTTTATGAATAT
TAATAAAGTAATATTATTTTATTTCGAATAACCATATATGAATTGAAACAATTATTTTATGACTA
AACAAAAGGTCAAAACAATTTGAAATAGATAATTGTTCAAATAGTCAAAAA
Found at i:16898 original size:182 final size:182
Alignment explanation
Indices: 16597--16928 Score: 447
Period size: 182 Copynumber: 1.8 Consensus size: 182
16587 TTTAAAAATT
* *
16597 TTACTTATTAATTTTTGGAACATTAATAAATTTATATTATTTTATTTGAAATAAGCTTGAATGAA
1 TTACTTATTAATTTTTGGAACATTAATAAATTTATATTATTTTATTTCAAATAAGCTTAAATGAA
* * ** *
16662 TAAAACCAATTGTTTTATGACAAAACAAAAGGTTGTAATGTTTTGAAATAGATAATTATT-AAGA
66 TAAAACCAACTGTTTTATGACAAAACAAAAGGCTACAATGATTTGAAATAGATAATTATTCAA-A
16726 CAGTCATAACTATTTGAACTTGTTCGATAAATAGATTTATTTTTTTAATTCTC
130 CAGTCATAACTATTTGAACTTGTTCGATAAATAGATTTATTTTTTTAATTCTC
* * * *
16779 TTACTTTTTAATTTTTGGAATATTAATGAA-TTAGTATTTTTTTATTTCAAATAAGC-TAACATG
1 TTACTTATTAATTTTTGGAACATTAATAAATTTA-TATTATTTTATTTCAAATAAGCTTAA-ATG
* * * *
16842 AATTGAAA-CAACTGTTTTATTACAAAACAAAATGCTACAATGATTTGAAGTAGATAATTATTCA
64 AA-TAAAACCAACTGTTTTATGACAAAACAAAAGGCTACAATGATTTGAAATAGATAATTATTCA
* *
16906 AATAGTCATGACTATTTGAACTT
128 AACAGTCATAACTATTTGAACTT
16929 ATTTGGTAAA
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
181 5 0.04
182 118 0.91
183 6 0.05
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (182 bp):
TTACTTATTAATTTTTGGAACATTAATAAATTTATATTATTTTATTTCAAATAAGCTTAAATGAA
TAAAACCAACTGTTTTATGACAAAACAAAAGGCTACAATGATTTGAAATAGATAATTATTCAAAC
AGTCATAACTATTTGAACTTGTTCGATAAATAGATTTATTTTTTTAATTCTC
Found at i:17162 original size:237 final size:237
Alignment explanation
Indices: 16736--17164 Score: 502
Period size: 237 Copynumber: 1.8 Consensus size: 237
16726 CAGTCATAAC
* * * * * * ***
16736 TATTTGAACTTGTTCGATAAATAGATTTATTTTTTTAATTCTCTTACTTTTTAATTTTTGGAATA
1 TATTTGAACTTGTTCGATAAACAGATTTATTTTTTTAAATCTATTACATATTAAATTTCCAAATA
* ** * *
16801 TTAATGAATTAGTATTTTTTTATTTCAAATAAGCTAACATGAATTGAAACAACTGTTTTATTACA
66 TTAATAAATTAGTATTAATTTATTTCAAATAAGCTAACATGAACTGAAACAACTGTTTTATGACA
* * * * * * *
16866 AAACAAAATGCTACAATGATTTGAAGTAGATAATTATTCAAATAGTCATGACTATTTGAACTTAT
131 AAACAAAATGATAAAATGATATGAAATAGATAATTATTCAAATAATCATAACCATTTGAACTTAT
16931 TTGGTAAACTTATGTTTTTAATCTTTTACTTATTAAATCACT
196 TTGGTAAACTTATGTTTTTAATCTTTTACTTATTAAATCACT
* * * * *
16973 TATTTGAATTTGTTCGGTAAACATATTTATTTTTTTAAATCTATTTCATATTAAATTTCCAAATG
1 TATTTGAACTTGTTCGATAAACAGATTTATTTTTTTAAATCTATTACATATTAAATTTCCAAATA
* *** * *
17038 TTAATAAATTAGTATTAATTTA-TTCTGAATAAGCTTGTATGAACTGAAATAATTGTTTTATGAC
66 TTAATAAATTAGTATTAATTTATTTC-AAATAAGCTAACATGAACTGAAACAACTGTTTTATGAC
* * **
17102 TAAACAAAA-GATCAAAATGATATGAAATAGATAATTATTCTAATAATTTTAACCATTTGAACT
130 AAAACAAAATGAT-AAAATGATATGAAATAGATAATTATTCAAATAATCATAACCATTTGAACT
17165 AATTCAGTAA
Statistics
Matches: 154, Mismatches: 36, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
236 5 0.03
237 149 0.97
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (237 bp):
TATTTGAACTTGTTCGATAAACAGATTTATTTTTTTAAATCTATTACATATTAAATTTCCAAATA
TTAATAAATTAGTATTAATTTATTTCAAATAAGCTAACATGAACTGAAACAACTGTTTTATGACA
AAACAAAATGATAAAATGATATGAAATAGATAATTATTCAAATAATCATAACCATTTGAACTTAT
TTGGTAAACTTATGTTTTTAATCTTTTACTTATTAAATCACT
Found at i:17365 original size:180 final size:181
Alignment explanation
Indices: 16989--17430 Score: 473
Period size: 180 Copynumber: 2.4 Consensus size: 181
16979 AATTTGTTCG
* * * * * * *
16989 GTAAACATATTTATTTTTTTAAATCTATTTCATATTAAATTTCCAAATGTTAATAAATTAGTATT
1 GTAAACAAATTTA-TTTTTTAAATCTCTTACTTATTAAATTTCAAAATATTATTAAATTAGTATT
* * * * * *
17054 AATTTATTCTGAATAAGCTTGTATGAACTGAAATAATTGTTTTATGACTAAACAAAAGATCAAAA
65 ATTTTATTCTAAATAAGCTTGTACGAACTAAAACAATTGTTTTACGACTAAACAAAAGATCAAAA
** * *
17119 TGATATGAAATAGATAATTATTCTAATAATTTTAACCATTTGAACTAATTCA
130 CAATATGAAATAGATAATCATTCTAATAATCTTAACCATTTGAACTAATTCA
* *
17171 GTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTATTAAATTAGTATTA
1 GTAAACAAATTTATTTTTTAAATCTCTTACTTATTAAATTTCAAAATATTATTAAATTAGTATTA
* * * * * *
17236 TTTTAATCCAAATAAGCTTGTACGAAC-AAAACAATTGTTTTACG-TTAAAAGAAAAGGTCATAA
66 TTTTATTCTAAATAAGCTTGTACGAACTAAAACAATTGTTTTACGACT-AAACAAAAGATCAAAA
* * *
17299 CAATTTGAAATAGATAATCATT-T-ATAAAGTCTTAACTATTTGAACTAGTTC-
130 CAATATGAAATAGATAATCATTCTAAT-AA-TCTTAACCATTTGAACTAATTCA
* * * * ** *
17350 G-ACAATTAGATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAAATTAGTAT
1 GTA-AA-CAAATTTATTTTTTAAATCTCTTACTTATTAAATTTCAAAATATTATTAAATTAGTAT
17414 TATTTTATTCTAAATAA
64 TATTTTATTCTAAATAA
17431 AATAGTATGA
Statistics
Matches: 217, Mismatches: 38, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
178 3 0.01
179 7 0.03
180 129 0.59
181 66 0.30
182 12 0.06
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (181 bp):
GTAAACAAATTTATTTTTTAAATCTCTTACTTATTAAATTTCAAAATATTATTAAATTAGTATTA
TTTTATTCTAAATAAGCTTGTACGAACTAAAACAATTGTTTTACGACTAAACAAAAGATCAAAAC
AATATGAAATAGATAATCATTCTAATAATCTTAACCATTTGAACTAATTCA
Found at i:19508 original size:361 final size:356
Alignment explanation
Indices: 18475--19876 Score: 1362
Period size: 361 Copynumber: 3.9 Consensus size: 356
18465 GATAATCTCC
* * * * *
18475 TACTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTCTAATTAGGCTTGTATG-AT
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCGAA-TAAGCTTTTATGAAT
* * * *
18539 GAAAAACAATTGTTTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGATAATTGTTCAAAT
65 -AGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAAT
* * * * * * *
18604 GGCCATAACTATTTGAAC-TGACTCAATAAAATGATTTATGTTTTAAATCTCCAGCTTCTTAATT
129 AGTCATAACTATTTGAACTTGATTCAAAAAAAT-ATTTAT-TTTTAAATTTCTA-CTTATTAA-T
* * * *
18668 TTTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAATCTTTTATGAAATGAAACAATTAT
190 TTTGAAATATTAATAAATTAATATTATTTTATTTTGAATAAGCTTGTATGAAA-GAAACAATTAT
* * * * *
18733 TTTATGACTAAACAAAAGGTCATAATGATTTAAAATAGATAATTATT-ATAATAGTCTTAACTAT
254 TTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCA-AATAGTCATAACTAT
* * *
18797 TTGAACTGGTTCAACAAATACATTTATTTTTTAAATTTCT
318 TTGAACTCGTTCAATAAATAAATTTATTTTTTAAATTT-T
* * ** * * *
18837 TACTTATT-ATTTTTTAGAATATTATTAGTTTAGTAATATTTTACTCTGAATAAG-TTTCTATGG
1 TACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTC-GAATAAGCTTT-TATGA
* *
18900 ATAGAAACAATTGTTTTATGACAAAAC-AAAGATCATACTGATTTGAGATAGATAATTATTCAAA
63 ATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAA
* * * * *
18964 TAGTCATAACTATTTGAA-TTG-GTCTAATAAATAGATATAGTTTTTAAA--TCT-CTTATTGAT
128 TAGTCATAACTATTTGAACTTGATTC-AA-AAAAATATTTA-TTTTTAAATTTCTACTTATTAAT
* * **
19024 TTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTA
190 TTT-GAAATATTAATAAATTAATATTATTTTATTTTGAATAAGCTTGTATGAA-AGAAACAATTA
* * * *
19089 TTTTATTACAAAAC-AATGGATCATAATAATTTGAAATAAATAATTATTTAAATAGTCATAATTA
253 TTTTATGACAAAACAAAAGG-TCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTA
** *
19153 TTTGAACTCACTCAATAAACAAATTTATTTTTTTAAATATTT
317 TTTGAACTCGTTCAATAAATAAATTTA-TTTTTTAAAT-TTT
* * *
19195 TACTTATTAGTTTTTGAAATTTTAATAAATTGGTATTATTTTATTTCGAATAAGCTTTTATGAAT
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTA-TTCGAATAAGCTTTTATGAAT
* * * *
19260 AGAAACAATTGGTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTACAAATA
65 AGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATA
* * * *
19325 GTCATAATTATTTCGAACGTG-TTCAAAAAAAT-TTTATTTTATATATTTTTACTTATTAATCTT
130 GTCATAACTATTT-GAACTTGATTCAAAAAAATATTTATTTT-TAAATTTCTACTTATTAAT-TT
* * * * *
19388 TGGAATATTAGTAAATTTATATTATTTTA-TTTGAAATAAGCTTGCATGAAGAGAAACAATTGTT
192 TGAAATATTAATAAATTAATATTATTTTATTTTG-AATAAGCTTGTATGAA-AGAAACAATTATT
* * * * *
19452 TTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAGTAGTCATAACTATTT
255 TTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTT
* *** * * *
19517 GAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCT
320 GAACTCGTTCAATAAATAAATTTATTTTTTAAAT-TTT
* * * * * * *
19555 TACTCATTAATTTTTGGAATAGTT-A-AAGTTAGTGTTATTCTATTTCGAATAAGCCTATATGAA
1 TACTTATTAATTTTTGAAATA-TTAATAAATTAGTATTATTTTA-TTCGAATAAGCTTTTATGAA
* * * * * *
19618 TTGATATAATTGTTTTATGACGAAACAAAAGATCATAACGATTTGAAATAGATAATTATTCAGAT
64 TAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAAT
* * * *** * *
19683 AGTTATTACTATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTG
129 AGTCATAACTATTTGAACTTGATTCAAAAAAATATTTA-TTTTTAAAT-TTCTACTTATTAATT-
* *** ** * * *
19748 TTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAATAATTGTT
191 TTGAAATATTAATAAATTAATATTATTTTATTTTGAATAAGCTTGTATGAA-AGAAACAATTATT
* * *
19813 TTATGACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATT
255 TTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTATT
19877 CAAAATTATT
Statistics
Matches: 858, Mismatches: 148, Indels: 69
0.80 0.14 0.06
Matches are distributed among these distances:
356 8 0.01
357 133 0.16
358 90 0.10
359 170 0.20
360 52 0.06
361 327 0.38
362 74 0.09
363 4 0.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (356 bp):
TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCGAATAAGCTTTTATGAATA
GAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATAG
TCATAACTATTTGAACTTGATTCAAAAAAATATTTATTTTTAAATTTCTACTTATTAATTTTGAA
ATATTAATAAATTAATATTATTTTATTTTGAATAAGCTTGTATGAAAGAAACAATTATTTTATGA
CAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTC
GTTCAATAAATAAATTTATTTTTTAAATTTT
Found at i:19508 original size:538 final size:536
Alignment explanation
Indices: 18477--19876 Score: 1538
Period size: 538 Copynumber: 2.6 Consensus size: 536
18467 TAATCTCCTA
* *
18477 CTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTCT-AATTAGGCTTGTATG-ATG
1 CTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTTTGAA-TAAGCTTGTATGAAT-
* * * * *
18540 AAAAACAATTGTTTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGATAATTGTTCAAATG
64 AGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATA
* * * * * ** *
18605 GCCATAACTATTTGAACTGACTCAATAAA-ATGATTTATGTTTTAAATCTCCAGCTTCTTAATTT
129 GTCATAACTATTTGAACTCACTCAATAAACA-AATTTATTTTTTAAATTTTTA-CTTATTAATTT
* * * * *
18669 TTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAATCTTTTATGAAATGAAACAATTATT
192 TTGAAATATTAATAAATTAATATTATTTTATTTCGAATAAGCTTTTATGAAA-GAAACAATTGTT
* * * * *
18734 TTATGACTAAACAAAAGGTCATAATGATTTAAAATAGATAATTATTA-TAATAGTCTTAACTATT
256 TTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATT-GTACAAATAGTCATAACTATT
* * * *
18798 TGAACTGGTTCAACAAATACATTTATTTTTTAAATTTCTTACTTATTATTTTTTAGAATATTATT
320 TGAACTGGTTCAACAAATACATTTATTTTATAAATTTCTTACTTATTAATCTTTAGAATATTATA
* * * *
18863 AGTTTAGTAATATTTTACTCTGAATAAGTTTCTATGGATAGAAACAATTGTTTTATGACAAAACA
385 AATTTAGTAATATTTTACTCTGAATAAGTTGCTATGAAGAGAAACAATTGTTTTATGACAAAACA
* *
18928 AAGATCATACTGATTTGAGATAGATAATTATTCAAATAGTCATAACTATTTGAA-TTGGTCTAAT
450 AAGATCATACTAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTT-GTCTAAT
18992 AAATAGATAT-AGTTTTTAAATCT
514 AAATAGAT-TCAGTTTTTAAATCT
* * * **
19015 CTTATTGATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAG
1 CTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTTTGAATAAGCTTGTATGAATAG
* * ** * * *
19080 AAACAATTATTTTATTACAAAACAATGGATCATAATAATTTGAAATAAATAATTATTTAAATAGT
66 AAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATAGT
* *
19145 CATAATTATTTGAACTCACTCAATAAACAAATTTATTTTTTTAAATATTTTACTTATTAGTTTTT
131 CATAACTATTTGAACTCACTCAATAAACAAATTTA-TTTTTTAAAT-TTTTACTTATTAATTTTT
* ** *
19210 GAAATTTTAATAAATTGGTATTATTTTATTTCGAATAAGCTTTTATGAATAGAAACAATTGGTTT
194 GAAATATTAATAAATTAATATTATTTTATTTCGAATAAGCTTTTATGAA-AGAAACAATTGTTTT
*
19275 ATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTACAAATAGTCATAATTATTTCG
258 ATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTACAAATAGTCATAACTATTT-G
* *
19340 AAC-GTGTTCAA-AAA-A-ATTTTATTTTATATATTT-TTACTTATTAATCTTTGGAATATTAGT
322 AACTG-GTTCAACAAATACA-TTTATTTTATAAATTTCTTACTTATTAATCTTTAGAATATTA-T
* * *
19400 AAATTTA-TATTATTTTA-TTTGAAATAAGCTTGC-ATGAAGAGAAACAATTGTTTTATGGCAAA
384 AAATTTAGTAATATTTTACTCTG-AATAAG-TTGCTATGAAGAGAAACAATTGTTTTATGACAAA
* * * *
19462 ACAAAAGGTCATAAC-AATTTGAAATAGATAATTGTTCAAGTAGTCATAACTATTTGAACTTGTT
447 AC-AAAGATCAT-ACTAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTC
** *
19526 TGGTAAATAGATTCATTTTTTAAATCT
510 TAATAAATAGATTCAGTTTTTAAATCT
** * * * * *
19553 CTTACTCATTAATTTTTGGAATAGTT-A-AAGTTAGTGTTATTCTATTTCGAATAAGCCTATATG
1 C-T--T-ATTAATTTTTAAAATA-TTAATAAATTAGTGTTATTTTATTTTGAATAAGCTTGTATG
* * * * * *
19616 AATTGATATAATTGTTTTATGACGAAACAAAAGATCATAACGATTTGAAATAGATAATTATTCAG
61 AATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAA
* * *** *** *
19681 ATAGTTATTACTATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAAT
126 ATAGTCATAACTATTTGAACTCACTCAATAAACAAATTTATTTTTTAAAT-TTTTACTTATTAAT
* * * * ** * *
19746 TGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAATAATTG
190 TTTTGAAATATTAATAAATTAATATTATTTTATTTCGAATAAGCTTTTATGAA-AGAAACAATTG
* * * * *
19811 TTTTATGACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTGTTCCAATAGTCATAACTAT
254 TTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTACAAATAGTCATAACTAT
19876 T
319 T
19877 CAAAATTATT
Statistics
Matches: 718, Mismatches: 122, Indels: 42
0.81 0.14 0.05
Matches are distributed among these distances:
536 3 0.00
537 67 0.09
538 232 0.32
539 142 0.20
540 148 0.21
541 111 0.15
542 13 0.02
543 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (536 bp):
CTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTTTGAATAAGCTTGTATGAATAG
AAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATAGT
CATAACTATTTGAACTCACTCAATAAACAAATTTATTTTTTAAATTTTTACTTATTAATTTTTGA
AATATTAATAAATTAATATTATTTTATTTCGAATAAGCTTTTATGAAAGAAACAATTGTTTTATG
ACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTACAAATAGTCATAACTATTTGAACT
GGTTCAACAAATACATTTATTTTATAAATTTCTTACTTATTAATCTTTAGAATATTATAAATTTA
GTAATATTTTACTCTGAATAAGTTGCTATGAAGAGAAACAATTGTTTTATGACAAAACAAAGATC
ATACTAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTCTAATAAATAGA
TTCAGTTTTTAAATCT
Found at i:19893 original size:181 final size:181
Alignment explanation
Indices: 18475--19876 Score: 1329
Period size: 181 Copynumber: 7.8 Consensus size: 181
18465 GATAATCTCC
* * * *
18475 TACTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTCT-AATTAGGCTTGTATG-A
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAA-TAAGCTTGTATGAA
* * * *
18538 TGAAAAACAATTGTTTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGATAATTGTTCAAA
65 T-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAA
* * * * * *
18603 TGGCCATAACTATTTGAAC-TGACTCAATAAA-ATGATTTATGTTTTAAATC-TC
129 TAGTCATAACTATTTGAACTTG-TTTAATAAATAT-ATTTATTTTTTAAATCTTT
* * * * * * *
18655 CAGCTTCTTAATTTTTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAATCTTTTATGAA
1 TA-CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAA
* * *
18720 -ATGAAACAATTATTTTATGACTAAACAAAAGGTCATAATGATTTAAAATAGATAATTATT-ATA
65 TA-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCA-A
* * * * *
18783 ATAGTCTTAACTATTTGAACTGGTTCAACAAATACATTTATTTTTTAAAT-TTCT
128 ATAGTCATAACTATTTGAACTTGTTTAATAAATATATTTATTTTTTAAATCTT-T
* * ** * * * * * *
18837 TACTTATT-ATTTTTTAGAATATTATTAGTTTAGTAATATTTTACTCTGAATAAGTTTCTATGGA
1 TACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAA
* * *
18901 TAGAAACAATTGTTTTATGACAAAAC-AAAGATCATACTGATTTGAGATAGATAATTATTCAAAT
65 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAAT
* * * *
18965 AGTCATAACTATTTGAA-TTGGTCTAATAAATAGATATAGTTTTTAAATC---
130 AGTCATAACTATTTGAACTT-GTTTAATAAATATATTTATTTTTTAAATCTTT
* ** **
19014 T-CTTATTGATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAAT
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAT
* * * * * *
19078 AGAAACAATTATTTTATTACAAAAC-AATGGATCATAATAATTTGAAATAAATAATTATTTAAAT
66 AGAAACAATTGTTTTATGACAAAACAAAAGG-TCATAATGATTTGAAATAGATAATTATTCAAAT
* *** * * * *
19142 AGTCATAATTATTTGAACTCACTCAATAAACAAATTTATTTTTTTAAATATTT
130 AGTCATAACTATTTGAACTTGTTTAATAAATATATTTA-TTTTTTAAATCTTT
* * * * *
19195 TACTTATTAGTTTTTGAAATTTTAATAAATTGGTATTATTTTATTTCGAATAAGCTTTTATGAAT
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAT
* * *
19260 AGAAACAATTGGTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTACAAATA
66 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATA
* * * * * *
19325 GTCATAATTATTTCGAACGTGTTCAA-AAAAAT-TTTATTTTATATAT-TTT
131 GTCATAACTATTT-GAACTTGTTTAATAAATATATTTATTTTTTAAATCTTT
* * * *
19374 TACTTATTAATCTTTGGAATATTAGTAAATTTA-TATTATTTTA-TTTGAAATAAGCTTGCATGA
1 TACTTATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTTTG-AATAAGCTTGTATGA
* * ** * *
19437 AGAGAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAG
64 ATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAA
** * * *
19502 TAGTCATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCT
129 TAGTCATAACTATTTGAACTTGTTTAATAAATATATTTATTTTTTAAATCTTT
* * * * * * * *
19555 TACTCATTAATTTTTGGAATAGTT-A-AAGTTAGTGTTATTCTATTTCGAATAAGCCTATATGAA
1 TACTTATTAATTTTTGAAATA-TTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAA
* * * * * * *
19618 TTGATATAATTGTTTTATGACGAAACAAAAGATCATAACGATTTGAAATAGATAATTATTCAGAT
65 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAAT
* * ** *
19683 AGTTATTACTATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTT
130 AGTCATAACTATTTGAACTTGTTTAATAAATATATTTATTTTTTAAATCTTT
* * * *** ** *
19735 TACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAAC
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAT
* * * * * * *
19800 AAAAATAATTGTTTTATGACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTGTTCCAATA
66 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATA
19865 GTCATAACTATT
131 GTCATAACTATT
19877 CAAAATTATT
Statistics
Matches: 992, Mismatches: 196, Indels: 67
0.79 0.16 0.05
Matches are distributed among these distances:
176 71 0.07
177 62 0.06
178 21 0.02
179 132 0.13
180 243 0.24
181 322 0.32
182 129 0.13
183 12 0.01
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (181 bp):
TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAT
AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATA
GTCATAACTATTTGAACTTGTTTAATAAATATATTTATTTTTTAAATCTTT
Found at i:20249 original size:182 final size:181
Alignment explanation
Indices: 19902--20511 Score: 534
Period size: 182 Copynumber: 3.4 Consensus size: 181
19892 AAAAATTTGA
* * * * * * * * * *
19902 AATAAGCTTGTATGAATAGAAAA-AGTTATTTTATGACAATACAAAAGGTTATAGCAATTTGAAC
1 AATAAGCTTATATGAACA-AAAACAATTGTTTTATGAAAAAACAAAAGGTCATAACGATTTGAAA
* * * * * ** ** *
19966 TAGATAATT-ATTCAAATAGCCATAATTATTTGAACTTGTTCGATAAACAAATTCATTTT-TGAA
65 TAGATAATTGA-TCAAATAGTCAAAACTAATTGAACTAGTAAGCCAAACAAATACATTTTCT-AA
* * *
20029 ATCTC-TCACTTATTAATTTTTGAAATATTAGTAAATTAGAATTATGTTATTCTG
128 ATC-CATTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATTTTATTCTG
* * * * *
20083 AATAAGCTTTTTATGAACAAAAACAATTGTTTTGTGAGAAAACAAAAGGCCATAATGATTTGAAA
1 AATAAGC-TTATATGAACAAAAACAATTGTTTTATGAAAAAACAAAAGGTCATAACGATTTGAAA
* * ** * *
20148 TAGATAATTGATCAAATAGTCATAATTGTTTGCACTAGTCAAGCCAAA-AGATACATTTTCTAAA
65 TAGATAATTGATCAAATAGTCAAAACTAATTGAACTAGT-AAGCCAAACAAATACATTTTCTAAA
** *
20212 TCCATTACTTATTAATTTTCAAAATATTAATAAATTAGCATTATTTTATTCTG
129 TCCATTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATTTTATTCTG
* * * *
20265 AATAAGATTATATGAACAGAAATAATTATTTTATGAAAAAACAAATA-GTCATAACGATTTGAAA
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGAAAAAACAAA-AGGTCATAACGATTTGAAA
* * * * * * * ** *
20329 TAAATATTTGGTCAAATAGTTAAAACTAATTGAACTGGTATGGCAAACAAATTTATTTTTTAAAT
65 TAGATAATTGATCAAATAGTCAAAACTAATTGAACTAGTAAGCCAAACAAATACATTTTCTAAAT
** * **
20394 CTTTTAC-TATTTATTTTTGAAATATTAATAAATTA-ATATTATTTTATTCCA
130 CCATTACTTATTAATTTTTGAAATATTAATAAATTAGA-ATTATTTTATTCTG
* * * * * *
20445 AACAAACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAAT
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGAAAAAACAAAAGGTCATAACGATTTGAAAT
20510 AG
66 AG
20512 TTTTGTAAAC
Statistics
Matches: 346, Mismatches: 73, Indels: 21
0.79 0.17 0.05
Matches are distributed among these distances:
179 1 0.00
180 97 0.28
181 106 0.31
182 136 0.39
183 6 0.02
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (181 bp):
AATAAGCTTATATGAACAAAAACAATTGTTTTATGAAAAAACAAAAGGTCATAACGATTTGAAAT
AGATAATTGATCAAATAGTCAAAACTAATTGAACTAGTAAGCCAAACAAATACATTTTCTAAATC
CATTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATTTTATTCTG
Found at i:20327 original size:482 final size:480
Alignment explanation
Indices: 19416--20348 Score: 1099
Period size: 482 Copynumber: 1.9 Consensus size: 480
19406 ATATTATTTT
* *
19416 ATTTGAAATAAGCTTGCATGAAGAGAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATT
1 ATTTGAAATAAGCTTGCATGAAGAGAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATT
* * * * * * *
19481 TGAAATAGATAATTGTTCAAGTAGTCATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTT
66 TGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGATAAACAAATTCATTTTT
* * * * **
19546 TAAATCTCTTACTCATTAATTTTTGGAATAGTTAAAGTTAGTGTTATTCTATTTCGAATAAGCCT
131 GAAATCTCTCACTCATTAATTTTTGAAATAGTTAAAATTAGAATTATTCTATTTCGAATAAGCCT
*** * * *
19611 ATATGAATTGATATAATTGTTTTATGACGAAACAAAAGATCATAACGATTTGAAATAGATAATTA
196 ATATGAACAAAAACAATTGTTTTATGACGAAACAAAAGACCATAACGATTTGAAATAGATAATTA
* * * * ** ** * ** * **
19676 TTCAGATAGTTATTACTATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTACTTA
261 TTCAAATAGTCATAACTATTTGAACTAGTAAGCCAAACAGATACATTTTCTAAATCCATTACTTA
* * *
19741 TTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAAT
326 TTAATTGTTAAAATATTAATAAATTAACATTATTTTAATCCAAATAAGATAATATGAACAAAAAT
* * * * * *
19806 AATTGTTTTATGACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTGTTCCAATAGTCATA
391 AATTATTTTATGAAAAAACAAAGAGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCATA
19871 ACTATTCAAAATTATTTGGTAAAAA
456 ACTATTCAAAATTATTTGGTAAAAA
* * * * *
19896 ATTTGAAATAAGCTTGTATGAATAGAAA-AAGTTATTTTATGACAATACAAAAGGTTATAGCAAT
1 ATTTGAAATAAGCTTGCATGAAGAGAAACAA-TTATTTTATGACAAAACAAAAGGTCATAACAAT
* *
19960 TTGAACTAGATAATTATTCAAATAGCCATAATTATTTGAACTTGTTCGATAAACAAATTCATTTT
65 TTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGATAAACAAATTCATTTT
*
20025 TGAAATCTCTCACTTATTAATTTTTGAAATA-TTAGTAAATTAGAATTATGT-TA-TTCTGAATA
130 TGAAATCTCTCACTCATTAATTTTTGAAATAGTTA--AAATTAGAATTAT-TCTATTTC-GAATA
* * * * *
20087 AGCTTTTTATGAACAAAAACAATTGTTTTGTGA-GAAAACAAAAGGCCATAATGATTTGAAATAG
191 AGC-CTATATGAACAAAAACAATTGTTTTATGACG-AAACAAAAGACCATAACGATTTGAAATAG
* * *
20151 ATAATTGA-TCAAATAGTCATAATTGTTTGCACTAGTCAAGCCAAA-AGATACATTTTCTAAATC
254 ATAATT-ATTCAAATAGTCATAACTATTTGAACTAGT-AAGCCAAACAGATACATTTTCTAAATC
* * ** *
20214 CATTACTTATTAATT-TTCAAAATATTAATAAATTAGCATTATTTTATTCTGAATAAGATTATAT
317 CATTACTTATTAATTGTT-AAAATATTAATAAATTAACATTATTTTAATCCAAATAAGATAATAT
* * * *
20278 GAACAGAAATAATTATTTTATGAAAAAACAAATAGTCATAACGATTTGAAATAAATATTTGGTCA
381 GAACAAAAATAATTATTTTATGAAAAAACAAAGAGTCATAACAATTTGAAATAAATAATTGGTCA
20343 AATAGT
446 AATAGT
20349 TAAAACTAAT
Statistics
Matches: 374, Mismatches: 69, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
479 5 0.01
480 140 0.37
481 23 0.06
482 201 0.54
483 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (480 bp):
ATTTGAAATAAGCTTGCATGAAGAGAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATT
TGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGATAAACAAATTCATTTTT
GAAATCTCTCACTCATTAATTTTTGAAATAGTTAAAATTAGAATTATTCTATTTCGAATAAGCCT
ATATGAACAAAAACAATTGTTTTATGACGAAACAAAAGACCATAACGATTTGAAATAGATAATTA
TTCAAATAGTCATAACTATTTGAACTAGTAAGCCAAACAGATACATTTTCTAAATCCATTACTTA
TTAATTGTTAAAATATTAATAAATTAACATTATTTTAATCCAAATAAGATAATATGAACAAAAAT
AATTATTTTATGAAAAAACAAAGAGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCATA
ACTATTCAAAATTATTTGGTAAAAA
Found at i:20459 original size:180 final size:181
Alignment explanation
Indices: 20010--20510 Score: 526
Period size: 180 Copynumber: 2.8 Consensus size: 181
20000 CTTGTTCGAT
* * * * *
20010 AAACAAATTCATTTTTGAAATCTCTCACTTATTAATTTTTGAAATATTAGTAAATTAGAATTATG
1 AAACAAATTCATTTTTTAAATCTATTACTTATTAATTTTTGAAATATTAATAAATTA-AATTATT
* * * * * *
20075 TTATTCTGAATAAGCTTTTTATGAACAAAAACAATTGTTTTGTGAGAAAACAAAAGGCCATAATG
65 TTATTCTGAATAAAC-TTATATGAACAAAAACAATTGTTTTATGAAAAAACAAAAGGTCATAACG
* * * ** *
20140 ATTTGAAATAGATAATTGATCAAATAGTCATAATTGTTTGCACTAGTCAAGCC
129 ATTTGAAATAAATAATTGATCAAATAGTCAAAACTAATTGAACTAGTCAAGCC
* * * * ** *
20193 AAA-AGATACATTTTCTAAATCCATTACTTATTAATTTTCAAAATATTAATAAATTAGCATTATT
1 AAACAAATTCATTTTTTAAATCTATTACTTATTAATTTTTGAAATATTAATAAATTA-AATTATT
* * *
20257 TTATTCTGAATAAGA-TTATATGAACAGAAATAATTATTTTATGAAAAAACAAATA-GTCATAAC
65 TTATTCTGAATAA-ACTTATATGAACAAAAACAATTGTTTTATGAAAAAACAAA-AGGTCATAAC
* * * * * *
20320 GATTTGAAATAAATATTTGGTCAAATAGTTAAAACTAATTGAACTGGT-ATGGC
128 GATTTGAAATAAATAATTGATCAAATAGTCAAAACTAATTGAACTAGTCAAGCC
* * *
20373 AAACAAATTTATTTTTTAAATCTTTTAC-TATTTATTTTTGAAATATTAATAAATTAATATTATT
1 AAACAAATTCATTTTTTAAATCTATTACTTATTAATTTTTGAAATATTAATAAATTAA-ATTATT
** * * * * *
20437 TTATTCCAAACAAACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTAATAACAA
65 TTATTCTGAATAAACTTATATGAACAAAAACAATTGTTTTATGAAAAAACAAAAGGTCATAACGA
20502 TTTGAAATA
130 TTTGAAATA
20511 GTTTTGTAAA
Statistics
Matches: 259, Mismatches: 53, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
179 2 0.01
180 97 0.37
181 94 0.36
182 63 0.24
183 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (181 bp):
AAACAAATTCATTTTTTAAATCTATTACTTATTAATTTTTGAAATATTAATAAATTAAATTATTT
TATTCTGAATAAACTTATATGAACAAAAACAATTGTTTTATGAAAAAACAAAAGGTCATAACGAT
TTGAAATAAATAATTGATCAAATAGTCAAAACTAATTGAACTAGTCAAGCC
Found at i:20506 original size:662 final size:659
Alignment explanation
Indices: 19243--20510 Score: 1581
Period size: 662 Copynumber: 1.9 Consensus size: 659
19233 TTTTATTTCG
* * **
19243 AATAAGCTTTTATGAATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAATGATTTGAAAT
1 AATAAGCTTGTATGAATAGAAACAATTAGTTTATGACAAAACAAAAGGTCATAACAATTTGAAAT
* * * * *
19308 AGATAATTGTACAAATAGTCATAATTATTTCGAACGTGTTCAAAAAAATTTTATTTTATATATTT
66 AGATAATTATACAAATAGCCATAATTATTTCGAACGTGTTCAAAAAAATTTCATTTTATAAATTC
* * * *
19373 TTACTTATTAATCTTTGGAATATTAGTAAATTTATATTATTTTATTTGAAATAAGCTTGCATGAA
131 TCACTTATTAATCTTTGAAATATTAGTAAATTTAAATTATGTTATTTGAAATAAGCTTGCATGAA
* * * * *
19438 GAGAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAGT
196 CAAAAACAATTGTTTTATGGCAAAACAAAAGGCCATAACAATTTGAAATAGATAATTGATCAAAT
* ** ** * *
19503 AGTCATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCTTACTCATTAATTT
261 AGTCATAACTATTTGAACTAGTAAGCCAAATAGATACATTTTCTAAATCTCTTACTCATTAATTT
*** * ** * ** * *
19568 TTGGAATAGTTAAAGTTAGTGTTATTCTATTTCGAATAAGCCTATATGAATTGATATAATTGTTT
326 TCAAAATAGTTAAAATTAGCATTATTCTATTTCGAATAAGACTATATGAACAGAAATAATTATTT
** * * * ** *
19633 TATGACGAAACAAAAGATCATAACGATTTGAAATAGATAATTATTCAGATAGTTATTACTATTTG
391 TATGAAAAAACAAAAGATCATAACGATTTGAAATAAATAATTAGTCAAATAGTTAAAACTAATTG
* * * *
19698 AACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAA
456 AACTGGTATGGCAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAA
* * *
19763 ATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAATAATTGTTTTATGACAAAACAAA
521 ATTAATATTATTTTAATCCAAACAAACTAATATGAACAAAAACAATTGTTTTATGACAAAACAAA
* * *
19828 GGGTCATAATAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATTCAAAATTATTTGGTAA
586 AGGTAATAACAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATTCAAAATTATTTGGTAA
19893 AAAATTTGA
651 AAAATTTGA
* * * * *
19902 AATAAGCTTGTATGAATAGAAA-AAGTTATTTTATGACAATACAAAAGGTTATAGCAATTTGAAC
1 AATAAGCTTGTATGAATAGAAACAA-TTAGTTTATGACAAAACAAAAGGTCATAACAATTTGAAA
* *
19966 TAGATAATTATTCAAATAGCCATAATTATTT-GAACTTGTTCGATAAACAAA-TTCATTTT-TGA
65 TAGATAATTATACAAATAGCCATAATTATTTCGAACGTGTTC-A-AAA-AAATTTCATTTTAT-A
*
20028 AATCTCTCACTTATTAATTTTTGAAATATTAGTAAA-TTAGAATTATGTTATTCTG-AATAAGCT
126 AAT-TCTCACTTATTAATCTTTGAAATATTAGTAAATTTA-AATTATGTTATT-TGAAATAAGC-
** * **
20091 TTTTATGAACAAAAACAATTGTTTTGTGAG-AAAACAAAAGGCCATAATGATTTGAAATAGATAA
187 TTGCATGAACAAAAACAATTGTTTTATG-GCAAAACAAAAGGCCATAACAATTTGAAATAGATAA
* * *
20155 TTGATCAAATAGTCATAATTGTTTGCACTAGTCAAGCCAAA-AGATACATTTTCTAAATC-CATT
251 TTGATCAAATAGTCATAACTATTTGAACTAGT-AAGCCAAATAGATACATTTTCTAAATCTC-TT
* * *
20218 ACTTATTAATTTTCAAAATA-TTAATAAATTAGCATTATTTTA-TTCTGAATAAGATTATATGAA
314 ACTCATTAATTTTCAAAATAGTT-A-AAATTAGCATTATTCTATTTC-GAATAAGACTATATGAA
* *
20281 CAGAAATAATTATTTTATGAAAAAACAAATAG-TCATAACGATTTGAAATAAATATTTGGTCAAA
376 CAGAAATAATTATTTTATGAAAAAACAAA-AGATCATAACGATTTGAAATAAATAATTAGTCAAA
*
20345 TAGTTAAAACTAATTGAACTGGTATGGCAAACAAATTTATTTTTTAAATCTTTTAC-TATTTATT
440 TAGTTAAAACTAATTGAACTGGTATGGCAAACAAATTTATTTTTTAAATCTTTTACTTATTAATT
* * * *
20409 TTTGAAATATTAATAAATTAATATTATTTTATTCCAAACAAACTTATATGAACAAAAACATTTGT
505 GTTGAAATATTAATAAATTAATATTATTTTAATCCAAACAAACTAATATGAACAAAAACAATTGT
20474 TTTATGACAAAACAAAAGGTAATAACAATTTGAAATA
570 TTTATGACAAAACAAAAGGTAATAACAATTTGAAATA
20511 GTTTTGTAAA
Statistics
Matches: 513, Mismatches: 80, Indels: 29
0.82 0.13 0.05
Matches are distributed among these distances:
658 11 0.02
659 82 0.16
660 16 0.03
661 51 0.10
662 219 0.43
663 132 0.26
664 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (659 bp):
AATAAGCTTGTATGAATAGAAACAATTAGTTTATGACAAAACAAAAGGTCATAACAATTTGAAAT
AGATAATTATACAAATAGCCATAATTATTTCGAACGTGTTCAAAAAAATTTCATTTTATAAATTC
TCACTTATTAATCTTTGAAATATTAGTAAATTTAAATTATGTTATTTGAAATAAGCTTGCATGAA
CAAAAACAATTGTTTTATGGCAAAACAAAAGGCCATAACAATTTGAAATAGATAATTGATCAAAT
AGTCATAACTATTTGAACTAGTAAGCCAAATAGATACATTTTCTAAATCTCTTACTCATTAATTT
TCAAAATAGTTAAAATTAGCATTATTCTATTTCGAATAAGACTATATGAACAGAAATAATTATTT
TATGAAAAAACAAAAGATCATAACGATTTGAAATAAATAATTAGTCAAATAGTTAAAACTAATTG
AACTGGTATGGCAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAA
ATTAATATTATTTTAATCCAAACAAACTAATATGAACAAAAACAATTGTTTTATGACAAAACAAA
AGGTAATAACAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATTCAAAATTATTTGGTAA
AAAATTTGA
Found at i:21314 original size:181 final size:180
Alignment explanation
Indices: 20528--21435 Score: 830
Period size: 181 Copynumber: 5.0 Consensus size: 180
20518 AAACAGAATT
* * * * *
20528 ATTATGACTTTTTTTTTGTAATAAAATAATTGTTTCTGTTCATACAAGCTTA-TTCGATTAAAAT
1 ATTATGACTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAAT
* * * *
20592 AATATTAATTTATTAATATTT-TGACAAGTAATAAGTGAAAGATTTAAAAAATAAATATGTTTAC
66 AATATTAATTTATTAATATTTCT-AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTAT
* * * * *
20656 CAAACAAGTTCAAATAGTCAAGACTATTTAAATAATTATCTATTTCAAATA
130 CGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
* * * * * * * * *
20707 ATTGTGACCTTCTATTTTATAATAAAATAATTGTTT-TACTTAACATAAGCTTATTTGAAATAAA
1 ATTATGA-CTTTTGTTTTGTCATAAAATAATTGTTTCTA-TTCATACAAGCTTATTTGGAATAAA
* * *** * * * * * *
20771 ATAGCT-CTAATTTATTAATAGACCAAAAATTAATGAGTAAGAGAATTAAAAAAATGAATCTGTT
64 ATA-ATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAG-ATTTAAAAAATAAATATGTT
* * *
20835 TA-CTGAACAAGTTCAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAAC
127 TATC-GAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
* * * * *
20889 ATTATAACCATTTGTTTTGTCATAAAATAATTAG-TTCTGTTCATGCAAGCTTATTTTGAATAAA
1 ATTATGA-CTTTTGTTTTGTCATAAAATAATT-GTTTCTATTCATACAAGCTTATTTGGAATAAA
* * * * * * *
20953 ATAATATAAAATTATTAAAACTCCAAAAATTAATAAATAAAA-ATTTAAAAAATAAATATGTTTT
64 ATAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAAAAATAAATATG-TTT
* ** * * *
21017 TTTTAACACA-TTC-AATAGTTATAACTATTTGAACAATTTTCTATTTCAAATC
128 ATCGAACA-AGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
* ** * * *
21069 ATTATGACAATTTGTTTTGTCATAAACCAATTATTTCTATTCATACAAGCTTATTCGAAATAAAA
1 ATTATGAC-TTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAA
* *
21134 TAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAATAATAAATTTGTTTAT
65 TAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTAT
* * * * *
21199 CGAGCAAGTTCAAATAGTTATTACTATTTGAACAGTTATATATTTCAAATC
130 CGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
* * * *
21250 TTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAA
1 ATTATGA-CTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAA
* * * * * *
21315 TAATATTAATTTCTTATTA-TTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATCTATTTA
65 TAATATTAATTTATTAATATTTCT-AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTA
* * * * * ** *
21379 CCGAACACGTTTAAATA-TTCATGTCCATTTAAACTGTTATTTATTTCAAATC
129 TCGAACAAGTTCAAATAGTT-ATGACTATTTAAACAATTATCTATTTCAAATC
*
21431 GTTAT
1 ATTAT
21436 TATAAGCAAG
Statistics
Matches: 589, Mismatches: 119, Indels: 40
0.79 0.16 0.05
Matches are distributed among these distances:
179 9 0.02
180 187 0.32
181 249 0.42
182 142 0.24
183 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.41
Consensus pattern (180 bp):
ATTATGACTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAAT
AATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTATC
GAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
Found at i:22153 original size:180 final size:180
Alignment explanation
Indices: 21720--23120 Score: 1229
Period size: 180 Copynumber: 7.8 Consensus size: 180
21710 AATAATCTCC
* * * *
21720 TACTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTCT-AATTAGGCTTGTATG-A
1 TACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATT-TGAA-TAAGTTTGTATGAA
* * * *
21783 TGAAAAACAATTGTTTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGATAATTGTTCAAA
64 T-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAA
* * ** * * *
21848 TGGCCATAACTATTTGAACTGACTCAATAAA-ATGATTTATGTTTTAAATCTCC
128 TAGTCATAACTATTTGAACTGGTTCAATAAACA-GATTTATTTTTTAAATTTCT
* * * * * * *
21901 AACTTCTTGATTTTT-GAAATATTAATAAAGTAATATTATTTTATTTTGGATAA-TCTTTTATGA
1 TACTTATTAATTTTTAG-AATATTAATAAATTAGTATTATTTTA-TTTGAATAAGT-TTGTATGA
* * *
21964 A-ATGAAACAATTATTTTATGACTAAACAAAAGGTCATAATGATTTAAAATAGATAATTATT-AA
63 ATA-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAA
* * * *
22027 ATAGTCTTAACTATTTGAACTGGTTCAATAAATACATTTACTTTTTAAATTTCT
127 ATAGTCATAACTATTTGAACTGGTTCAATAAACAGATTTATTTTTTAAATTTCT
* * ** * * *
22081 TACTTATTATTTTTTAGAATATTATTAGTTTAGTAATATTTTACTCTGAATAAGTTTCTATTG-A
1 TACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTA-TTTGAATAAGTTTGTA-TGAA
* * *
22145 TAGAAACAATTGTTTTATGACAAAAC-AAAGATCATACTGATTTGAGATAGATAATTATTCAAAT
64 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAAT
* * * *
22209 AGTCATAACTATTTGAATTGG-TCTGATAAACAGATATAGTTTTTAAA--TC-
129 AGTCATAACTATTTGAACTGGTTC-AATAAACAGATTTATTTTTTAAATTTCT
* * * *
22258 T-CTTATTGATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAAT
1 TACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTA-TTTGAATAAGTTTGTATGAAT
* * * * * *
22322 AGAAACAATTATTTTATTACAAAAC-AATGGATCATAATAATTTGAAATAAATAATTATTTAAAT
65 AGAAACAATTGTTTTATGACAAAACAAAAGG-TCATAATGATTTGAAATAGATAATTATTCAAAT
* *** *
22386 AGTCATAATTATTTGAACTCACTCAATAAACAAATTTATTTTTTAAATATT-T
129 AGTCATAACTATTTGAACTGGTTCAATAAACAGATTTATTTTTTAAAT-TTCT
* * * *
22438 TACTTATTAGTTTTT-GAAATTTTAATAAATTGGTATTATTTTATTTCAAATAAGCTTT-TATGA
1 TACTTATTAATTTTTAG-AATATTAATAAATTAGTATTATTTTATTT-GAATAAG-TTTGTATGA
* * * *
22501 ATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGACAATTGTTCAAA
63 ATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAA
* * * * *
22566 TAGTCATAATTACTTCGAAC-GTGTTCAA-AAA-AAATTTTATTTTATATATTT-T
128 TAGTCATAACTA-TTTGAACTG-GTTCAATAAACAGA-TTTATTTTTTAAATTTCT
* * * *
22618 TACTTATTAATCTTT-GAAATATTAGTAAATTTA-TATTATTTTATTTGAAATAAGCTTGGATGA
1 TACTTATTAATTTTTAG-AATATTAATAAA-TTAGTATTATTTTATTTG-AATAAGTTTGTATGA
* * ** * *
22681 AGAGAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAG
63 ATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAA
* ** * * *
22746 TAGTCATAACTATTTGAACTTGTTCGGTAAATAGATTCATTTTTTAAATCTCT
128 TAGTCATAACTATTTGAACTGGTTCAATAAACAGATTTATTTTTTAAATTTCT
* * * * * **
22799 TACTCATTAATTTTTGGAATAGTT-A-AAGTTAGTGTTATTCTATTTCGAATAAGCCTGTATGAA
1 TACTTATTAATTTTTAGAATA-TTAATAAATTAGTATTATTTTATTT-GAATAAGTTTGTATGAA
* * * * * * *
22862 TTGATATAATTGTTTTATGGCGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAGAT
64 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAAT
* * * *** *
22927 AGTTATTACTATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTT-T
129 AGTCATAACTATTTGAACTGGTTCAATAAACAGATTTATTTTTTAAAT-TTCT
* * * *** * **
22979 TACTTATTAATTGTT-GAAATATTAATAAACTAATATTATTTTAATCCAAATAAGCTAATATGAA
1 TACTTATTAATTTTTAG-AATATTAATAAATTAGTATTATTTT-ATTTGAATAAGTTTGTATGAA
* * * * * * * *
23043 CAAAAATAATTGTTTTATGACAAAACAAAAGGTCATATTAATTTGAAATAAATAATTGTTCCAAT
64 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAAT
23108 AGTCATAACTATT
129 AGTCATAACTATT
23121 CAAAATTATT
Statistics
Matches: 992, Mismatches: 184, Indels: 88
0.78 0.15 0.07
Matches are distributed among these distances:
175 2 0.00
176 74 0.07
177 65 0.07
178 4 0.00
179 49 0.05
180 439 0.44
181 333 0.34
182 26 0.03
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (180 bp):
TACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTGAATAAGTTTGTATGAATA
GAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAG
TCATAACTATTTGAACTGGTTCAATAAACAGATTTATTTTTTAAATTTCT
Found at i:22762 original size:361 final size:356
Alignment explanation
Indices: 21720--23120 Score: 1310
Period size: 361 Copynumber: 3.9 Consensus size: 356
21710 AATAATCTCC
* * * *
21720 TACTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTCTAATTAGGCTTGTATGATG
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAT-
* * * * * *
21785 AAAAACAATTGTTTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGATAATTGTTCAAATG
65 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
* * * * * * *
21850 GCCATAACTATTTGAAC-TGACTC-AATAAAATGATTTATGTTTTAAATCTCCAACTTCTTGATT
130 GTCATAACTATTTGAACTTG-TTCAAAAAAAAT-ATTTAT-TTTTAAATCTTCTACTTATT-AAT
* * *
21913 TTTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAATCTTTTATGAAATGAAACAATTAT
191 TTTGAAATATTAATAAA-TAATATTATTTTATTTTGAATAAGCTTGTATGAAA-GAAACAATTAT
* * * * *
21978 TTTATGACTAAACAAAAGGTCATAATGATTTAAAATAGATAATTATT-AAATAGTCTTAACTATT
254 TTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTATT
* * *
22042 TGAACTGGTTCAATAAATACATTTACTTTTTAAATTTCT
319 TGAACTCGTTCAATAAATAAATTTATTTTTTAAATTT-T
* * ** * * * * *
22081 TACTTATT-ATTTTTTAGAATATTATTAGTTTAGTAATATTTTACTCTGAATAAGTTTCTATTGA
1 TACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTCTAAATAAGCTTGTA-TGA
* *
22145 TAGAAACAATTGTTTTATGACAAAAC-AAAGATCAT-ACTGATTTGAGATAGATAATTATTCAAA
64 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC-GATTTGAAATAGATAATTATTCAAA
* * * * * * *
22208 TAGTCATAACTATTTGAA-TTGGTCTGATAAACAGATATAGTTTTTAAA---TCT-CTTATTGAT
128 TAGTCATAACTATTTGAACTTGTTC-AAAAAAAATATTTA-TTTTTAAATCTTCTACTTATTAAT
* * **
22268 TTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTA
191 TTT-GAAATATTAATAAA-TAATATTATTTTATTTTGAATAAGCTTGTATGAA-AGAAACAATTA
* * * *
22333 TTTTATTACAAAAC-AATGGATCATAATAATTTGAAATAAATAATTATTTAAATAGTCATAATTA
253 TTTTATGACAAAACAAAAGG-TCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTA
** *
22397 TTTGAACTCACTCAATAAACAAATTTATTTTTTAAATATTT
317 TTTGAACTCGTTCAATAAATAAATTTATTTTTTAAAT-TTT
* * * *
22438 TACTTATTAGTTTTTGAAATTTTAATAAATTGGTATTATTTTATT-TCAAATAAGCTTTTATGAA
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCT-AAATAAGCTTGTATG-A
* * *
22502 TAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGACAATTGTTCAAAT
64 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
* * * * *
22567 AGTCATAATTACTTCGAACGTGTTCAAAAAAAAT-TTTATTTTATATAT-TTTTACTTATTAATC
129 AGTCATAACTA-TTTGAACTTGTTCAAAAAAAATATTTATTTT-TAAATCTTCTACTTATTAAT-
* * * *
22630 TTTGAAATATTAGTAAATTTATATTATTTTA-TTTGAAATAAGCTTGGATGAAGAGAAACAATTG
191 TTTGAAATATTAATAAA-TAATATTATTTTATTTTG-AATAAGCTTGTATGAA-AGAAACAATTA
* * * * *
22694 TTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAGTAGTCATAACTAT
253 TTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTAT
* ** * * *
22759 TTGAACTTGTTCGGTAAATAGATTCATTTTTTAAATCTCT
318 TTGAACTCGTTCAATAAATAAATTTATTTTTTAAAT-TTT
* * * * * * *
22799 TACTCATTAATTTTTGGAATAGTT-A-AAGTTAGTGTTATTCTATT-TCGAATAAGCCTGTATGA
1 TACTTATTAATTTTTGAAATA-TTAATAAATTAGTATTATTTTATTCT-AAATAAGCTTGTATG-
* * * * * *
22861 ATTGATATAATTGTTTTATGGCGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAGA
63 ATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAA
* * **** * *
22926 TAGTTATTACTATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATT
128 TAGTCATAACTATTTGAACTTGTTCAAAAAAAATATTTA-TTTTTAAATCTTCTACTTATTAATT
* *** ** * * *
22991 GTTGAAATATTAATAAACTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAATAATTGT
192 -TTGAAATATTAATAAA-TAATATTATTTTATTTTGAATAAGCTTGTATGAA-AGAAACAATTAT
* * *
23056 TTTATGACAAAACAAAAGGTCATATTAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATT
254 TTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTATT
23121 CAAAATTATT
Statistics
Matches: 851, Mismatches: 157, Indels: 64
0.79 0.15 0.06
Matches are distributed among these distances:
355 8 0.01
356 98 0.12
357 116 0.14
358 55 0.06
359 30 0.04
360 180 0.21
361 350 0.41
362 14 0.02
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (356 bp):
TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGATA
GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAG
TCATAACTATTTGAACTTGTTCAAAAAAAATATTTATTTTTAAATCTTCTACTTATTAATTTTGA
AATATTAATAAATAATATTATTTTATTTTGAATAAGCTTGTATGAAAGAAACAATTATTTTATGA
CAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTC
GTTCAATAAATAAATTTATTTTTTAAATTTT
Found at i:23391 original size:301 final size:301
Alignment explanation
Indices: 22846--23416 Score: 734
Period size: 301 Copynumber: 1.9 Consensus size: 301
22836 TTCTATTTCG
* * * * *
22846 AATAAGCCTGTATGAATTGATATAATTGTTTTATGGCGAAACAAAAGGTCATAACGATTTGAAAT
1 AATAAGCCTGTATGAATAGATAAAATTATTTTATGACGAAACAAAAGGTCATAACAATTTGAAAT
* ** * * * * *
22911 AGATAATTATTCAGATAGTTATTACTATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATC
66 AGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTTTGAAATC
* * *
22976 TTTTACTTATTAATTGTTGAAATATTAATAAACTAATATTATTTTAATCCAAATAAGCTAATATG
131 TCTCACTTATTAATTGTTGAAATATTAATAAACTAATATTATGTTAATCCAAATAAGCTAATATG
* * * * *
23041 AACAAAAATAATTGTTTTATGACAAAACAAAAGGTCATATTAATTTGAAATAAATAATTGTTCCA
196 AACAAAAACAATTGTTTTATGACAAAACAAAAGGCCATAATAATTTGAAATAAATAATTGATCAA
23106 ATAGTCATAACTATTCAAAATTATTTGGTAAACAAATTTGA
261 ATAGTCATAACTATTCAAAATTATTTGGTAAACAAATTTGA
* * *
23147 AATAAGCTTGTATGAATAGA-AAAAGTTATTTTATGAC-AATACAAAAGGTTATAGCAATTTGAA
1 AATAAGCCTGTATGAATAGATAAAA-TTATTTTATGACGAA-ACAAAAGGTCATAACAATTTGAA
* *
23210 CTAGATAATTATTCAAATAGCCATAATTATTTGAACTTGTTCGGTAAACAGATTCATTTTTGAAA
64 ATAGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTTTGAAA
* * * * *** **
23275 TCTCTCACTTATTTATTTTTGAAATATTAATAAATTAGA-ATTATGTTATTTTGAATAAGCTTTT
129 TCTCTCACTTATTAATTGTTGAAATATTAATAAACTA-ATATTATGTTAATCCAAATAAGCTAAT
* * ** *
23339 ATGAACAAAAACAATTGTTTTGTGAGAAAACAAAAGGCCATAATGGTTTGAAATAGATAATTGAT
193 ATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGCCATAATAATTTGAAATAAATAATTGAT
23404 CAAATAGTCATAA
258 CAAATAGTCATAA
23417 TTGTTTGCAC
Statistics
Matches: 227, Mismatches: 40, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
300 5 0.02
301 221 0.97
302 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (301 bp):
AATAAGCCTGTATGAATAGATAAAATTATTTTATGACGAAACAAAAGGTCATAACAATTTGAAAT
AGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTTTGAAATC
TCTCACTTATTAATTGTTGAAATATTAATAAACTAATATTATGTTAATCCAAATAAGCTAATATG
AACAAAAACAATTGTTTTATGACAAAACAAAAGGCCATAATAATTTGAAATAAATAATTGATCAA
ATAGTCATAACTATTCAAAATTATTTGGTAAACAAATTTGA
Found at i:23571 original size:482 final size:481
Alignment explanation
Indices: 22660--23592 Score: 1108
Period size: 482 Copynumber: 1.9 Consensus size: 481
22650 ATATTATTTT
* *
22660 ATTTGAAATAAGCTTGGATGAAGAGAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATT
1 ATTTGAAATAAGCTTGGATGAAGAGAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATT
* * * *
22725 TGAAATAGATAATTGTTCAAGTAGTCATAACTATTTGAACTTGTTCGGTAAATAGATTCATTTTT
66 TGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTTT
* * * * **
22790 TAAATCTCTTACTCATTAATTTTTGGAATAGTTAAAGTTAGTGTTATTCTATTTCGAATAAGCCT
131 GAAATCTCTCACTCATTAATTTTTGAAATAGTTAAAATTAGAATTATTCTATTTCGAATAAGCCT
*** * * * *
22855 GTATGAATTGATATAATTGTTTTATGGCGAAACAAAAGGTCATAACGATTTGAAATAGATAATTA
196 GTATGAACAAAAACAATTGTTTTATGGCAAAACAAAAGGCCATAACGATTTGAAATAGATAATTA
* * * * ** ** * ** * **
22920 TTCAGATAGTTATTACTATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTACTTA
261 TTCAAATAGTCATAACTATTTGAACTAGTAAGCCAAACAGATACATTTTCTAAATCCATTACTTA
* * * *
22985 TTAATTGTTGAAATATTAATAAACTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAAT
326 GTAATTGTTAAAATATTAATAAACTAACATTATTTTAATCCAAATAAGATAATATGAACAAAAAT
* ** * *
23050 AATTGTTTTATGACAAAACAAAAGGTCATATTAATTTGAAATAAATAATTGTTCCAATAGTCATA
391 AATTGTTTTATGAAAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCATA
23115 ACTATTCAAAATTATTTGGTAAACAA
456 ACTATTCAAAATTATTTGGTAAACAA
* * * * *
23141 ATTTGAAATAAGCTTGTATGAATAGAAA-AAGTTATTTTATGACAATACAAAAGGTTATAGCAAT
1 ATTTGAAATAAGCTTGGATGAAGAGAAACAA-TTATTTTATGACAAAACAAAAGGTCATAACAAT
* *
23205 TTGAACTAGATAATTATTCAAATAGCCATAATTATTTGAACTTGTTCGGTAAACAGATTCATTTT
65 TTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTT
* * *
23270 TGAAATCTCTCACTTATTTATTTTTGAAATA-TTAATAAATTAGAATTATGT-TATTTTGAATAA
130 TGAAATCTCTCACTCATTAATTTTTGAAATAGTT-A-AAATTAGAATTAT-TCTATTTCGAATAA
* * * * *
23333 GCTTTTATGAACAAAAACAATTGTTTTGTGAG-AAAACAAAAGGCCATAATGGTTTGAAATAGAT
192 GCCTGTATGAACAAAAACAATTGTTTTATG-GCAAAACAAAAGGCCATAACGATTTGAAATAGAT
* * *
23397 AATTGA-TCAAATAGTCATAATTGTTTGCACTAGTCAAGCCAAA-AGATACATTTTCTAAATCCA
256 AATT-ATTCAAATAGTCATAACTATTTGAACTAGT-AAGCCAAACAGATACATTTTCTAAATCCA
* * * ** *
23460 TTACTTAGTAATT-TTCAAAATATTAATAAATTAGCATTATTTTATTCTGAATAAGATTATATGA
319 TTACTTAGTAATTGTT-AAAATATTAATAAACTAACATTATTTTAATCCAAATAAGATAATATGA
* * *
23524 ACAGAAATAATTGTTTTATGAAAAAACAAATA-GTCATAACGATTTGAAATAAATATTTGGTCAA
383 ACAAAAATAATTGTTTTATGAAAAAACAAA-AGGTCATAACAATTTGAAATAAATAATTGGTCAA
23588 ATAGT
447 ATAGT
23593 TAAAACTAAT
Statistics
Matches: 374, Mismatches: 69, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
480 4 0.01
481 142 0.38
482 220 0.59
483 8 0.02
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (481 bp):
ATTTGAAATAAGCTTGGATGAAGAGAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATT
TGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTTT
GAAATCTCTCACTCATTAATTTTTGAAATAGTTAAAATTAGAATTATTCTATTTCGAATAAGCCT
GTATGAACAAAAACAATTGTTTTATGGCAAAACAAAAGGCCATAACGATTTGAAATAGATAATTA
TTCAAATAGTCATAACTATTTGAACTAGTAAGCCAAACAGATACATTTTCTAAATCCATTACTTA
GTAATTGTTAAAATATTAATAAACTAACATTATTTTAATCCAAATAAGATAATATGAACAAAAAT
AATTGTTTTATGAAAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCATA
ACTATTCAAAATTATTTGGTAAACAA
Found at i:23655 original size:181 final size:182
Alignment explanation
Indices: 23255--23755 Score: 535
Period size: 181 Copynumber: 2.8 Consensus size: 182
23245 CTTGTTCGGT
* * * * *
23255 AAACAGATTCATTTTTGAAATCTCTCACTTATTTATTTTTGAAATATTAATAAATTAGAATTATG
1 AAACAGATTCATTTTTTAAATCTATTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATT
* * * * * * * *
23320 TTATTTTGAATAAGCTTTTATGAACAAAAACAATTGTTTTGTGAGAAAACAAAAGGCCATAATGG
66 TTATTCTGAATAAGATTATATGAACAAAAACAATTGTTTTATGAAAAAACAAAAGGTCATAACGA
* * * ** *
23385 TTTGAAATAGATAATTGATCAAATAGTCATAATTGTTTGCACTAGTCAAGCC
131 TTTGAAATAAATAATTGATCAAATAGTCAAAACTAATTGAACTAGTCAAGCC
* * * * ** *
23437 AAA-AGATACATTTTCTAAATCCATTACTTAGTAATTTTCAAAATATTAATAAATTAGCATTATT
1 AAACAGATTCATTTTTTAAATCTATTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATT
* *
23501 TTATTCTGAATAAGATTATATGAACAGAAATAATTGTTTTATGAAAAAACAAATA-GTCATAACG
66 TTATTCTGAATAAGATTATATGAACAAAAACAATTGTTTTATGAAAAAACAAA-AGGTCATAACG
* * * * * *
23565 ATTTGAAATAAATATTTGGTCAAATAGTTAAAACTAATTGAACTGGT-ATGGC
130 ATTTGAAATAAATAATTGATCAAATAGTCAAAACTAATTGAACTAGTCAAGCC
* * * *
23617 AAACAAATTTATTTTTTAAATCTTTTACGTATTAATTTTTGAAATATTAATAAATTA-ATATTAT
1 AAACAGATTCATTTTTTAAATCTATTACTTATTAATTTTTGAAATATTAATAAATTAGA-ATTAT
** * * * *
23681 TTTATTCCAAACAA-ACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTAATAAC
65 TTTATTCTGAATAAGA-TTATATGAACAAAAACAATTGTTTTATGAAAAAACAAAAGGTCATAAC
*
23745 AATTTGAAATA
129 GATTTGAAATA
23756 GTTTTGTAAA
Statistics
Matches: 260, Mismatches: 54, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
180 8 0.03
181 248 0.95
182 4 0.02
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (182 bp):
AAACAGATTCATTTTTTAAATCTATTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATT
TTATTCTGAATAAGATTATATGAACAAAAACAATTGTTTTATGAAAAAACAAAAGGTCATAACGA
TTTGAAATAAATAATTGATCAAATAGTCAAAACTAATTGAACTAGTCAAGCC
Found at i:23751 original size:663 final size:661
Alignment explanation
Indices: 22480--23755 Score: 1543
Period size: 663 Copynumber: 1.9 Consensus size: 661
22470 GTATTATTTT
* * *
22480 ATTTCAAATAAGCTTTTATGAATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATT
1 ATTTCAAATAAGCTTGTATGAATAGAAACAATTAGTTTATGACAAAACAAAAGGTCATAACAATT
* * *
22545 TGAAATAGACAATTGTTCAAATAGTCATAATTACTTCGAACGTGTTCAAAAAAAATTTTATTTTA
66 TGAAATAGACAATTATTCAAATAGCCATAATTACTTCGAACGTGTTCAAAAAAAATTTCATTTTA
* * * * * *
22610 TATATTTTTACTTATTAATCTTTGAAATATTAGTAAATTTATATTATTTTATTTGAAATAAGCTT
131 TAAATTCTCACTTATTAATCTTTGAAATATTAATAAATTTAAATTATGTTATTTGAAATAAGCTT
* * *
22675 GGATGAAGAGAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
196 GGATGAACAAAAACAATTGTTTTATGGCAAAACAAAAGGCCATAACAATTTGAAATAGATAATTG
* * * ** * *
22740 TTCAAGTAGTCATAACTATTTGAACTTGTTCGGTAAATAGATTCATTTTTTAAATCTCTTACTCA
261 ATCAAATAGTCATAACTATTTGAACTAGTTCGCCAAATAGATACATTTTCTAAATCTCTTACTCA
* *** * ** * * ** *
22805 TTAATTTTTGGAATAGTTAAAGTTAGTGTTATTCTATTTCGAATAAGCCTGTATGAATTGATATA
326 GTAATTTTCAAAATAGTTAAAATTAGCATTATTCTATTTCGAATAAGACTATATGAACAGAAATA
*** * * * **
22870 ATTGTTTTATGGCGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAGATAGTTATTA
391 ATTGTTTTATGAAAAAACAAAAGGTCATAACGATTTGAAATAAATAATTAGTCAAATAGTTAAAA
* * * * * *
22935 CTATTTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTGTTGAAATA
456 CTAATTGAACTGGTATGGCAAACAAATTTATTTTTTAAATCTTTTACGTATTAATTGTTGAAATA
* * *
23000 TTAATAAACTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAATAATTGTTTTATGACA
521 TTAATAAACTAATATTATTTTAATCCAAACAAACTAATATGAACAAAAACAATTGTTTTATGACA
* **
23065 AAACAAAAGGTCATATTAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATTCAAAATTAT
586 AAACAAAAGGTAATAACAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATTCAAAATTAT
23130 TTGGTAAACAA
651 TTGGTAAACAA
* * * * *
23141 ATTTGAAATAAGCTTGTATGAATAGAAA-AAGTTATTTTATGACAATACAAAAGGTTATAGCAAT
1 ATTTCAAATAAGCTTGTATGAATAGAAACAA-TTAGTTTATGACAAAACAAAAGGTCATAACAAT
* * * * * * *
23205 TTGAACTAGATAATTATTCAAATAGCCATAATTA-TTTGAACTTGTTCGGTAAACAGA-TTCATT
65 TTGAAATAGACAATTATTCAAATAGCCATAATTACTTCGAACGTGTTC--AAAAAAAATTTCATT
* *
23268 TT-TGAAATCTCTCACTTATTTATTTTTGAAATATTAATAAA-TTAGAATTATGTTATTTTG-AA
128 TTAT-AAAT-TCTCACTTATTAATCTTTGAAATATTAATAAATTTA-AATTATGTTA-TTTGAAA
** * ***
23330 TAAGCTTTTATGAACAAAAACAATTGTTTTGTGAG-AAAACAAAAGGCCATAATGGTTTGAAATA
189 TAAGCTTGGATGAACAAAAACAATTGTTTTATG-GCAAAACAAAAGGCCATAACAATTTGAAATA
* * *
23394 GATAATTGATCAAATAGTCATAATTGTTTGCACTAG-TCAAGCCAAA-AGATACATTTTCTAAAT
253 GATAATTGATCAAATAGTCATAACTATTTGAACTAGTTC--GCCAAATAGATACATTTTCTAAAT
* * *
23457 C-CATTACTTAGTAATTTTCAAAATA-TTAATAAATTAGCATTATTTTA-TTCTGAATAAGATTA
316 CTC-TTACTCAGTAATTTTCAAAATAGTT-A-AAATTAGCATTATTCTATTTC-GAATAAGACTA
* *
23519 TATGAACAGAAATAATTGTTTTATGAAAAAACAAATA-GTCATAACGATTTGAAATAAATATTTG
377 TATGAACAGAAATAATTGTTTTATGAAAAAACAAA-AGGTCATAACGATTTGAAATAAATAATTA
23583 GTCAAATAGTTAAAACTAATTGAACTGGTATGGCAAACAAATTTATTTTTTAAATCTTTTACGTA
441 GTCAAATAGTTAAAACTAATTGAACTGGTATGGCAAACAAATTTATTTTTTAAATCTTTTACGTA
* * * *
23648 TTAATTTTTGAAATATTAATAAATTAATATTATTTTATTCCAAACAAACTTATATGAACAAAAAC
506 TTAATTGTTGAAATATTAATAAACTAATATTATTTTAATCCAAACAAACTAATATGAACAAAAAC
*
23713 ATTTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAATA
571 AATTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAATA
23756 GTTTTGTAAA
Statistics
Matches: 513, Mismatches: 87, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
660 14 0.03
661 101 0.20
662 162 0.32
663 235 0.46
664 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (661 bp):
ATTTCAAATAAGCTTGTATGAATAGAAACAATTAGTTTATGACAAAACAAAAGGTCATAACAATT
TGAAATAGACAATTATTCAAATAGCCATAATTACTTCGAACGTGTTCAAAAAAAATTTCATTTTA
TAAATTCTCACTTATTAATCTTTGAAATATTAATAAATTTAAATTATGTTATTTGAAATAAGCTT
GGATGAACAAAAACAATTGTTTTATGGCAAAACAAAAGGCCATAACAATTTGAAATAGATAATTG
ATCAAATAGTCATAACTATTTGAACTAGTTCGCCAAATAGATACATTTTCTAAATCTCTTACTCA
GTAATTTTCAAAATAGTTAAAATTAGCATTATTCTATTTCGAATAAGACTATATGAACAGAAATA
ATTGTTTTATGAAAAAACAAAAGGTCATAACGATTTGAAATAAATAATTAGTCAAATAGTTAAAA
CTAATTGAACTGGTATGGCAAACAAATTTATTTTTTAAATCTTTTACGTATTAATTGTTGAAATA
TTAATAAACTAATATTATTTTAATCCAAACAAACTAATATGAACAAAAACAATTGTTTTATGACA
AAACAAAAGGTAATAACAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATTCAAAATTAT
TTGGTAAACAA
Found at i:24414 original size:180 final size:180
Alignment explanation
Indices: 23773--25120 Score: 946
Period size: 181 Copynumber: 7.5 Consensus size: 180
23763 AAACAGAATT
* * * * * * *
23773 ATTATGACTTTTTTTTTGTAATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGATTAAAAT
1 ATTATGACATTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAAT
* * * *
23838 AATATTAATTTATTAATATTT-TGACAAGTAATAAGTGAAAGATTTAAAAAATAAATA-TGTTTA
66 AATATTAATTTATTAATATTTCT-AAAATTAATAAGT-AAAAATTTAAAAAATAAATATTTTTTA
* * * * * *
23901 CCAAACAAGTTCAAATCGTCAAGACTATTTAAATAATTATCTATTTCAAATA
129 CCGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
* * * * * * * * *
23953 ATTGTGACCTTCTATTTTATAATAAAATAATTGTTT-TACTTAACATAAGCTTATTTGAAATAAA
1 ATTATGACATT-TGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTTGAAATAAA
* * * ** * * * * * *
24017 ATAGCT-CTAATTTATTAGTATACCAAAAATTAATGAGTAAGAGAATTAAAAAAATGAATCTATT
64 ATA-ATATTAATTTATTAATATTTCTAAAATTAATAAGTAA-A-AATTTAAAAAATAAATATTTT
* * *
24081 TTACCGAACAAGTTCAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAAC
126 TTACCGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
* * * *
24136 ATTATAACCATTTGTTTTGTCATAAAATAATTAG-TTCTGTTCATGCAAGCTTATTTTG-AATAA
1 ATTATGA-CATTTGTTTTGTCATAAAACAATT-GTTTCTATTCATACAAGCTTA-TTTGAAATAA
* * * * * * *
24199 AATAATATAAAATTATTAAAACTCCAAAAATTAATAAATAAAAATTTAAAAAATAAATATGTTTT
63 AATAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAATTTAAAAAATAAATAT-TTTT
**** * *
24264 TTTTTAACACA-TTC-AATAGTTATGACTATTTGAACAATTTTCTATTTCAAATC
127 TACCGAACA-AGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
* *
24317 ATTATGACAATTTGTTTTGTCATAAACCAATTATTTCTATTCATACAAGCTTA-TTGAAATAAAA
1 ATTATGAC-ATTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAA
* *
24381 TAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAATAATAAAT-TTGTTTA
65 TAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAA-ATTTAAAAAATAAATATTTTTTA
* * * * * *
24445 TCGAGCAAGTTCAAAAAGTTATTACTATTTGAACAATTATATATTTCAAATC
129 CCGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
* * * * *
24497 TTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAA
1 ATTATGA-CATTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAA
* * * * * *
24562 TAATATTAATTTCTTATTA-TTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAAT-CTATTT
65 TAATATTAATTTATTAATATTTCT-AAAATTAATAAG-TAAAAATTTAAAAAATAAATATTTTTT
* * * * * ** * *
24625 ACCAAACACGTTTAAATA-TTCATGTCCATTTAAACTGTTATTTATATCAAATC
128 ACCGAACAAGTTCAAATAGTT-ATGACTATTTAAACAATTATCTATTTCAAATC
* * * * * * **
24678 GTTATGACATTTTATTTTATTATAAAATAATTGTTTCTATTCGTACAAAATTATTT-AGAATAAA
1 ATTATGACA-TTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGA-AATAAA
** * * * * * *
24742 ATAATACCAATTTATTACTACTTCGAAAATTAATAAG----GATTT-AAAAATAAATGTGGTTTT
64 ATAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAATTTAAAAAATAAATAT-TTTTT
* * * *
24802 --CAAAGCAA-TTCAAATAGTTAAGACTA-TTAGAACAATTATCTATTCCAAATT
128 ACCGAA-CAAGTTCAAATAGTTATGACTATTTA-AACAATTATCTATTTCAAATC
* * * * * * ** *
24853 ATTCTGATATTTTGTTTAGTCAAAAAATAATTGTTT-TAGTTCATACATGCTTATTCAAAATATA
1 ATTATGACA-TTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTTGAAATAAA
* * * * ** * *
24917 CTAATACTAACTTATTAAAATTTAGAAAACTAATAAG---AAA-TTAAAAAA-AAA-ATCTATTT
64 ATAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAATTTAAAAAATAAATAT-TTTTT
* * * *
24976 ACCGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATT
128 ACCGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
* * * * * * * * *
25029 GTTATGACCTTTTATTTTATCATAAAACAACTATTTC-AGTACATAAAAG-TT-TTTCCAAAATA
1 ATTATGA-CATTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTT--GAAATA
*
25091 AAATAATATTACTTTATTAATATTT-TAAAA
62 AAATAATATTAATTTATTAATATTTCTAAAA
25121 GTAAATCAGT
Statistics
Matches: 919, Mismatches: 204, Indels: 95
0.75 0.17 0.08
Matches are distributed among these distances:
174 11 0.01
175 127 0.14
176 113 0.12
177 5 0.01
178 1 0.00
179 14 0.02
180 142 0.15
181 346 0.38
182 33 0.04
183 118 0.13
184 9 0.01
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (180 bp):
ATTATGACATTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAAT
AATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAATTTAAAAAATAAATATTTTTTACC
GAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATC
Found at i:24677 original size:361 final size:360
Alignment explanation
Indices: 23774--25055 Score: 1034
Period size: 361 Copynumber: 3.6 Consensus size: 360
23764 AACAGAATTA
* * * *
23774 TTATGA-CTTTTTTTTTGTAATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGATTAAAAT
1 TTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTTGGAATAAAAT
* * * * * *
23838 AATATTAATTTATTAATATTTTGACAAGTAATAAGTGAAAGATTTAAAAAATAAATATGTTTACC
66 AATATTAATTTATTAATATTCTAAAAATTAATAAGTTAAAGATTTAAAAAATAAATATATTTACC
* * ** * * * * *
23903 AAACAAGTTCAAATCGTCAAGACTATTTAAA-TAATTATCTATTTCAAATAATTGTGAC-CTTCT
131 AAACACGTTTAAATATTCATGACTATTTAAACT-ATTATTTATTTCAAATCATTATGACAATT-T
* * * *
23966 ATTTTATAATAAAATAATTGTTT-TACTTAACATAAGCTTATTTGAAATAAAATAGCT-CTAATT
194 ATTTTATAATAAAATAATTGTTTCTA-TTCATACAAGCTTA-TTGAAATAAAATA-ATACTAATT
* ** * * * * *
24029 TATTAGTATACCAAAAATTAATGAGTAAGAGAATTAAAAAAATGAATCTAT-TTTACCGAACAAG
256 TATTAATATTTCAAAAATTAATAAGTAA-AG-ATT-TAAAAATAAATCT-TGTTTATCGAGCAAG
* * * * *
24093 TTCAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAACA
317 TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCT
* * * * * *
24137 TTATAACCATTTGTTTTGTCATAAAATAATTAG-TTCTGTTCATGCAAGCTTATTTTGAATAAAA
1 TTATGATCTTTTGTTTTGTCATAAAACAATT-GTTTCTGTTCATACAAGCTTATTTGGAATAAAA
* * * * * * * *
24201 TAATATAAAATTATTAAAACTCCAAAAATTAATAA-ATAAAAATTTAAAAAATAAATATGTTTTT
65 TAATATTAATTTATTAATATTCTAAAAATTAATAAGTTAAAGATTTAAAAAATAAATA--TATTT
**** * * * *
24265 TTTTAACAC-ATTCAATAGTT-ATGACTATTTGAACAATT-TTCTATTTCAAATCATTATGACAA
128 ACCAAACACGTTTAAATA-TTCATGACTATTTAAACTATTATT-TATTTCAAATCATTATGACAA
* * * ** * *
24327 TTTGTTTTGTCATAAACCAATTATTTCTATTCATACAAGCTTATTGAAATAAAATAATATTAATT
191 TTTATTTTATAATAAAATAATTGTTTCTATTCATACAAGCTTATTGAAATAAAATAATACTAATT
*
24392 TATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAATAATAAAT-TTGTTTATCGAGCAAGTT
256 TATTAATATTTCAAAAATTAATAAGT-AAAGATTTAAA-AATAAATCTTGTTTATCGAGCAAGTT
* * *
24456 CAAAAAGTTATTACTATTTGAACAATTATATATTTCAAATCT
319 CAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCT
* * *
24498 TTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAAT
1 TTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTTGGAATAAAAT
* * * *
24563 AATATTAATTTCTTATTATTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATCTATTTACC
66 AATATTAATTTATTAATATTCTAAAAATTAATAAGTTAAAGATTTAAAAAATAAATATATTTACC
* * * * * *
24628 AAACACGTTTAAATATTCATGTCCATTTAAACTGTTATTTATATCAAATCGTTATGACATTTTAT
131 AAACACGTTTAAATATTCATGACTATTTAAACTATTATTTATTTCAAATCATTATGACAATTTAT
* * ** * *
24693 TTTATTATAAAATAATTGTTTCTATTCGTACAAAATTATTTAGAATAAAATAATACCAATTTATT
196 TTTATAATAAAATAATTGTTTCTATTCATACAAGCTTATTGA-AATAAAATAATACTAATTTATT
* * * * * *
24758 ACTACTTCGAAAATTAATAAG----GATTTAAAAATAAATGTGGTTT-TCAAAGCAA-TTCAAAT
260 AATATTTCAAAAATTAATAAGTAAAGATTTAAAAATAAATCTTGTTTATC-GAGCAAGTTCAAAT
* * *
24817 AGTTAAGACTATTAGAACAATTATCTATTCCAAAT-T
324 AGTTATGACTATTTGAACAATTATCTATTTCAAATCT
* * * * * * *** *
24853 ATTCTGATATTTTGTTTAGTCAAAAAATAATTGTTT-TAGTTCATACATGCTTATTCAAAATATA
1 -TTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCT-GTTCATACAAGCTTATTTGGAATAAA
* * * * * * *
24917 CTAATACTAACTTATTAAAATT-TAGAAAACTAATAAG---AA-A-TTAAAAAAAAAATCTATTT
64 ATAATATTAATTTATTAATATTCTA-AAAATTAATAAGTTAAAGATTTAAAAAATAAATATATTT
* * * * * * * * ** **
24976 ACCGAATAAGTTCAAATAGTT-ATGACTATTTGAACAATTATCTATTTAAAATTGTTATGACCTT
128 ACCAAACACGTTTAAATA-TTCATGACTATTTAAACTATTATTTATTTCAAATCATTATGACAAT
*
25040 TTATTTTATCATAAAA
192 TTATTTTATAATAAAA
25056 CAACTATTTC
Statistics
Matches: 732, Mismatches: 162, Indels: 62
0.77 0.17 0.06
Matches are distributed among these distances:
351 80 0.11
352 3 0.00
353 1 0.00
355 4 0.01
356 120 0.16
357 18 0.02
360 13 0.02
361 206 0.28
362 68 0.09
363 66 0.09
364 139 0.19
365 14 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (360 bp):
TTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTTGGAATAAAAT
AATATTAATTTATTAATATTCTAAAAATTAATAAGTTAAAGATTTAAAAAATAAATATATTTACC
AAACACGTTTAAATATTCATGACTATTTAAACTATTATTTATTTCAAATCATTATGACAATTTAT
TTTATAATAAAATAATTGTTTCTATTCATACAAGCTTATTGAAATAAAATAATACTAATTTATTA
ATATTTCAAAAATTAATAAGTAAAGATTTAAAAATAAATCTTGTTTATCGAGCAAGTTCAAATAG
TTATGACTATTTGAACAATTATCTATTTCAAATCT
Found at i:25270 original size:156 final size:155
Alignment explanation
Indices: 24986--25276 Score: 363
Period size: 156 Copynumber: 1.9 Consensus size: 155
24976 ACCGAATAAG
* * *
24986 TTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTGTTATGACCTTTTATTTTATCA
1 TTCAAATAATTATGACCATTTGAACAATTATCTATTTAAAATTGTTATGAACTTTTATTTTATCA
* * *
25051 TAAAACAACTATTTCAGTACATAAAAGTTTTTCCAAAATAAAATAATATTACTTTATTAATATTT
66 TAAAACAACTATTTCAGTACATAAAAGTATTT-CAAAATAAAATAATATTAATTTACTAATATTT
*
25116 TAAAAGTAAATCAGTTTATCAAATTA
130 CAAAAGTAAATCAGTTTATCAAATTA
* * * * *
25142 TTCAAATAATTATGGCCATTTGAATAATTATCTATTTCAAATTGTTATGAACTTTTTTTTTGTCA
1 TTCAAATAATTATGACCATTTGAACAATTATCTATTTAAAATTGTTATGAACTTTTATTTTATCA
* * * **
25207 TAAAACAATTGTTTTTCA-T-CATACAAGCCTATTT-GGAATAAAATAATATTAATTTACTAATA
66 TAAAACAA--CTATTTCAGTACATAAAAG--TATTTCAAAATAAAATAATATTAATTTACTAATA
25269 TTTCAAAA
127 TTTCAAAA
25277 ATTAATAAAA
Statistics
Matches: 114, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
156 103 0.90
157 1 0.01
158 10 0.09
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.43
Consensus pattern (155 bp):
TTCAAATAATTATGACCATTTGAACAATTATCTATTTAAAATTGTTATGAACTTTTATTTTATCA
TAAAACAACTATTTCAGTACATAAAAGTATTTCAAAATAAAATAATATTAATTTACTAATATTTC
AAAAGTAAATCAGTTTATCAAATTA
Found at i:25719 original size:16 final size:17
Alignment explanation
Indices: 25687--25719 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25677 AACCAGTTCA
25687 AATAATTATGACTATTTG
1 AATAATTAT-ACTATTTG
25705 AATAATTAT-CTATTT
1 AATAATTATACTATTT
25720 CAAATCGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:25785 original size:182 final size:177
Alignment explanation
Indices: 25142--25821 Score: 575
Period size: 182 Copynumber: 3.8 Consensus size: 177
25132 TATCAAATTA
* * * * *
25142 TTCAAATAATTATGGCCATTTGAATAATTATCTATTTCAAATTGTTATGAACTTTTTTTTTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCA
* * * * * * *
25207 TAAAACAATTGTTTTTCATCATACAAGCCTATTTGGAATAAAATAATATTAATTTACTAATATTT
66 TAAAACAAATGTTTTTTA-CATACAAGCTTATTCGAAATAAAATAAAATTAATTTATTAATATTT
* * * *
25272 CAAAAATTAATAA-A-AGATTTAAAAAGTTAATTTGTTTACTGAACCAA
130 C-AAAATTAATAACAGAGATTTAAAAAATAAATTTGTTTACTAAACCAG
* * * * * * *
25319 TTCAAATAGTTATGACTATTTAAACGATTATATATTTCAAATTGTTAT-AACCTTTTGTTATCTC
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGAA-CTTTTGTTTTGTC
* * * * * * * *
25383 ATAAAACAATTATTTCTATT-CACACAAGTTTATTCGAAATAAAATAATACTAATATAATAATAT
65 ATAAAACAAATGTTT-T-TTACATACAAGCTTATTCGAAATAAAATAAAATTAATTTATTAATAT
* *
25447 TCTGAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTTACTAAACTAG
128 T-TCAAAATTAATAAC--AGAGATTTAAAAAATAAATTTGTTTACTAAACCAG
* * * * * *
25500 TTCAAATATTTAAGGCTATATGAACAATTTTTTTATTTCAAATCGTTATG-ACATTTTGTTTTGT
1 TTCAAATAATTATGACTATTTGAACAA-TTATCTATTTCAAATCGTTATGAAC-TTTTGTTTTGT
** * * * * * * *
25564 TGTAGAAC-AATTTTTTCATTTCTTAGTAA-CTTATTCGAAATAAAGTAAAATAAATTTATTAAT
64 CATAAAACAAATGTTTT--TTACATA-CAAGCTTATTCGAAATAAAATAAAATTAATTTATTAAT
* * *
25627 ATTTCAAAACTTAATAAGCATGAGATTTAAAAAACAAATTCAGTTTGTCT-AACCAG
126 ATTTCAAAA-TTAATAA-CA-GAGATTTAAAAAATAAATT-TGTTT-ACTAAACCAG
* ** *
25683 TTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGTTCTTTTATTTTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCA
* * * * *
25748 TAAAACAAATGTTTTTGTACATATAAGTTTGTTCGAAATAAAACAATATTAATTTATTAATATTT
66 TAAAACAAATGTTTTT-TACATACAAGCTTATTCGAAATAAAATAAAATTAATTTATTAATA-TT
*
25813 TGAAAATTA
129 TCAAAATTA
25822 TGTAAAGTTA
Statistics
Matches: 400, Mismatches: 79, Indels: 43
0.77 0.15 0.08
Matches are distributed among these distances:
176 2 0.00
177 113 0.28
178 2 0.00
179 1 0.00
180 2 0.00
181 68 0.17
182 161 0.40
183 49 0.12
184 2 0.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (177 bp):
TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCA
TAAAACAAATGTTTTTTACATACAAGCTTATTCGAAATAAAATAAAATTAATTTATTAATATTTC
AAAATTAATAACAGAGATTTAAAAAATAAATTTGTTTACTAAACCAG
Found at i:27320 original size:17 final size:16
Alignment explanation
Indices: 27293--27356 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 16
27283 GAACAAACAA
*
27293 CTATTTGAATATTATT
1 CTATTTTAATATTATT
27309 CTAATTTTAATAATTATT
1 CT-ATTTTAAT-ATTATT
27327 -T-TTGTTAATTATTATT
1 CTATT-TTAA-TATTATT
27343 CTATTTTAAATATT
1 CTATTTT-AATATT
27357 TATGTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
15 2 0.05
16 12 0.30
17 16 0.40
18 10 0.25
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (16 bp):
CTATTTTAATATTATT
Found at i:27368 original size:31 final size:34
Alignment explanation
Indices: 27302--27373 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 34
27292 ACTATTTGAA
*
27302 TATTATTCTAATTTTAATAATTATTTTTGTTAAT
1 TATTATTCTAATTTTAATAATTATTTATGTTAAT
27336 TATTATTCT-ATTTT-A-AA-TATTTATGTTAAAT
1 TATTATTCTAATTTTAATAATTATTTATGTT-AAT
*
27367 TACTATT
1 TATTATT
27374 TATCATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 9 0.26
31 11 0.31
32 1 0.03
33 5 0.14
34 9 0.26
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (34 bp):
TATTATTCTAATTTTAATAATTATTTATGTTAAT
Found at i:27886 original size:21 final size:21
Alignment explanation
Indices: 27840--27892 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
27830 AAAAATAAAT
*
27840 TTAATATTAAATATTATATTA
1 TTAAAATTAAATATTATATTA
27861 -T-AAATTAAATA-TATATCTA
1 TTAAAATTAAATATTATAT-TA
27880 TTAAAATTAAATA
1 TTAAAATTAAATA
27893 GCTATTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.18
19 11 0.39
20 2 0.07
21 10 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAATTAAATATTATATTA
Found at i:28172 original size:29 final size:29
Alignment explanation
Indices: 28117--28172 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
28107 AAATTAGTTT
* *
28117 TATATTTAATTATAATTAATTATATAAAC
1 TATATTTAATTATAATCAATTAAATAAAC
* *
28146 TATATTTAATTATTATCATTTAAATAA
1 TATATTTAATTATAATCAATTAAATAA
28173 TTAAATGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (29 bp):
TATATTTAATTATAATCAATTAAATAAAC
Found at i:28264 original size:25 final size:27
Alignment explanation
Indices: 28213--28275 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
28203 TACTAATTAC
* *
28213 TAATAATATTAATTATTATATTGATATT
1 TAATAATA-TAATTATTAGATTAATATT
28241 TAATAATATAA-TATT-GATTAATATT
1 TAATAATATAATTATTAGATTAATATT
*
28266 TAAAAATATA
1 TAATAATATA
28276 TTAATTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.53
26 4 0.12
27 3 0.09
28 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (27 bp):
TAATAATATAATTATTAGATTAATATT
Found at i:28623 original size:15 final size:15
Alignment explanation
Indices: 28603--28683 Score: 64
Period size: 15 Copynumber: 5.4 Consensus size: 15
28593 ATTAACAAAT
28603 TAATATTATA-ATATA
1 TAATATTATATA-ATA
28618 TAATATTATATAATA
1 TAATATTATATAATA
*
28633 TAATATTGTCATAAT-
1 TAATATTAT-ATAATA
28648 T--TATTAT-TAATTA
1 TAATATTATATAA-TA
*
28661 TAATATTGATTATAATT
1 TAATATT-A-TATAATA
28678 TAATAT
1 TAATAT
28684 ATTATTAACT
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
11 3 0.06
12 1 0.02
13 6 0.11
15 26 0.48
16 7 0.13
17 8 0.15
18 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (15 bp):
TAATATTATATAATA
Found at i:28627 original size:10 final size:10
Alignment explanation
Indices: 28564--28638 Score: 50
Period size: 10 Copynumber: 7.6 Consensus size: 10
28554 ATTTTACCAG
*
28564 TTATACAATA
1 TTATATAATA
28574 TT-TATAATTA
1 TTATATAA-TA
28584 TT-TAATAATA
1 TTAT-ATAATA
*
28594 TTA-ACAA-A
1 TTATATAATA
*
28602 TTAATATTATA
1 TT-ATATAATA
*
28613 ATATATAATA
1 TTATATAATA
28623 TTATATAATA
1 TTATATAATA
*
28633 TAATAT
1 TTATAT
28639 TGTCATAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
8 3 0.06
9 8 0.16
10 34 0.67
11 6 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
TTATATAATA
Found at i:28662 original size:28 final size:29
Alignment explanation
Indices: 28621--28685 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
28611 TAATATATAA
28621 TATTATATAATATAATATTG-TCATAATT
1 TATTATATAATATAATATTGATCATAATT
*
28649 TATTAT-TAATTATAATATTGATTATAATT
1 TATTATATAA-TATAATATTGATCATAATT
*
28678 TAATATAT
1 TATTATAT
28686 TATTAACTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 3 0.09
28 16 0.50
29 12 0.38
30 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (29 bp):
TATTATATAATATAATATTGATCATAATT
Found at i:28702 original size:16 final size:17
Alignment explanation
Indices: 28681--28712 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
28671 TATAATTTAA
28681 TATATTATT-AACTATT
1 TATATTATTAAACTATT
28697 TATATTATTAAACTAT
1 TATATTATTAAACTAT
28713 CATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAACTATT
Found at i:29138 original size:19 final size:19
Alignment explanation
Indices: 29114--29152 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29104 TAATAATCAT
*
29114 TAATTAATAAT-TGTATTAA
1 TAATTAACAATAT-TATTAA
29133 TAATTAACAATATTATTAA
1 TAATTAACAATATTATTAA
29152 T
1 T
29153 GGCTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATTAACAATATTATTAA
Found at i:29426 original size:14 final size:14
Alignment explanation
Indices: 29407--29433 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29397 TAATTGATAT
29407 TTAAATTTAATAAA
1 TTAAATTTAATAAA
29421 TTAAATTTAATAA
1 TTAAATTTAATAA
29434 TTATTTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAATTTAATAAA
Found at i:29767 original size:21 final size:21
Alignment explanation
Indices: 29743--29799 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
29733 TAATATATAG
29743 TTAATATTATATATATCAATT
1 TTAATATTATATATATCAATT
* *
29764 TTAATATAATAATTATATTAATT
1 TTAATATTAT-A-TATATCAATT
* *
29787 ATATTATTATATA
1 TTAATATTATATA
29800 AATAATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 11 0.38
22 2 0.07
23 16 0.55
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAATATTATATATATCAATT
Found at i:29782 original size:32 final size:29
Alignment explanation
Indices: 29719--29807 Score: 87
Period size: 32 Copynumber: 3.1 Consensus size: 29
29709 ATATATTTGA
*
29719 ATTAATATATAATTTAATATATAGTTAAT
1 ATTAATATATAATTTAATATATAATTAAT
29748 ATTATATATATCAATTTTAATATAATAATT-AT
1 ATTA-ATATAT-AA-TTTAATAT-ATAATTAAT
* *
29780 ATTAAT-TAT-A-TTATTATATAAATAAT
1 ATTAATATATAATTTAATATATAATTAAT
29806 AT
1 AT
29808 AATCTAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
25 5 0.10
26 10 0.19
28 1 0.02
29 4 0.08
30 9 0.17
31 4 0.08
32 14 0.27
33 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
ATTAATATATAATTTAATATATAATTAAT
Found at i:30627 original size:23 final size:22
Alignment explanation
Indices: 30561--30650 Score: 75
Period size: 20 Copynumber: 4.3 Consensus size: 22
30551 AGTCATAACG
*
30561 ATAATATTATCAAATTATAATTAT
1 ATAATAATAT-AAATTAT-ATTAT
* *
30585 ATAATAATATAAATAATA-TAA
1 ATAATAATATAAATTATATTAT
*
30606 AT-TTAATATAAATTATATTAT
1 ATAATAATATAAATTATATTAT
*
30627 ATTA-AATAT-AA-TATATT-T
1 ATAATAATATAAATTATATTAT
30645 ATAATA
1 ATAATA
30651 TTATTAACTC
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
18 4 0.07
19 7 0.13
20 15 0.27
21 13 0.24
22 1 0.02
23 6 0.11
24 9 0.16
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAATAATATAAATTATATTAT
Found at i:31101 original size:21 final size:19
Alignment explanation
Indices: 31062--31128 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 19
31052 GCTATTTAAA
31062 TTAAATATTATTTAATTAT
1 TTAAATATTATTTAATTAT
*
31081 TTAAATATTCCATTTATTTAT
1 TTAAATATT--ATTTAATTAT
*
31102 TT-AATATTTAATATTAATTAA
1 TTAAATA-TT-AT-TTAATTAT
31123 TTAAAT
1 TTAAAT
31129 TGAATTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 9 0.23
20 6 0.15
21 21 0.54
22 3 0.08
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAAATATTATTTAATTAT
Found at i:31134 original size:5 final size:4
Alignment explanation
Indices: 31114--31188 Score: 57
Period size: 4 Copynumber: 17.5 Consensus size: 4
31104 AATATTTAAT
31114 ATTA ATTA ATTAA ATTGA ATTA TATTA ATTA ATATA ATT- ATTA ATTA
1 ATTA ATTA ATT-A ATT-A ATTA -ATTA ATTA AT-TA ATTA ATTA ATTA
31161 AGTTTA ATATA ATATA A-TA ATT- ATTA AT
1 A--TTA AT-TA AT-TA ATTA ATTA ATTA AT
31189 AAGATATAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 18
0.76 0.01 0.22
Matches are distributed among these distances:
3 9 0.15
4 24 0.39
5 24 0.39
6 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:31143 original size:9 final size:8
Alignment explanation
Indices: 31114--31188 Score: 57
Period size: 9 Copynumber: 8.8 Consensus size: 8
31104 AATATTTAAT
31114 ATTAATTA
1 ATTAATTA
31122 ATTAAATTGA
1 ATT-AATT-A
31132 ATTATATTA
1 ATTA-ATTA
31141 ATTAATATA
1 ATTAAT-TA
31150 ATT-ATTA
1 ATTAATTA
31157 ATTAAGTTTA
1 ATTAA--TTA
31167 ATATAATATA
1 AT-TAAT-TA
31177 A-TAATT-
1 ATTAATTA
31183 ATTAAT
1 ATTAAT
31189 AAGATATAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 21
0.73 0.00 0.27
Matches are distributed among these distances:
6 1 0.02
7 10 0.18
8 12 0.21
9 16 0.28
10 15 0.26
11 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (8 bp):
ATTAATTA
Found at i:31152 original size:23 final size:21
Alignment explanation
Indices: 31112--31189 Score: 65
Period size: 23 Copynumber: 3.6 Consensus size: 21
31102 TTAATATTTA
31112 ATATTAATTAAT-TAAATTGAATT
1 ATATTAATTAATAT-AATT--ATT
31135 ATATTAATTAATATAATTATT
1 ATATTAATTAATATAATTATT
*
31156 A-ATTAAGTTTAATATAA-TATA
1 ATATTAA--TTAATATAATTATT
31177 ATAATT-ATTAATA
1 AT-ATTAATTAATA
31190 AGATATAATA
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
20 11 0.22
21 8 0.16
22 10 0.20
23 19 0.39
24 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
ATATTAATTAATATAATTATT
Found at i:31175 original size:27 final size:25
Alignment explanation
Indices: 31138--31187 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
31128 TTGAATTATA
*
31138 TTAATTAATATAATTATTAATTAAGT
1 TTAATTAATATAATAATT-ATTAAGT
31164 TTAATATAATATAATAATTATTAA
1 TTAAT-TAATATAATAATTATTAA
31188 TAAGATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TTAATTAATATAATAATTATTAAGT
Found at i:31187 original size:20 final size:21
Alignment explanation
Indices: 31137--31200 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 21
31127 ATTGAATTAT
*
31137 ATTAATTAATATAAT-TATTA
1 ATTAATTAATATAATATAATA
31157 ATTAAGTTTAATATAATATAATA
1 ATTAA--TTAATATAATATAATA
31180 ATT-ATTAATA-AGATATAATA
1 ATTAATTAATATA-ATATAATA
31200 A
1 A
31201 AGCATAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 20 0.51
22 11 0.28
23 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTAATTAATATAATATAATA
Found at i:31350 original size:18 final size:19
Alignment explanation
Indices: 31320--31370 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
31310 TAATTTTAAT
31320 TATTATTTA-TAATAATTA
1 TATTATTTATTAATAATTA
31338 -ATCTA-TTATTAAT-ATTA
1 TAT-TATTTATTAATAATTA
31355 TATTATTTATTAATAA
1 TATTATTTATTAATAA
31371 AGTAATCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 11 0.39
18 16 0.57
19 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTATTTATTAATAATTA
Found at i:31365 original size:21 final size:21
Alignment explanation
Indices: 31301--31366 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
31291 TTGAATAAAC
* *
31301 TATTATAAATAAT-TTTAA-T
1 TATTATTAATAATAATTAATT
* *
31320 TATTATTTATAATAATTAATC
1 TATTATTAATAATAATTAATT
*
31341 TATTATTAATATTATATT-ATT
1 TATTATTAATAATA-ATTAATT
31362 TATTA
1 TATTA
31367 ATAAAGTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 11 0.30
20 4 0.11
21 19 0.51
22 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATTAATAATAATTAATT
Found at i:31462 original size:17 final size:17
Alignment explanation
Indices: 31440--31496 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
31430 ATTTATATTT
31440 TAATTAATTATGAATAA
1 TAATTAATTATGAATAA
* **
31457 TAATTAAAATATTCATAA
1 TAATT-AATTATGAATAA
*
31475 TTATCT-ATTATGAATAA
1 TAAT-TAATTATGAATAA
31492 TAATT
1 TAATT
31497 TAAAATTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
16 1 0.03
17 16 0.53
18 12 0.40
19 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (17 bp):
TAATTAATTATGAATAA
Found at i:31602 original size:18 final size:19
Alignment explanation
Indices: 31565--31602 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
31555 CTTGATTAAC
*
31565 ATTAATTTATTAAATTAAT
1 ATTAATTTATTAAATAAAT
*
31584 ATTAA-TTATTTAATAAAT
1 ATTAATTTATTAAATAAAT
31602 A
1 A
31603 ATACAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTAATTTATTAAATAAAT
Found at i:32138 original size:19 final size:18
Alignment explanation
Indices: 32103--32141 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
32093 ACGTTATTTT
*
32103 ATTAAAAATAAATTATTA
1 ATTAAAAATAAAGTATTA
*
32121 ATTAAAATATTAAGTATTA
1 ATTAAAA-ATAAAGTATTA
32140 AT
1 AT
32142 ATTTCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAAAATAAAGTATTA
Found at i:32492 original size:25 final size:23
Alignment explanation
Indices: 32463--32509 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
32453 AATTACTAAC
32463 ATTATAAAAATATTATAATTATTAT
1 ATTATAAAAATA-T-TAATTATTAT
*
32488 ATTATAATAATATTAATTATTA
1 ATTATAAAAATATTAATTATTA
32510 GTAATATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 1 0.05
25 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATAAAAATATTAATTATTAT
Found at i:32514 original size:16 final size:16
Alignment explanation
Indices: 32473--32517 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
32463 ATTATAAAAA
32473 TATTATAATTATTATAT
1 TATTATAA-TATTATAT
*
32490 TATAATAATATTA-AT
1 TATTATAATATTATAT
32505 TATTAGTAATATT
1 TATTA-TAATATT
32518 GTAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 12 0.48
17 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TATTATAATATTATAT
Found at i:32644 original size:13 final size:14
Alignment explanation
Indices: 32611--32658 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 14
32601 TATTAAACTG
32611 TTAATAATAAATAA
1 TTAATAATAAATAA
32625 TCCTAATAATAAA-AA
1 T--TAATAATAAATAA
*
32640 TTAATCAGTAAATAA
1 TTAAT-AATAAATAA
32655 TTAA
1 TTAA
32659 ATGTTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 9 0.31
16 10 0.34
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (14 bp):
TTAATAATAAATAA
Found at i:33663 original size:6 final size:6
Alignment explanation
Indices: 33652--33685 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
33642 AATATATTAA
*
33652 TAATAT TAATA- TAATAT TATTAT TAATAT TAATA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATA
33686 ATTTATTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:33664 original size:17 final size:17
Alignment explanation
Indices: 33637--33687 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
33627 TTAATTGGAT
*
33637 TATTAAATATATTAATAA
1 TATT-AATATAATAATAA
* *
33655 TATTAATATAATATTAT
1 TATTAATATAATAATAA
33672 TATTAATATTAATAAT
1 TATTAATA-TAATAAT
33688 TTATTTAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTAATATAATAATAA
Found at i:33681 original size:9 final size:9
Alignment explanation
Indices: 33635--33692 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
33625 TTTTAATTGG
33635 ATTATTAA-
1 ATTATTAAT
33643 ATATATTAAT
1 AT-TATTAAT
*
33653 AATATTAAT
1 ATTATTAAT
* *
33662 A-TAATATT
1 ATTATTAAT
33670 ATTATTAAT
1 ATTATTAAT
*
33679 ATTAATAAT
1 ATTATTAAT
33688 -TTATT
1 ATTATT
33693 TAGTAGCCAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
8 12 0.30
9 27 0.68
10 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTATTAAT
Found at i:33692 original size:23 final size:23
Alignment explanation
Indices: 33642--33685 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
33632 TGGATTATTA
33642 AATA-TATTAATAATATTAATAT
1 AATATTATTAATAATATTAATAT
*
33664 AATATTATTATTAATATTAATA
1 AATATTATTAATAATATTAATA
33686 ATTTATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATTATTAATAATATTAATAT
Found at i:34163 original size:149 final size:149
Alignment explanation
Indices: 33885--34174 Score: 361
Period size: 149 Copynumber: 1.9 Consensus size: 149
33875 CTATTTGAAC
*
33885 AATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAATAATTGTTTCAGTTCAATAA
1 AATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTCAG-TCAATAA
* * * * **
33950 AACTTATCCAAAATAAAATAATATTACTTTACTACTATTTCAAAAATTGGAAAGTTGGAGATTTA
65 AACTTATCCAAAATAAAATAATATTAATTTACTAATATTTCAAAAATTGAAAACTAAGAGATTTA
34015 AAAAATAAATCAGTTCAAAT
130 AAAAATAAATCAGTTCAAAT
* * * * * * *
34035 AATTATTTATTTCAAATCGTTATGACCTTTTGTTTTATTATAAAACAATTTTTTTTA-TC-GTAC
1 AATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAA-TTGTTTCAGTCAATA-
* * * *
34098 AAGCTTATTCAAAATAAAATAATATTAATTTATTAATATTTC-AAAATTTAATAACTAAGAGATT
64 AAACTTATCCAAAATAAAATAATATTAATTTACTAATATTTCAAAAATTGAA-AACTAAGAGATT
34162 TAAAAAATAAATC
128 TAAAAAATAAATC
34175 TATTTACCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
148 9 0.08
149 61 0.51
150 43 0.36
151 6 0.05
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (149 bp):
AATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTCAGTCAATAAA
ACTTATCCAAAATAAAATAATATTAATTTACTAATATTTCAAAAATTGAAAACTAAGAGATTTAA
AAAATAAATCAGTTCAAAT
Found at i:34691 original size:29 final size:29
Alignment explanation
Indices: 34659--34730 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
34649 TATAACATAT
*
34659 AATAATTAAATAAT-ATTTTTAATGTTACA
1 AATAATTAAATAATAATTATTAAT-TTACA
* * *
34688 AATAATTATATATTAATTATTAATTTATA
1 AATAATTAAATAATAATTATTAATTTACA
34717 AA-AATATAAATAAT
1 AATAAT-TAAATAAT
34731 TTGATATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 3 0.09
29 24 0.69
30 8 0.23
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (29 bp):
AATAATTAAATAATAATTATTAATTTACA
Found at i:35089 original size:13 final size:14
Alignment explanation
Indices: 35071--35103 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
35061 ATTTATTTAT
35071 AATTATA-TAGATA
1 AATTATATTAGATA
35084 AATTATATTAGATA
1 AATTATATTAGATA
35098 ATATTA
1 A-ATTA
35104 ATAATATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
AATTATATTAGATA
Found at i:35596 original size:17 final size:17
Alignment explanation
Indices: 35562--35599 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
35552 ATATAGTATT
*
35562 ATTATATTATTATTTAA
1 ATTATATTATTATATAA
35579 ATTATATTATT-TGATAA
1 ATTATATTATTAT-ATAA
35596 ATTA
1 ATTA
35600 AATAATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTATATTATTATATAA
Found at i:36428 original size:179 final size:179
Alignment explanation
Indices: 36243--36641 Score: 412
Period size: 179 Copynumber: 2.2 Consensus size: 179
36233 TTATTCAGAG
* * ** * * * * *
36243 TAAAATAGTGCTAAATTAATAATATTCTAAACATTAATAAGTAAGGATTTAAAAAATAAATGTGT
1 TAAAATAATACTAAATTAATAATATTAAAAAAATTAATAAGTAAGAAATTAAAAAA-AAATCTAT
* * * * *
36308 TTGCTGAATC-AGCTCAAATA-GTAAGATTATTACAACAATTATCTATTTCAAATTGTTTTGACC
65 TTACCGAA-CAAGCTCAAATATGTAAGACTATTACAACAATTATCTATTTAAAATTGTTATGACC
* *
36371 TT-T-TGTTTAGTCATAAAATAATTGCTTCAACTCATACATGCTTATTTGAAA
129 TTATAT-TTTA-TCATAAAATAATTGCTTCAACTCATAAAAGCTTATTTGAAA
* * * *
36422 TAAAATAATACTAATTTATTAATATTAAAAAAATTATTAAGTAAGAAATTAGAAAAAAATCTATT
1 TAAAATAATACTAAATTAATAATATTAAAAAAATTAATAAGTAAGAAATTAAAAAAAAATCTATT
* * ** ** *
36487 TACCGAACAAGTTCAAATATTTTTGACTATTTGAATAATTATCTATTTAAAATTGTTATGACCTT
66 TACCGAACAAGCTCAAATATGTAAGACTATTACAACAATTATCTATTTAAAATTGTTATGACCTT
* *
36552 ATATTTTATCATAAAATAATTGTTTCAATTCATAAAAGCTTATTTGAAA
131 ATATTTTATCATAAAATAATTGCTTCAACTCATAAAAGCTTATTTGAAA
* * * * * *
36601 TAAAATAATATTAATTTATTATTATT-ACAAAATTGATAAGT
1 TAAAATAATACTAAATTAATAATATTAAAAAAATTAATAAGT
36642 TAGAGATTTA
Statistics
Matches: 182, Mismatches: 34, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
177 1 0.01
178 33 0.18
179 142 0.78
180 5 0.03
181 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (179 bp):
TAAAATAATACTAAATTAATAATATTAAAAAAATTAATAAGTAAGAAATTAAAAAAAAATCTATT
TACCGAACAAGCTCAAATATGTAAGACTATTACAACAATTATCTATTTAAAATTGTTATGACCTT
ATATTTTATCATAAAATAATTGCTTCAACTCATAAAAGCTTATTTGAAA
Found at i:36814 original size:20 final size:20
Alignment explanation
Indices: 36789--36830 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
36779 AGTAATTTAA
*
36789 ATAATATTATTAATT-AAATT
1 ATAATATTA-AAATTAAAATT
36809 ATAATATTAAAATTAAAATT
1 ATAATATTAAAATTAAAATT
36829 AT
1 AT
36831 TTTAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAATATTAAAATTAAAATT
Found at i:36819 original size:30 final size:30
Alignment explanation
Indices: 36781--36891 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 30
36771 AAATAAAAAG
36781 TAAT-TTAAATAATATTATTAATTAAATTA
1 TAATATTAAATAATATTATTAATTAAATTA
* *
36810 TAATATTAAAATTAAAATTATT--TTAATTTA
1 TAATATT-AAA-TAATATTATTAATTAAATTA
* * * *
36840 TATTAATAAATTAT-TTATTAATTTAA-TA
1 TAATATTAAATAATATTATTAATTAAATTA
* * *
36868 -AATATT-ATTATTATTATTTATTAA
1 TAATATTAAATAATATTATTAATTAA
36892 CAGTAATTTA
Statistics
Matches: 61, Mismatches: 15, Indels: 14
0.68 0.17 0.16
Matches are distributed among these distances:
26 3 0.05
27 18 0.30
28 4 0.07
29 10 0.16
30 14 0.23
31 3 0.05
32 9 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TAATATTAAATAATATTATTAATTAAATTA
Done.