Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold160
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: 1852349
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.32
Warning! 51288 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:1302 original size:77 final size:77
Alignment explanation
Indices: 1175--1329 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 77
1165 ATGTCTGATT
1175 TGCACCAGAAATTACAAGGGTAAGTTGTTCAGTGGTAACCAGAAATGAGTTTTTTTAAATATATA
1 TGCACCAGAAATTACAAGGGTAAGTTGTTCAGTGGTAACCAGAAATGAGTTTTTTTAAATATATA
1240 TCATATGATATA
66 TCATATGATATA
* *
1252 TGCACCGGAAATTACAAGGGTAAGTTGTTCAGTGGTCACCAGAAATGAGTTTTTTTAAATATATA
1 TGCACCAGAAATTACAAGGGTAAGTTGTTCAGTGGTAACCAGAAATGAGTTTTTTTAAATATATA
1317 TCATATGATATA
66 TCATATGATATA
1329 T
1 T
1330 ATTTATGTAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (77 bp):
TGCACCAGAAATTACAAGGGTAAGTTGTTCAGTGGTAACCAGAAATGAGTTTTTTTAAATATATA
TCATATGATATA
Found at i:1382 original size:9 final size:9
Alignment explanation
Indices: 1370--1465 Score: 72
Period size: 9 Copynumber: 10.8 Consensus size: 9
1360 TGTACATGTA
1370 TAAGTTATG
1 TAAGTTATG
1379 TAAGTTATG
1 TAAGTTATG
*
1388 TAAGTTTTG
1 TAAGTTATG
*
1397 T-A-TTATT
1 TAAGTTATG
*
1404 TAAGTTGTG
1 TAAGTTATG
1413 TAAGTTATG
1 TAAGTTATG
* * *
1422 GATGCTATG
1 TAAGTTATG
*
1431 TAAGTAATG
1 TAAGTTATG
*
1440 TGTA-TTATG
1 T-AAGTTATG
*
1449 TAAGCTTATA
1 TAAG-TTATG
1459 TAAGTTA
1 TAAGTTA
1466 ATATGTAACT
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
7 4 0.06
8 3 0.05
9 49 0.75
10 9 0.14
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:1549 original size:16 final size:16
Alignment explanation
Indices: 1507--1549 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
1497 TTTGAGAATT
* *
1507 TTATATAAGTCATGTA
1 TTATGTAAGTTATGTA
1523 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
1539 TTATGTAAGTT
1 TTATGTAAGTT
1550 TAATAAGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:1822 original size:74 final size:74
Alignment explanation
Indices: 1637--3319 Score: 3332
Period size: 74 Copynumber: 22.8 Consensus size: 74
1627 GTAAGTAATG
* *
1637 TAAGTCATGTAAAATGTACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATA-
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1701 ATATATTAA
66 ATATATTAA
*
1710 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1775 ATATATTAA
66 ATATATTAA
1784 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1849 ATATATTAA
66 ATATATTAA
1858 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1923 ATATATTAA
66 ATATATTAA
1932 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1997 ATATATTAA
66 ATATATTAA
2006 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2071 ATATATTAA
66 ATATATTAA
2080 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2145 ATATATTAA
66 ATATATTAA
2154 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2219 ATATATTAA
66 ATATATTAA
2228 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2293 ATATATTAA
66 ATATATTAA
2302 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2367 ATATATTAA
66 ATATATTAA
2376 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2441 ATATATTAA
66 ATATATTAA
2450 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2515 ATATATTAA
66 ATATATTAA
2524 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2589 ATATATTAA
66 ATATATTAA
2598 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2663 ATATATTAA
66 ATATATTAA
2672 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2737 ATATATTAA
66 ATATATTAA
2746 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2811 ATATATTAA
66 ATATATTAA
2820 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2885 ATATATTAA
66 ATATATTAA
2894 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
2959 ATATATTAA
66 ATATATTAA
2968 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
3033 ATATATTAA
66 ATATATTAA
3042 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
3107 ATATATTAA
66 ATATATTAA
3116 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
3181 ATATATTAA
66 ATATATTAA
3190 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
3255 ATATATTAA
66 ATATATTAA
3264 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATT
3320 GTATTAGAAT
Statistics
Matches: 1607, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
73 63 0.04
74 1544 0.96
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (74 bp):
TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
ATATATTAA
Found at i:4791 original size:7 final size:7
Alignment explanation
Indices: 4781--4859 Score: 61
Period size: 7 Copynumber: 11.3 Consensus size: 7
4771 ACCTCAAAAA
4781 CCAAACC
1 CCAAACC
4788 CCAAA-C
1 CCAAACC
4794 CCAAACC
1 CCAAACC
* *
4801 CTAATCC
1 CCAAACC
**
4808 TTAAACC
1 CCAAACC
4815 CCAAACC
1 CCAAACC
* *
4822 CTAAATC
1 CCAAACC
4829 CCAAACC
1 CCAAACC
*
4836 CTAAACC
1 CCAAACC
*
4843 CTAAACAC
1 CCAAAC-C
*
4851 CAAAACC
1 CCAAACC
4858 CC
1 CC
4860 GAGCAGTAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
6 6 0.11
7 45 0.79
8 6 0.11
ACGTcount: A:0.43, C:0.47, G:0.00, T:0.10
Consensus pattern (7 bp):
CCAAACC
Found at i:4815 original size:14 final size:14
Alignment explanation
Indices: 4783--4858 Score: 75
Period size: 14 Copynumber: 5.4 Consensus size: 14
4773 CTCAAAAACC
*
4783 AAACCCCAAACCC-
1 AAACCCTAAACCCT
* *
4796 AAACCCTAATCCTT
1 AAACCCTAAACCCT
*
4810 AAACCCCAAACCCT
1 AAACCCTAAACCCT
4824 AAATCCC-AAACCCT
1 AAA-CCCTAAACCCT
*
4838 AAACCCTAAACACCA
1 AAACCCTAAAC-CCT
4853 AAACCC
1 AAACCC
4859 CGAGCAGTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
13 13 0.25
14 28 0.54
15 11 0.21
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.11
Consensus pattern (14 bp):
AAACCCTAAACCCT
Found at i:4847 original size:21 final size:20
Alignment explanation
Indices: 4787--4847 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
4777 AAAACCAAAC
4787 CCCAAACCCAAACCCT-AAT
1 CCCAAACCCAAACCCTAAAT
*
4806 CCTTAAACCCCAAACCCTAAAT
1 CC-CAAA-CCCAAACCCTAAAT
4828 CCCAAACCCTAAACCCTAAA
1 CCCAAACCC-AAACCCTAAA
4848 CACCAAAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 23 0.64
22 5 0.14
ACGTcount: A:0.43, C:0.44, G:0.00, T:0.13
Consensus pattern (20 bp):
CCCAAACCCAAACCCTAAAT
Found at i:4853 original size:21 final size:19
Alignment explanation
Indices: 4787--4854 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 19
4777 AAAACCAAAC
*
4787 CCCAAACCCAAACCCTAAT
1 CCCAAACCCAAACCCTAAA
*
4806 CCTTAAACCCCAAACCCTAAA
1 CC-CAAA-CCCAAACCCTAAA
4827 TCCCAAACCCTAAACCCTAAA
1 -CCCAAACCC-AAACCCTAAA
4848 CACCAAA
1 C-CCAAA
4855 ACCCCGAGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.05
20 7 0.17
21 30 0.73
22 2 0.05
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (19 bp):
CCCAAACCCAAACCCTAAA
Found at i:5663 original size:20 final size:20
Alignment explanation
Indices: 5628--5666 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
5618 GTATCTTTTA
5628 TAATTATATATGAAATTATT
1 TAATTATATATGAAATTATT
5648 TAATATATATAT-AAATTAT
1 TAAT-TATATATGAAATTAT
5667 AAATCAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TAATTATATATGAAATTATT
Found at i:5795 original size:18 final size:18
Alignment explanation
Indices: 5772--5807 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
5762 ATTGAATTTT
5772 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
5790 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
5808 TATAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:5815 original size:18 final size:19
Alignment explanation
Indices: 5776--5815 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
5766 AATTTTAATT
*
5776 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
5795 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
5813 AAT
1 AAT
5816 GATTTGTGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:6076 original size:113 final size:113
Alignment explanation
Indices: 5924--6414 Score: 788
Period size: 113 Copynumber: 4.3 Consensus size: 113
5914 CCGCTAATAC
* * * *
5924 TATACTTCAGCGGCGTTTTTAACCAAGCGCCACTAATTCTAATACCCCTAAAGACCAAAACTCTG
1 TATACTTTAGTGGCGTTTTT-ATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
5989 CGTTTTGGTTAAGATGATTTGTGGCGCATCCGACAAACGCTGCTGATGA
65 CGTTTTGGTTAAGATGATTTGTGGCGCATCCGACAAACGCTGCTGATGA
6038 TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGC
1 TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGC
6103 GTTTTGGTTAAGATGATTTGTGGCGCATCCGACAAACGCTGCTGATGA
66 GTTTTGGTTAAGATGATTTGTGGCGCATCCGACAAACGCTGCTGATGA
6151 TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGC
1 TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGC
6216 GTTTTGGTTAAGATGATTTGTGGCGCATCCGACAAACGCTGCTGATGA
66 GTTTTGGTTAAGATGATTTGTGGCGCATCCGACAAACGCTGCTGATGA
*
6264 TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTAC
1 TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGC
* * * * *
6329 GTTTTGGTTAAGAT-ATCTGGAGGCGCTTCCCACCAAACGCTGCT-ATAA
66 GTTTTGGTTAAGATGAT-TTGTGGCGCATCCGA-CAAACGCTGCTGATGA
* * ** * *
6377 CTATCCTTTACTGGCGTTTTCCTTAAACGCCACTAATT
1 -TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATT
6415 ATAGTATACA
Statistics
Matches: 358, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
112 2 0.01
113 296 0.83
114 60 0.17
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (113 bp):
TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGC
GTTTTGGTTAAGATGATTTGTGGCGCATCCGACAAACGCTGCTGATGA
Found at i:6662 original size:113 final size:112
Alignment explanation
Indices: 5916--6642 Score: 697
Period size: 113 Copynumber: 6.4 Consensus size: 112
5906 TAAAAGCGCC
* * * *
5916 GCTAAT-ACTATACTTCAGCGGCGTTTTTAACCAAGCGCCACTAATTCTAATACCCCTAAAGACC
1 GCTAATGACTATACTTTAGTGGCGTTTTT-A-TAAGCGCCACTAATTCTAATA-TCCTAAAGACC
*
5980 AAAACTCTGCGTTTTGGTTAAGATGATTTGTGGCGCATCCGACAAACGCT
63 AAAACTCTGCGTTTTGGTTAAGATGATTTGTGGCGCATCCCACAAACGCT
*
6030 GCTGATGA-TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCA
1 GCTAATGACTATACTTTAGTGGCGTTTTTAT-AAGCGCCACTAATTCTAATA-TCCTAAAGACCA
*
6094 AAACTCTGCGTTTTGGTTAAGATGATTTGTGGCGCATCCGACAAACGCT
64 AAACTCTGCGTTTTGGTTAAGATGATTTGTGGCGCATCCCACAAACGCT
*
6143 GCTGATGA-TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCA
1 GCTAATGACTATACTTTAGTGGCGTTTTTAT-AAGCGCCACTAATTCTAATA-TCCTAAAGACCA
*
6207 AAACTCTGCGTTTTGGTTAAGATGATTTGTGGCGCATCCGACAAACGCT
64 AAACTCTGCGTTTTGGTTAAGATGATTTGTGGCGCATCCCACAAACGCT
*
6256 GCTGATGA-TATACTTTAGTGGCGTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCA
1 GCTAATGACTATACTTTAGTGGCGTTTTTAT-AAGCGCCACTAATTCTAATA-TCCTAAAGACCA
* * * *
6320 AAACTCTACGTTTTGGTTAAGAT-ATCTGGAGGCGCTTCCCACCAAACGCT
64 AAACTCTGCGTTTTGGTTAAGATGAT-TTGTGGCGCATCCCA-CAAACGCT
* * * * * * * * *
6370 GCT-ATAACTATCCTTTACTGGCGTTTTCCT-TAAACGCCACTAATTATAGTATACATCAAGTCC
1 GCTAATGACTATACTTTAGTGGCGTTTT--TATAAGCGCCACTAATTCTAATAT-CCTAAAGACC
*** * * * ** **** ** *
6433 AAAACGAAGCGTTTTGATTAGGAT-ATCTTGCGGCGTTTAATGCTATGCGCC
63 AAAACTCTGCGTTTTGGTTAAGATGAT-TTGTGGCGCATCCCAC-AAACGCT
* * *
6484 GCTAAT-ACTATACATTAGTGGCGTTTTATTTATAAGCGCCACTAATTGC-AATATACATCAAGA
1 GCTAATGACTATACTTTAGTGGCG--TT-TTTATAAGCGCCACTAATT-CTAATAT-CCTAAAGA
* * * * * *
6547 CC-AAACTCTGCGTTTTGGTTAACATCG-TTTGCGGCGCTTCCCATAAGCGCC
61 CCAAAACTCTGCGTTTTGGTTAAGAT-GATTTGTGGCGCATCCCACAAACGCT
* **
6598 GCTAAT-ACTATACATTACCGGCGTTTGTTCATAAGCGCCACTAAT
1 GCTAATGACTATACTTTAGTGGCGTTT-TT-ATAAGCGCCACTAAT
6643 GCCAATATAC
Statistics
Matches: 537, Mismatches: 57, Indels: 39
0.85 0.09 0.06
Matches are distributed among these distances:
111 1 0.00
112 6 0.01
113 312 0.58
114 152 0.28
115 32 0.06
116 32 0.06
117 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (112 bp):
GCTAATGACTATACTTTAGTGGCGTTTTTATAAGCGCCACTAATTCTAATATCCTAAAGACCAAA
ACTCTGCGTTTTGGTTAAGATGATTTGTGGCGCATCCCACAAACGCT
Found at i:12264 original size:10 final size:9
Alignment explanation
Indices: 12249--12366 Score: 53
Period size: 10 Copynumber: 12.6 Consensus size: 9
12239 TTCTTTATAA
12249 AAAAATTAAT
1 AAAAATT-AT
12259 AAAAA-TAT
1 AAAAATTAT
12267 AAAAATTTAT
1 AAAAA-TTAT
*** *
12277 AATTTTTAA
1 AAAAATTAT
12286 AAAAATTTATT
1 AAAAA-TTA-T
*
12297 GAAAATTAT
1 AAAAATTAT
12306 AAAAAAATTAT
1 --AAAAATTAT
*
12317 --AAATCAT
1 AAAAATTAT
*
12324 AAAAGTTAT
1 AAAAATTAT
*
12333 AAAAATTGT
1 AAAAATTAT
12342 AAAAAATTATT
1 -AAAAATTA-T
* *
12353 TAAAATTGT
1 AAAAATTAT
12362 AAAAA
1 AAAAA
12367 CAAATTACAA
Statistics
Matches: 79, Mismatches: 19, Indels: 21
0.66 0.16 0.18
Matches are distributed among these distances:
7 6 0.08
8 7 0.09
9 24 0.30
10 29 0.37
11 13 0.16
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:12325 original size:18 final size:18
Alignment explanation
Indices: 12243--12327 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 18
12233 ATATTTTTCT
12243 TTATAAAAAAATTAATAAA
1 TTATAAAAAAATT-ATAAA
* * *
12262 -AATATAAAAATTTATAAT
1 TTATA-AAAAAATTATAAA
*
12280 TTTTAAAAAAATTTATTGAAAA
1 TTATAAAAAAA-TTA-T--AAA
12302 TTATAAAAAAATTATAAA
1 TTATAAAAAAATTATAAA
*
12320 TCATAAAA
1 TTATAAAA
12328 GTTATAAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
18 22 0.43
19 12 0.24
20 2 0.04
21 3 0.06
22 12 0.24
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (18 bp):
TTATAAAAAAATTATAAA
Found at i:12351 original size:19 final size:20
Alignment explanation
Indices: 12285--12366 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 20
12275 ATAATTTTTA
* *
12285 AAAAAATTTATTGAAAATTAT
1 AAAAAA-TTATTAAAAATTGT
* **
12306 AAAAAA--ATTATAAATCAT
1 AAAAAATTATTAAAAATTGT
*
12324 -AAAAGTTA-TAAAAATTGT
1 AAAAAATTATTAAAAATTGT
*
12342 AAAAAATTATTTAAAATTGT
1 AAAAAATTATTAAAAATTGT
12362 AAAAA
1 AAAAA
12367 CAAATTACAA
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
17 4 0.08
18 16 0.33
19 8 0.17
20 14 0.29
21 6 0.12
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAAATTATTAAAAATTGT
Found at i:14027 original size:42 final size:42
Alignment explanation
Indices: 13968--14178 Score: 188
Period size: 42 Copynumber: 5.0 Consensus size: 42
13958 CAGCGTTTAC
* * *
13968 AAAAATAAACGCAGCTAAAGATCATGTTCTTTAGTGGCGCTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
14010 AAAAAAAAACGCTGCTAAAGGTTATGTTCTTTAGCGGCGCTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * * ** *
14052 GAAAAAAAACGTCGCTATAGGCCATGTTCTTTAGCGGCGTTTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTT
****** * * * *
14095 TTGTTCAAGCGCCGCTATAGAACATGATCTTTAGCGGCGCTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
14137 CAAAAAAAACGCCGCTAAAGATAATGTTCTTTAGCAGCGCTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
14179 TATTCACAAA
Statistics
Matches: 132, Mismatches: 36, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
42 102 0.77
43 30 0.23
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (42 bp):
AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:14211 original size:85 final size:85
Alignment explanation
Indices: 14033--14218 Score: 196
Period size: 85 Copynumber: 2.2 Consensus size: 85
14023 GCTAAAGGTT
* * * * * * *
14033 ATGTTCTTTAGCGGCGCTTGAAAAAAAACGTCGCTATAGGCCATGTTCTTTAGCGGCGTTTTTTG
1 ATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCGCTAAAGACAATGTTCTTTAGCAGCGTTTATTG
** * * *
14098 TTCAAGCGCCGCTATAGAAC
66 CACAAACGCAGCTAAAGAAC
* *
14118 ATGATCTTTAGCGGCGCTTCAAAAAAAACGCCGCTAAAGATAATGTTCTTTAGCAGCGCTTTATT
1 ATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCGCTAAAGACAATGTTCTTTAGCAGCG-TTTATT
*
14183 -CACAAATGCAGCTAAAAGAA-
65 GCACAAACGCAGCT-AAAGAAC
*
14203 TTGTTCTTTAGCGGCG
1 ATGTTCTTTAGCGGCG
14219 TTTTTTTATA
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
85 72 0.88
86 10 0.12
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (85 bp):
ATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCGCTAAAGACAATGTTCTTTAGCAGCGTTTATTG
CACAAACGCAGCTAAAGAAC
Found at i:14569 original size:21 final size:21
Alignment explanation
Indices: 14543--14594 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
14533 TTTTGCTCTG
* *
14543 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTACAGC
14564 CTCTGCTTCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTACAGC
*
14585 CGCTGCTTCC
1 CTCTGCTTCC
14595 TTCGTTGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.06, C:0.46, G:0.17, T:0.31
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTACAGC
Found at i:15881 original size:115 final size:115
Alignment explanation
Indices: 15673--15908 Score: 409
Period size: 115 Copynumber: 2.1 Consensus size: 115
15663 TATTTGTGGT
*
15673 GTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAGGAA
1 GTTTTTAAAACGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAGGAA
*** *
15738 ATTTGTGGCGTTTCTTTGTAAAACGCCGGTAATATATCACCTTTAGCGGC
66 ATTTGTGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGCGAC
*
15788 GTTTTTCAAACGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAGGAA
1 GTTTTTAAAACGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAGGAA
*
15853 ATTTGTGGCGTTTCTTCACAAAATGCCGGTAATATATCACCTTTAGCGAC
66 ATTTGTGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGCGAC
15903 GTTTTT
1 GTTTTT
15909 TCTGAAGCGC
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (115 bp):
GTTTTTAAAACGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAGGAA
ATTTGTGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGCGAC
Found at i:16403 original size:28 final size:28
Alignment explanation
Indices: 16371--16424 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
16361 AATATACCAT
* *
16371 AAACCTTAAA-TCATAAATTCTAAACCCC
1 AAACCTGAAACTC-TAAACTCTAAACCCC
16399 AAACCTGAAACTCTAAACTCTAAACC
1 AAACCTGAAACTCTAAACTCTAAACC
16425 GTAAACCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (28 bp):
AAACCTGAAACTCTAAACTCTAAACCCC
Found at i:16413 original size:21 final size:21
Alignment explanation
Indices: 16389--16460 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
16379 AATCATAAAT
*
16389 TCTAAACCCCAAACCTGAAAC
1 TCTAAACCCTAAACCTGAAAC
*
16410 TCTAAACTCTAAACC-GTAAAC
1 TCTAAACCCTAAACCTG-AAAC
* *
16431 CCTAAACCGTAAACCT-AAAC
1 TCTAAACCCTAAACCTGAAAC
16451 -CTAAACCCTA
1 TCTAAACCCTA
16461 TTTTTTGGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.21
20 5 0.12
21 29 0.67
ACGTcount: A:0.43, C:0.35, G:0.04, T:0.18
Consensus pattern (21 bp):
TCTAAACCCTAAACCTGAAAC
Found at i:16460 original size:7 final size:7
Alignment explanation
Indices: 16390--16460 Score: 67
Period size: 7 Copynumber: 10.4 Consensus size: 7
16380 ATCATAAATT
16390 CTAAACC
1 CTAAACC
*
16397 CCAAA-C
1 CTAAACC
*
16403 CTGAAACT
1 CT-AAACC
*
16411 CTAAACT
1 CTAAACC
16418 CTAAACC
1 CTAAACC
*
16425 GTAAACC
1 CTAAACC
16432 CTAAACC
1 CTAAACC
*
16439 GTAAA-C
1 CTAAACC
16445 CTAAA-C
1 CTAAACC
16451 CTAAACC
1 CTAAACC
16458 CTA
1 CTA
16461 TTTTTTGGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
6 13 0.25
7 38 0.72
8 2 0.04
ACGTcount: A:0.44, C:0.35, G:0.04, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:16632 original size:20 final size:21
Alignment explanation
Indices: 16594--16643 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
16584 TCTTCAATTT
16594 CCAAACT-AAACCCTAAAACC
1 CCAAACTCAAACCCTAAAACC
* *
16614 CTAAACTCAAA-CCTTAAACC
1 CCAAACTCAAACCCTAAAACC
16634 CCAAACTCAA
1 CCAAACTCAA
16644 TCTCTAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (21 bp):
CCAAACTCAAACCCTAAAACC
Found at i:17308 original size:113 final size:111
Alignment explanation
Indices: 17093--17295 Score: 264
Period size: 113 Copynumber: 1.8 Consensus size: 111
17083 TAAATGCCTG
** * *
17093 AGCATTAGCGGCGCTTCCCAAAAAATGCCGCTAAATCCCCAAAAGCTCCGAAAACGGCGTCGTTC
1 AGCATTAGCGGCGCTTCCCAAAAAATGCCGCTAAATCCCCAAAAGCTAAGAAAACAGCGCCGTTC
** *
17158 GGCTTAGTTTTTTTTGCGGCGCTTTCCCGAAAACGCCGCTAAAGGA
66 GGCTTAGGATTTTTTGCCGCGCTTTCCCGAAAACGCCGCTAAAGGA
** * * *
17204 AGCATTAGCGGCGCTTTCTTAAAAAATGCCGCTAAATCCCCCAAAAGTTAAGAAAATAGTGCCGT
1 AGCATTAGCGGCGC-TTCCCAAAAAATGCCGCTAAAT-CCCCAAAAGCTAAGAAAACAGCGCCGT
17269 T-GGACTTAGGATTTTTTGCCGCGCTTT
64 TCGG-CTTAGGATTTTTTGCCGCGCTTT
17296 TTTCAAAACG
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
111 14 0.18
112 22 0.29
113 41 0.53
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (111 bp):
AGCATTAGCGGCGCTTCCCAAAAAATGCCGCTAAATCCCCAAAAGCTAAGAAAACAGCGCCGTTC
GGCTTAGGATTTTTTGCCGCGCTTTCCCGAAAACGCCGCTAAAGGA
Found at i:20289 original size:90 final size:91
Alignment explanation
Indices: 20057--20293 Score: 300
Period size: 91 Copynumber: 2.6 Consensus size: 91
20047 GGTTGTGGAT
* * *** *
20057 GAACCATCAAATGTTGCAGGTTAATACGTTACTAGACAATTGTGAATACACAACATAAATGTAGA
1 GAACCATC-AATGTTGCAGGTTAATATGCTACTAGATGGTTGTGAATACACAACATAAATGCAGA
*
20122 TAAAAGCTGCCAGATAATGGGTGGATGA
65 TAAAAACTGCCAGATAATGGGTGGA-GA
* *
20150 GCAACCA--AATGTTGCAGGTTAATATGCTACTAGATGGTTGTGAATACACAGCATAATTGCAGA
1 G-AACCATCAATGTTGCAGGTTAATATGCTACTAGATGGTTGTGAATACACAACATAAATGCAGA
* * *
20213 TAAAAATTGCTAGATAATGGGTGG-GC
65 TAAAAACTGCCAGATAATGGGTGGAGA
* *
20239 GAACCATCAAGGTTGCAGGTTAATATGCTACCAGATGGTTGTGAATACACAACAT
1 GAACCATCAATGTTGCAGGTTAATATGCTACTAGATGGTTGTGAATACACAACAT
20294 GCAGATAAAA
Statistics
Matches: 126, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
88 5 0.04
89 2 0.02
90 44 0.35
91 69 0.55
93 1 0.01
94 5 0.04
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (91 bp):
GAACCATCAATGTTGCAGGTTAATATGCTACTAGATGGTTGTGAATACACAACATAAATGCAGAT
AAAAACTGCCAGATAATGGGTGGAGA
Found at i:21769 original size:14 final size:15
Alignment explanation
Indices: 21750--21778 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21740 CCTAATTGCT
21750 GAAAAAT-AAAAGAG
1 GAAAAATGAAAAGAG
21764 GAAAAATGAAAAGAG
1 GAAAAATGAAAAGAG
21779 TGGGGTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (15 bp):
GAAAAATGAAAAGAG
Found at i:27757 original size:17 final size:18
Alignment explanation
Indices: 27735--27781 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
27725 GGCTAGGCTG
27735 TGTGGG-CCATACAGGCA
1 TGTGGGCCCATACAGGCA
* *
27752 TGTGGGCCCACACGGGCA
1 TGTGGGCCCATACAGGCA
*
27770 TGTGGGTCCATA
1 TGTGGGCCCATA
27782 ATCCTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.19
Consensus pattern (18 bp):
TGTGGGCCCATACAGGCA
Found at i:30596 original size:135 final size:135
Alignment explanation
Indices: 30354--30602 Score: 401
Period size: 135 Copynumber: 1.8 Consensus size: 135
30344 TGCTTCCACA
* * * *
30354 GTTCATATATTTTGTTCTTATTAATTTTCATTGAATTTGTTTGTTATATTAATTGAATTCTAAAC
1 GTTCATATATTTTGTTCTTATTAATTTCCATAGAATTTGTTTGCTATATTAATTGAATACTAAAC
30419 CTTGTATTAGTGTCATTCATGTTGATTAGTTATTACTAATTTATTAATTATTATCATTCATGTTG
66 CTTGTATTAGTGTCATTCATGTTGATTAGTTATTACTAATTTATTAATTATTATCATTCATGTTG
30484 AATTT
131 AATTT
*
30489 GTTCATATATTTTGTTCTTATTAATTTCCATAGAATTTGTTTGCTATATTAATTGAATACTAAAT
1 GTTCATATATTTTGTTCTTATTAATTTCCATAGAATTTGTTTGCTATATTAATTGAATACTAAAC
* * * *
30554 CTTGTATTAGTTTCATTCATGTTGGATT-GTTTTTATTGATTTATTAATT
66 CTTGTATTAGTGTCATTCATGTT-GATTAGTTATTACTAATTTATTAATT
30603 GTTTGTCTAT
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
135 100 0.96
136 4 0.04
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (135 bp):
GTTCATATATTTTGTTCTTATTAATTTCCATAGAATTTGTTTGCTATATTAATTGAATACTAAAC
CTTGTATTAGTGTCATTCATGTTGATTAGTTATTACTAATTTATTAATTATTATCATTCATGTTG
AATTT
Found at i:30974 original size:164 final size:166
Alignment explanation
Indices: 30788--31111 Score: 442
Period size: 172 Copynumber: 1.9 Consensus size: 166
30778 TTCTTGATAA
* * *
30788 TCAGGATGTTCTGGACCTCATTGAAATGGTCTGTTGGATAGTACAGACTG-TTGTTTGTTTG-TT
1 TCAGGATGTTCTAGACCTCATTGAAAAGGTCTGTTGGATAGTACAGACTGTTTGCTTGTTTGATT
* *
30851 CCACTTTAGTTAAAT-TCCAATCTTGTTCTTATTAATTT-TCATTGAATTTGTTTGCTATATTAA
66 CCAATTTAGTTAAATCT-CAATCTTGTTCTTATTAATTTCT-ATTAAATTTGTTTGCTATATTAA
30914 CCGAGTTCT-ATATCTTGTATTAGTGTCAATCATGTTGG
129 CCGAGTTCTGA-ATCTTGTATTAGTGTCAATCATGTTGG
* **
30952 TCAGGATGTTCTAGATCTCATTGAAAAGGTCTGTTGGATCTTACAGACTGTTATTTGCTTGTTTG
1 TCAGGATGTTCTAGACCTCATTGAAAAGGTCTGTTGGATAGTACAGACTG---TTTGCTTGTTTG
31017 TTAATTCCAATTTAGTTAAATCTCAATCTTGTTCTTATTAATTTCTATTAAATTTGTTTGCTATA
63 ---ATTCCAATTTAGTTAAATCTCAATCTTGTTCTTATTAATTTCTATTAAATTTGTTTGCTATA
**
31082 TTAATTGAGTTCTGAATCTTGTATTAGTGT
125 TTAACCGAGTTCTGAATCTTGTATTAGTGT
31112 AATTTATGTT
Statistics
Matches: 139, Mismatches: 10, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
164 45 0.32
168 10 0.07
172 81 0.58
173 3 0.02
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (166 bp):
TCAGGATGTTCTAGACCTCATTGAAAAGGTCTGTTGGATAGTACAGACTGTTTGCTTGTTTGATT
CCAATTTAGTTAAATCTCAATCTTGTTCTTATTAATTTCTATTAAATTTGTTTGCTATATTAACC
GAGTTCTGAATCTTGTATTAGTGTCAATCATGTTGG
Found at i:31375 original size:16 final size:15
Alignment explanation
Indices: 31350--31380 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
31340 TTATTTGTTT
31350 GTTTGTTAAATCTCA
1 GTTTGTTAAATCTCA
31365 GTTTAGTTAAATCTCA
1 GTTT-GTTAAATCTCA
31381 ATCTTGCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (15 bp):
GTTTGTTAAATCTCA
Found at i:32727 original size:946 final size:956
Alignment explanation
Indices: 30876--32852 Score: 2508
Period size: 946 Copynumber: 2.1 Consensus size: 956
30866 TCCAATCTTG
* ** *
30876 TTCTTATTAATTTTCATTGAATTTGTTTGCTATATTAACCGAGTTCTATATCTTGTATTAGTGTC
1 TTCTTATTAATTTTCATTGAATTTGTTTGTTATATTAATTGAGTTCTAAATCTTGTATTAGTGTC
* * * **
30941 AATCATGTTGGTCAGGATGTTCTAGATCTCATTGAAAAGGTCTGTTGGATCTTACAGACTGTTAT
66 ATTCATGTTGGTCAGGATGTTCTAGACCTCATTGAAAAGATCTGTTACATCTTACAGACTGTTAT
* *
31006 TTGCTTGTTTGTTAATTCCAATTTAGTTAAATCTCAATCTTGTTCTTATTAATTTCTATTAAATT
131 TTGCTTGTTTGTTAATTCCAATTTAGTTAAATCTCAATATTGTTCTTATAAATTTCTATTAAATT
* * * * * *
31071 TGTTTGCTATATTAATTGAGTTCTGAATCTTGTATTAGTGTAATTTATGTTAGATTGTTATTATT
196 TGTTTGCTATATTAACTAAGTTCTGAAACTTGTATTAGTGTAATTCAAGTTAGATTGTTATTACT
* ** * * *
31136 GATTTATTAATTATTGTTATTCTTTTAGAATTTGCAAACTAGTTTGCTTGATATTTATGCCCCAT
261 GATTTATTAATTATTGTCATTCGGTTAGAATTTGCAAACTAGTTTGCTTGATATATATACACCAT
* *
31201 CCTTCCACTACTGCTTCCACAGTTCATATATTTTGTTCTTATTAATTTCTATTGAATTTTTTTGC
326 CCTTCCACTACTACTTCCACAGTTCATATATTTTGTTCTTATTAATTTCTATTGAATTTGTTTGC
* *
31266 TATATTAACTGAGTTCTAAATCTTGTATCAATGTCATTCATGCTGGATTGTACTTACTGATTTAT
391 TATATGAACTAAGTTCTAAATCTTGTATCAATGTCATTCATGCTGGATTGTACTTACTGATTTAT
* * *
31331 TAATTACTATTATTTGTTTGTTTGTTAAATCTCAGTTTAGTTAAATCTCAATCTTGCTCCTATTA
456 TAATTACTATTATTTGTTTATTTGTTAAATCTCAATTTAGTTAAATCTCAATCTTGCTACTATTA
* * * *
31396 ATTTTCATTGAATTTGTTTTCTATATTAATTGAGTTCTAAATATCATATTAGTGTAATTATTGTT
521 ATTTTCATTGAATTTGTTTGCTATATTAACTCAGTTCTAAATATC--A-TA-TGTAATTAGTGTT
* * * *
31461 GGATTATTCTTATTGATTTATTTATTGCTGATTTATTAATTATTGTCATCCATGTTGAATTTTTT
582 GCATTAATCTTA-TGATTGATTTA-T-CTGATTTATTAATTATTGTCATCCATGTTGAATTTGTT
**** * * * *
31526 TGCTCAATGTTTTGTTGTGAATTGCTGGTCATTTTGACTTTTCTTATTATTTGATGATTTAATGT
644 TGCTCAATGTTTTCCCATGAAGTGCTGGTCATTTTGACTTTTCTTATTATTCGATGATTCAATAT
* *
31591 TTTGCTCAATGTTTTTTTAGATCAAATATTATACTTTTTTAACACTACTAAAAAGTTATATATAA
709 TTTGCTCAATGTTTTTTTAGATCAAATATTATACTTTTCTAAAACTACTAAAAAGTTATATATAA
* * * * *
31656 TAACTTTTTTAGTTGACAATACTCGTCAATTCAGTGGCCTCCAATGACATTGTCTGTCCGTCTCC
774 CAACCTTTTTAGTTGACAATACTCGTCAATTCAGTGACCTCCAATGACACTGTCTGCCCGTCTCC
* * * * * * * *
31721 TACTTCCTCTGTCAACTTCTCTGCTCCATCTTTTAGTCGTCGCCTTCGTTGTCCCACTAGTTTGC
839 TACTTCCTCTATCAACTTCTCTGCTCCAGCCTTCAGTCATCGCCATCATCGTCCCACTAGTTTGC
* * *
31786 TCGGTATATATCCACCATGCTTCCCATTCTTCTTTCACAATTCATATATTTTA
904 TCGGTATATATCCACCATGCTTCCCATGCTACTTCCACAATTCATATATTTTA
* *
31839 TTCTTATTAATTTTCATTGAATTTGTTTGTTATATTAATTGAGTTCTAAATTTTGTATTATTGTC
1 TTCTTATTAATTTTCATTGAATTTGTTTGTTATATTAATTGAGTTCTAAATCTTGTATTAGTGTC
* * * *
31904 ATTCATGTTGGTCATGATGTTTTGGACCTCATTGAAAAGATTTGTTACATCTTACAGACTGTTAT
66 ATTCATGTTGGTCAGGATGTTCTAGACCTCATTGAAAAGATCTGTTACATCTTACAGACTGTTAT
* * * *
31969 TT-CTTTGTTTGTTAATTCTAGTTTAGTTAAATCTCAATATTTTTCTTATAAATTT-TCATTGAA
131 TTGC-TTGTTTGTTAATTCCAATTTAGTTAAATCTCAATATTGTTCTTATAAATTTCT-ATTAAA
* * *
32032 TTTGTTTGCTATATTAACTAAGTT-TTAAACTTGTATTAGTGTCATTCAAGTTTGATTGTTATTA
194 TTTGTTTGCTATATTAACTAAGTTCTGAAACTTGTATTAGTGTAATTCAAGTTAGATTGTTATTA
**** * *
32096 CTGATTTATTAATTACTT-TCATTCAGGTTA-AATTTGTTGTCTGGTTTGCTTGGTATATATACA
259 CTGATTTATTAATTA-TTGTCATTC-GGTTAGAATTTGCAAACTAGTTTGCTTGATATATATACA
* ** *
32159 CCA-CGCTTCCATTGTTATTTCCACAGTTCATATATTTTGTTCTTATTAATTTAC-ATTGAATTT
322 CCATC-CTTCCACTACTACTTCCACAGTTCATATATTTTGTTCTTATTAATTT-CTATTGAATTT
* * * * * *
32222 GTTTGCTATATGAATTAAGTTCTAATTCTTTTATTATTGTCATTCATGTTGGATTGTTA-TTACT
385 GTTTGCTATATGAACTAAGTTCTAAATCTTGTATCAATGTCATTCATGCTGGATTG-TACTTACT
*** *
32286 GATTTATTAATTACTATTATTTGTTTATTTGTTTGTTC-CAATTTAGTTAAATCTCAATCTTGTT
449 GATTTATTAATTACTATTATTTGTTTATTTGTTAAATCTCAATTTAGTTAAATCTCAATCTTGCT
* *
32350 ATTATTAATTTTCATTTAATTTGTTTGCTATATTAACTCAGTTCT-AA-ATC-T-TGT-ATTAGT
514 ACTATTAATTTTCATTGAATTTGTTTGCTATATTAACTCAGTTCTAAATATCATATGTAATTAGT
* *
32410 G-T-CATTAATGTTA-GATTGATCTTA-CTGATTTATTAATTATTGTCATTCATGTTGAATTTGT
579 GTTGCATTAATCTTATGATTGAT-TTATCTGATTTATTAATTATTGTCATCCATGTTGAATTTGT
* * *
32471 TTGCTCAATGTTTTCCCATGCAGTGCTGGTCATTTTGACTTTTCTTTTTATTCGATGGTTCAATA
643 TTGCTCAATGTTTTCCCATGAAGTGCTGGTCATTTTGACTTTTCTTATTATTCGATGATTCAATA
* *
32536 TTTTGCTCAATGTTTTTTTAGATTAAATATTATACTTTTCTAAAACTACTAACAAGTTATATATA
708 TTTTGCTCAATGTTTTTTTAGATCAAATATTATACTTTTCTAAAACTACTAAAAAGTTATATATA
* *
32601 ACAACCTTTTTAGTT-ATCAGTACTCGTCAATTTC-GTGACCTTC-A-G-CACTG-CTGCCCGTC
773 ACAACCTTTTTAGTTGA-CAATACTCGTCAA-TTCAGTGACCTCCAATGACACTGTCTGCCCGTC
* * * * * *
32660 TATCACTCGCTTTCTTTATCAGCTTCTCTGCTCTAGCCTTCAGTCATCGCCATCATCGTCTCACT
836 --TC-CT-ACTTCCTCTATCAACTTCTCTGCTCCAGCCTTCAGTCATCGCCATCATCGTCCCACT
* * * * * *
32725 AGTTTGCTTGGTATTTATTCACTATGCTTCCCCTGCTACTTCCACAGTTCATATATTTTA
897 AGTTTGCTCGGTATATATCCACCATGCTTCCCATGCTACTTCCACAATTCATATATTTTA
*
32785 TTCTTATTAATTTCCATTGAATTTGTTTGTTATATTAATTGAGTTCTAAATCTTGTATTAGTGTC
1 TTCTTATTAATTTTCATTGAATTTGTTTGTTATATTAATTGAGTTCTAAATCTTGTATTAGTGTC
32850 ATT
66 ATT
32853 TATATTGGAT
Statistics
Matches: 877, Mismatches: 123, Indels: 45
0.84 0.12 0.04
Matches are distributed among these distances:
942 8 0.01
943 4 0.00
944 3 0.00
945 4 0.00
946 341 0.39
947 3 0.00
948 6 0.01
949 3 0.00
950 8 0.01
951 1 0.00
952 6 0.01
953 3 0.00
955 1 0.00
959 3 0.00
960 2 0.00
961 64 0.07
962 219 0.25
963 198 0.23
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (956 bp):
TTCTTATTAATTTTCATTGAATTTGTTTGTTATATTAATTGAGTTCTAAATCTTGTATTAGTGTC
ATTCATGTTGGTCAGGATGTTCTAGACCTCATTGAAAAGATCTGTTACATCTTACAGACTGTTAT
TTGCTTGTTTGTTAATTCCAATTTAGTTAAATCTCAATATTGTTCTTATAAATTTCTATTAAATT
TGTTTGCTATATTAACTAAGTTCTGAAACTTGTATTAGTGTAATTCAAGTTAGATTGTTATTACT
GATTTATTAATTATTGTCATTCGGTTAGAATTTGCAAACTAGTTTGCTTGATATATATACACCAT
CCTTCCACTACTACTTCCACAGTTCATATATTTTGTTCTTATTAATTTCTATTGAATTTGTTTGC
TATATGAACTAAGTTCTAAATCTTGTATCAATGTCATTCATGCTGGATTGTACTTACTGATTTAT
TAATTACTATTATTTGTTTATTTGTTAAATCTCAATTTAGTTAAATCTCAATCTTGCTACTATTA
ATTTTCATTGAATTTGTTTGCTATATTAACTCAGTTCTAAATATCATATGTAATTAGTGTTGCAT
TAATCTTATGATTGATTTATCTGATTTATTAATTATTGTCATCCATGTTGAATTTGTTTGCTCAA
TGTTTTCCCATGAAGTGCTGGTCATTTTGACTTTTCTTATTATTCGATGATTCAATATTTTGCTC
AATGTTTTTTTAGATCAAATATTATACTTTTCTAAAACTACTAAAAAGTTATATATAACAACCTT
TTTAGTTGACAATACTCGTCAATTCAGTGACCTCCAATGACACTGTCTGCCCGTCTCCTACTTCC
TCTATCAACTTCTCTGCTCCAGCCTTCAGTCATCGCCATCATCGTCCCACTAGTTTGCTCGGTAT
ATATCCACCATGCTTCCCATGCTACTTCCACAATTCATATATTTTA
Found at i:33411 original size:170 final size:168
Alignment explanation
Indices: 32919--33425 Score: 597
Period size: 172 Copynumber: 3.0 Consensus size: 168
32909 GATAATCAGG
* *
32919 TGTTCTGGACCTTATTGAAAAGGTCTGTTGGATCTTACAGATTGTTATTTGTTTGTTTGTT-G-T
1 TGTTCTGGACCTTATTGAAAAGGTTTGTTGGATCTTAC--ATAGTTATTTGTTTG-TTGTTAGTT
* *
32982 TCTAGTTTAATTAAATCCCAATCTTGTTTTTATTAA-TTTCTATTGAATTTGTTTACTATATTAA
63 TC-AGTTTAATTAAATCTCAATCTTGTTTTTATTAATTTTC-ATTGAATTTGTTTGCTATATTAA
* * *
33046 TTGAATTCTAAATATTGTATAAGTGTCATTAATGTTGGTAAAGA
126 TTGAATTCTAAATCTTGTATTAGTGTCATCAA-GTTGGTAAAGA
* * *
33090 TGTTCTAGACCTTATTGAAAAGGTTTGTTGGATCGTACAAACTGTTATTTGTTTGTTAGTTAGTT
1 TGTTCTGGACCTTATTGAAAAGGTTTGTTGGATCTTACATA--GTTATTTGTTTGTT-GTTAGTT
* * * * * ** * *
33155 CCAGTTTAGTTAAATATGAATCTTGTTTTTATTAATTTCCATCAAATTTGATTGCTATATTAACT
63 TCAGTTTAATTAAATCTCAATCTTGTTTTTATTAATTTTCATTGAATTTGTTTGCTATATTAATT
* **
33220 GAATTCTAAATCTTTTATTAGTGTCACTCAAGTTGGTATGGA
128 GAATTCTAAATCTTGTATTAGTGTCA-TCAAGTTGGTAAAGA
* *
33262 TGTTCTGGACCTCATTGAAGAGGTTTGTTGGATCTTACATAGTTATTTGTTTGCTTGTTAGTTTC
1 TGTTCTGGACCTTATTGAAAAGGTTTGTTGGATCTTACATAGTTATTTGTTTG-TTGTTAGTTTC
** * * *
33327 AGTTTAATTAAATCTCAATCTTGTGCTTATCAATTTTCATTGAATTTGTTTGTTGTATTAATTGA
65 AGTTTAATTAAATCTCAATCTTGTTTTTATTAATTTTCATTGAATTTGTTTGCTATATTAATTGA
* * *
33392 GTTATTAATCTTGTATTAGTGTCATTCAAGTTGG
130 ATTCTAAATCTTGTATTAGTGTCA-TCAAGTTGG
33426 ATTGTTATTA
Statistics
Matches: 282, Mismatches: 46, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
169 1 0.00
170 103 0.37
171 52 0.18
172 118 0.42
173 8 0.03
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.48
Consensus pattern (168 bp):
TGTTCTGGACCTTATTGAAAAGGTTTGTTGGATCTTACATAGTTATTTGTTTGTTGTTAGTTTCA
GTTTAATTAAATCTCAATCTTGTTTTTATTAATTTTCATTGAATTTGTTTGCTATATTAATTGAA
TTCTAAATCTTGTATTAGTGTCATCAAGTTGGTAAAGA
Found at i:33650 original size:21 final size:21
Alignment explanation
Indices: 33620--33659 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33610 TGGATTGTTC
33620 TTATCAATTTATTAATTAATA
1 TTATCAATTTATTAATTAATA
* * *
33641 TTATCTATTTGTTAGTTAA
1 TTATCAATTTATTAATTAA
33660 ATCCTAGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
TTATCAATTTATTAATTAATA
Found at i:33795 original size:15 final size:14
Alignment explanation
Indices: 33771--33811 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
33761 TGGATTGTTC
33771 TTACTTATTTATTAA
1 TTAC-TATTTATTAA
33786 TTACTGATTTATTAA
1 TTACT-ATTTATTAA
33801 TTA-TATTTATT
1 TTACTATTTATT
33812 CATGGTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.28
14 2 0.08
15 16 0.64
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (14 bp):
TTACTATTTATTAA
Found at i:34090 original size:340 final size:348
Alignment explanation
Indices: 33432--34128 Score: 841
Period size: 340 Copynumber: 2.0 Consensus size: 348
33422 TTGGATTGTT
* * *
33432 ATTATTGATTTATTAATTATTGTCATTCATGTTGAATTTTTTATTGGTTTGCTCGGTATATATGC
1 ATTACTGATTTATTAATTATTGTCATTCATGGTGAATTTTTGATTGGTTTGCTCGGTATATATGC
* **
33497 ATCATGTTTCCATTGCTGCTTCCACAGTTCATATATTTTCTTATTATTAATTTACATTGAATTTG
66 ATCATGCTTCCACAGCTGCTTCCACAGTTCATATATTTTCTTATTATTAATTTACATTGAATTTG
* * * *
33562 GTTGCTATATTAACTGAGTTCTAAATCTTGTATTAATGTTATTCATGTTGGATTGTTCTTATCAA
131 GTTCCTATATTAACTGAATTCTAAATCTTGTATTAATGTTATTAATGTTGGATTATTCTTATCAA
** * *
33627 TTTATTAATTAATATTATCTATTTGTTAGTTAAATCCTAGTTTAGTTAAATCTCAATCTTGTTTT
196 TTTATTAATT-ATATTATCTATTTCCTAGTTAAA--C-AGTTTAGTTAAATAT-AATCTTGTTCT
* * *
33692 TATTAATTGTCATTGAATTTGTTTGCTATATTAATTGAGTTATAAATCTTGTATTAGTGTCATTC
256 TATTAATTGTCATTGAATCTGTTTGCTATATTAACTGAGTTATAAATCTTGTATTAGTGTAATTC
** *
33757 ATGTTGGATTGTTCTTACTTATTTATTA
321 ATGTTGGATTGTTAGTACTAATTTATTA
*
33785 ATTACTGATTTATTAATTATAT-TTATTCATGGTGAATTTGTTGATTGGTTTGCTCGGTATATAT
1 ATTACTGATTTATTAATTAT-TGTCATTCATGGTGAATTT-TTGATTGGTTTGCTCGGTATATAT
** * *
33849 GCA-CTATGCTTCCACAGCTGCTTCCATGGTTCATATATTATT-TTCTTATTAATTTTCATTGAG
64 GCATC-ATGCTTCCACAGCTGCTTCCACAGTTCATATATT-TTCTTATTATTAATTTACATTGA-
* ** * * *
33912 TTTTTTTTTCCTATATTAACTTAATTCTAGATCTTGTATTAGTGTTATTAATGTTGGATTATTCT
126 -ATTTGGTTCCTATATTAACTGAATTCTAAATCTTGTATTAATGTTATTAATGTTGGATTATTCT
* * * *
33977 TA-CTAATTTATTAA-T-TATTGT-TA-TTCCT-GTT-GA-A-TTT-GTT-CATAT-ATTTTGTT
190 TATC-AATTTATTAATTATATTATCTATTTCCTAGTTAAACAGTTTAGTTAAATATAATCTTGTT
*
34030 CTTATTAATT-TCCATTGAATCTGTTTGCTATATTAACTGAGTTTTAAATCTTGTATTAGTGTAA
254 CTTATTAATTGT-CATTGAATCTGTTTGCTATATTAACTGAGTTATAAATCTTGTATTAGTGTAA
34094 TTCATGTTGGATTGTTAGTACTAATTTATTA
318 TTCATGTTGGATTGTTAGTACTAATTTATTA
34125 ATTA
1 ATTA
34129 TTTGTTTGTT
Statistics
Matches: 300, Mismatches: 36, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
339 1 0.00
340 96 0.32
342 3 0.01
343 3 0.01
344 3 0.01
345 1 0.00
349 1 0.00
350 3 0.01
351 3 0.01
352 2 0.01
353 40 0.13
354 74 0.25
355 4 0.01
356 66 0.22
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.52
Consensus pattern (348 bp):
ATTACTGATTTATTAATTATTGTCATTCATGGTGAATTTTTGATTGGTTTGCTCGGTATATATGC
ATCATGCTTCCACAGCTGCTTCCACAGTTCATATATTTTCTTATTATTAATTTACATTGAATTTG
GTTCCTATATTAACTGAATTCTAAATCTTGTATTAATGTTATTAATGTTGGATTATTCTTATCAA
TTTATTAATTATATTATCTATTTCCTAGTTAAACAGTTTAGTTAAATATAATCTTGTTCTTATTA
ATTGTCATTGAATCTGTTTGCTATATTAACTGAGTTATAAATCTTGTATTAGTGTAATTCATGTT
GGATTGTTAGTACTAATTTATTA
Found at i:34121 original size:135 final size:136
Alignment explanation
Indices: 33877--34130 Score: 350
Period size: 135 Copynumber: 1.9 Consensus size: 136
33867 TGCTTCCATG
* * * * * *
33877 GTTCATATATTATTTTCTTATTAATTTTCATTGAGTTTTTTTTTCCTATATTAACTTAATTCTAG
1 GTTCATATATTATTTTCTTATTAATTTCCATTGAG-ATCTGTTTCCTATATTAACTGAATTCTAA
* **
33942 ATCTTGTATTAGTGTTATTAATGTTGGATTATTCTTACTAATTTATTAATTATTGTTATTCCTGT
65 ATCTTGTATTAGTGTAATTAATGTTGGATTATTAGTACTAATTTATTAATTATTGTTATTCCTGT
34007 TGAATTT
130 TGAATTT
* * *
34014 GTTCATATATT-TTGTTCTTATTAATTTCCATTGA-ATCTGTTTGCTATATTAACTGAGTTTTAA
1 GTTCATATATTATT-TTCTTATTAATTTCCATTGAGATCTGTTTCCTATATTAACTGAATTCTAA
* *
34077 ATCTTGTATTAGTGTAATTCATGTTGGATTGTTAGTACTAATTTATTAATTATT
65 ATCTTGTATTAGTGTAATTAATGTTGGATTATTAGTACTAATTTATTAATTATT
34131 TGTTTGTTAG
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
135 70 0.69
136 2 0.02
137 30 0.29
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.55
Consensus pattern (136 bp):
GTTCATATATTATTTTCTTATTAATTTCCATTGAGATCTGTTTCCTATATTAACTGAATTCTAAA
TCTTGTATTAGTGTAATTAATGTTGGATTATTAGTACTAATTTATTAATTATTGTTATTCCTGTT
GAATTT
Found at i:53515 original size:14 final size:15
Alignment explanation
Indices: 53496--53530 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
53486 CATAGCAAGT
53496 AAAAACAAAAA-AAC
1 AAAAACAAAAAGAAC
*
53510 AAAAACAAAAAGGAC
1 AAAAACAAAAAGAAC
53525 AAAAAC
1 AAAAAC
53531 GGTGGCGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.80, C:0.14, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAACAAAAAGAAC
Found at i:54488 original size:3 final size:3
Alignment explanation
Indices: 54480--54510 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
54470 CTTTAGGTTT
54480 TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
54511 AAATAGTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:54923 original size:21 final size:21
Alignment explanation
Indices: 54890--54930 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
54880 AAATTTTCAT
* *
54890 TTTTTGGATTTTTTTTTATAC
1 TTTTTAGAATTTTTTTTATAC
54911 TTTTTAGAATTTTTTTTATA
1 TTTTTAGAATTTTTTTTATA
54931 GCGAATCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTTAGAATTTTTTTTATAC
Found at i:56569 original size:25 final size:25
Alignment explanation
Indices: 56540--56597 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
56530 ACCAACTTCA
* *
56540 TTTAATCTACTTCATACATTTTTAT
1 TTTAATATACTTCATACATATTTAT
** *
56565 TTTAATATGTTTTATACATATTTAT
1 TTTAATATACTTCATACATATTTAT
56590 TTTAATAT
1 TTTAATAT
56598 GTAAAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTAATATACTTCATACATATTTAT
Found at i:57032 original size:41 final size:40
Alignment explanation
Indices: 56987--57075 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
56977 AGCGGCGTTT
* * *
56987 TTAGCGGCGGTTGGATAAAAAACGCCGCTAAAAATCGATCA
1 TTAGCGGCGGTTGCATAAAAAACGCCGCTAAAAAT-AAGCA
* **
57028 TTAGCGGC-GTTTCATGGAAAACGCCGCTAAAAATAAGCA
1 TTAGCGGCGGTTGCATAAAAAACGCCGCTAAAAATAAGCA
57067 TTAGCGGCG
1 TTAGCGGCG
57076 TTTTTGCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 11 0.27
40 22 0.54
41 8 0.20
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGGTTGCATAAAAAACGCCGCTAAAAATAAGCA
Found at i:57343 original size:114 final size:114
Alignment explanation
Indices: 57067--57383 Score: 424
Period size: 114 Copynumber: 2.8 Consensus size: 114
57057 AAAATAAGCA
* * *
57067 TTAGCGGCGTTTTTGCGAAAGCGCCGC-AAAATACCTAAGCCCAACGATGTCGTTTTCCT-AGCT
1 TTAGCGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCGTTTT-CTGAGCT
* * * * *
57130 TTCGGGAGATATAGCGGCGTTTTTAAGGAAGTGCCGCTAATGCTCAGGGAT
65 TTCGGG-GATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCCCAAGGAT
*
57181 TTAG-TGCGTTTTTGCGAAAGCGCCACAAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
1 TTAGCGGCGTTTTTGCGAAAGCGCCAC-AAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
* * * * * *
57245 TTCGAGGATTTAGCTGCTTTTTTGGGGAAGCGCTGCTAATGCCCAAGGCT
65 TTCGGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCCCAAGGAT
* * *
57295 TTAGCGGCGATTTTGCGAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
57360 TCGGGGATTTAGCGGCGTTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTGA
57384 TAAAGAGCCA
Statistics
Matches: 176, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
113 20 0.11
114 101 0.57
115 55 0.31
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGCGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCCCAAGGAT
Found at i:57413 original size:73 final size:73
Alignment explanation
Indices: 57294--57454 Score: 241
Period size: 73 Copynumber: 2.2 Consensus size: 73
57284 TGCCCAAGGC
* * * *
57294 TTTAGCGGCGATTTTGCGAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGAGCCACAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCT
*
57359 TTCGGGGA
66 TTCGAGGA
* * *
57367 TTTAGCGGCGTTTTTGATAAAGAGCCACAAAAAAACCTAATCCCAACGACATCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGAGCCACAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCT
57432 TTCGAGGA
66 TTCGAGGA
*
57440 TTTAGTGGCGTTTTT
1 TTTAGCGGCGTTTTT
57455 CGGGAAGCGA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 79 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGAGCCACAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCT
TTCGAGGA
Found at i:57505 original size:187 final size:188
Alignment explanation
Indices: 57176--57568 Score: 596
Period size: 187 Copynumber: 2.1 Consensus size: 188
57166 CTAATGCTCA
* * * *
57176 GGGATTTAG-TGCGTTTTTGCGAAAGCGCCACAAAAAAAACCTAAGCCCAACGACGTCGTTTTCT
1 GGGATTTAGCGGCGTTTTTGAGAAAGAGCCACAAAAAAAACCTAAGCCCAACGACATCGTTTTCT
* * *
57240 GAGCTTTCGAGGATTTAGCTGCTTTTTTGGGGAAGCGCTGCTAATGCCCAAGGCTTTAGCGGCGA
66 GAGCTTTCGAGGATTTAGCTGCGTTTTTCGGGAAGCGCTGCTAATACCCAAGGCTTTAGCGGCGA
*
57305 TTTTGCGAAAGTGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
131 TTTTGCGAAAGTGCAACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* *
57363 GGGATTTAGCGGCGTTTTTGATAAAGAGCCAC-AAAAAAACCTAATCCCAACGACATCGTTTTCT
1 GGGATTTAGCGGCGTTTTTGAGAAAGAGCCACAAAAAAAACCTAAGCCCAACGACATCGTTTTCT
* *
57427 GAGCTTTCGAGGATTTAG-TGGCGTTTTTCGGGAAGCGAC-GCTTATACCCAGGGCTTTAGCGGC
66 GAGCTTTCGAGGATTTAGCT-GCGTTTTTCGGGAAGCG-CTGCTAATACCCAAGGCTTTAGCGGC
* * **
57490 GTTTTTGCTAAAGTGCAACAAAAAAACCTAAGCCCAACGACGTTGTTTTCTGAGCTTTCG
129 GATTTTGCGAAAGTGCAACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
57550 GGGATTTAGCGGCGTTTTT
1 GGGATTTAGCGGCGTTTTT
57569 AATTAAGCGC
Statistics
Matches: 187, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
186 1 0.01
187 167 0.89
188 19 0.10
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (188 bp):
GGGATTTAGCGGCGTTTTTGAGAAAGAGCCACAAAAAAAACCTAAGCCCAACGACATCGTTTTCT
GAGCTTTCGAGGATTTAGCTGCGTTTTTCGGGAAGCGCTGCTAATACCCAAGGCTTTAGCGGCGA
TTTTGCGAAAGTGCAACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
Found at i:57644 original size:115 final size:114
Alignment explanation
Indices: 57367--57840 Score: 601
Period size: 115 Copynumber: 4.1 Consensus size: 114
57357 CTTTCGGGGA
* * * **
57367 TTTAGCGGCGTTTTTGATAAAGAGCCACAAAAAAACCTAATCCCAACGACATCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * ** * * * * *
57432 TTCGAGGATTTAGTGGCGTTTTTCGGGAAGCGACGCTTATACCCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
* * **
57481 TTTAGCGGCGTTTTTGCTAAAGTGCAACAAAAAAACCTAAGCCCAACGACGTTGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
57546 TTCGGGGATTTAGCGGCGTTTTTAATTAAGCGCCGCTAATGCTCAGGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCA-GGGC
*
57596 TTTAGCGGCGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCT
1 TTTAGCGGCGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
57661 TTCGGGGACTTAGCGGCGTTTTTTAAGTAATCGCCGCTAATGCTCA-GGC
66 TTCGGGGATTTAGCGGCG-TTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
* ** * * * *
57710 TTTTAGCAGCGTTTTTGGGAAGGCGCCGCAAAGAAACCTAAGCCCAACGACGCCGTTTTCTTAGC
1 -TTTAGCGGCGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
* * * *
57775 TTTCGTGGATTTAGTGGCGTTTTTAA-TAAAGCACCGCTAATGCTCAGTGC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGT-AAGCGCCGCTAATGCTCAGGGC
57825 TTTAGCGGCGTTTTTG
1 TTTAGCGGCGTTTTTG
57841 AGGATGCGCC
Statistics
Matches: 316, Mismatches: 39, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
113 1 0.00
114 135 0.43
115 155 0.49
116 25 0.08
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
Found at i:58806 original size:24 final size:24
Alignment explanation
Indices: 58778--58858 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 24
58768 AAATAAATAA
58778 TAAATAAATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
* * *
58802 TAAATTAATTTTTAGGTAATTACTTGTT
1 TAAA-TAA---ATAGGTAATTAATTATT
*
58830 TAAATAGATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
58854 TAAAT
1 TAAAT
58859 GAATGATACA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
24 23 0.50
25 3 0.07
27 2 0.04
28 18 0.39
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (24 bp):
TAAATAAATAGGTAATTAATTATT
Found at i:59583 original size:366 final size:366
Alignment explanation
Indices: 58905--59619 Score: 1110
Period size: 366 Copynumber: 2.0 Consensus size: 366
58895 ATTTAGCAGC
* ** * * *
58905 GTTTTGATAAAAAAATGCCATAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGGTTTAGG
1 GTTTTCATAAAAAAACACCACAAAAATTTATTGCATTTACCGATACGACGTCGTTTCGGCTTAGG
* *
58970 GAATAAGTTTTAGTTGTGGCGTTTTTCCAAAAAGCGCCGTAAATAATATTTAAACTTTTCCAAAA
66 GAATAAATTTTAGTTGTGGCGTTTTTCCAAAAAGCGCCGTAAATAATATTTAAACTTTGCCAAAA
* *
59035 CGGCGCCGTTTCAGTTGAAGGATGGAATATTTTAGTGCCGTTTTATTATAAACGTCGCAAGGATG
131 CGGCGCCGTTTCAGTTGAAGGATGAAATATTTTAGTGCCGTTTTATTAAAAACGTCGCAAGGATG
* * ** * * *
59100 TATAAAATTTTCTGAAAACGGCGCTGGTTTGATAATATATTAATTGTGGCATTTTTGGGAAAACG
196 TATAAAATTTACTGAAAACGACGCTGGTTCAACAATATATTAATTGTGACATGTTTGGGAAAACG
* *
59165 CTAGAATGTTTCCTTATATTTTTATAAAATGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGTGG
261 CCAGAATGTTTCCTTATATTTTTATAAAACGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGTGG
*
59230 CATTTTTAATTAAAACGCTGCAAAATGTAGACATTACCGGT
326 CATTTTTAATTAAAACGCCGCAAAATGTAGACATTACCGGT
* *
59271 GTTTTCATAAAAAAACACCACAAATATTTATTGCATTTATCGATACGACGTCGTTTCGGCTTAGG
1 GTTTTCATAAAAAAACACCACAAAAATTTATTGCATTTACCGATACGACGTCGTTTCGGCTTAGG
* * * * *
59336 GAATAAATTTTAGTTGTGGCGTTTTTCCTAAAAGTGCTGTAAATAATATTTGAACTTTGCGAAAA
66 GAATAAATTTTAGTTGTGGCGTTTTTCCAAAAAGCGCCGTAAATAATATTTAAACTTTGCCAAAA
* * *
59401 CGGCGCCGTTTCAGTTGAAGGATGAAATCTTTTAGTGGCGTTTTATTAAAAACG-CTGCAATGAT
131 CGGCGCCGTTTCAGTTGAAGGATGAAATATTTTAGTGCCGTTTTATTAAAAACGTC-GCAAGGAT
*
59465 GTATAAAATTTACTGAAAACGACG-TCGGTTCAACAATATATTAATTGTGACGTGTTTGGGAAAA
195 GTATAAAATTTACTGAAAACGACGCT-GGTTCAACAATATATTAATTGTGACATGTTTGGGAAAA
59529 CGCCAGAATGTTTCCTTATATTTTTATAAAACGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGT
259 CGCCAGAATGTTTCCTTATATTTTTATAAAACGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGT
*
59594 GGCGTTTTTAATTAAAACGCCGCAAA
324 GGCATTTTTAATTAAAACGCCGCAAA
59620 TGTCGATGCA
Statistics
Matches: 315, Mismatches: 32, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
365 2 0.01
366 313 0.99
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (366 bp):
GTTTTCATAAAAAAACACCACAAAAATTTATTGCATTTACCGATACGACGTCGTTTCGGCTTAGG
GAATAAATTTTAGTTGTGGCGTTTTTCCAAAAAGCGCCGTAAATAATATTTAAACTTTGCCAAAA
CGGCGCCGTTTCAGTTGAAGGATGAAATATTTTAGTGCCGTTTTATTAAAAACGTCGCAAGGATG
TATAAAATTTACTGAAAACGACGCTGGTTCAACAATATATTAATTGTGACATGTTTGGGAAAACG
CCAGAATGTTTCCTTATATTTTTATAAAACGGCGCCGTTTCTTTCTGTACTTGAAATTTTAGTGG
CATTTTTAATTAAAACGCCGCAAAATGTAGACATTACCGGT
Found at i:61308 original size:23 final size:23
Alignment explanation
Indices: 61280--61323 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
61270 CTTATATGTA
*
61280 AACTTACATAATACATTACTTTT
1 AACTTACATAATACATAACTTTT
61303 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
61324 ATAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:61545 original size:88 final size:88
Alignment explanation
Indices: 61444--61946 Score: 988
Period size: 88 Copynumber: 5.7 Consensus size: 88
61434 ACTTACATAA
* *
61444 TACATAGCATACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
61509 TAACCTACATAATACATTTAACT
66 TAACCTACATAATACATTTAACT
61532 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
61597 TAACCTACATAATACATTTAACT
66 TAACCTACATAATACATTTAACT
61620 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
61685 TAACCTACATAATACATTTAACT
66 TAACCTACATAATACATTTAACT
61708 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
61773 TAACCTACATAATACATTTAACT
66 TAACCTACATAATACATTTAACT
61796 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
61861 TAACCTACATAATACATTTAACT
66 TAACCTACATAATACATTTAACT
61884 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTA
61947 GGTAAGCGAC
Statistics
Matches: 413, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 413 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (88 bp):
TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
TAACCTACATAATACATTTAACT
Found at i:63885 original size:21 final size:21
Alignment explanation
Indices: 63800--63874 Score: 114
Period size: 21 Copynumber: 3.6 Consensus size: 21
63790 AACTTAAAGT
* *
63800 AGAGGCGGCAACGAGAGAAGC
1 AGAGGCTGCAGCGAGAGAAGC
*
63821 AGAGGCTGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGAGAAGC
*
63842 AGAGGCTACAGCGAGAGAAGC
1 AGAGGCTGCAGCGAGAGAAGC
63863 AGAGGCTGCAGC
1 AGAGGCTGCAGC
63875 ATAAGAAGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.33, C:0.20, G:0.43, T:0.04
Consensus pattern (21 bp):
AGAGGCTGCAGCGAGAGAAGC
Found at i:64161 original size:23 final size:23
Alignment explanation
Indices: 64135--64183 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
64125 ACTAAACATA
64135 TAAT-TTTAAATAATTTTT-TATAT
1 TAATATTTAAAT-ATTTTTATA-AT
*
64158 TAATATTTATATATTTTTATAAT
1 TAATATTTAAATATTTTTATAAT
64181 TAA
1 TAA
64184 ACTAAACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATATTTAAATATTTTTATAAT
Found at i:64787 original size:42 final size:42
Alignment explanation
Indices: 64716--65029 Score: 398
Period size: 42 Copynumber: 7.4 Consensus size: 42
64706 AATCCCAAAA
* * *
64716 TTAGTGGCGTTTTTTACAAAAGCACCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTTC-AAAGCGCCGCTAAAGAACATGATCT
* * * *
64759 ATAGCGGCGTTTTTTACCAAGCGCCGCTAAAGAATATGATCT
1 TTAGCGGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGATCT
*
64801 TTAGCGGCGTTTTTCTT-TAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTT-TTCAAAGCGCCGCTAAAGAACATGATCT
* *
64843 TTAGCGGGGTTTTTTTGAAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGATCT
*
64885 TTAGCGAG-GTTTTTTTGAAAGCGCCGCTAAAGAACATGATCT
1 TTAGCG-GCGTTTTTTTCAAAGCGCCGCTAAAGAACATGATCT
** *
64927 TTAGCGGCGTCTTTTTTTTAAGTGCCGCTAAAGAACATGATCT
1 TTAGCGGCGT-TTTTTTCAAAGCGCCGCTAAAGAACATGATCT
* * * *
64970 TTAGCGGCGTTTTTTTTCGAAGCGCCTCTAAAGAAGATGACCT
1 TTAGCGGCG-TTTTTTTCAAAGCGCCGCTAAAGAACATGATCT
*
65013 TTAGCGGCATTTTTTTC
1 TTAGCGGCGTTTTTTTC
65030 TGTAAACGCT
Statistics
Matches: 244, Mismatches: 21, Indels: 13
0.88 0.08 0.05
Matches are distributed among these distances:
41 3 0.01
42 151 0.62
43 89 0.36
44 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGATCT
Found at i:66877 original size:25 final size:25
Alignment explanation
Indices: 66830--66877 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
66820 CTATATTAAA
* *
66830 TTATTTAAAATTTATTTAAATCAAT
1 TTATTTAAAAATTATTCAAATCAAT
66855 TTATTTAAAAATT-TTCAATATCA
1 TTATTTAAAAATTATTCAA-ATCA
66878 TGTCTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (25 bp):
TTATTTAAAAATTATTCAAATCAAT
Found at i:71181 original size:25 final size:25
Alignment explanation
Indices: 71153--71208 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
71143 TGCCTTTGAA
71153 AATTCACCTTCAAAACTAAATCTAT
1 AATTCACCTTCAAAACTAAATCTAT
71178 AATTCACCTTCAAAACTAAATCTAT
1 AATTCACCTTCAAAACTAAATCTAT
71203 AATTCA
1 AATTCA
71209 TAATTAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (25 bp):
AATTCACCTTCAAAACTAAATCTAT
Found at i:71388 original size:87 final size:88
Alignment explanation
Indices: 71278--71456 Score: 351
Period size: 87 Copynumber: 2.0 Consensus size: 88
71268 TAGACATTAC
71278 TAATAAATTTAAAATGATACACTAAAATATATAGATAATCATAATGTATCAATGTTAAACAAAAA
1 TAATAAATTTAAAATGATACACTAAAATATATAGATAATCATAATGTATCAATGTTAAACAAAAA
71343 TAATATATTCACTAATACGATAT
66 TAATATATTCACTAATACGATAT
71366 TAATAAATTT-AAATGATACACTAAAATATATAGATAATCATAATGTATCAATGTTAAACAAAAA
1 TAATAAATTTAAAATGATACACTAAAATATATAGATAATCATAATGTATCAATGTTAAACAAAAA
71430 TAATATATTCACTAATACGATAT
66 TAATATATTCACTAATACGATAT
71453 TAAT
1 TAAT
71457 TACTCTTATC
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 81 0.89
88 10 0.11
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.34
Consensus pattern (88 bp):
TAATAAATTTAAAATGATACACTAAAATATATAGATAATCATAATGTATCAATGTTAAACAAAAA
TAATATATTCACTAATACGATAT
Found at i:71576 original size:30 final size:30
Alignment explanation
Indices: 71542--71599 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
71532 AATCATTATC
71542 AATTAATTTGGAGTCTATTAATTATCCATT
1 AATTAATTTGGAGTCTATTAATTATCCATT
* * *
71572 AATTAATTTGGGGTTTGTTAATTATCCA
1 AATTAATTTGGAGTCTATTAATTATCCA
71600 ACACAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.47
Consensus pattern (30 bp):
AATTAATTTGGAGTCTATTAATTATCCATT
Found at i:75376 original size:14 final size:14
Alignment explanation
Indices: 75357--75383 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75347 CAAGCAATTC
75357 AAGAATAAACAAAT
1 AAGAATAAACAAAT
75371 AAGAATAAACAAA
1 AAGAATAAACAAA
75384 GAGAGATGAA
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:0.74, C:0.07, G:0.07, T:0.11
Consensus pattern (14 bp):
AAGAATAAACAAAT
Found at i:76078 original size:39 final size:38
Alignment explanation
Indices: 76034--76157 Score: 140
Period size: 39 Copynumber: 3.2 Consensus size: 38
76024 CGCGGCCCGT
* *
76034 TGATTTACTATCATGACCTTCGGCTTTCTTATGATCCAC
1 TGATTTACAATCATGACCTTCGGCTTTCTTATGGTCC-C
** * * *
76073 TGATTTACGGTCATTACCTTTGGTTTTCTTATGGTCCC
1 TGATTTACAATCATGACCTTCGGCTTTCTTATGGTCCC
* *
76111 TTGATTTACAATCATGACCTTCGGCCTTCTTACGGTCCGC
1 -TGATTTACAATCATGACCTTCGGCTTTCTTATGGTCC-C
76151 TGATTTA
1 TGATTTA
76158 TGATCACAAC
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 68 0.97
40 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (38 bp):
TGATTTACAATCATGACCTTCGGCTTTCTTATGGTCCC
Found at i:76373 original size:54 final size:54
Alignment explanation
Indices: 76145--76349 Score: 261
Period size: 54 Copynumber: 3.8 Consensus size: 54
76135 CCTTCTTACG
* * * *
76145 GTCCGCTGATTTATGATCACAACCTTTTACTTACGAGATTTTACGAATCTCACA
1 GTCCACTGATTTACGATCACAACCTTTTACTTACGAGATTTTACAAATCTCGCA
** *
76199 GTCCACTGATTTACGATCATGACCTTTTACTTACGAGATTTTACAAATCTTGCA
1 GTCCACTGATTTACGATCACAACCTTTTACTTACGAGATTTTACAAATCTCGCA
* * *
76253 GTCCACTGATTTACGATCACGACCTTTTACTTA-TAGGATTTTACAAATCTTG-A
1 GTCCACTGATTTACGATCACAACCTTTTACTTACGA-GATTTTACAAATCTCGCA
* * *
76306 GGTCCAGTGATTTATGATCACAACCTTTTACTTATGAGATTTTA
1 -GTCCACTGATTTACGATCACAACCTTTTACTTACGAGATTTTA
76350 TGAACCTCGC
Statistics
Matches: 135, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
53 2 0.01
54 132 0.98
55 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (54 bp):
GTCCACTGATTTACGATCACAACCTTTTACTTACGAGATTTTACAAATCTCGCA
Found at i:76494 original size:39 final size:37
Alignment explanation
Indices: 76384--76583 Score: 139
Period size: 39 Copynumber: 5.1 Consensus size: 37
76374 CAATTGCGAT
* * * *
76384 CTTTGGCTTACTTACGGTCCACTGATTTACGGTTATGAC
1 CTTTGGCTTTCTTACGGT-C-CTGATTTACGATCACGAC
* ** *
76423 ATTCAGCTTTCTTAGGGGTCCGCTGATTTACGATCACGAC
1 CTTTGGCTTTCTTA-CGGT-C-CTGATTTACGATCACGAC
* * *
76463 TTTTGGCTTTCTTACAGTCCATGGATTTACGATCATGAC
1 CTTTGGCTTTCTTACGGTCC-T-GATTTACGATCACGAC
* * * * *
76502 CTTTAGTTTTCTTACGGTTCGCTAATTTACGATCATGGC
1 CTTTGGCTTTCTTACGG-TC-CTGATTTACGATCACGAC
* *
76541 CTTCGGCTTTCTTATGGTCCGTTGATTTACGATCACGAC
1 CTTTGGCTTTCTTACGGTCC--TGATTTACGATCACGAC
76580 CTTT
1 CTTT
76584 TACTTATAGG
Statistics
Matches: 125, Mismatches: 29, Indels: 14
0.74 0.17 0.08
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 84 0.67
40 34 0.27
41 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.40
Consensus pattern (37 bp):
CTTTGGCTTTCTTACGGTCCTGATTTACGATCACGAC
Found at i:76568 original size:78 final size:79
Alignment explanation
Indices: 76388--76583 Score: 214
Period size: 78 Copynumber: 2.5 Consensus size: 79
76378 TGCGATCTTT
* * * * * * * *
76388 GGCTTACTTACGGTCCACTGATTTACGGTTATGACATTCAGCTTTCTTAGGGGTCCGCTGATTTA
1 GGCTTTCTTACGGTCCATTGATTTACGATCATGACCTTTAGCTTTCTTAGCGGTCCGCTAATTTA
* *
76453 CGATCACGACTTTT
66 CGATCACGACCTTC
* * * *
76467 GGCTTTCTTACAGTCCATGGATTTACGATCATGACCTTTAGTTTTCTTA-CGGTTCGCTAATTTA
1 GGCTTTCTTACGGTCCATTGATTTACGATCATGACCTTTAGCTTTCTTAGCGGTCCGCTAATTTA
* *
76531 CGATCATGGCCTTC
66 CGATCACGACCTTC
* * *
76545 GGCTTTCTTATGGTCCGTTGATTTACGATCACGACCTTT
1 GGCTTTCTTACGGTCCATTGATTTACGATCATGACCTTT
76584 TACTTATAGG
Statistics
Matches: 96, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
78 56 0.58
79 40 0.42
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (79 bp):
GGCTTTCTTACGGTCCATTGATTTACGATCATGACCTTTAGCTTTCTTAGCGGTCCGCTAATTTA
CGATCACGACCTTC
Found at i:76623 original size:54 final size:54
Alignment explanation
Indices: 76564--76666 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
76554 ATGGTCCGTT
* **
76564 GATTTACGATCACGACCTTTTACTTATAGGA-TTTTATGAATCTCGCGGTCTACC
1 GATTTACGATCACGACCTTCTACTTAT-GGACTTTTACAAATCTCGCGGTCTACC
*
76618 GATTTACGATCATGACCTTCTACTTATGGACTTTTACAAATCTCGCGGT
1 GATTTACGATCACGACCTTCTACTTATGGACTTTTACAAATCTCGCGGT
76667 TCGTTGATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 3 0.07
54 41 0.93
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (54 bp):
GATTTACGATCACGACCTTCTACTTATGGACTTTTACAAATCTCGCGGTCTACC
Found at i:76676 original size:54 final size:53
Alignment explanation
Indices: 76560--76677 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 53
76550 TCTTATGGTC
* **
76560 CGTTGATTTACGATCACGACCTTTTACTTATAGGATTTTATGAATCTCGCGGT
1 CGTTGATTTACGATCACGACCTTCTACTTATAGGATTTTACAAATCTCGCGGT
* *
76613 C-TACCGATTTACGATCATGACCTTCTACTTAT-GGACTTTTACAAATCTCGCGGTT
1 CGT--TGATTTACGATCACGACCTTCTACTTATAGGA-TTTTACAAATCTCGCGG-T
76668 CGTTGATTTA
1 CGTTGATTTA
76678 TGATTACTGC
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
52 1 0.02
53 4 0.07
54 46 0.85
55 2 0.04
56 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (53 bp):
CGTTGATTTACGATCACGACCTTCTACTTATAGGATTTTACAAATCTCGCGGT
Found at i:76774 original size:24 final size:24
Alignment explanation
Indices: 76742--76841 Score: 105
Period size: 24 Copynumber: 4.2 Consensus size: 24
76732 TATGGATTAC
* *
76742 AATACAGTTCGCAGTATTTCTGTA
1 AATACAGTTCGTAGTATTTCTATA
*
76766 AATACAGTTCGTAATA-TTCTAT-
1 AATACAGTTCGTAGTATTTCTATA
* * *
76788 GATATAGTTCGTGGTATTTCTATA
1 AATACAGTTCGTAGTATTTCTATA
* * *
76812 AATATAGTTCGTAGCATTTCTAAA
1 AATACAGTTCGTAGTATTTCTATA
76836 AATACA
1 AATACA
76842 ATTCACAGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
22 12 0.19
23 11 0.18
24 39 0.63
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (24 bp):
AATACAGTTCGTAGTATTTCTATA
Found at i:80072 original size:30 final size:30
Alignment explanation
Indices: 80011--80072 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
80001 AATAAAGATG
* *
80011 AAATTGTACTTTAATTCTTTTAAAATGATA
1 AAATTGTAATTTAATTCCTTTAAAATGATA
* *
80041 AAATTTTAATTTAA-TCCTTTAAAGATTATA
1 AAATTGTAATTTAATTCCTTTAAA-ATGATA
80071 AA
1 AA
80073 TATAGAGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (30 bp):
AAATTGTAATTTAATTCCTTTAAAATGATA
Found at i:84251 original size:20 final size:20
Alignment explanation
Indices: 84217--84266 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
84207 ATGTTACATC
*
84217 AAAAAATAATTTAAA-ATTA
1 AAAAAATAATATAAACATTA
*
84236 AAAAAATATATATAAATCCTTA
1 AAAAAATA-ATATAAA-CATTA
84258 AAAAAATAA
1 AAAAAATAA
84267 AGTACATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 8 0.31
20 6 0.23
21 1 0.04
22 11 0.42
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAATAATATAAACATTA
Found at i:89900 original size:21 final size:21
Alignment explanation
Indices: 89874--89918 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
89864 CTAAATTGGG
89874 AGCGATACAAAATCACATGCT
1 AGCGATACAAAATCACATGCT
89895 AGCGATACAAAATCACATGCT
1 AGCGATACAAAATCACATGCT
89916 AGC
1 AGC
89919 CAACTTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (21 bp):
AGCGATACAAAATCACATGCT
Found at i:102088 original size:82 final size:82
Alignment explanation
Indices: 101995--102637 Score: 399
Period size: 82 Copynumber: 8.2 Consensus size: 82
101985 ACAGTAGGAT
* *
101995 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTAGCAACAAAATCGAAATCGAATAAAAT
1 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTAGAAACAAAATCAAAATCGAATAAAAT
102060 CTATTAAACGGCGGGAA
66 CTATTAAACGGCGGGAA
* * * * *
102077 TAAATTCCGAAACAGAATTTATTTGATTAAATCTTGTTTGGAAAAAAAATC--AA---AATAAAA
1 TAAATCCCGAAACA-AAATTATTTAATTAAATCTTGTTTAGAAACAAAATCAAAATCGAATAAAA
* * **
102137 TCTTTTAAA-TGCAAGAA
65 TCTATTAAACGGCGGGAA
* * * *
102154 TAAATCCAGAAACTAAATTATTTAATTAAATCTTGTTT-GAAAATAAAATCAAAATCAAAATCAA
1 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTAG-AAACAAAATCAAAATC-GAAT-AA
* **
102218 AATC-A--AAA--TC-AAAA
63 AATCTATTAAACGGCGGGAA
* * * *
102232 TCAAAT--CAAAATCAAAATCA--AAATCAAAATC------A-AAATCAAAATCAAAATC-----
1 T-AAATCCCGAAA-CAAAATTATTTAAT-TAAATCTTGTTTAGAAA-CAAAATCAAAATCGAATA
* **
102281 AAATCTATTAAACGACAAGAA
62 AAATCTATTAAACGGCGGGAA
* * *
102302 TAAATCCCGAAATAGAATTATTTAATTAAATCTTTGTTT-G----GAAA-CAAAATCGAATAAAA
1 TAAATCCCGAAACAAAATTATTTAATTAAATC-TTGTTTAGAAACAAAATCAAAATCGAATAAAA
* * *
102361 TCTGTTAAATGGTGGGAA
65 TCTATTAAACGGCGGGAA
*
102379 TAAATCTCGAAACAAAATTATTTAATTAAATCTTGTTTAGAAACAAAATCAAAATCGAATAAAAT
1 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTAGAAACAAAATCAAAATCGAATAAAAT
**
102444 CGGTTAAACGGCGGGAA
66 CTATTAAACGGCGGGAA
* * * * * *
102461 TAAATCCCGAAATAGAATTATTCAATTAATTCTCG-TTAGGAAACAAAATCAAAAT-AAATAAAA
1 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTA-GAAACAAAATCAAAATCGAATAAAA
* * *
102524 CCTATTGAACGGTGGGAA
65 TCTATTAAACGGCGGGAA
* * * * ** ** *
102542 TAAATCCCGAAATAGAATTATTCAATTAATTCTCATTCGGAAACAAAATAAAAAAT-GAATAAAA
1 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTAGAAACAAAAT-CAAAATCGAATAAAA
* * * * *
102606 TTTGTTGAATGGCAGGAA
65 TCTATTAAACGGCGGGAA
*
102624 TAAATCGCGAAACA
1 TAAATCCCGAAACA
102638 GATTTTATTC
Statistics
Matches: 442, Mismatches: 73, Indels: 92
0.73 0.12 0.15
Matches are distributed among these distances:
64 5 0.01
65 1 0.00
67 3 0.01
69 5 0.01
70 12 0.03
71 21 0.05
72 10 0.02
73 3 0.01
75 1 0.00
76 40 0.09
77 69 0.16
78 27 0.06
79 5 0.01
80 3 0.01
81 72 0.16
82 128 0.29
83 37 0.08
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.27
Consensus pattern (82 bp):
TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTAGAAACAAAATCAAAATCGAATAAAAT
CTATTAAACGGCGGGAA
Found at i:102209 original size:6 final size:6
Alignment explanation
Indices: 102193--102283 Score: 168
Period size: 6 Copynumber: 15.5 Consensus size: 6
102183 ATCTTGTTTG
102193 AAAAT- AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC -AAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
102239 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAA
102284 TCTATTAAAC
Statistics
Matches: 84, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.12
6 74 0.88
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATC
Found at i:102604 original size:163 final size:159
Alignment explanation
Indices: 102288--102656 Score: 391
Period size: 163 Copynumber: 2.3 Consensus size: 159
102278 ATCAAATCTA
* * * * * *
102288 TTAAACGACAAGAATAAATCCCGAAATAGAATTATTTAATTAAATCTTTGTTTGGAAACAAAATC
1 TTAAACGGCAGGAATAAATCCCGAAATAGAATTATTCAATTAATTCTTCGTTAGGAAACAAAATC
* * * * * * ** *
102353 GAATAAAATCTGTTAAATGGTGGGAATAAATCTCGAAACAAAATTATTTAATTAAATCTTGTTTA
66 AAATAAAACCTATTAAACGGTGGGAATAAATCCCGAAACAAAATTATTCAATTAAATCTCATTCA
*
102418 GAAACAAAATCAAAATCGAATAAAATCGG
131 GAAACAAAATAAAAATCGAATAAAATCGG
*
102447 TTAAACGGCGGGAATAAATCCCGAAATAGAATTATTCAATTAATTC-TCGTTAGGAAACAAAATC
1 TTAAACGGCAGGAATAAATCCCGAAATAGAATTATTCAATTAATTCTTCGTTAGGAAACAAAATC
* * * *
102511 AAAATAAATAAAACCTATTGAACGGTGGGAATAAATCCCGAAATAGAATTATTCAATTAATTCTC
66 -----AAATAAAACCTATTAAACGGTGGGAATAAATCCCGAAACAAAATTATTCAATTAAATCTC
* **
102576 ATTCGGAAACAAAATAAAAAAT-GAATAAAATTTG
126 ATTCAGAAACAAAAT-AAAAATCGAATAAAATCGG
* * * * *
102610 TTGAATGGCAGGAATAAATCGCGAAACAGATTTTATTCAATTTAATT
1 TTAAACGGCAGGAATAAATCCCGAAATAGA-ATTATTCAA-TTAATT
102657 TTTATTCTCA
Statistics
Matches: 172, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
158 16 0.09
159 41 0.24
163 96 0.56
164 13 0.08
165 6 0.03
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.29
Consensus pattern (159 bp):
TTAAACGGCAGGAATAAATCCCGAAATAGAATTATTCAATTAATTCTTCGTTAGGAAACAAAATC
AAATAAAACCTATTAAACGGTGGGAATAAATCCCGAAACAAAATTATTCAATTAAATCTCATTCA
GAAACAAAATAAAAATCGAATAAAATCGG
Found at i:103323 original size:25 final size:25
Alignment explanation
Indices: 103295--103351 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
103285 CTACATTAAT
*
103295 AAATCAATT-TAAATAGAATCAAATC
1 AAATCAATTGGAAATA-AATCAAATC
** *
103320 AAATTGATTGGAATTAAATCAAATC
1 AAATCAATTGGAAATAAATCAAATC
103345 AAATCAA
1 AAATCAA
103352 ATCAAGATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (25 bp):
AAATCAATTGGAAATAAATCAAATC
Found at i:103806 original size:16 final size:16
Alignment explanation
Indices: 103785--103830 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
103775 ATAGGCTAAT
103785 TATATTTAATATTAAA
1 TATATTTAATATTAAA
** *
103801 TATATTTCTTATTAAT
1 TATATTTAATATTAAA
103817 TAT-TTTAAT-TTAAA
1 TATATTTAATATTAAA
103831 AATAAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 4 0.17
15 4 0.17
16 16 0.67
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTTAATATTAAA
Found at i:105574 original size:22 final size:20
Alignment explanation
Indices: 105526--105566 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
105516 CATTCCAATT
*
105526 CATTTCACATATTACATTTC
1 CATTTCACATATTAAATTTC
105546 CATTTCACATATATAAATTTC
1 CATTTCACATAT-TAAATTTC
105567 ATAATTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (20 bp):
CATTTCACATATTAAATTTC
Found at i:108446 original size:143 final size:142
Alignment explanation
Indices: 108185--108468 Score: 478
Period size: 143 Copynumber: 2.0 Consensus size: 142
108175 ATTTAACTTT
* *
108185 ACATTCATGAAAATTGCAAACTAAAATTCACAGCAGAAAAACCCTAACGCGTAACGAAAAAAAAA
1 ACATTCATGAAAATTGCAAACTAAAACTCACAACAGAAAAACCCTAACGCGTAACGAAAAAAAAA
* **
108250 GGGTACTTACGAAAAACCCGACTGCAGTACCAACAATTAGAAGCACCTGAATGATTAAACAAAAT
66 GGGTACTTACGAAAAACCCGACTGCAGAACCAACAATTAGAAGCACCCAAATGATTAAACAAAAT
108315 CGAAGACTTACA
131 CGAAGACTTACA
* * *
108327 ACATTCATGAAAATTGCAACCTAAAACTCACAACAGAAAAAACCCTAATGCGTAACGAAAAAGAA
1 ACATTCATGAAAATTGCAAACTAAAACTCACAACAG-AAAAACCCTAACGCGTAACGAAAAAAAA
108392 AGGGTACTTACGAAAAACCCGACTGCAGAACCAACAATTAGAAGCACCCAAATGATTAAACAAAA
65 AGGGTACTTACGAAAAACCCGACTGCAGAACCAACAATTAGAAGCACCCAAATGATTAAACAAAA
*
108457 TTGAAGACTTAC
130 TCGAAGACTTAC
108469 CACCTCGCCG
Statistics
Matches: 132, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
142 33 0.25
143 99 0.75
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (142 bp):
ACATTCATGAAAATTGCAAACTAAAACTCACAACAGAAAAACCCTAACGCGTAACGAAAAAAAAA
GGGTACTTACGAAAAACCCGACTGCAGAACCAACAATTAGAAGCACCCAAATGATTAAACAAAAT
CGAAGACTTACA
Found at i:111394 original size:85 final size:87
Alignment explanation
Indices: 111257--111429 Score: 314
Period size: 85 Copynumber: 2.0 Consensus size: 87
111247 ATATTATATG
*
111257 ATAATAAAAATTAATTAATTAATTTTTTTCTAATTTAAAACTTCTTTAATTCTAATATAAGAAAT
1 ATAATAAAAATAAATTAATTAATTTTTTTCTAATTTAAAACTTCTTTAATTCTAATATAAGAAAT
111322 TTATTTTGTAATTGATATGGAA
66 TTATTTTGTAATTGATATGGAA
*
111344 ATAATAAAAA-AAATTAATTAA-TTTTTTCTAATTTAAAATTTCTTTAATTCTAATATAAGAAAT
1 ATAATAAAAATAAATTAATTAATTTTTTTCTAATTTAAAACTTCTTTAATTCTAATATAAGAAAT
111407 TTATTTTGTAATTGATATGGAA
66 TTATTTTGTAATTGATATGGAA
111429 A
1 A
111430 CTTTTTTTAA
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
85 64 0.76
86 10 0.12
87 10 0.12
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (87 bp):
ATAATAAAAATAAATTAATTAATTTTTTTCTAATTTAAAACTTCTTTAATTCTAATATAAGAAAT
TTATTTTGTAATTGATATGGAA
Found at i:114912 original size:5 final size:5
Alignment explanation
Indices: 114902--114952 Score: 102
Period size: 5 Copynumber: 10.2 Consensus size: 5
114892 TTTTTAACTC
114902 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
114952 A
1 A
114953 AAAAGAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:135283 original size:58 final size:58
Alignment explanation
Indices: 135193--135353 Score: 322
Period size: 58 Copynumber: 2.8 Consensus size: 58
135183 ACGGAGTTTA
135193 ATTAAAGTTTTGTTGGAAAATTTTATCGTTTCAATAGTTAATTAAACTATCATGTGGT
1 ATTAAAGTTTTGTTGGAAAATTTTATCGTTTCAATAGTTAATTAAACTATCATGTGGT
135251 ATTAAAGTTTTGTTGGAAAATTTTATCGTTTCAATAGTTAATTAAACTATCATGTGGT
1 ATTAAAGTTTTGTTGGAAAATTTTATCGTTTCAATAGTTAATTAAACTATCATGTGGT
135309 ATTAAAGTTTTGTTGGAAAATTTTATCGTTTCAATAGTTAATTAA
1 ATTAAAGTTTTGTTGGAAAATTTTATCGTTTCAATAGTTAATTAA
135354 GTAAAAAGGA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 103 1.00
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (58 bp):
ATTAAAGTTTTGTTGGAAAATTTTATCGTTTCAATAGTTAATTAAACTATCATGTGGT
Found at i:136303 original size:30 final size:29
Alignment explanation
Indices: 136248--136304 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
136238 ATATATATTT
* *
136248 TTTTATTAAATTGAATGTTATTATATGAA
1 TTTTATTAAAATGAATGATATTATATGAA
136277 TTTTATTGAAAATGAATCGATA-TATATG
1 TTTTATT-AAAATGAAT-GATATTATATG
136305 TTATTATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.29
30 14 0.58
31 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (29 bp):
TTTTATTAAAATGAATGATATTATATGAA
Found at i:137365 original size:15 final size:15
Alignment explanation
Indices: 137345--137376 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
137335 TGTTGTTGAA
137345 TTATAAAATCCTACT
1 TTATAAAATCCTACT
137360 TTATAAAATCCTACT
1 TTATAAAATCCTACT
137375 TT
1 TT
137377 GTTAGGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (15 bp):
TTATAAAATCCTACT
Found at i:142555 original size:21 final size:21
Alignment explanation
Indices: 142530--142607 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
142520 GTTTAACTAA
*
142530 TTTTTAAAAATTTTAAAAATAT
1 TTTTT-AAAATTTTAAAAATAG
*
142552 TTTTTAAAAATTTT-ATAATA-
1 TTTTT-AAAATTTTAAAAATAG
* * *
142572 ATTTT-AATTTTTTAAAATAG
1 TTTTTAAAATTTTAAAAATAG
*
142592 TTTTTAAATTTTTAAA
1 TTTTTAAAATTTTAAA
142608 TTTTAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.13
19 5 0.11
20 8 0.17
21 14 0.30
22 14 0.30
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTTTAAAAATAG
Found at i:142577 original size:11 final size:11
Alignment explanation
Indices: 142528--142577 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
142518 ACGTTTAACT
142528 AATTTT-TAAA
1 AATTTTATAAA
142538 AATTTTA-AAA
1 AATTTTATAAA
*
142548 ATATTTTTTAAA
1 A-ATTTTATAAA
*
142560 AATTTTATAAT
1 AATTTTATAAA
142571 AATTTTA
1 AATTTTA
142578 ATTTTTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 10 0.29
11 20 0.59
12 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTTATAAA
Found at i:142582 original size:28 final size:26
Alignment explanation
Indices: 142530--142619 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 26
142520 GTTTAACTAA
*
142530 TTTTTAAAAA-TTTTAAAA--AT-AT
1 TTTTTAAAAATTTTTAAAATTTTAAT
142552 TTTTTAAAAATTTTATAATAATTTTAAT
1 TTTTTAAAAATTTT-TAA-AATTTTAAT
* *
142580 TTTTTAAAATAGTTTTTAAATTTTTAAA
1 TTTTTAAAA-A-TTTTTAAAATTTTAAT
*
142608 TTTTAAAAAATT
1 TTTTTAAAAATT
142620 AATTAAATGT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
22 10 0.18
23 3 0.05
24 3 0.05
25 2 0.04
26 2 0.04
27 2 0.04
28 26 0.46
29 4 0.07
30 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (26 bp):
TTTTTAAAAATTTTTAAAATTTTAAT
Found at i:142590 original size:19 final size:20
Alignment explanation
Indices: 142537--142607 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
142527 TAATTTTTAA
* **
142537 AAATTTTAAAAATATTTTTT
1 AAATTTTTAAAATAGATTTT
* *
142557 AAAAATTTTATAATA-ATTTT
1 -AAATTTTTAAAATAGATTTT
* *
142577 AATTTTTTAAAATAGTTTTT
1 AAATTTTTAAAATAGATTTT
142597 AAATTTTTAAA
1 AAATTTTTAAA
142608 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 11 0.28
20 18 0.45
21 11 0.28
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (20 bp):
AAATTTTTAAAATAGATTTT
Found at i:142827 original size:161 final size:139
Alignment explanation
Indices: 142660--142959 Score: 294
Period size: 161 Copynumber: 2.0 Consensus size: 139
142650 TGCAACATCA
142660 GCAAAGTTAAAAAGAACGTTAACTTGTTCATTCATTTTGAGGTGATTTGATAAATAAAATACAAG
1 GCAAAGTTAAAAAGAACGTTAACTTGTTCATTCATTTTGAGGTGATTTGATAAATAAAATACAAG
142725 TTTAAGGGCGAAAAAGGAAAAAAAATTAAAGACTAAAATGACTTTTTTAAAAGTGAAAGGGTCAA
66 TTTAAGGGCGAAAAAGGAAAAAAAATTAAAGACTAAAATGACTTTTTTAAAAGTGAAAGGGTCAA
142790 ATAAATAAT
131 ATAAATAAT
**********
142799 NNNNNNNNNNNNNNNNNNNNNNGCAAAGTTAAAAAGAACGTTAACTTGTTCATTCATTTTGAGGT
1 --------------GCAAAGTTAAAAAG--AA------CGTTAACTTGTTCATTCATTTTGAGGT
*
142864 GATTTGATAAATAAAATACAAGTTTAAGGGCTAAAAAGGAAAAAAAATTAAAGACTAAAATGACT
44 GATTTGATAAATAAAATACAAGTTTAAGGGCGAAAAAGGAAAAAAAATTAAAGACTAAAATGACT
*
142929 TTTTTAAAAGTTAAAGGGTCAAATAAATAAT
109 TTTTTAAAAGTGAAAGGGTCAAATAAATAAT
142960 TACACCAAAA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
153 4 0.03
155 2 0.02
161 121 0.95
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.27
Consensus pattern (139 bp):
GCAAAGTTAAAAAGAACGTTAACTTGTTCATTCATTTTGAGGTGATTTGATAAATAAAATACAAG
TTTAAGGGCGAAAAAGGAAAAAAAATTAAAGACTAAAATGACTTTTTTAAAAGTGAAAGGGTCAA
ATAAATAAT
Found at i:146990 original size:16 final size:16
Alignment explanation
Indices: 146966--147009 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
146956 TGTAGCATCC
* *
146966 ATATGAAAATTAATTA
1 ATATTAAAAATAATTA
146982 ATATTAAAAATAATTA
1 ATATTAAAAATAATTA
146998 ATATTAAAAATA
1 ATATTAAAAATA
147010 TTTTTTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
ATATTAAAAATAATTA
Found at i:150165 original size:21 final size:21
Alignment explanation
Indices: 150131--150179 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
150121 CACTTTGCCT
* *
150131 ATATTCTGGTAGCTTGACTGC
1 ATATTATGGCAGCTTGACTGC
150152 ATATTATGGCAGCTTGACTGC
1 ATATTATGGCAGCTTGACTGC
150173 ATATTAT
1 ATATTAT
150180 CTGTGATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (21 bp):
ATATTATGGCAGCTTGACTGC
Found at i:156444 original size:32 final size:33
Alignment explanation
Indices: 156408--156472 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
156398 CATTCGAGCT
*
156408 AGGCCAGA-TTAAGTGTGT-GGCCCACACAGGCA
1 AGGCCA-ATTTAAGTGTCTGGGCCCACACAGGCA
**
156440 AGGCCAATTTGGGTGTCTGGGCCCACACAGGCA
1 AGGCCAATTTAAGTGTCTGGGCCCACACAGGCA
156473 TGTAGGCCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 1 0.04
32 13 0.46
33 14 0.50
ACGTcount: A:0.25, C:0.26, G:0.32, T:0.17
Consensus pattern (33 bp):
AGGCCAATTTAAGTGTCTGGGCCCACACAGGCA
Found at i:157905 original size:50 final size:52
Alignment explanation
Indices: 157828--157961 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 52
157818 CTTACAGAAG
*
157828 GTAATAAAGTGACCCTGCTCCTAAACGTATGGGAGG-GGGCTTATAGAATGTA
1 GTAATAAAGTGACCCTGCTCCTAAACGTATGGG-GGAAGGCTTATAGAATGTA
* *
157880 GTAATAAAG-G-CCCTGTTCCTGAACGTATGGGGGAAGGCTTATAGAAAAT-TA
1 GTAATAAAGTGACCCTGCTCCTAAACGTATGGGGGAAGGCTTATAG--AATGTA
*
157931 -TAATAAAGTGACCCTGCTCCTAAACGCATGG
1 GTAATAAAGTGACCCTGCTCCTAAACGTATGG
157962 AAGGAGGCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
49 2 0.03
50 36 0.51
51 4 0.06
52 29 0.41
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (52 bp):
GTAATAAAGTGACCCTGCTCCTAAACGTATGGGGGAAGGCTTATAGAATGTA
Found at i:172781 original size:27 final size:27
Alignment explanation
Indices: 172747--172812 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
172737 TAAAGCATAT
*
172747 AGTCATTTTATAACATAGGGGCATGAC
1 AGTCATTTTATAACATAGGGGCATAAC
** ** *
172774 AGTCATTTTACCATGTGGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAC
172801 AGTCATTTTATA
1 AGTCATTTTATA
172813 TCAGTTTGGG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (27 bp):
AGTCATTTTATAACATAGGGGCATAAC
Found at i:175458 original size:109 final size:109
Alignment explanation
Indices: 175311--175684 Score: 577
Period size: 109 Copynumber: 3.4 Consensus size: 109
175301 AAACCCTGCG
* *
175311 CATTAGGGCACGTTTTCTCGAGTTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTGAAAA
1 CATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAA
* ** *
175376 GATATTTGGCTATTTGGATGAATGAGAAAAATCGAAACCCAACA
66 GATATTTGGCTATTTGGTTGAACAAGAAAAATCGAATCCCAACA
* * * *
175420 CATTAGGGCACGCTTTCTCAAATTTTCAAACGCAAAACATTGCCTTATATTGAAATTTTTGAAAA
1 CATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAA
* * *
175485 GATATTTCGCTATTTGGTTGAACAAGAAAAATTGAATCCCAGCA
66 GATATTTGGCTATTTGGTTGAACAAGAAAAATCGAATCCCAACA
* *
175529 CATTAGGGCACATTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAG
1 CATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAA
*
175594 GGTATTTGGCTATTTGGTTGAACAAGAAAAATCGAATCCCAACA
66 GATATTTGGCTATTTGGTTGAACAAGAAAAATCGAATCCCAACA
** *
175638 CATTAGGGCTTGTTTTCTCCAATTTCCAAACGCAAAACATTGCCTTA
1 CATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTA
175685 CTTATTTTTT
Statistics
Matches: 238, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
109 238 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (109 bp):
CATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAA
GATATTTGGCTATTTGGTTGAACAAGAAAAATCGAATCCCAACA
Found at i:176264 original size:18 final size:18
Alignment explanation
Indices: 176241--176278 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
176231 ATATATAAAT
176241 TATAAGTATAAAAATATA
1 TATAAGTATAAAAATATA
* *
176259 TATAAGTATGAATATATA
1 TATAAGTATAAAAATATA
176277 TA
1 TA
176279 AATCAAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (18 bp):
TATAAGTATAAAAATATA
Found at i:185657 original size:18 final size:17
Alignment explanation
Indices: 185636--185669 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
185626 TGGACGTTCT
185636 TTTCTTCCTCTTTTTGGG
1 TTTCTT-CTCTTTTTGGG
*
185654 TTTCTTTTCTTTTTGG
1 TTTCTTCTCTTTTTGG
185670 TTATTGCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.00, C:0.18, G:0.15, T:0.68
Consensus pattern (17 bp):
TTTCTTCTCTTTTTGGG
Found at i:194969 original size:8 final size:9
Alignment explanation
Indices: 194947--194979 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
194937 GTTTACCCGT
194947 AATTAAAAC
1 AATTAAAAC
194956 AATTAAAA-
1 AATTAAAAC
194964 AATTAAAAC
1 AATTAAAAC
194973 AAGTTAA
1 AA-TTAA
194980 CCACTAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 10 0.45
10 4 0.18
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (9 bp):
AATTAAAAC
Found at i:196552 original size:181 final size:182
Alignment explanation
Indices: 196247--196613 Score: 727
Period size: 181 Copynumber: 2.0 Consensus size: 182
196237 ACTACAATTT
196247 TGTTGAGCTAATAAAAAAGACTACTACTTCTTGTTTGGTTTAAGAATAATTTTTTATATTTAGTA
1 TGTTGAGCTAATAAAAAAGACTACTACTTCTTGTTTGGTTTAAGAATAATTTTTTATATTTAGTA
196312 AATAATTTTTATTTTTAATTTAAATTGAATTCTATATACAGTTCCTTTTGCTAAGAATTTTTTCT
66 AATAATTTTTATTTTTAATTTAAATTGAATTCTATATACAGTTCCTTTTGCTAAGAATTTTTTCT
196377 GCCTGCTTTACCAAACTAGAGATCCCATCTTTTGTAGGTTCAGCATTTGCAA
131 GCCTGCTTTACCAAACTAGAGATCCCATCTTTTGTAGGTTCAGCATTTGCAA
196429 TGTTGAGCTAAT-AAAAAGACTACTACTTCTTGTTTGGTTTAAGAATAATTTTTTATATTTAGTA
1 TGTTGAGCTAATAAAAAAGACTACTACTTCTTGTTTGGTTTAAGAATAATTTTTTATATTTAGTA
196493 AATAATTTTTATTTTTAATTTAAATTGAATTCTATATACAGTTCCTTTTGCTAAGAATTTTTTCT
66 AATAATTTTTATTTTTAATTTAAATTGAATTCTATATACAGTTCCTTTTGCTAAGAATTTTTTCT
196558 GCCTGCTTTACCAAACTAGAGATCCCATCTTTTGTAGGTTCAGCATTTGCAA
131 GCCTGCTTTACCAAACTAGAGATCCCATCTTTTGTAGGTTCAGCATTTGCAA
196610 TGTT
1 TGTT
196614 AACTCTTAGT
Statistics
Matches: 185, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
181 173 0.94
182 12 0.06
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (182 bp):
TGTTGAGCTAATAAAAAAGACTACTACTTCTTGTTTGGTTTAAGAATAATTTTTTATATTTAGTA
AATAATTTTTATTTTTAATTTAAATTGAATTCTATATACAGTTCCTTTTGCTAAGAATTTTTTCT
GCCTGCTTTACCAAACTAGAGATCCCATCTTTTGTAGGTTCAGCATTTGCAA
Found at i:197645 original size:53 final size:54
Alignment explanation
Indices: 197582--197701 Score: 127
Period size: 53 Copynumber: 2.2 Consensus size: 54
197572 TGAAGGTTTA
* *
197582 GGTGGGGAGGGTGATGATGTTGA-TGTCAATAAAGGTGGAGAGAGTGA-CAAGGT
1 GGTGAGGAGGGGGATGATGTT-ATTGTCAATAAAGGTGGAGAGAGTGATCAAGGT
* * * * * * **
197635 GGTGAGGAGGGGGTTGGTGTTATTGTCAGTGAATGTGGTGAGAGTGATGGAGGT
1 GGTGAGGAGGGGGATGATGTTATTGTCAATAAAGGTGGAGAGAGTGATCAAGGT
197689 GGTGAGGAGGGGG
1 GGTGAGGAGGGGG
197702 TTAGGGATGA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.02
53 37 0.67
54 17 0.31
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.24
Consensus pattern (54 bp):
GGTGAGGAGGGGGATGATGTTATTGTCAATAAAGGTGGAGAGAGTGATCAAGGT
Found at i:200305 original size:161 final size:161
Alignment explanation
Indices: 199891--200310 Score: 508
Period size: 162 Copynumber: 2.6 Consensus size: 161
199881 AACAAAAGAT
* * * *
199891 CATGCATTCAACCTAACACAACGGGAACACAAGTATATCGTAAACA-TTTTTTCATTGTCAATTC
1 CATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAAACACTTTTTT-AATGTCAATTC
* ** ** * *
199955 CAAAATATTAAAATCTAATTT-GGGTTCT-A-AGTTTTTTGGTCTTAGTCTTGTACGAGTACGAA
65 CAAAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTTTAATCTTAGCCTGGTACGAGTACGAA
* *
200017 AACAAGAAGCCCAAAAAATAACAACATAACAC
130 AACAAGAAGCCAAAAAAAGAACAACATAACAC
* * * * * * *
200049 CAAGCATTCAGTCTAATACAACTAGATCACAGGTATATCGTATACACTATTTTTAATGTCAATTT
1 CATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAAACACT-TTTTTAATGTCAATTC
* * *
200114 AAAAATATTTTAATCTAATTTGAGGTTCTGATTTTTTTTTAATCTTAGCCTGGTACGAGTAC-AC
65 CAAAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTTTAATCTTAGCCTGGTACGAGTACGA-
* *
200178 AAACTAGAAGCCAAAAAAAGAACAACATGACAC
129 AAACAAGAAGCCAAAAAAAGAACAACATAACAC
* * * *
200211 TATGCATTCTGCCTAACACAATTGGATCACAAGTATATCGTAAATACTTTTTTAATGTCAATTCC
1 CATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAAACACTTTTTTAATGTCAATTCC
*
200276 AAATTATTTAAATCTAATTTGGGGTTCTGATTTTT
66 AAAATATTTAAATCTAATTTGGGGTTCTGATTTTT
200311 GTTCTCAGTC
Statistics
Matches: 216, Mismatches: 40, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
158 37 0.17
159 28 0.13
160 11 0.05
161 49 0.23
162 91 0.42
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (161 bp):
CATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAAACACTTTTTTAATGTCAATTCC
AAAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTTTAATCTTAGCCTGGTACGAGTACGAAA
ACAAGAAGCCAAAAAAAGAACAACATAACAC
Found at i:200605 original size:69 final size:68
Alignment explanation
Indices: 200465--200609 Score: 227
Period size: 69 Copynumber: 2.1 Consensus size: 68
200455 TGATTAGTTG
* * *
200465 AAATGGTTGGTCAACATCTTATTGCTATAGGATCATTTGTTAGCATAGCATATTTTGTTTGTTTT
1 AAATGATTGGTCAACATCTTACTGCTATAGGATCATTTGTTAGCATAACATATTTTGTTTGTTTT
200530 TTA
66 TTA
* * *
200533 AAATGATTGGTTAACATTTTACTGCTATAGGATCATTTTGTTAGTATAACATATTTTGTTTGTTT
1 AAATGATTGGTCAACATCTTACTGCTATAGGATCA-TTTGTTAGCATAACATATTTTGTTTGTTT
200598 TTTA
65 TTTA
200602 AAATGATT
1 AAATGATT
200610 TGTTGAAAGA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
68 31 0.44
69 39 0.56
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (68 bp):
AAATGATTGGTCAACATCTTACTGCTATAGGATCATTTGTTAGCATAACATATTTTGTTTGTTTT
TTA
Found at i:203450 original size:29 final size:29
Alignment explanation
Indices: 203399--203456 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
203389 ATTATAGGAT
*
203399 TTGATCAAATTAGTCCTATTATTGTTAAA
1 TTGATCAAATTAGTCCTATTATTATTAAA
*
203428 TTGATCAATTTAGTCCT-TATATTATTAAA
1 TTGATCAAATTAGTCCTAT-TATTATTAAA
203457 AAGAAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (29 bp):
TTGATCAAATTAGTCCTATTATTATTAAA
Found at i:206697 original size:58 final size:58
Alignment explanation
Indices: 206607--206740 Score: 232
Period size: 58 Copynumber: 2.3 Consensus size: 58
206597 AAAGATGAAT
* *
206607 TTGATACGATCTACTCTATTCTTCAGTCTGCTCCACTGTAAACTCAGGGAGATAAGAC
1 TTGATGCGATCTACTCTATTCTTCAGTCTGCTCCACTGTAAACTCAGAGAGATAAGAC
*
206665 TTGATGCGATCTACTCTATTCTTCAGTCTGCTCCACTGTAACCTCAGAGAGATAAGAC
1 TTGATGCGATCTACTCTATTCTTCAGTCTGCTCCACTGTAAACTCAGAGAGATAAGAC
*
206723 TTGATGCCATCTACTCTA
1 TTGATGCGATCTACTCTA
206741 CTACAACTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 72 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (58 bp):
TTGATGCGATCTACTCTATTCTTCAGTCTGCTCCACTGTAAACTCAGAGAGATAAGAC
Found at i:207287 original size:45 final size:45
Alignment explanation
Indices: 207211--207334 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 45
207201 TTGTTTATTT
* * * *
207211 AGTCTGCCCCACTGTAATTTCAGGGGGATAAGACTTAC-TTCATTG
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCACTTTC-TTG
* * * *
207256 AGTCTGCTCCACTGCAACTTCAGGGAAATAAGGCTCGCTTTCTTG
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCACTTTCTTG
* * *
207301 GGTCTGCTCCACCGCAATTTCATGGAGATAAGAC
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGAC
207335 CCGATGTGAT
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 61 0.95
46 3 0.05
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCACTTTCTTG
Found at i:207454 original size:44 final size:44
Alignment explanation
Indices: 207406--207667 Score: 217
Period size: 44 Copynumber: 6.2 Consensus size: 44
207396 ACTGCAACTT
* * * *
207406 CAGGGAGATAAGATTTGCCATCATTAACCTATTCCACTACTGTC
1 CAGGGAGATAAGATTTGCAATCTTTAACCTATTCCACTGCTGAC
* **
207450 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
1 CAGGGAGATAAGATTTGCAATCTTTAACCTATTCCACTGCTGAC
* * *
207494 CAGGGAGAT-AG---GGC--TCTTTAATCTATTCCACTGCTGCC
1 CAGGGAGATAAGATTTGCAATCTTTAACCTATTCCACTGCTGAC
* *
207532 CAGGGAGATAACATTCT-CAATCTTCAACCTATTCCACTGCTGAC
1 CAGGGAGATAAGATT-TGCAATCTTTAACCTATTCCACTGCTGAC
* * ** * * *
207576 TAGGGAGATAGGATTCACAATCTTTAACCTCTTCCACGGCTAAC
1 CAGGGAGATAAGATTTGCAATCTTTAACCTATTCCACTGCTGAC
* * *
207620 CAGAGAGAT-AG---GGC--TCTTTAATCTATTCCACTGCTGAC
1 CAGGGAGATAAGATTTGCAATCTTTAACCTATTCCACTGCTGAC
*
207658 CAAGGAGATA
1 CAGGGAGATA
207668 GGGTTAGGGT
Statistics
Matches: 173, Mismatches: 36, Indels: 23
0.75 0.16 0.10
Matches are distributed among these distances:
38 58 0.34
39 1 0.01
40 2 0.01
42 1 0.01
43 2 0.01
44 109 0.63
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
CAGGGAGATAAGATTTGCAATCTTTAACCTATTCCACTGCTGAC
Found at i:207536 original size:82 final size:82
Alignment explanation
Indices: 207429--207587 Score: 246
Period size: 82 Copynumber: 1.9 Consensus size: 82
207419 TTTGCCATCA
* ** *
207429 TTAACCTATTCCACTACTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
1 TTAACCTATTCCACTACTGCCCAGGGAGATAACATTCACAATCTTCAACCTATTCCACTGCTGAC
207494 CAGGGAGATAGGGCTCT
66 CAGGGAGATAGGGCTCT
* * *
207511 TTAATCTATTCCACTGCTGCCCAGGGAGATAACATTCTCAATCTTCAACCTATTCCACTGCTGAC
1 TTAACCTATTCCACTACTGCCCAGGGAGATAACATTCACAATCTTCAACCTATTCCACTGCTGAC
*
207576 TAGGGAGATAGG
66 CAGGGAGATAGG
207588 ATTCACAATC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (82 bp):
TTAACCTATTCCACTACTGCCCAGGGAGATAACATTCACAATCTTCAACCTATTCCACTGCTGAC
CAGGGAGATAGGGCTCT
Found at i:207564 original size:126 final size:126
Alignment explanation
Indices: 207406--207667 Score: 393
Period size: 126 Copynumber: 2.1 Consensus size: 126
207396 ACTGCAACTT
* * *
207406 CAGGGAGATAAGATTTGCCATCATTAACCTATTCCACTACTGTCCAGGGAGATAGGATTCACAAT
1 CAGGGAGATAACATTTGCAATCATTAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAAT
* * * *
207471 CTTTAACCTATTCCACTGCTGACCAGGGAGATAGGGCTCTTTAATCTATTCCACTGCTGCC
66 CTTTAACCTATTCCACGGCTAACCAGAGAGATAGGGCTCTTTAATCTATTCCACTGCTGAC
* *
207532 CAGGGAGATAACATTCT-CAATC-TTCAACCTATTCCACTGCTGACTAGGGAGATAGGATTCACA
1 CAGGGAGATAACATT-TGCAATCATT-AACCTATTCCACTACTGACCAGGGAGATAGGATTCACA
*
207595 ATCTTTAACCTCTTCCACGGCTAACCAGAGAGATAGGGCTCTTTAATCTATTCCACTGCTGAC
64 ATCTTTAACCTATTCCACGGCTAACCAGAGAGATAGGGCTCTTTAATCTATTCCACTGCTGAC
*
207658 CAAGGAGATA
1 CAGGGAGATA
207668 GGGTTAGGGT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
125 2 0.02
126 120 0.98
127 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (126 bp):
CAGGGAGATAACATTTGCAATCATTAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAAT
CTTTAACCTATTCCACGGCTAACCAGAGAGATAGGGCTCTTTAATCTATTCCACTGCTGAC
Found at i:207797 original size:88 final size:88
Alignment explanation
Indices: 207680--208079 Score: 683
Period size: 88 Copynumber: 4.5 Consensus size: 88
207670 GTTAGGGTCA
* * *
207680 TCGATCTACTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
207745 TCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
207768 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* *
207833 CCAGGGAAGCAAGGCTGGTGTTT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
207856 TCGATCTGCTTCACTGTCGGTGCAGGAAAGTAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
207921 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
207944 TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
208009 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
208032 TCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATTTTTA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
208080 CCCATCTGTT
Statistics
Matches: 294, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 294 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:207799 original size:44 final size:44
Alignment explanation
Indices: 207680--208065 Score: 190
Period size: 44 Copynumber: 8.8 Consensus size: 44
207670 GTTAGGGTCA
* * * * * *
207680 TCGATCTACTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAG-GCTGGTGTTT
** * * * * *
207725 TTAACCTGCTCCGCTGT-AACT-CAGGGAGGCAAGGCTGGTGTCT
1 TCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGGCTGGTGTTT
* * * *
207768 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAG-GCTGGTGTTT
** * * * *
207813 TTAACCTGCTCCGCTG-CAATCCAGGGAA-GCAAGGCTGGTGTTT
1 TCGATCTGCTTCGCTGTCGATGCA-GGAAGGCAAGGCTGGTGTTT
* * * * * * *
207856 TCGATCTGCTTCACTGTCGGTGCAGGAAAGTAAGATCTGCTATTT
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAG-GCTGGTGTTT
** * * * ** * *
207901 TTAACCTGCTCCGCTG-CAACCCAGGGAGGCAAGGCTGGTGTCT
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGGCTGGTGTTT
* * * * *
207944 TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAG-GCTGGTGTTT
** * * * ** * *
207989 TTAACCTGCTCCGCTG-CAACCCAGGGAGGCAAGGCTGGTGTCT
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGGCTGGTGTTT
*
208032 TCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAG
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAG
208066 ATCTGCTATT
Statistics
Matches: 231, Mismatches: 99, Indels: 23
0.65 0.28 0.07
Matches are distributed among these distances:
43 77 0.33
44 85 0.37
45 69 0.30
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.27
Consensus pattern (44 bp):
TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGGCTGGTGTTT
Found at i:209983 original size:63 final size:63
Alignment explanation
Indices: 209905--210031 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
209895 TTCTTTGTAG
209905 AGTAAGATCTGTTTCTCGACTTGTTCTACCATCCTTAACAAGTCCGGAAATAGGCTACAATCT
1 AGTAAGATCTGTTTCTCGACTTGTTCTACCATCCTTAACAAGTCCGGAAATAGGCTACAATCT
209968 AGTAAGATCTGTTTCTCGACTTGTTCTACCATCCTTAACAAGTCCGGAAATAGGCTACAATCT
1 AGTAAGATCTGTTTCTCGACTTGTTCTACCATCCTTAACAAGTCCGGAAATAGGCTACAATCT
210031 A
1 A
210032 TGTCATCTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (63 bp):
AGTAAGATCTGTTTCTCGACTTGTTCTACCATCCTTAACAAGTCCGGAAATAGGCTACAATCT
Found at i:218964 original size:21 final size:21
Alignment explanation
Indices: 218938--218978 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
218928 CAAATATTTT
* *
218938 AAAACTCATAAAATTATTAAA
1 AAAACTAAAAAAATTATTAAA
*
218959 AAAACTAAAAAAATTCTTAA
1 AAAACTAAAAAAATTATTAA
218979 TCTATTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAACTAAAAAAATTATTAAA
Found at i:219238 original size:21 final size:19
Alignment explanation
Indices: 219214--219259 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
219204 AGAAAAAAAC
219214 CATAAAATTCTTTAAAATTTT
1 CATAAAATTC--TAAAATTTT
219235 CATAAAATTCTAAAATTTT
1 CATAAAATTCTAAAATTTT
219254 C-TAAAA
1 CATAAAA
219260 ACCTAAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.20
19 10 0.40
21 10 0.40
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (19 bp):
CATAAAATTCTAAAATTTT
Found at i:219265 original size:18 final size:19
Alignment explanation
Indices: 219226--219266 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
219216 TAAAATTCTT
**
219226 TAAAATTTTCATAAAATTC
1 TAAAATTTTCATAAAAACC
219245 TAAAATTTTC-TAAAAACC
1 TAAAATTTTCATAAAAACC
219263 TAAA
1 TAAA
219267 TTCCAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAATTTTCATAAAAACC
Found at i:219412 original size:18 final size:17
Alignment explanation
Indices: 219381--219433 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
219371 TTATTTTTTA
219381 GTTTTTATAATTTTAAAT
1 GTTTTT-TAATTTTAAAT
*
219399 -TTCTTTTGAATTTTTAAT
1 GTT-TTTT-AATTTTAAAT
219417 GTTTTTTAATTTTAAAT
1 GTTTTTTAATTTTAAAT
219434 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 12 0.40
18 16 0.53
19 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (17 bp):
GTTTTTTAATTTTAAAT
Found at i:219446 original size:35 final size:35
Alignment explanation
Indices: 219373--219448 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
219363 ACATATTTTT
* *** *
219373 ATTTTTTAGTTTTTATAATTTTAAATTTCTTTTGA
1 ATTTTTAAGTTTTTATAATTTTAAATAAATTTTAA
219408 ATTTTTAATGTTTTT-TAATTTTAAATAAATTTTAA
1 ATTTTTAA-GTTTTTATAATTTTAAATAAATTTTAA
219443 ATTTTT
1 ATTTTT
219449 TAACACATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 29 0.83
36 6 0.17
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (35 bp):
ATTTTTAAGTTTTTATAATTTTAAATAAATTTTAA
Found at i:225695 original size:2 final size:2
Alignment explanation
Indices: 225688--225719 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
225678 TTGAATTTAA
225688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
225720 TATTGCCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:235467 original size:82 final size:81
Alignment explanation
Indices: 235358--235513 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
235348 CATGCATAAG
* * * **
235358 GTTGAGTTATTACTCTTAATGGATTCATAGCCTAGATTTTGGGTGGTCCTATTGAGATGGACTTG
1 GTTGAGTTATTACTCTTAATGGATTCATAGCCCAAAGTTTGGGTGGTCCTATTGAGACAGACTTG
235423 ATGAATTCACTGACTT
66 ATGAATTCACTGACTT
235439 GTTGAGTTTATTACTCTTAAT-GAGTTCATAGCCCAAAGTTTGGGTGGTCCTATTGAGACAGACT
1 GTTGAG-TTATTACTCTTAATGGA-TTCATAGCCCAAAGTTTGGGTGGTCCTATTGAGACAGACT
235503 TGATGAATTCA
64 TGATGAATTCA
235514 TCAAATCTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 8 0.12
82 60 0.88
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (81 bp):
GTTGAGTTATTACTCTTAATGGATTCATAGCCCAAAGTTTGGGTGGTCCTATTGAGACAGACTTG
ATGAATTCACTGACTT
Found at i:241359 original size:18 final size:19
Alignment explanation
Indices: 241326--241361 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
241316 GGGAATTCAG
241326 AAAATAAAGAAAACAAATT
1 AAAATAAAGAAAACAAATT
*
241345 AAAATAACG-AAACAAAT
1 AAAATAAAGAAAACAAAT
241362 CAGAAGGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (19 bp):
AAAATAAAGAAAACAAATT
Found at i:241877 original size:347 final size:346
Alignment explanation
Indices: 241215--241850 Score: 1087
Period size: 347 Copynumber: 1.8 Consensus size: 346
241205 TGAATTTACC
241215 CAAAGTGCGCGTAACCTGGAGGGCCAATCGGGAATTTACCCAAACCTTTCAAACACTGCGTTTTA
1 CAAAGTGCGCGTAACCTGGAGGGCCAATCGGGAATTTACCCAAACCTTTCAAACACTGCGTTTTA
* *
241280 AAGGGATTTAAAAAAAGAAAATTGTAAATAAACGGTGGGAATTCAGAAAATAAAGAAAACAAATT
66 AAGGGATTTAAAAAAAGAAAATTGAAAATAAACGGTGGGAATTCAAAAAATAAAGAAAACAAATT
* * *
241345 AAAATAACGAAACAAATCAGAAGGATCAAAAACGAAAATTTCCTATTTAGGGCAAGAGCGCGCGG
131 AAAACAACGAAACAAATCAGAAGGATCAAAAACGAAAATTTCCCATTTAGGGCAAGAGCGAGCGG
* * * * * *
241410 ACCCTGCTTGAGGGTCGGGTCGACGTGCGGATCCTGCCTCACTGAACGGCAGCTTTTTGCTTATA
196 ACCCTACTTGAGGGTCGGGTCGACGCGCGGATCCTGCCTCACCGAACGACACCGTTTTGCTTATA
*
241475 TTATTAAAAACCAAAAAATTTCTTAAAAAAATGTAATCAAAACATAATTAAAAAAACAAAAATAA
261 TTATAAAAAACCAAAAAATTTCTTAAAAAAATGT-ATCAAAACATAATTAAAAAAACAAAAATAA
241540 ATTGAAACAGAGGGCAAATTTG
325 ATTGAAACAGAGGGCAAATTTG
* *
241562 CAAAGTGCGCGTAACTTGGAGGGCCAATCGGGAATTTACCCAAACTTTTCAAACACTGCGTTTTA
1 CAAAGTGCGCGTAACCTGGAGGGCCAATCGGGAATTTACCCAAACCTTTCAAACACTGCGTTTTA
* *
241627 AAGGGATTTTAAAAAATAAAATTGAAAATAAACGG-GGGAAATTCAAAAAATAAAGAAAACAAAT
66 AAGGGATTTAAAAAAAGAAAATTGAAAATAAACGGTGGG-AATTCAAAAAATAAAGAAAACAAAT
241691 TAAAACAACGAAACAAATCAGAAGGATCAAAAACGAAAATTTCCCA-TTAGGGCAAGAGCGAGCG
130 TAAAACAACGAAACAAATCAGAAGGATCAAAAACGAAAATTTCCCATTTAGGGCAAGAGCGAGCG
*
241755 GACCCTACTTGAGGGTTGGGTCGACGCGCGGATCCTGCCTCACCGAACGACACCGTTTTGCTTAT
195 GACCCTACTTGAGGGTCGGGTCGACGCGCGGATCCTGCCTCACCGAACGACACCGTTTTGCTTAT
241820 ATTATAAAAAACCAAAAAATTTCTTAAAAAA
260 ATTATAAAAAACCAAAAAATTTCTTAAAAAA
241851 CATTTCTATT
Statistics
Matches: 271, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
346 108 0.40
347 163 0.60
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (346 bp):
CAAAGTGCGCGTAACCTGGAGGGCCAATCGGGAATTTACCCAAACCTTTCAAACACTGCGTTTTA
AAGGGATTTAAAAAAAGAAAATTGAAAATAAACGGTGGGAATTCAAAAAATAAAGAAAACAAATT
AAAACAACGAAACAAATCAGAAGGATCAAAAACGAAAATTTCCCATTTAGGGCAAGAGCGAGCGG
ACCCTACTTGAGGGTCGGGTCGACGCGCGGATCCTGCCTCACCGAACGACACCGTTTTGCTTATA
TTATAAAAAACCAAAAAATTTCTTAAAAAAATGTATCAAAACATAATTAAAAAAACAAAAATAAA
TTGAAACAGAGGGCAAATTTG
Found at i:242849 original size:41 final size:41
Alignment explanation
Indices: 242802--242892 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
242792 TCATTTTAGG
* ** *
242802 GAGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGA
1 GAGATAAGACTGGACACGATATACTCTACTGCAACTTCAGA
* *
242843 GAGATAAGACTGGACACGATATGCTCTACTGCAACTTCTGA
1 GAGATAAGACTGGACACGATATACTCTACTGCAACTTCAGA
242884 GAGATAAGA
1 GAGATAAGA
242893 TCTGTGGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (41 bp):
GAGATAAGACTGGACACGATATACTCTACTGCAACTTCAGA
Found at i:243284 original size:169 final size:169
Alignment explanation
Indices: 242963--243785 Score: 1168
Period size: 169 Copynumber: 4.9 Consensus size: 169
242953 TAATGCTGGA
* * * * * * * *
242963 GAGATGAGATTTGCTGCCTTTAGCTTTAATCTACT-CGCTACTACGCCAGGGAAACCAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGC
* * *
243027 TACCTTTAGCCTTAATCTG-TTCTACTGTAACGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
66 TACCTTTAGCTTTAATCTGTTTC-ACGGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
* *
243091 AATCCGCTCCACGTCAGCTATTCCAAGTCTTAACGCGAGG
130 AATCCGCTCCACTTCAGCTATTCCAAGTCTTAACGCCAGG
* *
243131 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCCAGGGAAACAAGACTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGC
* * *
243196 CACCTTTAGCTTTAATATGTTTCACAGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTTCACGGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* * *
243261 ATCCACTCCGCTTCAGCTATTCCAAGTCTTAACGCCAGA
131 ATCCGCTCCACTTCAGCTATTCCAAGTCTTAACGCCAGG
* * *
243300 GAGATAAGATTCACTGCCCTCAG-TTTGAATCTGCTCCACTGCAACGCCCGGGAAACAAGATTCG
1 GAGATAAGATTCGCTGCCCTCAGCTTT-AATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCG
* *
243364 CTATCTTTAGCTTTAATTTGTTTCACGGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
65 CTACCTTTAGCTTTAATCTGTTTCACGGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
* *
243429 AATCCACTCTACTTCAGCTATTCCAAGTCTTAACGCCAGG
130 AATCCGCTCCACTTCAGCTATTCCAAGTCTTAACGCCAGG
* * * *
243469 GAGATAAGATTCGCTACCCTTAGCTTTAATCTGCTCCGCTGCAATGCCTGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGC
* * * *
243534 TACCTTTAGCTTTAATCTATTCCACGATAATGCCAAAGAGATAGGATTCGCTGCCGACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTTCACGGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* *
243599 ATCCGCTCCACTTCAACTATTACAAGTCTTAACGCCAGG
131 ATCCGCTCCACTTCAGCTATTCCAAGTCTTAACGCCAGG
* * * * *
243638 GAGATAAGATTCGCTACCCTCAGCTTTAATCTGGTCCACTGCAGCATCC-GGGAAACAAGATTCG
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAAC-GCCAGGGAAACAAGATTCG
* * *
243702 CTACCTTTAGCTTTAATCTGTTCCAGGGTAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTT
65 CTACCTTTAGCTTTAATCTGTTTCACGGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
*
243767 AATCCGTTCCACTTCAGCT
130 AATCCGCTCCACTTCAGCT
243786 TTAATCTACT
Statistics
Matches: 589, Mismatches: 61, Indels: 9
0.89 0.09 0.01
Matches are distributed among these distances:
168 33 0.06
169 548 0.93
170 8 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (169 bp):
GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGC
TACCTTTAGCTTTAATCTGTTTCACGGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
ATCCGCTCCACTTCAGCTATTCCAAGTCTTAACGCCAGG
Found at i:243798 original size:21 final size:21
Alignment explanation
Indices: 243760--243800 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
243750 TCGCTACCCA
**
243760 CAGCTTTAATCCGTTCCACTT
1 CAGCTTTAATCCACTCCACTT
*
243781 CAGCTTTAATCTACTCCACT
1 CAGCTTTAATCCACTCCACT
243801 GCAATGCCAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.34, G:0.07, T:0.37
Consensus pattern (21 bp):
CAGCTTTAATCCACTCCACTT
Found at i:252950 original size:15 final size:15
Alignment explanation
Indices: 252927--252959 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
252917 TTCTTTCCTA
*
252927 TCTGTCTGACTTGTT
1 TCTGCCTGACTTGTT
252942 TCTGCCTGACTTGTT
1 TCTGCCTGACTTGTT
252957 TCT
1 TCT
252960 TTCTTCTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.18, T:0.52
Consensus pattern (15 bp):
TCTGCCTGACTTGTT
Done.