Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009084.1 Hibiscus syriacus cultivar Beakdansim tig00112528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 881682
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 4
Found at i:450 original size:19 final size:22
Alignment explanation
Indices: 425--478 Score: 87
Period size: 19 Copynumber: 2.6 Consensus size: 22
415 TACATCTACT
425 TTTTCAAAGATGATAGA-T-TC
1 TTTTCAAAGATGATAGATTATC
445 -TTTCAAAGATGATAGATTATC
1 TTTTCAAAGATGATAGATTATC
466 TTTTCAAAGATGA
1 TTTTCAAAGATGA
479 AAACTTATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.52
20 1 0.03
21 2 0.06
22 12 0.39
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (22 bp):
TTTTCAAAGATGATAGATTATC
Found at i:486 original size:22 final size:22
Alignment explanation
Indices: 425--486 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 22
415 TACATCTACT
*
425 TTTTCAAAGATGATAGA-T-TC
1 TTTTCAAAGATGATAAATTATC
*
445 -TTTCAAAGATGATAGATTATC
1 TTTTCAAAGATGATAAATTATC
466 TTTTCAAAGATGA-AAACTTAT
1 TTTTCAAAGATGATAAA-TTAT
487 TGGATTTCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 16 0.43
20 1 0.03
21 4 0.11
22 16 0.43
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (22 bp):
TTTTCAAAGATGATAAATTATC
Found at i:1244 original size:45 final size:45
Alignment explanation
Indices: 1171--1815 Score: 911
Period size: 45 Copynumber: 14.6 Consensus size: 45
1161 ACCTTCGGTC
*
1171 AAGCCCTTCAG-GCATGAT-TTTTCAAAACCTTCGGGTCATCTGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
*
1214 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCTGGTCATCTGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
1259 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
* *
1304 AAGCCCTTCAGTGCAGGATGTTTTTAAAACATTCGGGTCATCTGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
*
1349 AAGCCCTTCAGTGTAGGATGTTTTCAAAACCTTCGGGTCATCTGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
* * * * *
1394 AGGCCCTTCAGTACAGGATGTTTTCAAAACCTTTGAGTCATCTAT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
*
1439 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCACCTGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
* * *
1484 AAGCCCTTCAGTACAGGATTTTTTCAAAACCTTCGGGT-ATCAGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
*
1528 AAG-CCTTCAGTGCAGGA--TTTTCAAAAACTTCGGGTCATCTGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
1570 AAGCCCTTCAGTGCAGGATG-TTTC-AAACCTTCGGGTCATCTGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
* *
1613 AAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
* * * *
1658 AAG-CCTTCAATACAAGATGTTTTCAAAGCCTTCGGGTCATCTGT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
* * * *
1702 AAGACCTTCAGTCCATGATGTTTTC-AAACCTTTGGGTCATC--T
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
* * *
1744 AAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTAT
1 AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
* * * *
1789 AAG-ACTACAGGGCAGGATATTTTCAAA
1 AAGCCCTTCAGTGCAGGATGTTTTCAAA
1816 TGAGATTTTA
Statistics
Matches: 542, Mismatches: 48, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
41 17 0.03
42 32 0.06
43 88 0.16
44 94 0.17
45 311 0.57
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (45 bp):
AAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGTCATCTGT
Found at i:2066 original size:3 final size:3
Alignment explanation
Indices: 2058--2101 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
2048 TAATTTTCCA
* *
2058 TAT TAT TAT TAT TAT TAA AAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2102 AAAAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:3128 original size:17 final size:19
Alignment explanation
Indices: 3092--3131 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
3082 ATTTCTAAAT
3092 ATTTTAATTTGATCTTATA
1 ATTTTAATTTGATCTTATA
*
3111 ATTTT-ATTTTAT-TTATA
1 ATTTTAATTTGATCTTATA
3128 ATTT
1 ATTT
3132 AGTCACCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTAATTTGATCTTATA
Found at i:3433 original size:25 final size:23
Alignment explanation
Indices: 3405--3467 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
3395 TTTATTTGCA
3405 ATAT-TATTTTATTATTACATTTG
1 ATATATATTTTATTATTAC-TTTG
* *
3428 ATATATATTTAAATTATTACTTTT
1 ATATATATTT-TATTATTACTTTG
3452 AT-TATA-TTTATTATTA
1 ATATATATTTTATTATTA
3468 TCTTAGTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 7 0.20
22 2 0.06
23 8 0.23
24 10 0.29
25 8 0.23
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATATATTTTATTATTACTTTG
Found at i:3665 original size:17 final size:17
Alignment explanation
Indices: 3645--3677 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3635 TTAGGAAAAA
3645 TTATTTTTAAATATTAT
1 TTATTTTTAAATATTAT
3662 TTATTTTTAAATATTA
1 TTATTTTTAAATATTA
3678 AGAAAGGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTTTAAATATTAT
Found at i:4497 original size:17 final size:17
Alignment explanation
Indices: 4450--4498 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
4440 TGATATCACA
4450 TATATCCCAAAACCTGG
1 TATATCCCAAAACCTGG
*
4467 TATAGATACCAAAA-CTCGG
1 TAT--ATCCCAAAACCT-GG
4486 TATATCCCAAAAC
1 TATATCCCAAAAC
4499 ACTATTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
17 11 0.42
18 2 0.08
19 13 0.50
ACGTcount: A:0.41, C:0.27, G:0.10, T:0.22
Consensus pattern (17 bp):
TATATCCCAAAACCTGG
Found at i:5488 original size:31 final size:31
Alignment explanation
Indices: 5433--5540 Score: 110
Period size: 32 Copynumber: 3.4 Consensus size: 31
5423 ATTGGATGTA
* * *
5433 AGAGCCAACCTAAGGGAGTACCTTGGGGCCTT
1 AGAGCCTACCCAAGGAAG-ACCTTGGGGCCTT
* * *
5465 AGGGCCTACCCAAGGAATG-CCTTGGTGCCTC
1 AGAGCCTACCCAAGGAA-GACCTTGGGGCCTT
* *
5496 AGATCCTATCCAAGGAAGCACCTTGGGGCCTT
1 AGAGCCTACCCAAGGAAG-ACCTTGGGGCCTT
5528 AGAGCCTACCCAA
1 AGAGCCTACCCAA
5541 TAGAATATTT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
30 1 0.02
31 24 0.40
32 34 0.57
33 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (31 bp):
AGAGCCTACCCAAGGAAGACCTTGGGGCCTT
Found at i:10298 original size:45 final size:46
Alignment explanation
Indices: 10243--10458 Score: 280
Period size: 45 Copynumber: 4.8 Consensus size: 46
10233 CACTTTAAAT
*
10243 TATAACATACTTTTATGTTGATAATGCACCCATATGA-ATTTCAAC
1 TATAGCATACTTTTATGTTGATAATGCACCCATATGACATTTCAAC
** * * *
10288 TATAATATACTTTTCTGTTGAAAATGTACCCATAT-ACATTTCAAC
1 TATAGCATACTTTTATGTTGATAATGCACCCATATGACATTTCAAC
*
10333 TATAGCATACTTTTATGTTGATAATGCACCCATATG-CATTTCGAC
1 TATAGCATACTTTTATGTTGATAATGCACCCATATGACATTTCAAC
* *
10378 TATAGCATACTTTTCTGTTGATAATGTACCCATAT-ACATTTCAAC
1 TATAGCATACTTTTATGTTGATAATGCACCCATATGACATTTCAAC
* * *
10423 TATGGCAT-CTTTTCATGCTAATAATGCACCCATATG
1 TATAGCATACTTTT-ATGTTGATAATGCACCCATATG
10459 TATTATTATT
Statistics
Matches: 148, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
44 6 0.04
45 142 0.96
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.38
Consensus pattern (46 bp):
TATAGCATACTTTTATGTTGATAATGCACCCATATGACATTTCAAC
Found at i:10404 original size:90 final size:90
Alignment explanation
Indices: 10243--10458 Score: 335
Period size: 90 Copynumber: 2.4 Consensus size: 90
10233 CACTTTAAAT
* *
10243 TATAACATACTTTTATGTTGATAATGCACCCATATGAATTTCAACTATAATATACTTTTCTGTTG
1 TATAGCATACTTTTATGTTGATAATGCACCCATATGAATTTCAACTATAACATACTTTTCTGTTG
10308 AAAATGTACCCATATACATTTCAAC
66 AAAATGTACCCATATACATTTCAAC
* * *
10333 TATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCGACTATAGCATACTTTTCTGTTG
1 TATAGCATACTTTTATGTTGATAATGCACCCATATGAATTTCAACTATAACATACTTTTCTGTTG
*
10398 ATAATGTACCCATATACATTTCAAC
66 AAAATGTACCCATATACATTTCAAC
* * *
10423 TATGGCAT-CTTTTCATGCTAATAATGCACCCATATG
1 TATAGCATACTTTT-ATGTTGATAATGCACCCATATG
10459 TATTATTATT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
89 5 0.04
90 111 0.96
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.38
Consensus pattern (90 bp):
TATAGCATACTTTTATGTTGATAATGCACCCATATGAATTTCAACTATAACATACTTTTCTGTTG
AAAATGTACCCATATACATTTCAAC
Found at i:10886 original size:22 final size:20
Alignment explanation
Indices: 10843--10897 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
10833 TGGCCTTTCA
10843 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
**
10863 GTATCGATACTACCCTACTTTG
1 GTATCGATAC--CCCTACCATG
10885 GTATCGATACCCC
1 GTATCGATACCCC
10898 CTTCCAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 18 0.58
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.29
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:10907 original size:19 final size:19
Alignment explanation
Indices: 10885--10933 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
10875 CCCTACTTTG
*
10885 GTATCGATACCCCCTTCCA
1 GTATCAATACCCCCTTCCA
10904 GTATCAATACCCCCTTCCA
1 GTATCAATACCCCCTTCCA
10923 GTATCAATACC
1 GTATCAATACC
10934 AAAATTAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.27, C:0.39, G:0.08, T:0.27
Consensus pattern (19 bp):
GTATCAATACCCCCTTCCA
Found at i:17575 original size:990 final size:980
Alignment explanation
Indices: 15301--17273 Score: 2755
Period size: 990 Copynumber: 2.0 Consensus size: 980
15291 TGTTATGATC
* * * * ** * *
15301 TCAGGATCATCTTGATCCTCAGTGGTCTTAAGATTGTAAATTCTAG-AAACTCTCTGAGTCTCT-
1 TCAGGATCATATAGATCCTAAGTGGTCTAAAGATTCCAAAATCTAGCAAA-TCCCTGAGTCT-TG
* ** *** * * * ** *
15364 TGCCTTGACATTGATTCTGTCTGTCCCCTGGACCTACCCTTTCCTCTGTTTCTGTTTGAGGCTGT
64 TGCCTTGACATT-ATTCAGTAAGGAACATGGACCTACCATTTCCTCTATAAC-GTTT-ACGC-GT
* * *
15429 CACTGATCTTTTAGACTATGCCGAATTATCACCAGATTTCTTAGGGTAGTTTC-AGACAAAGTAC
125 CACTGATCTTTTA-ACTATGCC--ATTATCACCAGA-CTCTTAGCGCAGTTTCGA-ACAAAGTAC
* * * ** * *
15493 CCATATCACCACATAGAAAGCAAGCTCCACTGACAAATCTACACAATTTGCCACAGGTTTGACAT
185 CAATATCAACACATAGAAAACAA-CTCCACTGACAAATCTACACAATTCACCAC-GCTATGACAT
** *
15558 GGATTCTTTTCCCCAGAAGCTCTACCCGAGCTAACAACGAAAGCCTGAGATTACCTACTTTTCTG
248 CCATTC---T---C---A---CTACACGAGCTAACAACGAAAGCCTGAGATTACCTACTTTTCTG
*
15623 CGAAGCTGCTACAAAACTATCTCTCTCAAAGAATCTGGAACTCGAGCCTTTGCCTCTTTTAGCAT
301 CGAAGCTGCTACAAAACTATCTCTCTCAAAGAATCTGGAACTCAAGCCTTTGCCTCTTTTAGCAT
* *
15688 AATGGGGAGTGGAAGGTATTCCCACTCTTTTCCCCACTTTAATAGTCTGCTCCGCCGTTATTGTT
366 AATAGGGAGTGGAAGGTATTCCCACTCTTTTCCCCACTTGAATAGTCTGCTCCGCCGTTATTGTT
15753 TCCTCATGAGCTCTTTCGATAGCTTTGGCTCTATTTATAACTTTCTGTAGACTTGCAAGTTCAAA
431 TCCTCATGAGCTCTTTCGATAGCTTTGGCTCTATTTATAACTTTCTGTAGACTTGCAAGTTCAAA
15818 GTCAACATCATCTCTTTCAGCTTCAACCTAAAACCCTCTATGAACCAATCACATATTGCCTTGTC
496 GTCAACATCATCTCTTTCAGCTTCAACCTAAAACCCTCTATGAACCAATCACATATTGCCTTGTC
*
15883 ATTTGGCACAACTTCAGTGGCAAAATGGCTAAACTTGTTGTATTCAGCCTCAAATTCATGAACGG
561 ATTTGGCACAACTTCAGTGGCAAAATGGCTAAACTTGCTGTATTCAGCCTCAAATTCATGAACGG
* * *
15948 CTTGATCCTCTTGCTTTAAATTAAGGAGCTTCATCAACATTGCTCGTTTAAATTGTTCACCCACA
626 CTTGATCCTCTTGCTTTAAATTAAGAAGCTTCATCAACATTACTCGTTTAAACTGTTCACCCACA
16013 AACCTTTTTTGAATTCTTACTGGAAAAATTGGCAGGTGACTTGCTCCGGTGGTACATACATCGTA
691 AACCTTTTTTGAATTCTTACTGGAAAAATTGGCAGGTGACTTGCTCCGGTGGTACATACATCGTA
* * * *
16078 ATGTTAGACCACCATACTTAAGTTGATCTTTTCAGCAAAGATACGACTCCTCCTAATTTTCCTGA
756 ATGTTAGACCACCATACTTAAGTTGATCCTTTCAGCAAAGATACAACTCCTCCCAATTTTCCTAA
* *
16143 TCTAAATATTGTAGGATTTCAAGCATTATCATCACATCATTTAACCATATATCTACCTCCATAAG
821 TCTAAACATTGTAGGATTTCAAGCATTATCATCACATCATTTAACCATATATATACCTCCATAAG
16208 ACCCTCACCCTCATCTCCTCTAAGCTCTAGAGCTCCCAAACTCTTCAAATCCTTTGAAATCAACA
886 ACCCTCACCCTCATCTCCTCTAAGCTCTAGAGCTCCCAAACTCTTCAAATCCTTTGAAATCAACA
* * * **
16273 TTCTAGGTATTGGAGATACCTGTTATGATC
951 TTCTAGGTATTGGAGAGACCAGGTATGAAA
* * * * ** * * *
16303 TCAGGATCATCTTGATCCTCAGTGGTCTTAAGATTGTAAATTCTAGCAACTCCCTGAGTCTTTTG
1 TCAGGATCATATAGATCCTAAGTGGTCTAAAGATTCCAAAATCTAGCAAATCCCTGAGTCTTGTG
* ** *** * ** *
16368 CCTTGACATTGATTCTGTCTGTCCCATGGACCTACCATTTCCTCTGTTTCTGTTTGAGGCTGTCA
66 CCTTGACATT-ATTCAGTAAGGAACATGGACCTACCATTTCCTCTATAAC-GTTT-ACGC-GTCA
* * *
16433 CTGATCTTTTAGACTATGCCGAATTATCACCAGATTTCTTAGGGCAGTTTCGAACAAAGTACCCA
127 CTGATCTTTTA-ACTATGCC--ATTATCACCAGA-CTCTTAGCGCAGTTTCGAACAAAGTACCAA
* * ** * * **
16498 TATCACCACATAGAAAGCAAGCTCCACTGACAAATCTACACAATTTGCCACGGGTTTGACATGGA
188 TATCAACACATAGAAAACAA-CTCCACTGACAAATCTACACAATTCACCAC-GCTATGACATCCA
** * * *
16563 TTCTTTCTACCCGAGCTAACAACGAAAGCCTGAGATTGCCTACTTTTCTGCGAAGCTGCTAGAAA
251 TTCTCACTACACGAGCTAACAACGAAAGCCTGAGATTACCTACTTTTCTGCGAAGCTGCTACAAA
16628 ACTATCTCTCTCAAAGAATCTGGAACTCAAGCCTTTGCCTCTTTTAGCATAATAGGGAGTGGAAG
316 ACTATCTCTCTCAAAGAATCTGGAACTCAAGCCTTTGCCTCTTTTAGCATAATAGGGAGTGGAAG
16693 GTATTCCCACTCTTTTCCCCACTTGAATAGTCTGCTCCGCCGTTATTGTTTCCTCATGAGCTCTT
381 GTATTCCCACTCTTTTCCCCACTTGAATAGTCTGCTCCGCCGTTATTGTTTCCTCATGAGCTCTT
16758 TCGATAGCTTTGGCTCTATTTATAACTTTCTGTAGACTTGCAAGTTCAAAGTCAACATCATCTCT
446 TCGATAGCTTTGGCTCTATTTATAACTTTCTGTAGACTTGCAAGTTCAAAGTCAACATCATCTCT
* *
16823 TTCAGCTTCAACCTCAAACCCTCTATGAACCAATCACGTATTGCCTTGTCATTTGGCACAACTTC
511 TTCAGCTTCAACCTAAAACCCTCTATGAACCAATCACATATTGCCTTGTCATTTGGCACAACTTC
*
16888 AGTGGCAAAATGGCTCAACTTGCTGTATTCAGCCTCAAATTCATGAACGGCTTGATCCTCTTGCT
576 AGTGGCAAAATGGCTAAACTTGCTGTATTCAGCCTCAAATTCATGAACGGCTTGATCCTCTTGCT
16953 TTAAATTAAGAAGCTTCATCAACATTACTCGTTTAAACTGTTCACCCACAAACCTTTTTTGAATT
641 TTAAATTAAGAAGCTTCATCAACATTACTCGTTTAAACTGTTCACCCACAAACCTTTTTTGAATT
*
17018 CTTCCTGGAAAAATTGGCAGGTGACTTGCTCCGGTGGTACATACATCGTAATGTTAGACCACCAT
706 CTTACTGGAAAAATTGGCAGGTGACTTGCTCCGGTGGTACATACATCGTAATGTTAGACCACCAT
* *
17083 ACTTAAGTTGATCCTTTCAGCAAAGATATAACTCCTCCCAATTTTCCTAATCTGAACATTGTAGG
771 ACTTAAGTTGATCCTTTCAGCAAAGATACAACTCCTCCCAATTTTCCTAATCTAAACATTGTAGG
* * *
17148 ATTTCAAGCATTATCATCACGTCATTTAACCATATATATGCCTCTATAAGACCCTCACCCTCATC
836 ATTTCAAGCATTATCATCACATCATTTAACCATATATATACCTCCATAAGACCCTCACCCTCATC
17213 TCCTCTAAGCTCTAGAGCTCCCAAACTCTTCAAATCCTTTGAAATCAACATTCTAGGTATT
901 TCCTCTAAGCTCTAGAGCTCCCAAACTCTTCAAATCCTTTGAAATCAACATTCTAGGTATT
17274 AGAGGAGCAG
Statistics
Matches: 936, Mismatches: 32, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
990 681 0.73
999 1 0.00
1001 1 0.00
1002 250 0.27
1003 3 0.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (980 bp):
TCAGGATCATATAGATCCTAAGTGGTCTAAAGATTCCAAAATCTAGCAAATCCCTGAGTCTTGTG
CCTTGACATTATTCAGTAAGGAACATGGACCTACCATTTCCTCTATAACGTTTACGCGTCACTGA
TCTTTTAACTATGCCATTATCACCAGACTCTTAGCGCAGTTTCGAACAAAGTACCAATATCAACA
CATAGAAAACAACTCCACTGACAAATCTACACAATTCACCACGCTATGACATCCATTCTCACTAC
ACGAGCTAACAACGAAAGCCTGAGATTACCTACTTTTCTGCGAAGCTGCTACAAAACTATCTCTC
TCAAAGAATCTGGAACTCAAGCCTTTGCCTCTTTTAGCATAATAGGGAGTGGAAGGTATTCCCAC
TCTTTTCCCCACTTGAATAGTCTGCTCCGCCGTTATTGTTTCCTCATGAGCTCTTTCGATAGCTT
TGGCTCTATTTATAACTTTCTGTAGACTTGCAAGTTCAAAGTCAACATCATCTCTTTCAGCTTCA
ACCTAAAACCCTCTATGAACCAATCACATATTGCCTTGTCATTTGGCACAACTTCAGTGGCAAAA
TGGCTAAACTTGCTGTATTCAGCCTCAAATTCATGAACGGCTTGATCCTCTTGCTTTAAATTAAG
AAGCTTCATCAACATTACTCGTTTAAACTGTTCACCCACAAACCTTTTTTGAATTCTTACTGGAA
AAATTGGCAGGTGACTTGCTCCGGTGGTACATACATCGTAATGTTAGACCACCATACTTAAGTTG
ATCCTTTCAGCAAAGATACAACTCCTCCCAATTTTCCTAATCTAAACATTGTAGGATTTCAAGCA
TTATCATCACATCATTTAACCATATATATACCTCCATAAGACCCTCACCCTCATCTCCTCTAAGC
TCTAGAGCTCCCAAACTCTTCAAATCCTTTGAAATCAACATTCTAGGTATTGGAGAGACCAGGTA
TGAAA
Found at i:17873 original size:10 final size:10
Alignment explanation
Indices: 17858--17882 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17848 ACATGCCAAC
17858 AAGTTTACAA
1 AAGTTTACAA
17868 AAGTTTACAA
1 AAGTTTACAA
17878 AAGTT
1 AAGTT
17883 CTAATGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
AAGTTTACAA
Found at i:18195 original size:45 final size:45
Alignment explanation
Indices: 18139--18398 Score: 369
Period size: 45 Copynumber: 5.8 Consensus size: 45
18129 CACTTTAAAT
* * *
18139 TATAGCATACTTTTCTGTTGATAATTTACCCATATGCATTTCAAC
1 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * *
18184 TATAGTATACTTTTCTGTTAAAAATGTACCTATATACATTTCAAC
1 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
18229 TATAGTAT-CTTTTTCTGTTGAAAATGTACCCATATACATTTCAAC
1 TATAGTATAC-TTTTCTGTTGATAATGTACCCATATACATTTCAAC
* ** ** *
18274 TATAGCATACTTTTCTGTTGATAATACACCCATATGTATTTTAAC
1 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
18319 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
1 TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* *
18364 TATAATATACTTTTCTGTTGATAATGTACTCATAT
1 TATAGTATACTTTTCTGTTGATAATGTACCCATAT
18399 TTCAACTACG
Statistics
Matches: 190, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
44 1 0.01
45 188 0.99
46 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (45 bp):
TATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
Found at i:18381 original size:135 final size:135
Alignment explanation
Indices: 18139--18398 Score: 414
Period size: 135 Copynumber: 1.9 Consensus size: 135
18129 CACTTTAAAT
**
18139 TATAGCATACTTTTCTGTTGATAATTTACCCATATGCATTTCAACTATAGTATACTTTTCTGTTA
1 TATAGCATACTTTTCTGTTGATAATACACCCATATGCATTTCAACTATAGTATACTTTTCTGTTA
* *
18204 AAAATGTACCTATATACATTTCAACTATAGTATCTTTTTCTGTTGAAAATGTACCCATATACATT
66 AAAATGTACCCATATACATTTCAACTATAATATCTTTTTCTGTTGAAAATGTACCCATATACATT
18269 TCAAC
131 TCAAC
* * *
18274 TATAGCATACTTTTCTGTTGATAATACACCCATATGTATTTTAACTATAGTATACTTTTCTGTTG
1 TATAGCATACTTTTCTGTTGATAATACACCCATATGCATTTCAACTATAGTATACTTTTCTGTTA
* * *
18339 ATAATGTACCCATATACATTTCAACTATAATATAC-TTTTCTGTTGATAATGTACTCATAT
66 AAAATGTACCCATATACATTTCAACTATAATAT-CTTTTTCTGTTGAAAATGTACCCATAT
18399 TTCAACTACG
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
135 113 0.99
136 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (135 bp):
TATAGCATACTTTTCTGTTGATAATACACCCATATGCATTTCAACTATAGTATACTTTTCTGTTA
AAAATGTACCCATATACATTTCAACTATAATATCTTTTTCTGTTGAAAATGTACCCATATACATT
TCAAC
Found at i:21844 original size:23 final size:24
Alignment explanation
Indices: 21810--21867 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
21800 GTATTTGGTT
*
21810 TTTTTTAAAATA-ATAAATAACTTA
1 TTTTTTATAATATATAAAT-ACTTA
*
21834 -TTTTTATAATATATAAATATTTA
1 TTTTTTATAATATATAAATACTTA
21857 TTTTTTATAAT
1 TTTTTTATAAT
21868 TTAAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTTTATAATATATAAATACTTA
Found at i:22049 original size:19 final size:18
Alignment explanation
Indices: 22007--22043 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
21997 TATCTAATTA
22007 AAAATTTTAATTCAAAAT
1 AAAATTTTAATTCAAAAT
*
22025 AAAATTTATAATTTAAAAT
1 AAAATTT-TAATTCAAAAT
22044 TTAATTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTTTAATTCAAAAT
Found at i:22872 original size:20 final size:19
Alignment explanation
Indices: 22825--22863 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22815 ATGACCAACA
* *
22825 AAATCGCAATGCGATCTCT
1 AAATCGCAACGAGATCTCT
22844 AAATCGCAACGAGATCTCT
1 AAATCGCAACGAGATCTCT
22863 A
1 A
22864 GTATCGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (19 bp):
AAATCGCAACGAGATCTCT
Found at i:22952 original size:21 final size:21
Alignment explanation
Indices: 22906--22959 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
22896 GATTTTGACT
*
22906 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAA
* * *
22927 TTCGCGTTGCGATTTTAGAAA
1 ATCGCATTGCGATTTTACAAA
*
22948 ATCGCAATGCGA
1 ATCGCATTGCGA
22960 ATATGTAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (21 bp):
ATCGCATTGCGATTTTACAAA
Found at i:23192 original size:22 final size:22
Alignment explanation
Indices: 23167--23217 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
23157 CTACGGCGAC
*
23167 ATCCGTCCCCATCTCCGATGAA
1 ATCCGTCCCCATCTCCGACGAA
*
23189 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
23211 ATCCGTC
1 ATCCGTC
23218 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:23631 original size:19 final size:19
Alignment explanation
Indices: 23607--23692 Score: 57
Period size: 20 Copynumber: 4.4 Consensus size: 19
23597 AAATCGCAAC
23607 GCGATTTT-AGTTTCGAGTT
1 GCGATTTTCA-TTTCGAGTT
*
23626 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGAGTT
* ** * *
23645 GCAATAGTCAAATTCGCGTT
1 GCGATTTTC-ATTTCGAGTT
** *
23665 GCGATAGTCATTTTCGTGTT
1 GCGATTTTCA-TTTCGAGTT
23685 GCGATTTT
1 GCGATTTT
23693 AAGTTTCAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
19 23 0.43
20 31 0.57
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.43
Consensus pattern (19 bp):
GCGATTTTCATTTCGAGTT
Found at i:23680 original size:20 final size:19
Alignment explanation
Indices: 23617--23689 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
23607 GCGATTTTAG
* **
23617 TTTCGAGTTGCGATTTTCA
1 TTTCGCGTTGCGATAGTCA
*
23636 TTTCGCGTTGCAATAGTCAA
1 TTTCGCGTTGCGATAGTC-A
*
23656 ATTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATAGTCA
*
23675 TTTTCGTGTTGCGAT
1 -TTTCGCGTTGCGAT
23690 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 15 0.34
20 29 0.66
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTCA
Found at i:25644 original size:20 final size:20
Alignment explanation
Indices: 25611--25676 Score: 105
Period size: 20 Copynumber: 3.2 Consensus size: 20
25601 CTTAAAATCA
25611 CAACGCGAAAAATGACTATCG
1 CAACGCG-AAAATGACTATCG
25632 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
**
25652 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
25672 CAACG
1 CAACG
25677 GGATAATCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
20 36 0.84
21 7 0.16
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.17
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:25712 original size:19 final size:19
Alignment explanation
Indices: 25690--25739 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
25680 TAATCACAAT
25690 GCGAAATAAAAATCGCAAC
1 GCGAAATAAAAATCGCAAC
**
25709 GCGAAACCAAAATCGCAAC
1 GCGAAATAAAAATCGCAAC
25728 GCGAAACTAAAA
1 GCGAAA-TAAAA
25740 TTGTGTTGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 23 0.88
20 3 0.12
ACGTcount: A:0.52, C:0.24, G:0.16, T:0.08
Consensus pattern (19 bp):
GCGAAATAAAAATCGCAAC
Found at i:25740 original size:19 final size:19
Alignment explanation
Indices: 25698--25740 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
25688 ATGCGAAATA
25698 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
*
25717 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACC
25736 AAAAT
1 AAAAT
25741 TGTGTTGCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.51, C:0.26, G:0.14, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:25802 original size:20 final size:20
Alignment explanation
Indices: 25777--25825 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
25767 GCGATTATCC
25777 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
25797 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
25817 CATTGCGAT
1 CGTTGCGAT
25826 TTTAAGTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:25835 original size:20 final size:20
Alignment explanation
Indices: 25812--25855 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
25802 CGATAGTCAT
*
25812 TTTCGCATTGCGATTTTAAG
1 TTTCGCATTGCAATTTTAAG
**
25832 TTTCGTGTTGCAATTTTAAG
1 TTTCGCATTGCAATTTTAAG
25852 TTTC
1 TTTC
25856 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (20 bp):
TTTCGCATTGCAATTTTAAG
Found at i:26404 original size:42 final size:42
Alignment explanation
Indices: 26342--26453 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 42
26332 CTGTCATCGT
* *
26342 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGCCCCTCCCATCGTTCAAGAGGCCCCTATCATCCC
* * * **
26384 TCAAGAGTCCCCTCCCATCGTTCAAGAGGCGCCTGTCATCAT
1 TCAAGAGGCCCCTCCCATCGTTCAAGAGGCCCCTATCATCCC
* * * *
26426 TGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCAAGAGGCCCCTCCCATCGTTCAAGAG
26454 CCCGATTCAC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (42 bp):
TCAAGAGGCCCCTCCCATCGTTCAAGAGGCCCCTATCATCCC
Found at i:26423 original size:21 final size:21
Alignment explanation
Indices: 26331--26438 Score: 92
Period size: 21 Copynumber: 5.1 Consensus size: 21
26321 GCCCGACTCA
26331 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
26352 TCT-CCTATCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* ** *
26373 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
26394 CCTCCCATCGTTCAAGAGGCG
1 CCTGTCATCGTTCAAGAGGCC
* * *
26415 CCTGTCATCATTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
26436 CCT
1 CCT
26439 CCCACCATTC
Statistics
Matches: 66, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
20 1 0.02
21 64 0.97
22 1 0.02
ACGTcount: A:0.20, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:27788 original size:14 final size:14
Alignment explanation
Indices: 27769--27805 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
27759 GATTGTTTAA
27769 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
27783 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
27797 TTGATTTGT
1 TTGATTTGT
27806 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:27950 original size:20 final size:20
Alignment explanation
Indices: 27925--27997 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
27915 AGGTACACTT
*
27925 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
** *
27945 TCGCAATACGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
27965 TCGCAATGCGATAGC-CAAAA
1 TCGCAACGCGA-AACTCAAAA
27985 TCGCAACGCGAAA
1 TCGCAACGCGAAA
27998 GTTAATTCGC
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:28066 original size:20 final size:20
Alignment explanation
Indices: 28041--28225 Score: 180
Period size: 20 Copynumber: 9.8 Consensus size: 20
28031 ACGATTTTCT
28041 CGTTGCGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTTG
*
28061 CGTTGC-A-A-T---TTTTG
1 CGTTGCGATAGTCAAATTTG
* *
28075 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTTG
* *
28095 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTTG
*
28115 TGTTGCGAT--T----TTCT-
1 CGTTGCGATAGTCAAATT-TG
*
28129 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTTG
*
28149 CGTTGCGATAGTCAAATTTA
1 CGTTGCGATAGTCAAATTTG
28169 CGTTGCGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTTG
*
28189 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTTG
*
28209 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
28226 GAATATGTAA
Statistics
Matches: 135, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
14 19 0.14
15 1 0.01
16 2 0.01
17 2 0.01
18 2 0.01
19 1 0.01
20 108 0.80
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTTG
Found at i:28072 original size:34 final size:34
Alignment explanation
Indices: 28006--28095 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 34
27996 AAGTTAATTC
* * * *
28006 GCGTTGCGATAGTCTAATACGCTTTACGATTTTCT
1 GCGTTGCGATAGTCAAATTCGCGTTACAATTTT-T
* *
28041 -CGTTGCGATAGTCAAATTTGCGTTGCAATTTTT
1 GCGTTGCGATAGTCAAATTCGCGTTACAATTTTT
*
28074 GCGTTGTGATAGTCAAATTCGC
1 GCGTTGCGATAGTCAAATTCGC
28096 ATTGCGATAG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
33 1 0.02
34 45 0.98
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (34 bp):
GCGTTGCGATAGTCAAATTCGCGTTACAATTTTT
Found at i:28101 original size:54 final size:54
Alignment explanation
Indices: 28041--28225 Score: 228
Period size: 54 Copynumber: 3.3 Consensus size: 54
28031 ACGATTTTCT
*
28041 CGTTGCGATAGTCAAATTTGCGTTGCAATTTTTGCGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTTGCGTTGCAATTTTTGCGTTGCGATAGTCAAATTCG
* * * *
28095 CATTGCGATAGTCAAATTCGTGTTGCGATTTTCT-CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTTGCGTTGCAATTTT-TGCGTTGCGATAGTCAAATTCG
* *
28149 CGTTGCGATAGTCAAATTTACGTTGCGATAGTCAAATTTGCGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTTGCGTTGC-A-A-T---TTTTGCGTTGCGATAGTCAAATTCG
*
28209 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
28226 GAATATGTAA
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
54 69 0.62
55 1 0.01
56 1 0.01
57 1 0.01
59 1 0.01
60 38 0.34
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTTGCGTTGCAATTTTTGCGTTGCGATAGTCAAATTCG
Found at i:28448 original size:140 final size:140
Alignment explanation
Indices: 28196--28478 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
28186 TTGCGTTGCG
28196 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACAGATCA
*
28261 TAGTAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
28326 AATACACATA
131 AATACACATA
* *
28336 ATAGTCAAATTTGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACAGATCA
28401 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
28466 AATACACATA
131 AATACACATA
28476 ATA
1 ATA
28479 CAACGTTTGC
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:28559 original size:18 final size:18
Alignment explanation
Indices: 28536--28570 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
28526 AAGCCGGTTG
*
28536 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
28554 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
28571 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:30852 original size:24 final size:24
Alignment explanation
Indices: 30825--30871 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
30815 CAAAATCTGA
30825 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
30849 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
30872 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:30880 original size:24 final size:24
Alignment explanation
Indices: 30829--30880 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30819 ATCTGAGTAT
** *
30829 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
30853 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
30877 TGAC
1 TGAC
30881 TAGTACTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:31710 original size:20 final size:20
Alignment explanation
Indices: 31685--31733 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
31675 TTGAAATTTA
31685 GCGTTGCGACAGTCAGAATC
1 GCGTTGCGACAGTCAGAATC
**
31705 GCGTTGCGTTAGTCAGAATC
1 GCGTTGCGACAGTCAGAATC
31725 GCGTTGCGA
1 GCGTTGCGA
31734 TTTATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.24
Consensus pattern (20 bp):
GCGTTGCGACAGTCAGAATC
Found at i:32029 original size:6 final size:6
Alignment explanation
Indices: 32018--32047 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
32008 CTCGGCCGTG
32018 TTGCCA TTGCCA TTGCCA TTGCCA TTGCCA
1 TTGCCA TTGCCA TTGCCA TTGCCA TTGCCA
32048 AATTATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
TTGCCA
Found at i:32092 original size:6 final size:6
Alignment explanation
Indices: 32081--32133 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
32071 CAAAACCCCC
* *
32081 AAATAA AAATAA AAAAAA AAAAAA AAAT-A AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
32128 AAATAA
1 AAATAA
32134 TTCGTTTTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:35848 original size:6 final size:6
Alignment explanation
Indices: 35837--35868 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
35827 CATAGCCCAG
35837 CCCTGC CCCTGC CCCTGC CCCTGC CGCCTGC C
1 CCCTGC CCCTGC CCCTGC CCCTGC C-CCTGC C
35869 TTCAATTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.00, C:0.66, G:0.19, T:0.16
Consensus pattern (6 bp):
CCCTGC
Found at i:41544 original size:22 final size:22
Alignment explanation
Indices: 41519--41580 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
41509 GATTGCCCAT
*
41519 AGGGTACCGAATCCCCCCCAAG
1 AGGGTACCGATTCCCCCCCAAG
41541 AGGGTACCGATTCCCCCCCAAG
1 AGGGTACCGATTCCCCCCCAAG
*
41563 AGGGAACCGATTCCCCCC
1 AGGGTACCGATTCCCCCC
41581 TGTTCAACGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.42, G:0.23, T:0.11
Consensus pattern (22 bp):
AGGGTACCGATTCCCCCCCAAG
Found at i:43498 original size:21 final size:21
Alignment explanation
Indices: 43473--43512 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
43463 AAGACTTTAT
43473 TTTCAAAA-TACAAAAATGATA
1 TTTCAAAATTA-AAAAATGATA
43494 TTTCAAAATTAAAAAATGA
1 TTTCAAAATTAAAAAATGA
43513 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAAATTAAAAAATGATA
Found at i:49870 original size:22 final size:23
Alignment explanation
Indices: 49845--49889 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
49835 GGGCAAATTG
*
49845 CCCAA-AGGGAATCGATTCCCCC
1 CCCAAGAGGGAACCGATTCCCCC
* *
49867 CCCAAGGGGGTACCGATTCCCCC
1 CCCAAGAGGGAACCGATTCCCCC
49890 TTAATGGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.22, C:0.42, G:0.22, T:0.13
Consensus pattern (23 bp):
CCCAAGAGGGAACCGATTCCCCC
Found at i:50219 original size:122 final size:122
Alignment explanation
Indices: 50002--50233 Score: 464
Period size: 122 Copynumber: 1.9 Consensus size: 122
49992 CTCATGCTCC
50002 AAGCAGTTTTATTAATTGTTTTCACACTTAAACAGCTCCATTGACTCCACTAATCATCCCCAACA
1 AAGCAGTTTTATTAATTGTTTTCACACTTAAACAGCTCCATTGACTCCACTAATCATCCCCAACA
50067 TTCAGAATAAATTGAAGGAGTATTTAAACAAGCTTAGAAGCCATTCAGAATAAATTG
66 TTCAGAATAAATTGAAGGAGTATTTAAACAAGCTTAGAAGCCATTCAGAATAAATTG
50124 AAGCAGTTTTATTAATTGTTTTCACACTTAAACAGCTCCATTGACTCCACTAATCATCCCCAACA
1 AAGCAGTTTTATTAATTGTTTTCACACTTAAACAGCTCCATTGACTCCACTAATCATCCCCAACA
50189 TTCAGAATAAATTGAAGGAGTATTTAAACAAGCTTAGAAGCCATT
66 TTCAGAATAAATTGAAGGAGTATTTAAACAAGCTTAGAAGCCATT
50234 GATAAACAAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 110 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (122 bp):
AAGCAGTTTTATTAATTGTTTTCACACTTAAACAGCTCCATTGACTCCACTAATCATCCCCAACA
TTCAGAATAAATTGAAGGAGTATTTAAACAAGCTTAGAAGCCATTCAGAATAAATTG
Found at i:60194 original size:2 final size:2
Alignment explanation
Indices: 60187--60214 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
60177 TGGCAGGTTG
60187 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
60215 GCGTAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:69564 original size:17 final size:17
Alignment explanation
Indices: 69537--69575 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
69527 AATTTACAAT
69537 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
69553 TAATTATAAATAATATC
1 TAATTATAAATAATATC
69570 TAATTA
1 TAATTA
69576 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:75839 original size:3 final size:3
Alignment explanation
Indices: 75821--75871 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
75811 ATTTTCTATC
* *
75821 TAT TTT TAT CTAT TAT TAT TAT TAT TAT TAT TAT T-T TCAT TTT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
75867 TAT TA
1 TAT TA
75872 ATATAAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.83
4 5 0.12
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:75885 original size:24 final size:24
Alignment explanation
Indices: 75839--75885 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
75829 TCTATTATTA
* * * *
75839 TTATTATTATTATTATTTTCATTT
1 TTATTATTAATATAAATTACATTT
75863 TTATTATTAATATAAATTACATT
1 TTATTATTAATATAAATTACATT
75886 ATTGTTCAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATTATTAATATAAATTACATTT
Found at i:76460 original size:26 final size:28
Alignment explanation
Indices: 76430--76485 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
76420 ATTCGGGTTT
76430 AGAAAAAA-AGAG-GAGAAAA-AACAAAA
1 AGAAAAAACAGAGAGA-AAAAGAACAAAA
76456 AGAAAAAATCAGAGAGAAAAAGAACAAAA
1 AGAAAAAA-CAGAGAGAAAAAGAACAAAA
76485 A
1 A
76486 AAACCAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.31
28 8 0.31
29 10 0.38
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (28 bp):
AGAAAAAACAGAGAGAAAAAGAACAAAA
Found at i:76470 original size:25 final size:24
Alignment explanation
Indices: 76442--76498 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
76432 AAAAAAAGAG
*
76442 GAGAAAAAACAAAAAGAAAAAATCA
1 GAGAAAAAACAAAAA-AAAAAACCA
* *
76467 GAGAGAAAAAGAACAAAAAAAACCA
1 GAGA-AAAAACAAAAAAAAAAACCA
76492 GAAGAAA
1 G-AGAAA
76499 CGAACCTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.74, C:0.09, G:0.16, T:0.02
Consensus pattern (24 bp):
GAGAAAAAACAAAAAAAAAAACCA
Found at i:77571 original size:10 final size:10
Alignment explanation
Indices: 77556--77600 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
77546 TACACATTTA
77556 TTTATTTATT
1 TTTATTTATT
77566 TTTATTTCA-T
1 TTTATTT-ATT
77576 TTTATTTATT
1 TTTATTTATT
77586 TATTATTCTATT
1 T-TTATT-TATT
77598 TTT
1 TTT
77601 GTGATGTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 1 0.03
10 17 0.55
11 8 0.26
12 5 0.16
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTATT
Found at i:82451 original size:7 final size:7
Alignment explanation
Indices: 82441--82574 Score: 241
Period size: 7 Copynumber: 18.7 Consensus size: 7
82431 AAAAAGAAAA
82441 AAAAATG
1 AAAAATG
82448 AAAAATG
1 AAAAATG
82455 AAAAATG
1 AAAAATG
82462 AAAAATG
1 AAAAATG
82469 AAAAATG
1 AAAAATG
82476 AAAAATG
1 AAAAATG
82483 AAAAATG
1 AAAAATG
82490 AAAAATG
1 AAAAATG
82497 AAAAATG
1 AAAAATG
82504 AAAAATG
1 AAAAATG
82511 AAAAATG
1 AAAAATG
82518 AAAAATG
1 AAAAATG
82525 AAAAATG
1 AAAAATG
82532 AAAAATG
1 AAAAATG
82539 AAAAATG
1 AAAAATG
82546 AAAAAATG
1 -AAAAATG
82554 AAAAAATG
1 -AAAAATG
82562 AAAAAATG
1 -AAAAATG
82570 AAAAA
1 AAAAA
82575 AGAGAAAAAA
Statistics
Matches: 126, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
7 103 0.82
8 23 0.18
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:82592 original size:8 final size:8
Alignment explanation
Indices: 82440--82591 Score: 181
Period size: 7 Copynumber: 20.8 Consensus size: 8
82430 GAAAAAGAAA
82440 AAAAAATG
1 AAAAAATG
82448 -AAAAATG
1 AAAAAATG
82455 -AAAAATG
1 AAAAAATG
82462 -AAAAATG
1 AAAAAATG
82469 -AAAAATG
1 AAAAAATG
82476 -AAAAATG
1 AAAAAATG
82483 -AAAAATG
1 AAAAAATG
82490 -AAAAATG
1 AAAAAATG
82497 -AAAAATG
1 AAAAAATG
82504 -AAAAATG
1 AAAAAATG
82511 -AAAAATG
1 AAAAAATG
82518 -AAAAATG
1 AAAAAATG
82525 -AAAAATG
1 AAAAAATG
82532 -AAAAATG
1 AAAAAATG
82539 -AAAAATG
1 AAAAAATG
82546 AAAAAATG
1 AAAAAATG
82554 AAAAAATG
1 AAAAAATG
82562 AAAAAATG
1 AAAAAATG
82570 AAAAAA-G
1 AAAAAATG
*
82577 AGAAAAAAG
1 A-AAAAATG
82586 AAAAAA
1 AAAAAA
82592 ATAAATAAAT
Statistics
Matches: 141, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
7 100 0.71
8 39 0.28
9 2 0.01
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:84074 original size:3 final size:3
Alignment explanation
Indices: 84056--84112 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
84046 CTTTTCTATC
*
84056 TAT TTT TAT CTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TCAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
*
84102 TCT TAT TAT TA
1 TAT TAT TAT TA
84113 ATATAAATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:84126 original size:24 final size:24
Alignment explanation
Indices: 84080--84129 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
84070 ATTATTATTA
* * * *
84080 TTATTATTATTATTATTTTCATTC
1 TTATTATTAATATAAATTACATTC
84104 TTATTATTAATATAAATTACATTC
1 TTATTATTAATATAAATTACATTC
84128 TT
1 TT
84130 GTGCAGGCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATTATTAATATAAATTACATTC
Found at i:84701 original size:26 final size:28
Alignment explanation
Indices: 84671--84726 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
84661 ATTCAGGTTT
84671 AGAAAAAA-AGAG-GAGAAAA-AACAAAA
1 AGAAAAAACAGAGAGA-AAAAGAACAAAA
84697 AGAAAAAATCAGAGAGAAAAAGAACAAAA
1 AGAAAAAA-CAGAGAGAAAAAGAACAAAA
84726 A
1 A
84727 AAACCCAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.31
28 8 0.31
29 10 0.38
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (28 bp):
AGAAAAAACAGAGAGAAAAAGAACAAAA
Found at i:85812 original size:10 final size:10
Alignment explanation
Indices: 85797--85841 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
85787 TACACATTTA
85797 TTTATTTATT
1 TTTATTTATT
85807 TTTATTTCA-T
1 TTTATTT-ATT
85817 TTTATTTATT
1 TTTATTTATT
85827 TATTATTCTATT
1 T-TTATT-TATT
85839 TTT
1 TTT
85842 GTGATGTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 1 0.03
10 17 0.55
11 8 0.26
12 5 0.16
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTATT
Found at i:87284 original size:19 final size:19
Alignment explanation
Indices: 87250--87287 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
87240 GAATGAAATG
**
87250 GTATTGAACTTGTATGTGC
1 GTATTGAACTCATATGTGC
87269 GTATTGAACTCATATGTGC
1 GTATTGAACTCATATGTGC
87288 TTTGTCCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (19 bp):
GTATTGAACTCATATGTGC
Found at i:98776 original size:18 final size:17
Alignment explanation
Indices: 98737--98779 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
98727 ATTATATGGA
98737 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
98753 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
98771 TATTATTAT
1 TATTATTAT
98780 GTATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:98992 original size:15 final size:16
Alignment explanation
Indices: 98972--99001 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
98962 TATATTCTTA
98972 ATTATTT-TTTATTTG
1 ATTATTTCTTTATTTG
98987 ATTATTTCTTTATTT
1 ATTATTTCTTTATTT
99002 ATGTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (16 bp):
ATTATTTCTTTATTTG
Found at i:101908 original size:8 final size:8
Alignment explanation
Indices: 101895--101933 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
101885 GAACATTTCA
*
101895 TGCATTCT
1 TGCATTTT
101903 TGCA-TTT
1 TGCATTTT
101910 TGCATTTT
1 TGCATTTT
*
101918 TGCCTTTT
1 TGCATTTT
101926 TGCATTTT
1 TGCATTTT
101934 CATCTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:103022 original size:13 final size:13
Alignment explanation
Indices: 103004--103056 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
102994 GGGTAAAAAG
103004 AAAAAAAAAGCAA
1 AAAAAAAAAGCAA
103017 AAAAAAAAAGC-A
1 AAAAAAAAAGCAA
*
103029 AAAAAAGAA-CAA
1 AAAAAAAAAGCAA
103041 AAAGAAAAAAG-AA
1 AAA-AAAAAAGCAA
103054 AAA
1 AAA
103057 GGGATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 1 0.03
12 13 0.37
13 21 0.60
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGCAA
Found at i:103026 original size:32 final size:31
Alignment explanation
Indices: 102989--103066 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
102979 TACTCAGAAT
102989 AAAAAGGGTAAAAAGAAAAAAAAAGCAAAAAA-
1 AAAAAGGGTAAAAAG-AAAAAAAAG-AAAAAAG
*** *
103021 AAAAAGCAAAAAAAGAACAAAAAGAAAAAAG
1 AAAAAGGGTAAAAAGAAAAAAAAGAAAAAAG
103052 AAAAAGGGATAAAAA
1 AAAAAGGG-TAAAAA
103067 ACACATGCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 6 0.16
31 14 0.38
32 17 0.46
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.03
Consensus pattern (31 bp):
AAAAAGGGTAAAAAGAAAAAAAAGAAAAAAG
Found at i:103031 original size:24 final size:24
Alignment explanation
Indices: 102998--103056 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
102988 TAAAAAGGGT
102998 AAAAAGAAAAAAA-AAGCAAAAA-A
1 AAAAAGAAAAAAAGAA-CAAAAAGA
103021 AAAAAGCAAAAAAAGAACAAAAAGA
1 AAAAAG-AAAAAAAGAACAAAAAGA
103046 AAAAAGAAAAA
1 AAAAAGAAAAA
103057 GGGATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.18
24 18 0.55
25 9 0.27
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAAAAAGAACAAAAAGA
Found at i:103703 original size:22 final size:22
Alignment explanation
Indices: 103656--103703 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
103646 GCTACCCCAT
*
103656 CAAACCTTTGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATGA
103678 CAAACCATTT-AGCATC-AATGAA
1 CAAACC-TTTGAGCATCAAATG-A
103700 CAAA
1 CAAA
103704 AATGCCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 16 0.70
23 3 0.13
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGA
Found at i:104648 original size:36 final size:35
Alignment explanation
Indices: 104598--104926 Score: 240
Period size: 36 Copynumber: 9.5 Consensus size: 35
104588 ACTCATGATT
* *
104598 GTTTTTCTTAAAACAAGATTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAA-ATTTGTCTCTCTTGAGACA
* * *
104634 GTTTCTCTTGAAACATAA------AC-ATTGAAAACA
1 GTTTCTCTTGAAACA-AATTTGTCTCTCTTG-AGACA
* * * *
104664 -TTTCCCTTAAAATAAATTTCGTCTCTCTTGAGATA
1 GTTTCTCTTGAAACAAATTT-GTCTCTCTTGAGACA
*
104699 GTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAAC-AAA-TTTGTCTCTCTTGAGACA
*
104736 GTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAA-TTTGTCTCTCTTGAGACA
* * * *
104772 GTTTCCCTTGAAACAAA-----ATAT-TTGA-ATA
1 GTTTCTCTTGAAACAAATTTGTCTCTCTTGAGACA
*
104800 TGTTT-TCTTTGAAACAAATTTCGTCTCCCTTGAGACA
1 -GTTTCTC-TTGAAACAAATTT-GTCTCTCTTGAGACA
* * *
104837 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAAC-AA-ATTTGTCTCTCTTGAGACA
*
104874 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 GTTTCTCTTGAAACAAATTT-GTCTCTCTTGAGACA
*
104910 GTTTCCCTTGAAACAAA
1 GTTTCTCTTGAAACAAA
104927 ATCTTTGAAT
Statistics
Matches: 230, Mismatches: 36, Indels: 54
0.72 0.11 0.17
Matches are distributed among these distances:
28 5 0.02
29 32 0.14
30 7 0.03
35 8 0.03
36 111 0.48
37 61 0.27
38 6 0.03
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (35 bp):
GTTTCTCTTGAAACAAATTTGTCTCTCTTGAGACA
Found at i:104774 original size:138 final size:137
Alignment explanation
Indices: 104598--104989 Score: 507
Period size: 138 Copynumber: 2.8 Consensus size: 137
104588 ACTCATGATT
* * * *
104598 GTTTTTCTTAAAACAAGA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
1 GTTTCTCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAACATTGAATA
* * * *
104662 CATTTCCCTTAAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCT
64 TATTTCCCTTAAAATAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCT
104727 CTTGAGACA
129 CTTGAGACA
* *
104736 GTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACA-TTGAATAT
* * * * * * * * *
104801 GTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
65 ATTTCCCTTAAAATAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCTC
104866 TTGAGACA
130 TTGAGACA
* * * *
104874 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA-CATTGAATAT
* * *
104939 ATTTCCCCTAAAATAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
65 ATTTCCCTTAAAATAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACA
104990 CAAAATCTTC
Statistics
Matches: 215, Mismatches: 36, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
137 5 0.02
138 210 0.98
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (137 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACATTGAATATA
TTTCCCTTAAAATAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCTCT
TGAGACA
Found at i:104812 original size:102 final size:102
Alignment explanation
Indices: 104706--104890 Score: 300
Period size: 102 Copynumber: 1.8 Consensus size: 102
104696 ATAGTTTCCC
* *
104706 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTT-GAAATAAATTTTGTCTCTCTTGAGA
1 TTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGA
104770 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
65 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
* * *
104808 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGAC
*
104873 AGTTTCTCTTGAAACAAA
66 AGTTTCCCTTGAAACAAA
104891 TTTCGTCTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
101 28 0.37
102 48 0.63
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (102 bp):
TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
Found at i:105018 original size:67 final size:68
Alignment explanation
Indices: 104884--105057 Score: 212
Period size: 68 Copynumber: 2.6 Consensus size: 68
104874 GTTTCTCTTG
* ** * **
104884 AAACA-AATTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCC
1 AAACATAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCC
104946 CTA
66 CTA
* *
104949 AAATA-AATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCC
1 AAACATAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCC
*
105013 TTA
66 CTA
* * *
105016 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACA
1 AAACATAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
105058 ACATATATCT
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
65 30 0.33
66 2 0.02
67 28 0.30
68 32 0.35
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (68 bp):
AAACATAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCC
CTA
Found at i:105823 original size:105 final size:105
Alignment explanation
Indices: 105662--106111 Score: 712
Period size: 105 Copynumber: 4.3 Consensus size: 105
105652 GCCATCCGCG
* * * *
105662 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
105727 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
105770 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
105835 ACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
105875 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
105940 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
105980 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
106045 ACCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
106080 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
106112 TGAACAATGC
Statistics
Matches: 325, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
100 37 0.11
101 2 0.01
102 1 0.00
103 2 0.01
104 2 0.01
105 256 0.79
106 3 0.01
108 22 0.07
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:107302 original size:18 final size:17
Alignment explanation
Indices: 107263--107305 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
107253 ATTATATAGA
107263 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
107279 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
107297 TATTATTAT
1 TATTATTAT
107306 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:107611 original size:14 final size:13
Alignment explanation
Indices: 107561--107613 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
107551 TTTATATTTA
*
107561 TATTATTTTTTAT
1 TATTATTTATTAT
* *
107574 TATT-TTTGTTTT
1 TATTATTTATTAT
*
107586 TTTTATTTATTAT
1 TATTATTTATTAT
107599 TATTATATTATTAT
1 TATTAT-TTATTAT
107613 T
1 T
107614 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 9 0.28
13 15 0.47
14 8 0.25
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:107619 original size:25 final size:23
Alignment explanation
Indices: 107552--107619 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 23
107542 TCTTATAACT
*
107552 TTATATTTA-TATTA-TTTTTTA
1 TTATTTTTATTATTATTTTTTTA
*
107573 TTATTTTTGTT-TT-TTTTATTTA
1 TTATTTTTATTATTATTTT-TTTA
107595 TTATTATTATATTATTATTTTTTTA
1 TTATT-TT-TATTATTATTTTTTTA
107620 AAAAACCTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
21 12 0.32
22 10 0.27
23 2 0.05
24 3 0.08
25 6 0.16
26 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (23 bp):
TTATTTTTATTATTATTTTTTTA
Found at i:115593 original size:3 final size:3
Alignment explanation
Indices: 115585--115664 Score: 106
Period size: 3 Copynumber: 26.3 Consensus size: 3
115575 TATTTTTAAA
* * * *
115585 ATT ATT ATT ATT AAT ATT ATT ATT AAT ATT ATT ATA AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
115633 ATT ATT ATT ATT ATT AAAT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT A
115665 CAGGCCTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
3 64 0.97
4 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:115916 original size:23 final size:23
Alignment explanation
Indices: 115890--115966 Score: 136
Period size: 23 Copynumber: 3.3 Consensus size: 23
115880 CCTCCAACTG
*
115890 CTCCGCCGTTTCTACGCCAACCA
1 CTCCGCCGCTTCTACGCCAACCA
115913 CTCCGCCGCTTCTACGCCAACCA
1 CTCCGCCGCTTCTACGCCAACCA
115936 CTCCGCCGCTTCTACGCCAACCA
1 CTCCGCCGCTTCTACGCCAACCA
*
115959 CTACGCCG
1 CTCCGCCG
115967 TTATGTTCCC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.17, C:0.51, G:0.14, T:0.18
Consensus pattern (23 bp):
CTCCGCCGCTTCTACGCCAACCA
Found at i:117048 original size:21 final size:21
Alignment explanation
Indices: 117024--117067 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
117014 AATATATATT
117024 AATAA-TAAATTAAAAATAATA
1 AATAATTAAA-TAAAAATAATA
*
117045 AATAATTAAATAATAATAATA
1 AATAATTAAATAAAAATAATA
117066 AA
1 AA
117068 AGACAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAATTAAATAAAAATAATA
Found at i:117062 original size:14 final size:15
Alignment explanation
Indices: 117023--117068 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 15
117013 TAATATATAT
117023 TAATAATAAATTAAAAA
1 TAATAAT-AATT-AAAA
117040 TAATAAATAATT-AAA
1 TAAT-AATAATTAAAA
117055 TAATAATAA-TAAAA
1 TAATAATAATTAAAA
117069 GACAAAATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 8 0.30
15 7 0.26
17 8 0.30
18 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAATAATTAAAA
Found at i:117317 original size:3 final size:3
Alignment explanation
Indices: 117302--117357 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
117292 TCCTTTTTAT
* *
117302 TTA TTA TTT TTA TTA -TA TTA TTA TTA TTA TTA -GA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
117348 TTA TT- TTA TT
1 TTA TTA TTA TT
117358 TTTCTTGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 5 0.11
3 41 0.89
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:117320 original size:14 final size:14
Alignment explanation
Indices: 117295--117354 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
117285 GTGTTTGTCC
117295 TTTTTATT-TATTA
1 TTTTTATTATATTA
117308 TTTTTATTATATTA
1 TTTTTATTATATTA
* *
117322 TTATTATTAT-TAGA
1 TTTTTATTATAT-TA
*
117336 TTATTATTATTATTA
1 TTTTTATTA-TATTA
117351 TTTT
1 TTTT
117355 ATTTTTCTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.23
14 24 0.62
15 5 0.13
16 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTTTATTATATTA
Found at i:117324 original size:17 final size:17
Alignment explanation
Indices: 117298--117357 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 17
117288 TTTGTCCTTT
*
117298 TTAT-TTATTATTTTTA
1 TTATATTATTATTATTA
117314 TTATATTATTATTATTA
1 TTATATTATTATTATTA
*
117331 TTAGATTATTATTATTA
1 TTATATTATTATTATTA
*
117348 TTATTTTATT
1 TTATATTATT
117358 TTTCTTGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
16 4 0.10
17 35 0.90
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTATATTATTATTATTA
Found at i:117327 original size:20 final size:22
Alignment explanation
Indices: 117302--117355 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
117292 TCCTTTTTAT
*
117302 TTATTATTTT-TATTA-TATTA
1 TTATTATTTTAGATTATTATTA
117322 TTATTATTATTAGATTATTATTA
1 TTATTATT-TTAGATTATTATTA
117345 TTATTATTTTA
1 TTATTATTTTA
117356 TTTTTCTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 8 0.27
21 2 0.07
22 7 0.23
23 13 0.43
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTATTTTAGATTATTATTA
Found at i:117356 original size:14 final size:15
Alignment explanation
Indices: 117302--117357 Score: 73
Period size: 14 Copynumber: 3.9 Consensus size: 15
117292 TCCTTTTTAT
*
117302 TTATTATTTTTATTA
1 TTATTATTATTATTA
117317 -TATTATTATTATTA
1 TTATTATTATTATTA
*
117331 TTA-GATTATTATTA
1 TTATTATTATTATTA
117345 TTATTATT-TTATT
1 TTATTATTATTATT
117358 TTTCTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 31 0.86
15 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTATTATTATTATTA
Found at i:118820 original size:46 final size:46
Alignment explanation
Indices: 118754--118841 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
118744 TGATTTCATT
118754 TTTTTCTAAACAAAGCATGGAACTAGAAATCATGCA-GTTAGGTTAA
1 TTTTTCTAAACAAAGCATGGAACTAGAAATCATG-AGGTTAGGTTAA
118800 TTTTTCTAAACAAAGCATGGAACTAGAAATCATGAGGTTAGG
1 TTTTTCTAAACAAAGCATGGAACTAGAAATCATGAGGTTAGG
118842 ATTTATACCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (46 bp):
TTTTTCTAAACAAAGCATGGAACTAGAAATCATGAGGTTAGGTTAA
Found at i:123315 original size:490 final size:490
Alignment explanation
Indices: 122392--123376 Score: 1817
Period size: 490 Copynumber: 2.0 Consensus size: 490
122382 TCTTTGATAG
122392 AATATCAAGATTGAAAATTAGAAAAACAAGGACCCTTGACCTTACCTCAGAAGAAATATACCCAA
1 AATATCAAGATTGAAAATTAGAAAAACAAGGACCCTTGACCTTACCTCAGAAGAAATATACCCAA
*
122457 ACACGACCCTTTCCACAAAAATGAGAGAGCTTTCTCCAATATAAGGAATTAGACAAAAAGGCTTG
66 ACACGACCCTTTCCACAAAAATCAGAGAGCTTTCTCCAATATAAGGAATTAGACAAAAAGGCTTG
*
122522 GTATTTACATATAAAGGTGTACAATGTGGGGCATCTTATGTAACATTGCAAAGCTGACTAGATTG
131 GTATTTACATATAAAGGTGTACAATATGGGGCATCTTATGTAACATTGCAAAGCTGACTAGATTG
* * *
122587 CTTTTCTATTGATGAAGTTCGACGATGAAACTTTGACAAATCTAGTCTAAAGTCATTTGGTAATG
196 CTTTTCTATTGATGAAGTTCAACGATGAAACTTTGACAAATATAGTCTAAAGTCATTTGGTAATA
* * * * *
122652 AGGTTTTTTGAATTCCACCAAAACACTTAGACTATAACAGATTCTTCTTAACAAGCTTAAGAAAT
261 AGATTTTCTAAATTCCACCAAAACACCTAGACTATAACAGATTCTTCTGAACAAGCTTAAGAAAT
122717 TGGATTTGGATACCCATGTTATATTATTATATATACAATAAAGCTTGAGTTATCCCCCTAAAGCA
326 TGGATTTGGATACCCATGTTATATTATTATATATACAATAAAGCTTGAGTTATCCCCCTAAAGCA
*
122782 ATTGGTTAATAGCCCCGGCTTTATTGATAATATTCAACTAATCTGTTATGCTTGAGTTATCCCCC
391 ATTGGTTAATAGCCCCGGCTTTATGGATAATATTCAACTAATCTGTTATGCTTGAGTTATCCCCC
122847 TAAAGCAATTGGTTAATCGCCCTGGCTTTATGAAT
456 TAAAGCAATTGGTTAATCGCCCTGGCTTTATGAAT
122882 AATATCAAGATTGAAAATTAGAAAAACAAGGACCCTTGACCTTACCTCAGAAGAAATATACCCAA
1 AATATCAAGATTGAAAATTAGAAAAACAAGGACCCTTGACCTTACCTCAGAAGAAATATACCCAA
*
122947 ACACGACCCTTTCCACAAAAATCAGAGAGCTTTCTCCAATATAAGGAATTAGACAAAAATGCTTG
66 ACACGACCCTTTCCACAAAAATCAGAGAGCTTTCTCCAATATAAGGAATTAGACAAAAAGGCTTG
123012 GTATTTACATATAAAGGTGTACAATATGGGGCATCTTATGTAACATTGCAAAGCTGACTAGATTG
131 GTATTTACATATAAAGGTGTACAATATGGGGCATCTTATGTAACATTGCAAAGCTGACTAGATTG
123077 CTTTTCTATTGATGAAGTTCAACGATGAAACTTTGACAAATATAGTCTAAAGTCATTTGGTAATA
196 CTTTTCTATTGATGAAGTTCAACGATGAAACTTTGACAAATATAGTCTAAAGTCATTTGGTAATA
*
123142 AGATTTTCTAAATTCCACCAAAACACCTAGACTATAACAGGTTCTTCTGAACAAGCTTAAGAAAT
261 AGATTTTCTAAATTCCACCAAAACACCTAGACTATAACAGATTCTTCTGAACAAGCTTAAGAAAT
*
123207 TGGATTTGGATACCCATGTTATATTATTATATATACAATAAAGCTTGAGTTATCCCCTTAAAGCA
326 TGGATTTGGATACCCATGTTATATTATTATATATACAATAAAGCTTGAGTTATCCCCCTAAAGCA
* * *
123272 ATTTGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAATCTTTTATGCTTGAGTTATCCCCC
391 ATTGGTTAATAGCCCCGGCTTTATGGATAATATTCAACTAATCTGTTATGCTTGAGTTATCCCCC
123337 TAAAGCAATTGGTTAATCGCCCTGGCTTTATGAAT
456 TAAAGCAATTGGTTAATCGCCCTGGCTTTATGAAT
123372 AATAT
1 AATAT
123377 TCAGCTAACT
Statistics
Matches: 478, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
490 478 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (490 bp):
AATATCAAGATTGAAAATTAGAAAAACAAGGACCCTTGACCTTACCTCAGAAGAAATATACCCAA
ACACGACCCTTTCCACAAAAATCAGAGAGCTTTCTCCAATATAAGGAATTAGACAAAAAGGCTTG
GTATTTACATATAAAGGTGTACAATATGGGGCATCTTATGTAACATTGCAAAGCTGACTAGATTG
CTTTTCTATTGATGAAGTTCAACGATGAAACTTTGACAAATATAGTCTAAAGTCATTTGGTAATA
AGATTTTCTAAATTCCACCAAAACACCTAGACTATAACAGATTCTTCTGAACAAGCTTAAGAAAT
TGGATTTGGATACCCATGTTATATTATTATATATACAATAAAGCTTGAGTTATCCCCCTAAAGCA
ATTGGTTAATAGCCCCGGCTTTATGGATAATATTCAACTAATCTGTTATGCTTGAGTTATCCCCC
TAAAGCAATTGGTTAATCGCCCTGGCTTTATGAAT
Found at i:123366 original size:72 final size:72
Alignment explanation
Indices: 123249--123392 Score: 227
Period size: 72 Copynumber: 2.0 Consensus size: 72
123239 ATACAATAAA
* * *
123249 GCTTGAGTTATCCCCTTAAAGCAATTTGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAAT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGAATAATATTCAGCTAA-
123314 CTT-TTAT
65 CTTATTAT
* *
123321 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATCGCCCTGGCTTTATGAATAATATTCAGCTAAC
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGAATAATATTCAGCTAAC
123386 TTATTAT
66 TTATTAT
123393 ATTATTATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 3 0.05
72 63 0.95
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGAATAATATTCAGCTAAC
TTATTAT
Found at i:126457 original size:149 final size:152
Alignment explanation
Indices: 126268--126589 Score: 535
Period size: 156 Copynumber: 2.1 Consensus size: 152
126258 GGGTAGAGGG
* *
126268 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
126332 TACTTGATCCC-TA-GTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCA
66 TACTTGATCCCATATGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCA
126395 TTATATGGCACTACGGTGCAAT
131 TTATATGGCACTACGGTGCAAT
*
126417 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
126482 TACTTGATCCCTAGTATATGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGAC
66 TACTTGATCCC----ATATGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGAC
126547 ATCATTATATGGCACTACGGTGCAAT
127 ATCATTATATGGCACTACGGTGCAAT
126573 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
126590 TGCATTTATA
Statistics
Matches: 161, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
149 51 0.32
150 21 0.13
155 3 0.02
156 86 0.53
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (152 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCATATGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCA
TTATATGGCACTACGGTGCAAT
Found at i:126601 original size:23 final size:23
Alignment explanation
Indices: 126557--126601 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
126547 ATCATTATAT
*
126557 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
126580 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
126602 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:133491 original size:147 final size:149
Alignment explanation
Indices: 133300--133613 Score: 562
Period size: 148 Copynumber: 2.1 Consensus size: 149
133290 GGGTAGAGGG
* *
133300 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
133364 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
65 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
133429 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
133449 TCTACGCGGTCCTTCGGG-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
133513 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
133578 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
133597 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
133614 TGCATTTATA
Statistics
Matches: 160, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
147 33 0.21
148 109 0.68
149 18 0.11
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:133625 original size:23 final size:23
Alignment explanation
Indices: 133581--133625 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
133571 ATCATTATAT
*
133581 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
133604 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
133626 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:136023 original size:22 final size:22
Alignment explanation
Indices: 135998--136076 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
135988 ACATCTACAT
*
135998 TCTTCAAAGATGATAGATTCTA
1 TCTTCAAAGATGATAGATTCTC
* *
136020 TCTTCAAATATGGTAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
136042 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
136064 TTTTCAAAGATGA
1 TCTTCAAAGATGA
136077 AAGCCTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:137072 original size:47 final size:47
Alignment explanation
Indices: 136746--137616 Score: 1140
Period size: 47 Copynumber: 18.7 Consensus size: 47
136736 ATATTTCCCA
* *
136746 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAGCCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * * *
136791 CATCTGTAAGCCCTTAAGTACATGATGTTTTC--AAAGCCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* *
136836 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACGTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
*
136881 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
*
136926 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* *
136971 CATCCT-TAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCAGGT
1 CAT-CTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* *
137016 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCTGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* *
137063 CAACTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * * *
137110 CATATGTAAGCCCTTCAGTGCATGATGTTTTCAATAAACCTTTGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * *
137157 CATCTGTAAGACCTTCAGTGCAAGATGTTTTTAAAAAGCCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * * *
137204 CATCCGTAAGACCTTCAGTGCAGGATATTTTCAAAAAGCCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * * *
137251 CATCCGTAAGACCTTCAATGCAGGATGTTTTCAAAAAGCCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * * *
137298 CATCCGTAAGACCTTCAGTGTAGGATGTTTTCAAAAAAGCCTTTGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAA-CCTTCGGGT
* * *
137346 CATCCGTAAGACCTTTAGTGCATGATGTTTTCAAAAAGCCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * * *
137393 CATCCGTAAGACCTTCAATGCAGGATGTTTTCAAAAAGCCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * *
137440 CATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAAGCCTTTGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAA-CCTTCGGGT
* * *
137488 CATCCGTAAGACCTTTAGTGCAGGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
* * *
137535 CATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
*
137582 CATCCGTAAGACCTTCAGTGCA-GAATGTTTTCAAA
1 CATCTGTAAGACCTTCAGTGCATG-ATGTTTTCAAA
137617 TGAGATTTTA
Statistics
Matches: 772, Mismatches: 47, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
44 2 0.00
45 243 0.31
46 3 0.00
47 437 0.57
48 87 0.11
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (47 bp):
CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
Found at i:137395 original size:142 final size:141
Alignment explanation
Indices: 136746--137616 Score: 1185
Period size: 142 Copynumber: 6.2 Consensus size: 141
136736 ATATTTCCCA
* * * * *
136746 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC---AAAGCCTTCGGGTCATCTGTAAGCCCTTAA
1 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCCGTAAGACCTTCA
* * * *
136808 GTACATGATGTTTTC--AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AA
66 GTGCATGATGTTTTCAAAAAGCCTTCGGGTCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAA
*
136870 AACGTTCGGGT
131 AACCTTCGGGT
* * * *
136881 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAA-CCTTCGGGTCATCTGTAAGCCCTTCA
1 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCCGTAAGACCTTCA
* * *
136943 GTGCATGATGTTTTC-AAAA-CCTTCGGGTCATCCTTAAGCCCTTCAGTGCATGATGTTTTC-AA
66 GTGCATGATGTTTTCAAAAAGCCTTCGGGTCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAA
*
137005 AACCTTCAGGT
131 AACCTTCGGGT
* * * * * *
137016 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAA-CCTTCTGGTCAACTGTAAGCCCTTCA
1 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCCGTAAGACCTTCA
* ** * *
137080 GTGCATGATGTTTTCAAAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCATGATGTTTTCAAT
66 GTGCATGATGTTTTCAAAAAGCCTTCGGGTCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAA-
*
137145 AAACCTTTGGGT
130 AAACCTTCGGGT
* *
137157 CATCTGTAAGACCTTCAGTGCAAGATGTTTT-TAAAAAGCCTTCGGGTCATCCGTAAGACCTTCA
1 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCCGTAAGACCTTCA
* * *
137221 GTGCAGGATATTTTCAAAAAGCCTTCGGGTCATCCGTAAGACCTTCAATGCAGGATGTTTTCAAA
66 GTGCATGATGTTTTCAAAAAGCCTTCGGGTCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAA
137286 AAGCCTTCGGGT
131 AA-CCTTCGGGT
* * * *
137298 CATCCGTAAGACCTTCAGTGTAGGATGTTTTCAAAAAAGCCTTTGGGTCATCCGTAAGACCTTTA
1 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCCGTAAGACCTTCA
*
137363 GTGCATGATGTTTTCAAAAAGCCTTCGGGTCATCCGTAAGACCTTCAATGCAGGATGTTTTCAAA
66 GTGCATGATGTTTTCAAAAAGCCTTCGGGTCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAA
137428 AAGCCTTCGGGT
131 AA-CCTTCGGGT
* * *
137440 CATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAAGCCTTTGGGTCATCCGTAAGACCTTTA
1 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCCGTAAGACCTTCA
* *
137505 GTGCAGGATGTTTTCAAAAAACCTTCGGGTCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAA
66 GTGCATGATGTTTTCAAAAAGCCTTCGGGTCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAA
137570 AAGCCTTCGGGT
131 AA-CCTTCGGGT
* *
137582 CATCCGTAAGACCTTCAGTGCAGAATGTTTTCAAA
1 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAA
137617 TGAGATTTTA
Statistics
Matches: 683, Mismatches: 42, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
135 153 0.22
136 6 0.01
137 43 0.06
138 4 0.01
139 38 0.06
140 9 0.01
141 153 0.22
142 277 0.41
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (141 bp):
CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCCGTAAGACCTTCA
GTGCATGATGTTTTCAAAAAGCCTTCGGGTCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAA
AACCTTCGGGT
Found at i:137743 original size:131 final size:130
Alignment explanation
Indices: 137582--137940 Score: 603
Period size: 130 Copynumber: 2.8 Consensus size: 130
137572 GCCTTCGGGT
* * * *
137582 CATCCGTAAGACCTTCAGTGCAGAATGTTTTCAAATGAGATTTTAAGAAACTTATTTTCAAAGGT
1 CATCCATAAGACCTCCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAACTGATTTTCAAAGGT
*
137647 TCTTTTATCTTAAATCCTCCGAGTCATCTATAAGACCTACAGTGCAAGATGATAAGACCTCAGGG
66 T-TTTTATCTTAAATCCTCCGAGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGG
137712 C
130 C
*
137713 CATCCATAAGACCTCCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAACTGATTTTCAAAGTT
1 CATCCATAAGACCTCCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAACTGATTTTCAAAG-G
* *
137778 TTTTTTATCTTAAATCCT-CTAGTCATCTGTAAGACCTACATTGCAAGATGATAAGACCTCAGGG
65 TTTTTTATCTTAAATCCTCCGAGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGG
137842 C
130 C
*
137843 CATCCATAAGACCTCCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAACTGATTTTCAATGGT
1 CATCCATAAGACCTCCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAACTGATTTTCAAAGGT
*
137908 TTTTTATCTTAAATCCTCCGGGTCATCTGTAAG
66 TTTTTATCTTAAATCCTCCGAGTCATCTGTAAG
137941 CCTTCCGAGC
Statistics
Matches: 214, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
129 18 0.08
130 119 0.56
131 75 0.35
132 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (130 bp):
CATCCATAAGACCTCCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAACTGATTTTCAAAGGT
TTTTTATCTTAAATCCTCCGAGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
Found at i:139554 original size:14 final size:15
Alignment explanation
Indices: 139515--139560 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
139505 TATTATATAT
139515 TAATAATAAATTACAAA
1 TAATAAT-AATTA-AAA
139532 TAATAAATAATTAAAA
1 TAAT-AATAATTAAAA
139548 -AATAATAA-TAAAA
1 TAATAATAATTAAAA
139561 GGCAAAATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.18
14 5 0.18
15 3 0.11
16 3 0.11
17 9 0.32
18 3 0.11
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (15 bp):
TAATAATAATTAAAA
Found at i:139801 original size:3 final size:3
Alignment explanation
Indices: 139793--139862 Score: 108
Period size: 3 Copynumber: 24.0 Consensus size: 3
139783 TCCTTTTTAT
*
139793 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -GA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
139840 TTA TTA TTA -GA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
139863 ATTTTTATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:141337 original size:46 final size:46
Alignment explanation
Indices: 141270--141357 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
141260 TGATTTCATT
141270 TTTTTCTAAACAAAGCATGGAACTAGAAATCATGCA-GTTAGGTTAG
1 TTTTTCTAAACAAAGCATGGAACTAGAAATCATG-AGGTTAGGTTAG
141316 TTTTTCTAAACAAAGCATGGAACTAGAAATCATGAGGTTAGG
1 TTTTTCTAAACAAAGCATGGAACTAGAAATCATGAGGTTAGG
141358 ATTTATACCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (46 bp):
TTTTTCTAAACAAAGCATGGAACTAGAAATCATGAGGTTAGGTTAG
Found at i:145386 original size:72 final size:72
Alignment explanation
Indices: 145269--145404 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
145259 ATATAATAAA
*
145269 GCTTGAGTTATCGCCCTAAATCAATTGGTTAATAGCCCCGACTTTATGGATAATATTCAGCTAAT
1 GCTTGAGTTATCGCCCTAAATCAATTGGTTAATAGCCACGACTTTATGGATAATATTCAGCTAAT
145334 TCGTTAT
66 TCGTTAT
* * *
145341 GCTTGAGTTATC-CCCTTAAAGT-AATTGGTTAATCGCCATGGCTTTATGGATAATATTCAGCTA
1 GCTTGAGTTATCGCCC-TAAA-TCAATTGGTTAATAGCCACGACTTTATGGATAATATTCAGCTA
145404 A
64 A
145405 CTTATTATAC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
71 3 0.05
72 54 0.93
73 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (72 bp):
GCTTGAGTTATCGCCCTAAATCAATTGGTTAATAGCCACGACTTTATGGATAATATTCAGCTAAT
TCGTTAT
Found at i:148738 original size:22 final size:22
Alignment explanation
Indices: 148710--148788 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
148700 ACATCTACAT
148710 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
148732 TCTTCAAATATGGTAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* * *
148754 TCTTCAAAGATGACATATTTTC
1 TCTTCAAAGATGATAGATTCTC
*
148776 TTTTCAAAGATGA
1 TCTTCAAAGATGA
148789 AAGCCTTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:149042 original size:45 final size:45
Alignment explanation
Indices: 148978--149699 Score: 1068
Period size: 45 Copynumber: 15.8 Consensus size: 45
148968 CTATTTCCCA
*
148978 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
149023 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGTT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
149068 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
149113 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
149158 CAACTGTAATCCCTTCAGTGCATGATGTTTTCAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
149203 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
149248 CATCTGTAAGCCCTTCCGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
149293 CATATGTAAGCCTTTCAATGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
149338 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
149383 CATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCGGGT
*
149430 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAACCTTCGGGT
* *
149477 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAATAAACATTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-A-AAACCTTCGGGT
* *
149524 CATCTGTAAGACCTTCAGTGCA-GAATATTTTCAAAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATG-ATGTTTTC-AAAA-CCTTCGGGT
*
149571 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGGT
* * * *
149618 CATCCGTAAGACCTTCAGTGCAGGATATTTTCAAAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGGT
* * * *
149665 CATCCGTAAGACCTTCAGTGCAGGATATTTTCAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
149700 TAAGATTTTA
Statistics
Matches: 636, Mismatches: 35, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
45 368 0.58
46 9 0.01
47 258 0.41
48 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:150099 original size:3 final size:3
Alignment explanation
Indices: 150091--150127 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
150081 CATTTTTAAA
* *
150091 ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
150128 CAGGCCCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:150373 original size:23 final size:23
Alignment explanation
Indices: 150357--150400 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
150347 CAACTGCTCT
150357 GCCGCTTCTACGCCAACCACTCC
1 GCCGCTTCTACGCCAACCACTCC
150380 GCCGCTTCTACGCCAACCACT
1 GCCGCTTCTACGCCAACCACT
150401 ACGTCGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.50, G:0.14, T:0.18
Consensus pattern (23 bp):
GCCGCTTCTACGCCAACCACTCC
Found at i:151735 original size:3 final size:3
Alignment explanation
Indices: 151720--151779 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
151710 TCCTTTTTAT
*
151720 TTA TTA TTT TTA TTA -TA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
151766 -GA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
151780 ATTTTTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 5 0.10
3 45 0.90
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:151738 original size:14 final size:14
Alignment explanation
Indices: 151716--151788 Score: 87
Period size: 14 Copynumber: 5.1 Consensus size: 14
151706 TTTGTCCTTT
*
151716 TTATT-TATTATTT
1 TTATTATATTATTA
151729 TTATTATATTATTA
1 TTATTATATTATTA
151743 TTATTATATTATTA
1 TTATTATATTATTA
151757 TTATTATTAGATTATTA
1 TTATTA-T--ATTATTA
*
151774 TTATTA-ATTTTTA
1 TTATTATATTATTA
151787 TT
1 TT
151789 TTTCTTGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
13 13 0.24
14 27 0.50
15 1 0.02
17 13 0.24
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:151742 original size:17 final size:16
Alignment explanation
Indices: 151716--151775 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
151706 TTTGTCCTTT
151716 TTAT-TTATTATTTTTA
1 TTATATTATTA-TTTTA
151732 TTATATTATTA--TTA
1 TTATATTATTATTTTA
151746 TTATATTATTATTATTA
1 TTATATTATTATT-TTA
*
151763 TTAGATTATTATT
1 TTATATTATTATT
151776 ATTAATTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
14 14 0.36
16 4 0.10
17 21 0.54
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATATTATTATTTTA
Found at i:151776 original size:17 final size:17
Alignment explanation
Indices: 151735--151779 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
151725 ATTTTTATTA
*
151735 TATTATTATTATTATAT
1 TATTATTATTATTAGAT
151752 TATTATTATTATTAGAT
1 TATTATTATTATTAGAT
151769 TATTATTATTA
1 TATTATTATTA
151780 ATTTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TATTATTATTATTAGAT
Found at i:155106 original size:28 final size:26
Alignment explanation
Indices: 155085--155143 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
155075 CCCCGTTTGT
155085 CTCTGCGTATCTTCTTCTCCCCTTGC
1 CTCTGCGTATCTTCTTCTCCCCTTGC
* *
155111 CTTTGTGTATCTTCTTCTCCCCTTGC
1 CTCTGCGTATCTTCTTCTCCCCTTGC
155137 CTCTGCG
1 CTCTGCG
155144 AAAAATTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.03, C:0.39, G:0.14, T:0.44
Consensus pattern (26 bp):
CTCTGCGTATCTTCTTCTCCCCTTGC
Found at i:155205 original size:16 final size:16
Alignment explanation
Indices: 155181--155213 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
155171 TTTCTTCTCC
155181 TCTCCTCTCCCTTTCT
1 TCTCCTCTCCCTTTCT
*
155197 TCTCTTCTCCCTTTCT
1 TCTCCTCTCCCTTTCT
155213 T
1 T
155214 TACAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTCCTCTCCCTTTCT
Found at i:161700 original size:15 final size:15
Alignment explanation
Indices: 161680--161710 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
161670 CAACAAATGA
161680 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
161695 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
161710 A
1 A
161711 TTTATGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:161906 original size:20 final size:20
Alignment explanation
Indices: 161870--161907 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
161860 ATCCTATTCC
**
161870 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
161890 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
161908 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:166566 original size:17 final size:17
Alignment explanation
Indices: 166519--166558 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
166509 ACTATGTGAA
166519 ATGAGTAGGGAGACGAT
1 ATGAGTAGGGAGACGAT
166536 ATGAGTAGGGAGACGAT
1 ATGAGTAGGGAGACGAT
166553 ATGAGT
1 ATGAGT
166559 CGGTAGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.35, C:0.05, G:0.40, T:0.20
Consensus pattern (17 bp):
ATGAGTAGGGAGACGAT
Found at i:166772 original size:15 final size:15
Alignment explanation
Indices: 166754--166785 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
166744 TATATTTAAA
166754 AAATGTGAATTTTCT
1 AAATGTGAATTTTCT
*
166769 AAATTTGAATTTTCT
1 AAATGTGAATTTTCT
166784 AA
1 AA
166786 TTATTAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (15 bp):
AAATGTGAATTTTCT
Found at i:167617 original size:23 final size:23
Alignment explanation
Indices: 167583--167655 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
167573 ATACTTTACA
*
167583 ATATAAGTGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
167606 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
167629 ATATAAGCGCTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
167652 ATAT
1 ATAT
167656 TTTTACCTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:168103 original size:23 final size:23
Alignment explanation
Indices: 168073--168140 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
168063 ATACTTTACA
*
168073 ATATAAACACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
168096 ATATAAACGCTACTTATTACATT
1 ATATAAACGCTACCTATTACATT
**
168119 ATATAAGTGCTACCTATTACAT
1 ATATAAACGCTACCTATTACAT
168141 CATGTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.37
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:168409 original size:489 final size:490
Alignment explanation
Indices: 167181--169914 Score: 4694
Period size: 489 Copynumber: 5.6 Consensus size: 490
167171 TTATAATATG
*
167181 TTGAAAGTGTCCATATTTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATA-CTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
** *
167246 TTCAA--TTTTTTAATAGTGTTTCATGTTTTTGACCTACAATATTAATTTAATAATTTCATTTGC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
*
167309 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATTTTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
* *
167374 TTAACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* ** * *
167439 TACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* * *
167504 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAATAAGTATGGACACTTCTATAAAAAGA
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
** *
167569 ATAGATACTTTACAATATAAGTGCTACCTATTACATTATATAAGCGCTACCTATTACATTATATA
390 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
* *
167634 AGCGCTACATATTACATTATATTTTTACCTGA-TATA
455 AGCGCTACCTATTACATCATATTTTTACCT-ATTATA
* ** * *
167670 TTGTAAAGTATTGATCCTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTG-AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
167735 TTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
167799 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTATAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
*
167864 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTAATGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
167929 TACCGTAACGTAAAAAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* *
167994 TCAAAAGATAACTTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
* *
168059 ATAGATACTTTACAATATAAACACTACCTATTACATTATATAAACGCTACTTATTACATTATATA
390 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
* *
168124 AGTGCTACCTATTACATCATGTTTTTACCTATTATA
455 AGCGCTACCTATTACATCATATTTTTACCTATTATA
168160 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
168225 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
168289 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTTAAATTTAATAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
168354 TAACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
168419 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* * *
168484 CAAAAGATAACATTAAATTAATGTTTTCCACGGTGAAAAAATTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
168549 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACATATTATATTATATAA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
*
168614 GCGCTACCTATTACATCATATTTTTACATATTATA
456 GCGCTACCTATTACATCATATTTTTACCTATTATA
* *
168649 TTGAAAGTGTCCATACATTTTA-AAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* * *
168713 TCAATTTTTTTTAATAATGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
168778 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
168843 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGGTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
168908 ACCGTAACGTAAAACATAAATCATTAGACGCCTATAATTACTAAATTAATATTTTAAAACTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
168973 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
169038 TAAATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACTTATTACATTATATAA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
169103 GCGCTACCTATTACATCATATTTTTACCTATTATA
456 GCGCTACCTATTACATCATATTTTTACCTATTATA
* *
169138 TTGAAAGTGTCCATACTTTTTATAAAAAATGATCGATATTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTAT-AAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
* * *
169203 TTCAATTTTTTTTAACAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTTATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
169268 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
169333 TTAACCAAAGATAATAAT-AATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* *
169395 TACCGTAACGTAAAACATAAATCATTAGACGCCTATAATTACTAAATTAATATTTTAAAACTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
169460 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
*
169525 ATAAATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
390 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
*
169590 AGTGCTACCTATTACATCATATTTTTACCTATTATA
455 AGCGCTACCTATTACATCATATTTTTACCTATTATA
*
169626 TTGAAAGTGTCCATACTTTTTATAAAAAAGGATCGATATTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTAT-AAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
* *
169691 TTCAATTTTTTTTAACAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* * *
169756 ACAAAAAATTATTTGATTGGTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
169821 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
169886 TACCGTAACGTAAAAAATAAATCATTAGA
260 TACCGTAACGTAAAAAATAAATCATTAGA
169915 TACTTTAAAT
Statistics
Matches: 2144, Mismatches: 92, Indels: 16
0.95 0.04 0.01
Matches are distributed among these distances:
488 518 0.24
489 973 0.45
490 409 0.19
491 244 0.11
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.42
Consensus pattern (490 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
GCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:168597 original size:23 final size:23
Alignment explanation
Indices: 168562--168634 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
168552 ATACTTTACA
*
168562 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* * *
168585 ATATAAACGCTACATATTATATT
1 ATATAAGCGCTACCTATTACATT
*
168608 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
168631 ATAT
1 ATAT
168635 TTTTACATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:169086 original size:23 final size:23
Alignment explanation
Indices: 169051--169123 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
169041 ATACTTTACA
*
169051 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
169074 ATATAAACGCTACTTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
169097 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
169120 ATAT
1 ATAT
169124 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Done.