Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008292.1 Hibiscus syriacus cultivar Beakdansim tig00110956_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: 1591938
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 5 of 8
Found at i:905358 original size:20 final size:20
Alignment explanation
Indices: 905333--905371 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
905323 TCGCGTTGCG
905333 ATTTTCGTGTTGCGAATTTC
1 ATTTTCGTGTTGCGAATTTC
*
905353 ATTTTCGTGTTTCGAATTT
1 ATTTTCGTGTTGCGAATTT
905372 AAGTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.13, G:0.18, T:0.54
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTTC
Found at i:905378 original size:20 final size:20
Alignment explanation
Indices: 905335--905378 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
905325 GCGTTGCGAT
* *
905335 TTTCGTGTTGCGAATTTCAT
1 TTTCGTGTTGCGAATTTAAG
*
905355 TTTCGTGTTTCGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
905375 TTTC
1 TTTC
905379 AAAAACTATT
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:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:905750 original size:22 final size:23
Alignment explanation
Indices: 905702--905750 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
905692 GGAGATAGAT
* *
905702 AGATTTCGCTGGAGATGGGGACG
1 AGATGTCGCCGGAGATGGGGACG
*
905725 -GATGTCGCCGGAGATGGTGA-G
1 AGATGTCGCCGGAGATGGGGACG
905746 AGATG
1 AGATG
905751 GAGATGGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.22, C:0.12, G:0.45, T:0.20
Consensus pattern (23 bp):
AGATGTCGCCGGAGATGGGGACG
Found at i:905845 original size:19 final size:19
Alignment explanation
Indices: 905823--905862 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
905813 TTATGTTGTA
905823 AAATTAATATTGTGTTTCG
1 AAATTAATATTGTGTTTCG
905842 AAATTAATATTGTGTTTCG
1 AAATTAATATTGTGTTTCG
905861 AA
1 AA
905863 TTCGAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
AAATTAATATTGTGTTTCG
Found at i:907347 original size:35 final size:35
Alignment explanation
Indices: 907301--907372 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
907291 CCATATTATT
* *
907301 TTGAAGTATTTTAGAATATAGGGTTTAGAATGTAA
1 TTGAAGTATTTTAGAATATAGGGTTTAAAATGAAA
* * * *
907336 TTGAATTATTTTGGAATTTGGGGTTTAAAATGAAA
1 TTGAAGTATTTTAGAATATAGGGTTTAAAATGAAA
907371 TT
1 TT
907373 AAGGATTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (35 bp):
TTGAAGTATTTTAGAATATAGGGTTTAAAATGAAA
Found at i:916605 original size:32 final size:31
Alignment explanation
Indices: 916548--916632 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
916538 ATTTAAGGCT
* * *
916548 AAATTAATA-TTTTATTTAAAGTTTAATGATG
1 AAATTAATATTTTTATCTAAAATTTAA-CATG
* * *
916579 AAATTTATATTTTTATCTGAAATTTAACATT
1 AAATTAATATTTTTATCTAAAATTTAACATG
916610 AAATTAATATTTTTATCTAAAAT
1 AAATTAATATTTTTATCTAAAAT
916633 ATAAAGATTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
31 31 0.69
32 14 0.31
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (31 bp):
AAATTAATATTTTTATCTAAAATTTAACATG
Found at i:927875 original size:21 final size:21
Alignment explanation
Indices: 927828--927876 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
927818 TGACTATCGT
927828 AATGCGATTTTCCAATTTCGC
1 AATGCGATTTTCCAATTTCGC
**
927849 GTTGCGATTTTCCCAA-TTCGC
1 AATGCGATTTT-CCAATTTCGC
927870 AATGCGA
1 AATGCGA
927877 ATAAGTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (21 bp):
AATGCGATTTTCCAATTTCGC
Found at i:927891 original size:20 final size:20
Alignment explanation
Indices: 927866--928037 Score: 236
Period size: 20 Copynumber: 8.6 Consensus size: 20
927856 TTTTCCCAAT
927866 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
927886 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
*
927906 TCGCAACGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
927926 TCGCAATACGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
927946 TCGCAACGCGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
927966 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
927986 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
* *
928007 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
928027 TCGCAATGCGA
1 TCGCAATGCGA
928038 TTTACATAGC
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
20 118 0.87
21 17 0.13
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:928657 original size:14 final size:14
Alignment explanation
Indices: 928638--928692 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
928628 TTTCATTTCG
928638 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
928652 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
928669 GCGTTGCGATTCTCT
1 -CGTTGCGATTCTCT
928684 CGTTGCGAT
1 CGTTGCGAT
928693 AGTCATTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 17 0.49
15 2 0.06
16 6 0.17
17 2 0.06
18 8 0.23
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:928678 original size:32 final size:33
Alignment explanation
Indices: 928621--928711 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
928611 TAAAATCGCA
928621 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
928654 TTGCGATTTTCATTT-GCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
928686 TTGCGATAGTCATTTCGCGTTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
928712 AGTCATTTCG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:928745 original size:20 final size:19
Alignment explanation
Indices: 928684--928770 Score: 156
Period size: 19 Copynumber: 4.5 Consensus size: 19
928674 GCGATTCTCT
928684 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
928703 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
928722 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
928742 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
928762 CGTTGCGAT
1 CGTTGCGAT
928771 TTTCATTTCA
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
19 36 0.54
20 31 0.46
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:928755 original size:39 final size:40
Alignment explanation
Indices: 928684--928779 Score: 160
Period size: 39 Copynumber: 2.5 Consensus size: 40
928674 GCGATTCTCT
928684 CGTTGCGATAGTCATTT-CGCGTTGCGATAGTCATTT-CG
1 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTCCG
928722 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTCCG
**
928762 CGTTGCGATTTTCATTTC
1 CGTTGCGATAGTCATTTC
928780 AACCAAAAGA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
38 17 0.31
39 19 0.35
40 18 0.33
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.39
Consensus pattern (40 bp):
CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTCCG
Found at i:928776 original size:20 final size:19
Alignment explanation
Indices: 928616--928779 Score: 143
Period size: 19 Copynumber: 9.1 Consensus size: 19
928606 GAAACTAAAA
* *
928616 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATATTCATT
928635 TCGCGTTGCG--ATTC---
1 TCGCGTTGCGATATTCATT
* *
928649 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATATTCATT
928668 T-GCGTTGCG--ATTC---
1 TCGCGTTGCGATATTCATT
* *
928681 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATATTCATT
*
928700 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATATTCATT
*
928719 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATATTCATT
*
928738 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATATTCATT
*
928758 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATATTCATT
928778 TC
1 TC
928780 AACCAAAAGA
Statistics
Matches: 122, Mismatches: 11, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
13 1 0.01
14 16 0.13
16 9 0.07
17 3 0.02
18 7 0.06
19 49 0.40
20 37 0.30
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (19 bp):
TCGCGTTGCGATATTCATT
Found at i:930917 original size:42 final size:42
Alignment explanation
Indices: 930857--930949 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
930847 GCCCGACTCG
* * *
930857 CCTATCATCCCTCAAGAGTCCACTTCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTTCCACCGTTCAAGAGGCC
* * *
930899 CCTATCATTCCTCGAGAGTCCCCTTCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTTCCACCGTTCAAGAGGCC
* *
930941 ACTGTCATC
1 CCTATCATC
930950 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.37, G:0.16, T:0.26
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTTCCACCGTTCAAGAGGCC
Found at i:932348 original size:14 final size:14
Alignment explanation
Indices: 932328--932364 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
932318 GATTGTTTAA
932328 TTGATTTGTAAAA-
1 TTGATTTGTAAAAG
932341 TGTGATTTGTAAAAG
1 T-TGATTTGTAAAAG
932356 TTGATTTGT
1 TTGATTTGT
932365 TTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:932523 original size:33 final size:33
Alignment explanation
Indices: 932471--932602 Score: 176
Period size: 33 Copynumber: 4.0 Consensus size: 33
932461 AAAAATTACT
* * *
932471 ATCGTAATGTGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
* *
932504 ATCGCAATGCGAAATGAAAATCGCAACTAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
* *
932537 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
932570 ATCGCAATGCGAAACT-AAAATCGCAACGTGAAA
1 ATCGCAATGCGAAA-TGAAAATCGCAACGAGAAA
932603 CTAAATTCGG
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
33 87 0.99
34 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.19, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:932527 original size:19 final size:19
Alignment explanation
Indices: 932471--932595 Score: 66
Period size: 19 Copynumber: 7.4 Consensus size: 19
932461 AAAAATTACT
* *
932471 ATCGTAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
932490 ATCGCAA--CG--A-GATA
1 ATCGCAATGCGAAATGAAA
932504 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
932523 ATCGCAA--C--TA-GAGA
1 ATCGCAATGCGAAATGAAA
*
932537 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
*
932556 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
932570 ATCGCAATGCGAAACT-AAA
1 ATCGCAATGCGAAA-TGAAA
932589 ATCGCAA
1 ATCGCAA
932596 CGTGAAACTA
Statistics
Matches: 80, Mismatches: 10, Indels: 32
0.66 0.08 0.26
Matches are distributed among these distances:
14 30 0.38
15 3 0.04
16 5 0.06
17 4 0.05
18 3 0.04
19 35 0.44
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:932602 original size:19 final size:19
Alignment explanation
Indices: 932536--932607 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 19
932526 GCAACTAGAG
*
932536 AATCGCAATGCGAAA-TAAA
1 AATCGCAACGCGAAACT-AA
932555 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
*
932569 AATCGCAATGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
932588 AATCGCAACGTGAAACTAA
1 AATCGCAACGCGAAACTAA
932607 A
1 A
932608 TTCGGGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
14 10 0.22
15 1 0.02
16 2 0.04
17 2 0.04
18 2 0.04
19 28 0.62
ACGTcount: A:0.50, C:0.21, G:0.15, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:932636 original size:19 final size:18
Alignment explanation
Indices: 932614--932705 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
932604 TAAATTCGGG
932614 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
**
932632 TTTGCGA--TTC-CCTCG-
1 -TTGCGATTTTCATTTCGC
932647 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
*
932665 ATTGCGA--TT-ATCTCG-
1 -TTGCGATTTTCATTTCGC
932680 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
932698 ATTGCGAT
1 -TTGCGAT
932706 AATAATTTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 12 0.21
16 13 0.23
17 13 0.23
19 19 0.33
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGC
Found at i:932655 original size:33 final size:33
Alignment explanation
Indices: 932613--932705 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
932603 CTAAATTCGG
* *
932613 GTTGCGATTTTCATTTCGCTTTGCGATTCCCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTACCTC
*
932646 GTTGCGATTTTCATTTCGCATTGCGATTATCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTACCTC
932679 GTTGCGATTTTCATTTCGCATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGAT
932706 AATAATTTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTACCTC
Found at i:935050 original size:12 final size:12
Alignment explanation
Indices: 935033--935057 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
935023 TCTTCGGGGA
935033 CTTTTTCTTCTT
1 CTTTTTCTTCTT
935045 CTTTTTCTTCTT
1 CTTTTTCTTCTT
935057 C
1 C
935058 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:935258 original size:24 final size:24
Alignment explanation
Indices: 935231--935284 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
935221 TTGAAACATC
*
935231 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
*
935255 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
935279 ATCAAA
1 ATCAAA
935285 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:935298 original size:24 final size:24
Alignment explanation
Indices: 935231--935298 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
935221 TTGAAACATC
* * * *
935231 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAGTCCGAATACTGACCAAG
* *
935255 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
935279 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
935299 TAGTACTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:936082 original size:20 final size:21
Alignment explanation
Indices: 936057--936108 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
936047 TTTTCCCAAT
*
936057 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
936077 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
936098 TCGCAATGCGA
1 TCGCAATGCGA
936109 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:936130 original size:20 final size:20
Alignment explanation
Indices: 936097--936195 Score: 83
Period size: 20 Copynumber: 4.9 Consensus size: 20
936087 AATTTGGAAA
* * *
936097 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATTCTGACT
** *
936117 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATTCTGAC--T
*
936138 ATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
936158 TTCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
* *
936178 TTCACAACGAGATTCTGA
1 ATCGCAACGAGATTCTGA
936196 AAATCGCAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
19 2 0.03
20 48 0.74
21 13 0.20
22 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:936496 original size:14 final size:14
Alignment explanation
Indices: 936477--936530 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
936467 GAAAATCGCA
936477 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
936491 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
936508 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
936524 TTGCGAT
1 TTGCGAT
936531 AGTCAGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:936496 original size:33 final size:33
Alignment explanation
Indices: 936459--936529 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
936449 AAAATCGCAA
936459 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
936492 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
936525 TGCGA
1 TGCGA
936530 TAGTCAGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:938160 original size:41 final size:42
Alignment explanation
Indices: 938105--938198 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
938095 CCTCTTCAAC
*
938105 GATGACA-GTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGT-GCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
938146 GATGATAGGTGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGTGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
938188 GATGACAGGTG
1 GATGACAGGTG
938199 AGTCGGGCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
41 18 0.38
42 29 0.62
ACGTcount: A:0.20, C:0.15, G:0.41, T:0.23
Consensus pattern (42 bp):
GATGACAGGTGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:938559 original size:20 final size:20
Alignment explanation
Indices: 938534--938586 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
938524 TAAGAATAGT
*
938534 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
938554 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
938574 TGACTATCGCAAC
1 TTACTTTCGCAAC
938587 GCAGAAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:938587 original size:20 final size:20
Alignment explanation
Indices: 938540--938646 Score: 110
Period size: 20 Copynumber: 5.4 Consensus size: 20
938530 TAGTTTACTT
* * * *
938540 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
938560 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
938580 TCGCAACGC-AGAAATGACTA
1 TCGCAACGCGA-AAATGACTA
* *
938600 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
938620 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
938639 TCGCAACG
1 TCGCAACG
938647 ACAAAATCGC
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.19
20 60 0.81
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:938654 original size:14 final size:14
Alignment explanation
Indices: 938635--938693 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
938625 ATGCGAAATG
938635 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
938649 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
938668 AAAATCGCAACGAC
1 AAAATCGCAACGAC
938682 AAAATCGCAACG
1 AAAATCGCAACG
938694 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:938709 original size:33 final size:33
Alignment explanation
Indices: 938619--938698 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
938609 GGAAATGGCT
938619 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
938652 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
938685 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
938699 CACAAATCGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:938727 original size:19 final size:19
Alignment explanation
Indices: 938705--938768 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
938695 GAAACACAAA
938705 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
938724 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
938740 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
938757 TCGCATTGCGAT
1 TCGCATTGCGAT
938769 AGCCATTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 17 0.46
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:938787 original size:20 final size:20
Alignment explanation
Indices: 938753--938807 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
938743 TTGCGATTTT
*
938753 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
938772 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
938792 CATTTCCGCGTTGCGA
1 CATTTCCGCGTTGCGA
938808 AAGTAAACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:940738 original size:20 final size:20
Alignment explanation
Indices: 940690--940748 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
940680 AATAGTTTCT
* *
940690 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
940710 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
940730 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
940749 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:941039 original size:22 final size:22
Alignment explanation
Indices: 941011--941054 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
941001 GACGGAGATA
941011 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
941033 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
941055 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:941271 original size:20 final size:20
Alignment explanation
Indices: 941241--941313 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
941231 GATTATGTAT
*
941241 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * *
941261 TATTGCGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTCAG
*
941281 TATCGAGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
941301 TATCGCATTGCGA
1 TATCGCGTTGCGA
941314 TTTTGTATTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:941348 original size:21 final size:21
Alignment explanation
Indices: 941324--941379 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
941314 TTTTGTATTA
* *
941324 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCAAAAT
941345 TCGCATTGCGATTTTCAAAAT
1 TCGCATTGCGATTTTCAAAAT
941366 TCGCATTGCGATTT
1 TCGCATTGCGATTT
941380 ATTTATTCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCAAAAT
Found at i:941498 original size:40 final size:40
Alignment explanation
Indices: 941448--941541 Score: 179
Period size: 40 Copynumber: 2.4 Consensus size: 40
941438 GATAGTCATA
941448 ATCGCGTTGCGAATCTGGAAACTGATTTACGATAATAGAG
1 ATCGCGTTGCGAATCTGGAAACTGATTTACGATAATAGAG
*
941488 ATCGCGTTGCGAATCTGGAAACTGATTTGCGATAATAGAG
1 ATCGCGTTGCGAATCTGGAAACTGATTTACGATAATAGAG
941528 ATCGCGTTGCGAAT
1 ATCGCGTTGCGAAT
941542 TAGCGATCGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (40 bp):
ATCGCGTTGCGAATCTGGAAACTGATTTACGATAATAGAG
Found at i:941537 original size:20 final size:20
Alignment explanation
Indices: 941514--941559 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
941504 GGAAACTGAT
*
941514 TTGCGATAATAGAGATCGCG
1 TTGCGATAATAGAGATCGCA
* *
941534 TTGCGA-ATTAGCGATCGCA
1 TTGCGATAATAGAGATCGCA
941553 TTGCGAT
1 TTGCGAT
941560 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCA
Found at i:946112 original size:21 final size:21
Alignment explanation
Indices: 946073--946113 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
946063 AAGTAAGTTC
*
946073 AAAACATACCCTCGGAGATTA
1 AAAACATACCCTCAGAGATTA
*
946094 AAAACATACCCTCATAGATT
1 AAAACATACCCTCAGAGATT
946114 GACTTTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (21 bp):
AAAACATACCCTCAGAGATTA
Found at i:947740 original size:14 final size:14
Alignment explanation
Indices: 947721--947751 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
947711 TCGCATCATG
*
947721 GTTTTAGTCGAGCA
1 GTTTTAGTCAAGCA
947735 GTTTTAGTCAAGCA
1 GTTTTAGTCAAGCA
947749 GTT
1 GTT
947752 ATAGCTATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (14 bp):
GTTTTAGTCAAGCA
Found at i:948812 original size:2 final size:2
Alignment explanation
Indices: 948805--948851 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
948795 CAACTAAGAA
948805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
948847 AT AT A
1 AT AT A
948852 AAGAAAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:950004 original size:29 final size:26
Alignment explanation
Indices: 949930--949979 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
949920 TTAATTTTGA
949930 TTATAAT-TATTTTAAATAATAAAATT
1 TTATAATAT-TTTTAAATAATAAAATT
949956 TTATAATATTTTTAAA-AATAAAAT
1 TTATAATATTTTTAAATAATAAAAT
949980 ATATTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.35
26 14 0.61
27 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATAATATTTTTAAATAATAAAATT
Found at i:952416 original size:29 final size:29
Alignment explanation
Indices: 952374--952430 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
952364 AGTGTTGGCC
952374 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCGCCATGCACTCCGGGCGACCTT
*
952403 GTAGGTCGCCATGCACTCCGGGTGACCT
1 GTAGGTCGCCATGCACTCCGGGCGACCT
952431 ACCCTTGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.33, G:0.32, T:0.21
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCGGGCGACCTT
Found at i:952583 original size:10 final size:10
Alignment explanation
Indices: 952531--952610 Score: 61
Period size: 10 Copynumber: 7.3 Consensus size: 10
952521 CGCTCGGCTT
*
952531 CCCTCGGATT
1 CCCTCGGATG
*
952541 CCCTCGCATAG
1 CCCTCGGAT-G
*
952552 CTCGCTCGGTTG
1 C-C-CTCGGATG
952564 CCCTCGGATG
1 CCCTCGGATG
952574 CCCTCGGATGG
1 CCCTCGGAT-G
952585 CCTCGGTCGGATG
1 CC-C--TCGGATG
*
952598 GCCTCGGATG
1 CCCTCGGATG
952608 CCC
1 CCC
952611 AGCGTGTTGG
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
10 33 0.59
11 5 0.09
12 5 0.09
13 7 0.12
14 6 0.11
ACGTcount: A:0.09, C:0.39, G:0.30, T:0.23
Consensus pattern (10 bp):
CCCTCGGATG
Found at i:952596 original size:14 final size:14
Alignment explanation
Indices: 952577--952604 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
952567 TCGGATGCCC
952577 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
952591 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
952605 ATGCCCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:952605 original size:34 final size:33
Alignment explanation
Indices: 952519--952610 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
952509 GCGACCTACC
* * *
952519 CTCGCTCGGCTTCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGATGCCCTCGGATGCCCTCGCATAG
* * *
952552 CTCGCTCGGTTGCCCTCGGATGCCCTCGGATGG
1 CTCGCTCGGATGCCCTCGGATGCCCTCGCATAG
* *
952585 CCTCGGTCGGATGGCCTCGGATGCCC
1 -CTCGCTCGGATGCCCTCGGATGCCC
952611 AGCGTGTTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
33 28 0.56
34 22 0.44
ACGTcount: A:0.08, C:0.39, G:0.29, T:0.24
Consensus pattern (33 bp):
CTCGCTCGGATGCCCTCGGATGCCCTCGCATAG
Found at i:955546 original size:20 final size:20
Alignment explanation
Indices: 955518--955580 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
955508 TTGATGAGAA
955518 TGAACAAAGAGAGAGACCTT
1 TGAACAAAGAGAGAGACCTT
* * *
955538 TGAATAAAGTTGATGAGA---A
1 TGAACAAAG-AGA-GAGACCTT
955557 TGAACAAAGAGAGAGACCTT
1 TGAACAAAGAGAGAGACCTT
955577 TGAA
1 TGAA
955581 TGAGTACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
17 4 0.12
18 2 0.06
19 8 0.25
20 12 0.38
21 2 0.06
22 4 0.12
ACGTcount: A:0.46, C:0.10, G:0.25, T:0.19
Consensus pattern (20 bp):
TGAACAAAGAGAGAGACCTT
Found at i:955558 original size:39 final size:39
Alignment explanation
Indices: 955504--955581 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
955494 AAAAGAAGAA
955504 AAAGTTGATGAGAATGAACAAAGAGAGAGACCTTTGAAT
1 AAAGTTGATGAGAATGAACAAAGAGAGAGACCTTTGAAT
955543 AAAGTTGATGAGAATGAACAAAGAGAGAGACCTTTGAAT
1 AAAGTTGATGAGAATGAACAAAGAGAGAGACCTTTGAAT
955582 GAGTACAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.08, G:0.26, T:0.21
Consensus pattern (39 bp):
AAAGTTGATGAGAATGAACAAAGAGAGAGACCTTTGAAT
Found at i:955565 original size:19 final size:19
Alignment explanation
Indices: 955504--955565 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
955494 AAAAGAAGAA
955504 AAAGTTGATGAGAATGAAC
1 AAAGTTGATGAGAATGAAC
* * *
955523 AAAG-AGA-GAGACCTTTGAAT
1 AAAGTTGATGAGA---ATGAAC
955543 AAAGTTGATGAGAATGAAC
1 AAAGTTGATGAGAATGAAC
955562 AAAG
1 AAAG
955566 AGAGAGACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
17 4 0.12
18 2 0.06
19 12 0.38
20 8 0.25
21 2 0.06
22 4 0.12
ACGTcount: A:0.48, C:0.06, G:0.26, T:0.19
Consensus pattern (19 bp):
AAAGTTGATGAGAATGAAC
Found at i:963566 original size:60 final size:55
Alignment explanation
Indices: 963493--963622 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 55
963483 AGTAGGTGAT
* * *
963493 CATTTTGTAACTTTGAATAGTCGAGGGACTCAACAAAGCAACATCCTATAATTGAGGGAC
1 CATTTTGTAACTTTG-ATAGTCGAGAGACT-AA-AAA-AAACACCCTATAATTG-GGGAC
* *
963553 CATTTTGTAACTTTTGATAGTTGAGAGACTAAAAAAAATACCCTATAATTGGGGAC
1 CATTTTGTAAC-TTTGATAGTCGAGAGACTAAAAAAAACACCCTATAATTGGGGAC
963609 CATTTGTGT-ACTTT
1 CATTT-TGTAACTTT
963623 ACCCTAAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
55 3 0.05
56 12 0.19
57 16 0.25
58 3 0.05
59 2 0.03
60 23 0.37
61 4 0.06
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (55 bp):
CATTTTGTAACTTTGATAGTCGAGAGACTAAAAAAAACACCCTATAATTGGGGAC
Found at i:967777 original size:20 final size:20
Alignment explanation
Indices: 967730--967897 Score: 115
Period size: 20 Copynumber: 8.2 Consensus size: 20
967720 AATGACCAAC
* *
967730 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
*
967749 AAAACCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* * **
967769 AAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTTAG
* * **
967789 AAGATCGCAACACGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
* * *
967810 AAGAATCGCAATGCGATTCAT
1 AA-AATCGCAACGCGATTTAG
**
967831 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
967852 AAGAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATTTAG
*
967873 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
967893 AAAAT
1 AAAAT
967898 GAGTAAATTC
Statistics
Matches: 114, Mismatches: 28, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
19 18 0.16
20 58 0.51
21 13 0.11
22 25 0.22
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:967838 original size:42 final size:42
Alignment explanation
Indices: 967787--967888 Score: 168
Period size: 42 Copynumber: 2.4 Consensus size: 42
967777 AACGTTGAAA
* * *
967787 AGAAGATCGCAACACGATCTTCCAAGAATCGCAATGCGATTC
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
*
967829 ATAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
967871 AGAAAATCGCAACGCGAT
1 AGAAAATCGCAACGCGAT
967889 TCAGAAAATG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (42 bp):
AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
Found at i:968014 original size:6 final size:6
Alignment explanation
Indices: 968005--968054 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
967995 CATTACCATT
968005 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
968052 ACC
1 ACC
968055 CGAGACGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:968587 original size:6 final size:6
Alignment explanation
Indices: 968551--968698 Score: 261
Period size: 6 Copynumber: 25.5 Consensus size: 6
968541 TCTCGTCTCG
968551 GGTCG- GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
968594 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
968642 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
968690 GGTCGT GGT
1 GGTCGT GGT
968699 AATACGTGTC
Statistics
Matches: 142, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 25 0.18
6 117 0.82
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:968831 original size:22 final size:22
Alignment explanation
Indices: 968803--968884 Score: 113
Period size: 22 Copynumber: 4.0 Consensus size: 22
968793 CATTTTCTGA
968803 ATCGCGTTGCGATTCTTGGAAG
1 ATCGCGTTGCGATTCTTGGAAG
968825 ATCGCGTTGCGATTCTTGGAAG
1 ATCGCGTTGCGATTCTTGGAAG
968847 ATCGC---GCGATT-TTCGG-A-
1 ATCGCGTTGCGATTCTT-GGAAG
968864 ATCGCGTTGCGATTCTTGGAA
1 ATCGCGTTGCGATTCTTGGAA
968885 TCGCTTCTTG
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.09
18 3 0.06
19 8 0.15
20 8 0.15
21 3 0.06
22 27 0.50
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (22 bp):
ATCGCGTTGCGATTCTTGGAAG
Found at i:968877 original size:20 final size:19
Alignment explanation
Indices: 968801--968970 Score: 112
Period size: 20 Copynumber: 9.0 Consensus size: 19
968791 CTCATTTTCT
968801 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATT-TTG
968821 GAAGATCGCGTTGCGATTCTTG
1 G-A-ATCGCGTTGCGATT-TTG
968843 GAAGATCGC---GCGATTTTCG
1 G-A-ATCGCGTTGCGATTTT-G
968862 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATT-TTG
968882 GAATCGC-TT-C----TTG
1 GAATCGCGTTGCGATTTTG
*
968895 GAATCGCGTTGCGATTTTCT
1 GAATCGCGTTGCGATTTT-G
* *
968915 TAATCGCGTTGC--TTTTCT
1 GAATCGCGTTGCGATTTT-G
* *
968933 AAATCGCGTTGCGGTTTT-
1 GAATCGCGTTGCGATTTTG
968951 GATATCGCGTTGCGATTTTG
1 GA-ATCGCGTTGCGATTTTG
968971 TTGGTCATTT
Statistics
Matches: 127, Mismatches: 5, Indels: 36
0.76 0.03 0.21
Matches are distributed among these distances:
13 10 0.08
14 2 0.02
15 1 0.01
17 5 0.04
18 22 0.17
19 27 0.21
20 30 0.24
21 3 0.02
22 27 0.21
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (19 bp):
GAATCGCGTTGCGATTTTG
Found at i:968894 original size:13 final size:13
Alignment explanation
Indices: 968876--968901 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
968866 CGCGTTGCGA
968876 TTCTTGGAATCGC
1 TTCTTGGAATCGC
968889 TTCTTGGAATCGC
1 TTCTTGGAATCGC
968902 GTTGCGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
TTCTTGGAATCGC
Found at i:968898 original size:33 final size:37
Alignment explanation
Indices: 968814--968910 Score: 114
Period size: 33 Copynumber: 2.6 Consensus size: 37
968804 TCGCGTTGCG
968814 ATTCTTGGAAGATCGCGTTGCGATTCTTGGAAGATCGCGC
1 ATTCTTGG-A-ATCGCGTTGCGATTCTTGGAAGATC-CGC
968854 GATT-TTCGGAATCGCGTTGCGATTCTTGG-A-AT-CGC
1 -ATTCTT-GGAATCGCGTTGCGATTCTTGGAAGATCCGC
968889 -TTCTTGGAATCGCGTTGCGATT
1 ATTCTTGGAATCGCGTTGCGATT
968911 TTCTTAATCG
Statistics
Matches: 54, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
33 19 0.35
34 2 0.04
35 3 0.06
37 2 0.04
38 1 0.02
39 19 0.35
40 3 0.06
41 5 0.09
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.34
Consensus pattern (37 bp):
ATTCTTGGAATCGCGTTGCGATTCTTGGAAGATCCGC
Found at i:968932 original size:18 final size:19
Alignment explanation
Indices: 968896--968944 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
968886 CGCTTCTTGG
*
968896 AATCGCGTTGCGATTTTCTT
1 AATCGCGTTGC-ATTTTCTA
968916 AATCGCGTTGC-TTTTCTA
1 AATCGCGTTGCATTTTCTA
968934 AATCGCGTTGC
1 AATCGCGTTGC
968945 GGTTTTGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 17 0.61
20 11 0.39
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.41
Consensus pattern (19 bp):
AATCGCGTTGCATTTTCTA
Found at i:982808 original size:20 final size:20
Alignment explanation
Indices: 982785--982836 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
982775 AACGCGATCC
982785 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
982805 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
982825 CCAAAATCGCAA
1 CCAGAATCGCAA
982837 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:982853 original size:21 final size:20
Alignment explanation
Indices: 982826--982924 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
982816 AATCAGTTTC
982826 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
982847 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
982868 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
982888 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
982909 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
982925 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:982953 original size:20 final size:20
Alignment explanation
Indices: 982891--983084 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
982881 CGATTTTCCA
* ** *
982891 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
982911 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
982931 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
982951 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
982971 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
982991 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
983011 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
983031 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
983051 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
983072 AAATCGCAACGCG
1 AAATCGCAACGCG
983085 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:982975 original size:60 final size:60
Alignment explanation
Indices: 982891--983084 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
982881 CGATTTTCCA
* ** * *
982891 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
982951 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
983011 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
983072 AAATCGCAACGCG
1 AAATCGCAACGCG
983085 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:983505 original size:33 final size:33
Alignment explanation
Indices: 983466--983536 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
983456 TTCACTTAGA
*
983466 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
983499 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
983532 TTTCA
1 TTTCA
983537 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:983676 original size:14 final size:14
Alignment explanation
Indices: 983657--983711 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
983647 AGAATGACTG
983657 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
983671 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
983690 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
983704 TCGCAACG
1 TCGCAACG
983712 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:983724 original size:33 final size:33
Alignment explanation
Indices: 983657--983727 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
983647 AGAATGACTG
***
983657 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
983690 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
983723 TCGCA
1 TCGCA
983728 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:983745 original size:19 final size:19
Alignment explanation
Indices: 983723--983820 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
983713 GAAACCAAAA
*
983723 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
983742 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
983756 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
983775 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
983789 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
983808 TCGCGTTGCGATT
1 TCGCGTTGCGATT
983821 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:983764 original size:14 final size:14
Alignment explanation
Indices: 983745--983834 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
983735 TTTCATTTCG
983745 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
983759 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
983778 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
983792 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
983809 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
983825 CGTTGCGATT
1 CGTTGCGATT
983835 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:983770 original size:33 final size:33
Alignment explanation
Indices: 983728--983842 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
983718 CAAAATCGCA
983728 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
983761 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
983794 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
983827 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
983843 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:985771 original size:185 final size:186
Alignment explanation
Indices: 985541--985922 Score: 739
Period size: 185 Copynumber: 2.1 Consensus size: 186
985531 TAGATTGCTT
985541 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
985606 TTTGTTTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
985671 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
985726 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
985791 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
985856 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
985912 AGTAAATTTAT
1 AGTAAATTTAT
985923 CCATTCAAGT
Statistics
Matches: 193, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
185 153 0.79
186 40 0.21
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.47
Consensus pattern (186 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:985855 original size:93 final size:93
Alignment explanation
Indices: 985541--985920 Score: 735
Period size: 93 Copynumber: 4.1 Consensus size: 93
985531 TAGATTGCTT
*
985541 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
985606 TTTGTTTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
985634 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
985698 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
985726 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
985791 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
985819 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
985884 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
985912 AGTAAATTT
1 AGTAAATTT
985921 ATCCATTCAA
Statistics
Matches: 284, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
92 91 0.32
93 193 0.68
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:986004 original size:19 final size:19
Alignment explanation
Indices: 985964--986092 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
985954 TAGTTTACTT
* *
985964 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
985984 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
986003 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
986022 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
986036 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
986055 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
986069 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
986088 TCGCA
1 TCGCA
986093 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:986043 original size:33 final size:32
Alignment explanation
Indices: 986000--986092 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
985990 CGCGAAACCA
**
986000 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
986032 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
986065 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
986093 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:986090 original size:52 final size:52
Alignment explanation
Indices: 985964--986092 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
985954 TAGTTTACTT
**
985964 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
986016 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
986069 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
986093 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:986110 original size:19 final size:19
Alignment explanation
Indices: 986088--986223 Score: 130
Period size: 19 Copynumber: 7.6 Consensus size: 19
986078 GAAACCAAAA
*
986088 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
986107 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
986123 T--CGTTGCGATTTTTCATT
1 TCGCGTTGCGA-TTTTCATT
*
986141 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
986157 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
986174 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
986193 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
986213 TCGTGTTGCGA
1 TCGCGTTGCGA
986224 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 8, Indels: 23
0.76 0.06 0.18
Matches are distributed among these distances:
14 16 0.16
16 8 0.08
17 11 0.11
18 3 0.03
19 39 0.40
20 20 0.21
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:986129 original size:14 final size:14
Alignment explanation
Indices: 986110--986167 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 14
986100 TTTCATTTCG
986110 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
986124 CGTTGCGATTTTTCATTT
1 CGTTGCGA---TTC-TTT
*
986142 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
986158 CGTTGCGATT
1 CGTTGCGATT
986168 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
14 18 0.49
16 2 0.05
17 6 0.16
18 3 0.08
20 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.24, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:986142 original size:34 final size:33
Alignment explanation
Indices: 986093--986186 Score: 170
Period size: 34 Copynumber: 2.8 Consensus size: 33
986083 CAAAATCGCA
*
986093 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
986126 TTGCGATTTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGA-TTTTCATTTCGCGTTGCGATTCTGTCG
986160 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
986187 TTGGTTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
33 27 0.46
34 32 0.54
ACGTcount: A:0.10, C:0.20, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:988084 original size:38 final size:38
Alignment explanation
Indices: 988041--988113 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
988031 AATTGATTGT
*
988041 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
988079 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
988114 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:988100 original size:19 final size:19
Alignment explanation
Indices: 988036--988100 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
988026 AGTTTAATTG
*
988036 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
988055 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
988073 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
988093 ATTGATTT
1 ATTGATTT
988101 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:988114 original size:14 final size:14
Alignment explanation
Indices: 988095--988130 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
988085 ATTGTTTAAT
988095 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
988109 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
988123 TGATTTGT
1 TGATTTGT
988131 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:988253 original size:19 final size:19
Alignment explanation
Indices: 988237--988338 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
988227 AAAAATGACT
988237 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
988256 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
988275 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
988289 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
988308 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
988328 ATCGCAATGCG
1 ATCGCAATGCG
988339 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:988391 original size:19 final size:19
Alignment explanation
Indices: 988367--988692 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
988357 GATTATCTCG
988367 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
988386 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
988405 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
988419 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
988438 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
988457 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
988476 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
988495 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
988514 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
988528 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
988547 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
988566 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
988580 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
988599 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
988618 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
988632 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
988652 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
988666 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
988685 TTGCGATT
1 TTGCGATT
988693 GTATTTTCCG
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 35 0.13
16 31 0.12
17 28 0.10
18 3 0.01
19 160 0.59
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:988407 original size:52 final size:52
Alignment explanation
Indices: 988345--988664 Score: 550
Period size: 52 Copynumber: 6.0 Consensus size: 52
988335 TGCGTTTATA
*
988345 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
988397 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
988449 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
988506 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
988558 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
988610 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
988663 AT
1 AT
988665 GTTGGGATTT
Statistics
Matches: 257, Mismatches: 5, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
52 182 0.71
53 17 0.07
54 7 0.03
55 8 0.03
57 43 0.17
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:988442 original size:71 final size:72
Alignment explanation
Indices: 988367--988692 Score: 389
Period size: 71 Copynumber: 4.6 Consensus size: 72
988357 GATTATCTCG
988367 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCG-TTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
988431 TTTCGCA
66 TTTCGCA
* *
988438 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG-ATTGCGATT
988503 TTCATTTCGCA
62 TTCATTTCGCA
*
988514 TTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG-ATTGCGATT
*
988572 TTC-TCTCG--
62 TTCATTTCGCA
*
988580 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG-TTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
988644 TTTCCGCA
66 TTT-CGCA
* *
988652 TTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
988693 GTATTTTCCG
Statistics
Matches: 227, Mismatches: 11, Indels: 38
0.82 0.04 0.14
Matches are distributed among these distances:
66 12 0.05
67 25 0.11
68 14 0.06
69 13 0.06
70 3 0.01
71 109 0.48
72 12 0.05
73 6 0.03
74 8 0.04
76 25 0.11
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (72 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
TTTCGCA
Found at i:988610 original size:161 final size:157
Alignment explanation
Indices: 988345--988664 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
988335 TGCGTTTATA
988345 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
* *
988410 ATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG-
988475 ATTGCGATTTTAATTT-CGCATTGCGATTTTC
127 -TTGCGATTTTAATTTCCGCATTGCGATTTTC
*
988506 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
988571 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
*
988636 GATTTTCATTTCCGCATTGCGATTTTC
131 GATTTTAATTTCCGCATTGCGATTTTC
988663 AT
1 AT
988665 GTTGGGATTT
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 14 0.09
157 17 0.11
158 4 0.03
159 3 0.02
161 116 0.75
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (157 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
GATTTTAATTTCCGCATTGCGATTTTC
Found at i:988636 original size:33 final size:33
Alignment explanation
Indices: 988386--988692 Score: 280
Period size: 33 Copynumber: 8.8 Consensus size: 33
988376 TCATTTCGCA
*
988386 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
988419 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * *
988455 CATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG
988493 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
988528 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
988564 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
988599 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
988632 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
988666 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
988693 GTATTTTCCG
Statistics
Matches: 235, Mismatches: 20, Indels: 38
0.80 0.07 0.13
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 87 0.37
34 29 0.12
35 13 0.06
36 11 0.05
37 2 0.01
38 67 0.29
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:991014 original size:12 final size:12
Alignment explanation
Indices: 990997--991021 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
990987 TCTTCGGGGA
990997 CTTTTTCTTCTT
1 CTTTTTCTTCTT
991009 CTTTTTCTTCTT
1 CTTTTTCTTCTT
991021 C
1 C
991022 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:991230 original size:24 final size:24
Alignment explanation
Indices: 991196--991242 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
991186 CTGAAACATC
991196 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
991220 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
991243 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:991944 original size:20 final size:20
Alignment explanation
Indices: 991916--992324 Score: 486
Period size: 20 Copynumber: 20.4 Consensus size: 20
991906 AAATTTCAGT
* * * *
991916 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
991936 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
991956 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
991976 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
991996 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
992016 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
992036 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
992056 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
992076 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
992096 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
992116 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
992136 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
992156 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
992176 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
992196 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
992216 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
992236 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
992256 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
992276 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
992296 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
992316 GTTGCGATT
1 GTTGCGATT
992325 ATGGAAAATC
Statistics
Matches: 343, Mismatches: 36, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.02
20 331 0.97
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:994854 original size:44 final size:45
Alignment explanation
Indices: 994796--994883 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
994786 GATACCTAAA
**
994796 ATATTATTTGTTTTACCTG-AATGTTAATATTAGACGCTATCTAG
1 ATATTATTTGTTTTACAAGAAATGTTAATATTAGACGCTATCTAG
* **
994840 ATATTA-TTGTTTTTATAAGAAATGTTAATATTAGGTGCTATCTA
1 ATATTATTTG-TTTTACAAGAAATGTTAATATTAGACGCTATCTA
994884 AAATTTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 3 0.08
44 12 0.32
45 22 0.59
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (45 bp):
ATATTATTTGTTTTACAAGAAATGTTAATATTAGACGCTATCTAG
Found at i:1007374 original size:35 final size:35
Alignment explanation
Indices: 1007327--1007412 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
1007317 AAAACAGTCA
* * *
1007327 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
1007362 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
1007397 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
1007413 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:1007406 original size:21 final size:21
Alignment explanation
Indices: 1007381--1007423 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1007371 TTCTAAACCC
1007381 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
1007402 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
1007423 T
1 T
1007424 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:1007578 original size:16 final size:18
Alignment explanation
Indices: 1007546--1007579 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1007536 TATTAATGTA
1007546 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
1007564 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
1007580 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:1008226 original size:130 final size:130
Alignment explanation
Indices: 1008023--1008270 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
1008013 AATTTTCTTC
* *
1008023 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
* *
1008088 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTAATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * * *
1008153 TAATTAGGTGGTAACATGTGTCACCAATGACACGTGTTATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
1008218 CCTAATTAAATGATTAATTTATTAAATTTAATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTAATTTAATTTAGGACCAAATTGAT
1008271 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTAATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:1008655 original size:35 final size:35
Alignment explanation
Indices: 1008608--1008684 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
1008598 AAAACAGTCA
* *
1008608 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* * * *
1008643 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
1008678 TCAATTT
1 TCAATTT
1008685 AAGGTAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:1008832 original size:15 final size:17
Alignment explanation
Indices: 1008804--1008835 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1008794 TATTAATGTA
1008804 TGAATCATTATATTTTT
1 TGAATCATTATATTTTT
1008821 TGAAT-ATT-TATTTTT
1 TGAATCATTATATTTTT
1008836 AATAAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
TGAATCATTATATTTTT
Found at i:1009507 original size:130 final size:130
Alignment explanation
Indices: 1009304--1009551 Score: 433
Period size: 130 Copynumber: 1.9 Consensus size: 130
1009294 AATTTTCTTC
* *
1009304 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
1009369 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
1009434 TAATTAGGTGGTAACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
1009499 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
1009552 TATATAAATA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 111 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:1010774 original size:588 final size:590
Alignment explanation
Indices: 1009656--1010838 Score: 2325
Period size: 588 Copynumber: 2.0 Consensus size: 590
1009646 TTGAAACAGT
1009656 TAAATAATTATGTGGTATGATTGATAAATTTAAAAGATCGATGACAAAAGTAAAAAGGGCTAGAT
1 TAAATAATTATGTGGTATGATTGATAAATTTAAAAGATCGATGACAAAAGTAAAAAGGGCTAGAT
1009721 AGTTAAGTTGTCAACCGAGTAGTTTACACTTTTATTTATACGTCAAAATAACATTTTATAAATTT
66 AGTTAAGTTGTCAACCGAGTAGTTTACACTTTTATTTATACGTCAAAATAACATTTTATAAATTT
1009786 AAAATTAGAATTATTTTCAACCTCTTCTATATCCTAACTACTTTTTTTAATTAAAAAATTTATTC
131 AAAATTAGAATTATTTTCAACCTCTTCTATATCCTAACTACTTTTTTTAATTAAAAAATTTATTC
1009851 AACAGATAAGAATTATACTATTATATTTATATAAAAAATACGTATCACATGAAATAAGATGAAAT
196 AACAGATAAGAATTATACTATTATATTTATATAAAAAATACGTATCACATGAAATAAGATGAAAT
1009916 TAAATAATAATAAATTTGACATAATTGAATTTAATTTAAGTATTTTGGAATTTAGGGTTTAGAAT
261 TAAATAATAATAAATTTGACATAATTGAATTTAATTTAAGTATTTTGGAATTTAGGGTTTAGAAT
1009981 AAAATTGAATTACTTGGAAATTGGGGTTTAGAATGAAATTGATGACTGTTTTGCAAGTTTTAAAA
326 AAAATTGAATTACTTGGAAATTGGGGTTTAGAATGAAATTGATGACTGTTTTGCAAGTTTTAAAA
1010046 GTTGGGGGACCTAAATTCAAGTGACTGAAAAGTTCAATGACCATTTATATAATTTATCCTAATTT
391 GTTGGGGGACCTAAATTCAAGTGACTGAAAAGTTCAATGACCATTTATATAATTTATCCTAATTT
1010111 TCTAACTGTGGTTTAAGTTGGGGGACCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGC
456 TCTAACTGTGGTTTAAGTTGGGGGACCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGC
*
1010176 AAGTTTTAAATGTTGGGGGACCTAAATGCAAGCTTCAGAAATGTTCAGTGACCATTACTATACTT
521 AAGTTTTAAATGTTGGGGGACCTAAATGCAAGCTTCAGAAATATTCAGTGACCATTACTATACTT
1010241 TACCC
586 TACCC
1010246 -AAATAATTATGTGGTATGATTGATAAATTTAAAAGATCGATGACAAAAGTAAAAAGGGCTAGAT
1 TAAATAATTATGTGGTATGATTGATAAATTTAAAAGATCGATGACAAAAGTAAAAAGGGCTAGAT
1010310 AGTTAAGTTGTCAACCGAGTAGTTTACACTTTTATTTATACGTCAAAATAACATTTTATAAATTT
66 AGTTAAGTTGTCAACCGAGTAGTTTACACTTTTATTTATACGTCAAAATAACATTTTATAAATTT
*
1010375 AAAATTCGAATTATTTTCAACCTCTTCTATATCCTAACTACTTTTTTTAATTAAAAAATTTATTC
131 AAAATTAGAATTATTTTCAACCTCTTCTATATCCTAACTACTTTTTTTAATTAAAAAATTTATTC
*
1010440 AACAGATAAGAATTATACTATTATATTTATGT-AAAAATACGTATCACATGAAATAAGATGAAAT
196 AACAGATAAGAATTATACTATTATATTTATATAAAAAATACGTATCACATGAAATAAGATGAAAT
1010504 TAAATAATAATAAATTTGACATAATTGAATTTAATTTAAGTATTTTGGAATTTAGGGTTTAGAAT
261 TAAATAATAATAAATTTGACATAATTGAATTTAATTTAAGTATTTTGGAATTTAGGGTTTAGAAT
1010569 AAAATTGAATTACTTGGAAATTGGGGTTTAGAATGAAATTGATGACTGTTTTGCAAGTTTTAAAA
326 AAAATTGAATTACTTGGAAATTGGGGTTTAGAATGAAATTGATGACTGTTTTGCAAGTTTTAAAA
1010634 GTTGGGGGACCTAAATTCAAGTGACTGAAAAGTTCAATGACCATTTATATAATTTATCCTAATTT
391 GTTGGGGGACCTAAATTCAAGTGACTGAAAAGTTCAATGACCATTTATATAATTTATCCTAATTT
1010699 TCTAACTGTGGTTTAAGTTGGGGGACCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGC
456 TCTAACTGTGGTTTAAGTTGGGGGACCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGC
1010764 AAGTTTTAAATGTTGGGGGACCTAAATGCAAGCTTCAGAAATATTCAGTGACCATTACTATACTT
521 AAGTTTTAAATGTTGGGGGACCTAAATGCAAGCTTCAGAAATATTCAGTGACCATTACTATACTT
1010829 TACCC
586 TACCC
1010834 TAAAT
1 TAAAT
1010839 TTAATCTTTT
Statistics
Matches: 589, Mismatches: 3, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
588 361 0.61
589 228 0.39
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (590 bp):
TAAATAATTATGTGGTATGATTGATAAATTTAAAAGATCGATGACAAAAGTAAAAAGGGCTAGAT
AGTTAAGTTGTCAACCGAGTAGTTTACACTTTTATTTATACGTCAAAATAACATTTTATAAATTT
AAAATTAGAATTATTTTCAACCTCTTCTATATCCTAACTACTTTTTTTAATTAAAAAATTTATTC
AACAGATAAGAATTATACTATTATATTTATATAAAAAATACGTATCACATGAAATAAGATGAAAT
TAAATAATAATAAATTTGACATAATTGAATTTAATTTAAGTATTTTGGAATTTAGGGTTTAGAAT
AAAATTGAATTACTTGGAAATTGGGGTTTAGAATGAAATTGATGACTGTTTTGCAAGTTTTAAAA
GTTGGGGGACCTAAATTCAAGTGACTGAAAAGTTCAATGACCATTTATATAATTTATCCTAATTT
TCTAACTGTGGTTTAAGTTGGGGGACCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGC
AAGTTTTAAATGTTGGGGGACCTAAATGCAAGCTTCAGAAATATTCAGTGACCATTACTATACTT
TACCC
Found at i:1010860 original size:22 final size:23
Alignment explanation
Indices: 1010835--1010879 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
1010825 ACTTTACCCT
1010835 AAATTTAATC-TTTTATATTTTA
1 AAATTTAATCATTTTATATTTTA
*
1010857 AAATTTTATCATTTTTATATTTT
1 AAATTTAATCA-TTTTATATTTT
1010880 CACTATTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
24 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
AAATTTAATCATTTTATATTTTA
Found at i:1011186 original size:30 final size:30
Alignment explanation
Indices: 1011152--1011211 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1011142 TGCTTCTATC
1011152 TAATA-TTTAATGTCAATAATATATTTATAA
1 TAATATTTTAAT-TCAATAATATATTTATAA
* * *
1011182 TAATATTTTAATTGAGTGATATATTTATAA
1 TAATATTTTAATTCAATAATATATTTATAA
1011212 ATTTTAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (30 bp):
TAATATTTTAATTCAATAATATATTTATAA
Found at i:1016747 original size:2 final size:2
Alignment explanation
Indices: 1016740--1016780 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1016730 TAATATCATG
1016740 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1016781 GTCCCGGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1022184 original size:34 final size:30
Alignment explanation
Indices: 1022146--1022214 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
1022136 TTGATATAAC
1022146 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTA
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTA
*
1022180 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTA
1022209 AATTTA
1 AATTTA
1022215 TTCAAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 9 0.27
30 12 0.36
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTA
Found at i:1022225 original size:29 final size:30
Alignment explanation
Indices: 1022155--1022214 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
1022145 CAATTTAAGG
1022155 CAAAATGGTTTTTGGACTTGAATTAAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTAAATTTA
*
1022186 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTAAATTTA
1022215 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 12 0.43
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTAAATTTA
Found at i:1022447 original size:20 final size:21
Alignment explanation
Indices: 1022385--1022460 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1022375 ATGCAATTAG
* * *
1022385 TGCATCAATGTATCCTTTCCA
1 TGCATCGATGCATCCTTGCCA
*
1022406 TACATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
1022427 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
1022447 TGCATCCATGCATC
1 TGCATCGATGCATC
1022461 AAGGCTGCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
20 18 0.37
21 31 0.63
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.30
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:1022870 original size:34 final size:33
Alignment explanation
Indices: 1022825--1022895 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
1022815 TTTTGTAAAG
* * *
1022825 GGGAAAGGTTCTAGTTTATCCCGTGTAAAAGCTA
1 GGGAAAAGTTCTAGTTTAACCCGTG-AAAAACTA
1022859 GGGAAAAGTTCTAGTTTAACCCGTGAAAAACTA
1 GGGAAAAGTTCTAGTTTAACCCGTGAAAAACTA
1022892 GGGA
1 GGGA
1022896 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (33 bp):
GGGAAAAGTTCTAGTTTAACCCGTGAAAAACTA
Found at i:1023778 original size:19 final size:20
Alignment explanation
Indices: 1023754--1023801 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1023744 AATGATTTTC
*
1023754 TTTTGAAAACAAAAAT-ATA
1 TTTTGAAAACAAAAATGAAA
* *
1023773 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1023793 TTTTGAAAA
1 TTTTGAAAA
1023802 TGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:1025103 original size:34 final size:30
Alignment explanation
Indices: 1025065--1025133 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
1025055 TTGATAAAAC
1025065 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
1025099 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
1025128 AATTTA
1 AATTTA
1025134 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:1025144 original size:29 final size:30
Alignment explanation
Indices: 1025074--1025133 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
1025064 CAATTTAAGG
1025074 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
1025105 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
1025134 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:1025231 original size:13 final size:13
Alignment explanation
Indices: 1025213--1025239 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1025203 AGGGTGTCAA
1025213 AGTGCATCCATGC
1 AGTGCATCCATGC
1025226 AGTGCATCCATGC
1 AGTGCATCCATGC
1025239 A
1 A
1025240 TCTGCACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (13 bp):
AGTGCATCCATGC
Found at i:1025324 original size:21 final size:21
Alignment explanation
Indices: 1025296--1025392 Score: 151
Period size: 21 Copynumber: 4.7 Consensus size: 21
1025286 ATGCAATTAG
*
1025296 TGCATCGATGCATCCTTTCCA
1 TGCATCGATGCATCCTTGCCA
*
1025317 TACATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
1025338 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
*
1025359 TGCATCGATGCATCC-TACCA
1 TGCATCGATGCATCCTTGCCA
*
1025379 TGCATCCATGCATC
1 TGCATCGATGCATC
1025393 AAGGCTGCAA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
20 17 0.24
21 54 0.76
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:1025797 original size:34 final size:33
Alignment explanation
Indices: 1025757--1025827 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 33
1025747 TTTTGTAAAG
* *
1025757 GGGAAAGGTTCTAGTTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGTTTAACCCGTG-AAAAACTA
1025791 GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
1 GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
1025824 GGGA
1 GGGA
1025828 GTTGTAGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 11 0.31
34 24 0.69
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.25
Consensus pattern (33 bp):
GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
Found at i:1034062 original size:99 final size:99
Alignment explanation
Indices: 1033882--1034064 Score: 244
Period size: 99 Copynumber: 1.8 Consensus size: 99
1033872 GAACCAATGT
* * *
1033882 TTTGTGCATTGACTACAGCAGGAGAAACAATTTGCATGCTACTAGCTGAGCCAGTGGAAGGGATC
1 TTTGTGCATTGACTACAGCAGGAGAAACAATTGGCATGCTACAAGCTGAGCCAGTGGAAGGGATA
* *
1033947 CCTGATGCAGTGGAAGGCTGCGAAGGACACATGG
66 CCAGAAGCAGTGGAAGGCTGCGAAGGACACATGG
* * * * *
1033981 TTTGTGCATTGACTGCAGCA-TATGAAACAGTTGGTATGCTAGAAGCTGAGCCAGTGGAAGGGAT
1 TTTGTGCATTGACTACAGCAGGA-GAAACAATTGGCATGCTACAAGCTGAGCCAGTGGAAGGGAT
1034045 ACCAGAAGCAGCT-GAAGGCT
65 ACCAGAAGCAG-TGGAAGGCT
1034065 TTTGTATCAT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
98 1 0.01
99 70 0.97
100 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (99 bp):
TTTGTGCATTGACTACAGCAGGAGAAACAATTGGCATGCTACAAGCTGAGCCAGTGGAAGGGATA
CCAGAAGCAGTGGAAGGCTGCGAAGGACACATGG
Found at i:1035513 original size:200 final size:202
Alignment explanation
Indices: 1035242--1035625 Score: 518
Period size: 200 Copynumber: 1.9 Consensus size: 202
1035232 TTTAAGTACC
* *
1035242 TTGGTAAGTTTAATTTAATTTATTGTTTTAGTTTTTTATTGTAAAAATAAATTAATTAGTCTATT
1 TTGGTAAGTTTAATTTAAATTATTGTTTTAGTTTTTTATTGTAAAAATAAATTAATTAGACTATT
1035307 TATTTTGATTTTACAGATTAAA-CTGTATTCGAGTGGTTTGGTAAGTTAAATTT-AATTTTTT-T
66 TATTTTGATTTTACAGATTAAATC-GTATTCGAGTGGTTTGGTAAGTTAAATTTAAATTTTTTGT
*
1035369 TGTCTAATTTTTGTTTTTAATT-TAAAT-TATAATT-ATTAGACTATTTATTTTTATTTTAGTTG
130 T-T-TAATTTTTGTTTTT-ATTGTAAATATA-AATTAATTAGACTATTTATTTTGATTTTAGTTG
1035431 TATTTGAGTATT
191 TATTTGAGTATT
* * * *
1035443 TTGGTAATTTTAGTTTAAATTATT-TTTTATTTTTTTATTG-AGTAATATAAATT-ATT-GAACT
1 TTGGTAAGTTTAATTTAAATTATTGTTTTAGTTTTTTATTGTA--AAAATAAATTAATTAG-ACT
* * *
1035504 ATTTATTTTGATTTTACAGTTTAAATCGTATTTGAGTGGTTTGGTAAGTTTAATTTAAATTTTTT
63 ATTTATTTTGATTTTACAGATTAAATCGTATTCGAGTGGTTTGGTAAGTTAAATTTAAATTTTTT
**
1035569 GTTTTGTTTTTTGTTTTTATTGTAAATATAAATTAATTAGACTATTTATTTTGATTT
128 GTTTTAATTTTTGTTTTTATTGTAAATATAAATTAATTAGACTATTTATTTTGATTT
1035626 AACATATTTG
Statistics
Matches: 162, Mismatches: 12, Indels: 18
0.84 0.06 0.09
Matches are distributed among these distances:
199 5 0.03
200 92 0.57
201 63 0.39
202 2 0.01
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (202 bp):
TTGGTAAGTTTAATTTAAATTATTGTTTTAGTTTTTTATTGTAAAAATAAATTAATTAGACTATT
TATTTTGATTTTACAGATTAAATCGTATTCGAGTGGTTTGGTAAGTTAAATTTAAATTTTTTGTT
TTAATTTTTGTTTTTATTGTAAATATAAATTAATTAGACTATTTATTTTGATTTTAGTTGTATTT
GAGTATT
Found at i:1047989 original size:21 final size:21
Alignment explanation
Indices: 1047963--1048003 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1047953 TATAATGATT
1047963 GGTCAACTCAAAAAATTAAAA
1 GGTCAACTCAAAAAATTAAAA
* * *
1047984 GGTCAATTTAAAATATTAAA
1 GGTCAACTCAAAAAATTAAA
1048004 TGGCCAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.27
Consensus pattern (21 bp):
GGTCAACTCAAAAAATTAAAA
Found at i:1048011 original size:21 final size:22
Alignment explanation
Indices: 1047972--1048019 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
1047962 TGGTCAACTC
* *
1047972 AAAAAATTAAAAGGTCAATTT-
1 AAAATATTAAAAGGCCAATTTG
*
1047993 AAAATATTAAATGGCCAATTTG
1 AAAATATTAAAAGGCCAATTTG
1048015 AAAAT
1 AAAAT
1048020 TTAGTGAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (22 bp):
AAAATATTAAAAGGCCAATTTG
Found at i:1050222 original size:21 final size:20
Alignment explanation
Indices: 1050198--1050245 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
1050188 CTGATTCACT
*
1050198 ATTATATCCATCTTTATACTG
1 ATTATAT-CATCTTAATACTG
*
1050219 ATTATGATCATCTTAATCCTG
1 ATTAT-ATCATCTTAATACTG
1050240 ATTATA
1 ATTATA
1050246 ATCGTCTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.88
22 2 0.08
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (20 bp):
ATTATATCATCTTAATACTG
Found at i:1051477 original size:50 final size:51
Alignment explanation
Indices: 1051356--1051482 Score: 157
Period size: 51 Copynumber: 2.5 Consensus size: 51
1051346 TTAGCAGAAA
* **
1051356 AGCGCGCCCCCTGCACCGCGTTATACGATGATTTGGCACCACATGGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCACCACATGGGGTAT
* * * * *
1051407 TGCGCGCCCCCTGCATCGCGCTATACGGTGAGCTGGCGCCACGT-GGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCACCACATGGGGTAT
* *
1051457 AGCGCGGCCCCTGCAGCGCGCTATAC
1 AGCGCGCCCCCTGCACCGCGCTATAC
1051483 ACGTATATCT
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 29 0.45
51 36 0.55
ACGTcount: A:0.16, C:0.35, G:0.31, T:0.19
Consensus pattern (51 bp):
AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCACCACATGGGGTAT
Found at i:1051628 original size:20 final size:19
Alignment explanation
Indices: 1051597--1051635 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1051587 TTATCACACC
*
1051597 AAATTTTCTCAAATTCTCT
1 AAATTTTCTCAAATACTCT
1051616 AAATTTCTCTCAAATACTCT
1 AAATTT-TCTCAAATACTCT
1051636 CTTTTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTTCTCAAATACTCT
Done.