Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 1 of 147
Found at i:330 original size:22 final size:24
Alignment explanation
Indices: 300--345 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
290 TGTCTATTCA
300 AAATAGACAGTTA-TGTTTATAAG
1 AAATAGACAGTTATTGTTTATAAG
*
323 AAAT-GACATTTATTTGTTTATAA
1 AAATAGACAGTTA-TTGTTTATAA
346 AAAGTTCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 4 0.20
24 9 0.45
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.41
Consensus pattern (24 bp):
AAATAGACAGTTATTGTTTATAAG
Found at i:7802 original size:22 final size:24
Alignment explanation
Indices: 7765--7808 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
7755 TTAAAATTAA
*
7765 TTTTTTATATATTATTTTAATATG
1 TTTTTTATATATTATTTAAATATG
7789 TTTTTTA-ATA-TATTTAAATA
1 TTTTTTATATATTATTTAAATA
7809 GATTTATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 3 0.16
24 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTTTATATATTATTTAAATATG
Found at i:9663 original size:10 final size:10
Alignment explanation
Indices: 9648--9681 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
9638 TTTGGTGAGA
9648 ATAAATTTTT
1 ATAAATTTTT
9658 ATAAATTTTT
1 ATAAATTTTT
9668 ATAAATTTTT
1 ATAAATTTTT
9678 -TAAA
1 ATAAA
9682 GAATTACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATAAATTTTT
Found at i:15430 original size:63 final size:63
Alignment explanation
Indices: 15362--15952 Score: 319
Period size: 62 Copynumber: 9.4 Consensus size: 63
15352 CAAAAACGCA
* * * *
15362 TTCAATAATCCTTTTAAATTTTGATGAGGAGATTATTAAAGGTATTTTTTTACCAAAAATACT
1 TTCAATAATCCCTTTAATTTTTTATGAGGAGATTATTAAAGGTATTTTTTTACAAAAAATACT
* * **** *
15425 TTCAATAATCTCC-TTCATTTTTTATGA-GATGATTATTGAAGGTA-TTTCAGGCAAAAAACACC
1 TTCAATAATC-CCTTTAATTTTTTATGAGGA-GATTATTAAAGGTATTTTTTTACAAAAAATA-C
15487 T
63 T
* * * * *
15488 TT-AATAATCCCTTTAAATTTTGATGA-GAGAATTATTAAAAGTA-TTTTTTATC-AAAAATGCC
1 TTCAATAATCCCTTTAATTTTTTATGAGGAG-ATTATTAAAGGTATTTTTTTA-CAAAAAATACT
** **
15549 TTCAATAATTCCCTCCAATTTTTTA-GAAGG-GATTATTAAAGGT-TTTTTTTGGTAAAAAATAC
1 TTCAATAA-TCCCTTTAATTTTTTATG-AGGAGATTATTAAAGGTATTTTTTT-ACAAAAAATAC
15611 T
63 T
* * * * *
15612 TTCAATAATCTCTTTTAATTTTTTA-AAGGAGATTATTGAAAGTGT-TTTTTGTAAAAAAAAAAA
1 TTCAATAATC-CCTTTAATTTTTTATGAGGAGATTATT-AAAG-GTATTTTT-T-TACAAAAAAT
*
15675 ACC
61 ACT
** * * *
15678 TTCAATAATCCGC-TTCCTTTTTTATGAGGAGATTATTGAAGGTATTTTTTTTACAAAAAATGCA
1 TTCAATAATCC-CTTTAATTTTTTATGAGGAGATTATTAAAGGTA-TTTTTTTACAAAAAATACT
* * * **** * *
15742 TTCAATAATCCCTTTCATTTTTTATGGAGG-GATTATTGAAGGT-GTTTCAGGCAAAAAACACC
1 TTCAATAATCCCTTTAATTTTTTAT-GAGGAGATTATTAAAGGTATTTTTTTACAAAAAATACT
* * * * * * * **
15804 TTCAATAATCTCTGTAAATTTTGATAAAGAGATTATTAAA-G-ACGTTTTTTACTAAAACGT-C-
1 TTCAATAATCCCTTTAATTTTTTATGAGGAGATTATTAAAGGTA-TTTTTTTAC-AAAAAATACT
* ** * * * *
15865 TTCAATAATCCCCTCTAATTTTTTAAAAGG-GATTATTGAAGGTATTTTCTGT--AAAAAA-GCC
1 TTCAATAAT-CCCTTTAATTTTTTATGAGGAGATTATTAAAGGTATTTT-TTTACAAAAAATACT
* *
15926 TTCAATAATCCCCTTCATTTTTTATGA
1 TTCAATAATCCCTTTAATTTTTTATGA
15953 CCTAATTATT
Statistics
Matches: 402, Mismatches: 91, Indels: 73
0.71 0.16 0.13
Matches are distributed among these distances:
60 18 0.04
61 36 0.09
62 143 0.36
63 94 0.23
64 51 0.13
65 25 0.06
66 35 0.09
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (63 bp):
TTCAATAATCCCTTTAATTTTTTATGAGGAGATTATTAAAGGTATTTTTTTACAAAAAATACT
Found at i:15483 original size:125 final size:124
Alignment explanation
Indices: 15330--15724 Score: 372
Period size: 125 Copynumber: 3.1 Consensus size: 124
15320 TGCAAAATAG
* * *
15330 GATTATTAAAGGTGTTTCAGGCCAAAAACGCATTCAATAATCCTTTTAAATTTTGATGAGGAGAT
1 GATTATTAAAGGTATTTCAGGCAAAAAACACATTCAATAATCCTTTTAAATTTTGATGAGGAGAT
* *
15395 TATTAAAGGTATTTTTTTACCAAAAATACTTTCAATAATCTCCTTCATTTTTTATGAGA
66 TATTAAAGGTATTTTTTTAACAAAAATACCTTCAATAATCTCCTTCATTTTTTATGAGA
* * * *
15454 TGATTATTGAAGGTATTTCAGGCAAAAAACACCTTTAATAATCCCTTTAAATTTTGATGA-GAGA
1 -GATTATTAAAGGTATTTCAGGCAAAAAACACATTCAATAATCCTTTTAAATTTTGATGAGGAG-
* * * * *
15518 ATTATTAAAAGTA-TTTTTTATCAAAAATGCCTTCAATAAT-TCCCTCCAATTTTTTA-GAAGG
64 ATTATTAAAGGTATTTTTTTAACAAAAATACCTTCAATAATCT-CCTTC-ATTTTTTATG-AGA
* ** * * * * * *
15579 GATTATTAAAGGTTTTTTTTGGTAAAAAATACTTTCAATAATCTCTTTTAATTTTTTA-AAGGAG
1 GATTATTAAAGG-TATTTCAGGCAAAAAACACATTCAATAATC-CTTTTAAATTTTGATGAGGAG
* * * *
15643 ATTATTGAAAGTGT-TTTTTGTAAAAAAAAAAAACCTTCAATAATC-CGCTTCCTTTTTTATGAG
64 ATTATT-AAAG-GTATTTTT-T-TAACAAAAATACCTTCAATAATCTC-CTTCATTTTTTATGA-
15706 GA
123 GA
*
15708 GATTATTGAAGGTATTT
1 GATTATTAAAGGTATTT
15725 TTTTTACAAA
Statistics
Matches: 218, Mismatches: 36, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
123 1 0.00
124 43 0.20
125 104 0.48
126 17 0.08
127 6 0.03
128 14 0.06
129 33 0.15
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.40
Consensus pattern (124 bp):
GATTATTAAAGGTATTTCAGGCAAAAAACACATTCAATAATCCTTTTAAATTTTGATGAGGAGAT
TATTAAAGGTATTTTTTTAACAAAAATACCTTCAATAATCTCCTTCATTTTTTATGAGA
Found at i:15798 original size:130 final size:128
Alignment explanation
Indices: 15567--15799 Score: 274
Period size: 130 Copynumber: 1.8 Consensus size: 128
15557 TTCCCTCCAA
** * *
15567 TTTTTTAGAAGGGATTATTAAAGGTTTTTTTTGGTAAAAAATACTTTCAATAATCTCTTTTAATT
1 TTTTTTAGAAGGGATTATTAAAGGTTTTTTTTGACAAAAAATACATTCAATAATCTCCTTTAATT
*** *
15632 TTTTAAAGGAGATTATTGAAAGTGTTTTTTGTAAAAAAAAAAAACCTTCAATAATCCGCTTCC
66 TTTTAAAGGAGATTATTGAAAGTGTTTCAGGCAAAAAAAAAAAACCTTCAATAATCCGCTTCC
* * * *
15695 TTTTTTATG-AGGAGATTATTGAAGGTATTTTTTTTACAAAAAATGCATTCAATAATC-CCTTTC
1 TTTTTTA-GAAGG-GATTATTAAAGGT-TTTTTTTGACAAAAAATACATTCAATAATCTCCTTTA
* *
15758 ATTTTTT-ATGGAGGGATTATTGAAGGTGTTTCAGGCAAAAAA
63 ATTTTTTAAAGGA--GATTATTGAAAGTGTTTCAGGCAAAAAA
15800 CACCTTCAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
128 14 0.16
129 24 0.28
130 48 0.56
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (128 bp):
TTTTTTAGAAGGGATTATTAAAGGTTTTTTTTGACAAAAAATACATTCAATAATCTCCTTTAATT
TTTTAAAGGAGATTATTGAAAGTGTTTCAGGCAAAAAAAAAAAACCTTCAATAATCCGCTTCC
Found at i:16973 original size:30 final size:30
Alignment explanation
Indices: 16939--16998 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
16929 ATTGCTCTTT
*
16939 CTTGCTTATATAATAGTGAAATATGTCTAA
1 CTTGCTTATATAATAGTAAAATATGTCTAA
16969 CTTGCTTATATAATAGTAAAATATGTCTAA
1 CTTGCTTATATAATAGTAAAATATGTCTAA
16999 ATAATCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (30 bp):
CTTGCTTATATAATAGTAAAATATGTCTAA
Found at i:19578 original size:2 final size:2
Alignment explanation
Indices: 19571--19608 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
19561 ACAAATTCAA
19571 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
19609 AACTAAGCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20802 original size:14 final size:15
Alignment explanation
Indices: 20783--20812 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
20773 GATGGGTTGT
20783 TGTTTCTTT-ATTAC
1 TGTTTCTTTCATTAC
20797 TGTTTCTTTCATTAC
1 TGTTTCTTTCATTAC
20812 T
1 T
20813 TTGAATTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (15 bp):
TGTTTCTTTCATTAC
Found at i:22651 original size:21 final size:21
Alignment explanation
Indices: 22627--22756 Score: 78
Period size: 21 Copynumber: 6.3 Consensus size: 21
22617 GATTTTCTTT
22627 TTTATTATATTATTATTATTA
1 TTTATTATATTATTATTATTA
* *
22648 TTTATTATCAATATT-TT-TTCT
1 TTTATTAT-ATTATTATTATT-A
* * *
22669 TTTATTATCTT-TGT-TTGTTG
1 TTTATTATATTAT-TATTATTA
**
22689 TTATATTATATTA-TACCA-TA
1 TT-TATTATATTATTATTATTA
22709 TTATATT-TATTATTATTATTA
1 TT-TATTATATTATTATTATTA
22730 -TTATTATTATTATTATTATTA
1 TTTATTA-TATTATTATTATTA
*
22751 TATATT
1 TTTATT
22757 TTCATTTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
19 10 0.12
20 21 0.25
21 44 0.52
22 9 0.11
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATTATATTATTATTATTA
Found at i:22723 original size:3 final size:3
Alignment explanation
Indices: 22715--22756 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
22705 CATATTATAT
22715 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
22757 TTCATTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23651 original size:20 final size:20
Alignment explanation
Indices: 23628--23665 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23618 TTTTTCATTT
*
23628 TTTTTATTT-TTTGATTTTGA
1 TTTTAATTTATTT-ATTTTGA
23648 TTTTAATTTATTTATTTT
1 TTTTAATTTATTTATTTT
23666 TAACCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTAATTTATTTATTTTGA
Found at i:24873 original size:54 final size:54
Alignment explanation
Indices: 24804--24911 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
24794 TATCAGAAAA
*
24804 TCCACTTACTCTTTAAACACAACACCTTGAAAAGCCTATCAAACATATGGAGTG
1 TCCACTTACTCTTTAAACACAACACCTTGAAAAGCCTATCAAACATATAGAGTG
* *
24858 TCCATTTACTCTTTAAACACAACACCTTGAAAAGCCTATCAGACATATAGAGTG
1 TCCACTTACTCTTTAAACACAACACCTTGAAAAGCCTATCAAACATATAGAGTG
24912 GTATGACCCC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (54 bp):
TCCACTTACTCTTTAAACACAACACCTTGAAAAGCCTATCAAACATATAGAGTG
Found at i:34942 original size:89 final size:89
Alignment explanation
Indices: 34791--35269 Score: 446
Period size: 89 Copynumber: 5.4 Consensus size: 89
34781 ATCGTTCTAT
* * * * * * * *
34791 ATGATTCGTGGTTTTATCCCGATCATTAATTTTTGACCTCGACTCGATCCTGGTCACTTTATTTT
1 ATGATTCATGGTTTCATCTCGATCATTCATTTTTAACCTTGACTCGATCTTGGTCACTTTATTTC
** * **
34856 GACTTATGATTTTGTTTTGATCAC
66 GACTCGTGATTTCGTTCCGATCAC
* *
34880 ATGATTCATGGTTTCATTTCGATCATTCATTTTTAACCTTGACTCGATCTTGGTCACTTTATTTG
1 ATGATTCATGGTTTCATCTCGATCATTCATTTTTAACCTTGACTCGATCTTGGTCACTTTATTTC
* *
34945 GACTCGTGATTTCGTTCTGGTCAC
66 GACTCGTGATTTCGTTCCGATCAC
* ** * * * ** * *
34969 ATGATTCGTAATTTCAT-TCCTATCATTTATTTTTAACCTCGACTTAATCTTGATCCCTTTATTT
1 ATGATTCATGGTTTCATCT-CGATCATTCATTTTTAACCTTGACTCGATCTTGGTCACTTTATTT
* * * * *
35033 CGACTCATGATTTCATCCCGGTTAC
65 CGACTCGTGATTTCGTTCCGATCAC
* * * * *
35058 ATGATTCATGGTTTCGA-CTCAATCATTCATTTTTTATCTTGACTTGAT-TCTGGTCGCTTTATT
1 ATGATTCATGGTTTC-ATCTCGATCATTCATTTTTAACCTTGACTCGATCT-TGGTCACTTTATT
*
35121 TTGACTCGTGATTTCG-TCTCGATCAC
64 TCGACTCGTGATTTCGTTC-CGATCAC
* * * * ** * *
35147 ATGATTCAGGGTTTCATATCGATCATTTATTCTCGACTTTAACTCGATCTTGGTCACTTTATTTC
1 ATGATTCATGGTTTCATCTCGATCATTCATTTTTAACCTTGACTCGATCTTGGTCACTTTATTTC
* *
35212 GACTCGTGATTTC-ATCCCAGTCAC
66 GACTCGTGATTTCGTTCCGA-TCAC
35236 ATGATTCATGGTTTCATCTCGATCATTCATTTTT
1 ATGATTCATGGTTTCATCTCGATCATTCATTTTT
35270 GACATCGACT
Statistics
Matches: 315, Mismatches: 66, Indels: 18
0.79 0.17 0.05
Matches are distributed among these distances:
88 6 0.02
89 306 0.97
90 3 0.01
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (89 bp):
ATGATTCATGGTTTCATCTCGATCATTCATTTTTAACCTTGACTCGATCTTGGTCACTTTATTTC
GACTCGTGATTTCGTTCCGATCAC
Found at i:35503 original size:111 final size:111
Alignment explanation
Indices: 35313--35516 Score: 270
Period size: 111 Copynumber: 1.8 Consensus size: 111
35303 ATTTTATCCC
* *
35313 GATCATTTATTTTAGATCTTGACTCGATCTTGGTCACTTCATTTGACTCATGGTTTCGTTATGGT
1 GATCATTTATTTTAGATCTTGACTCGATCTTGGTCACCTCATTTGACTCATGGTTTCGTTACGGT
* * *
35378 GGCTTAATCCTGGCTTAGTCCATATCATGATTCATGGTTTCGTCCT
66 GACTTAATCCTGGCTCAGTCCAGATCATGATTCATGGTTTCGTCCT
* *
35424 GATCATTTATTCTT-GATCTTGACTCGATCCTT-GTCCCCTCATTTGACTCGTGGTTTCGTCT-C
1 GATCATTTATT-TTAGATCTTGACTCGAT-CTTGGTCACCTCATTTGACTCATGGTTTCGT-TAC
* * *
35486 GGTTACTTGATCTTGGCTCAGTCCAGATCAT
63 GGTGACTTAATCCTGGCTCAGTCCAGATCAT
35517 TTTTTATGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
111 74 0.93
112 6 0.08
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.42
Consensus pattern (111 bp):
GATCATTTATTTTAGATCTTGACTCGATCTTGGTCACCTCATTTGACTCATGGTTTCGTTACGGT
GACTTAATCCTGGCTCAGTCCAGATCATGATTCATGGTTTCGTCCT
Found at i:36020 original size:9 final size:9
Alignment explanation
Indices: 36008--36032 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35998 TATTATTATA
36008 TTTTTTCAT
1 TTTTTTCAT
36017 TTTTTTCAT
1 TTTTTTCAT
36026 TTTTTTC
1 TTTTTTC
36033 TCTTCTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:36898 original size:14 final size:15
Alignment explanation
Indices: 36879--36913 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
36869 GCGAGTTTTT
36879 TTTTAATTT-TTTAA
1 TTTTAATTTATTTAA
*
36893 TTTTAATTTATTTAT
1 TTTTAATTTATTTAA
36908 TTTTAA
1 TTTTAA
36914 CCATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTAATTTATTTAA
Found at i:36912 original size:21 final size:20
Alignment explanation
Indices: 36885--36937 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
36875 TTTTTTTTAA
36885 TTTTTTAATTTTAATTTATT
1 TTTTTTAATTTTAATTTATT
*** *
36905 TATTTTTAACCATATTTTATT
1 T-TTTTTAATTTTAATTTATT
36926 TTTTTTAATTTT
1 TTTTTTAATTTT
36938 TTTAAAATAA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTAATTTTAATTTATT
Found at i:37000 original size:25 final size:26
Alignment explanation
Indices: 36943--37005 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
36933 ATTTTTTTAA
36943 AATAAAAAAATTATTCTATCTGTTTC
1 AATAAAAAAATTATTCTATCTGTTTC
* * *
36969 AAAAAAAAAATTATTCTGTCT-TTTT
1 AATAAAAAAATTATTCTATCTGTTTC
*
36994 TATAAAAAAATT
1 AATAAAAAAATT
37006 CTAAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (26 bp):
AATAAAAAAATTATTCTATCTGTTTC
Found at i:41295 original size:13 final size:13
Alignment explanation
Indices: 41277--41302 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41267 TTAAAGAGTT
41277 AAAGTAGTTAAGA
1 AAAGTAGTTAAGA
41290 AAAGTAGTTAAGA
1 AAAGTAGTTAAGA
41303 CTTATGATGC
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:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
AAAGTAGTTAAGA
Found at i:43975 original size:13 final size:13
Alignment explanation
Indices: 43957--43986 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43947 CAATGTCTAT
43957 ATATGTTCTTTAG
1 ATATGTTCTTTAG
*
43970 ATATGTTCTTTAT
1 ATATGTTCTTTAG
43983 ATAT
1 ATAT
43987 AGTTAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (13 bp):
ATATGTTCTTTAG
Found at i:45903 original size:162 final size:162
Alignment explanation
Indices: 45172--46347 Score: 729
Period size: 162 Copynumber: 7.3 Consensus size: 162
45162 ATCAAAGGGT
* * * * * * * *
45172 AAAAATGTAAATATGCAGTTATTTTTTTGTTTTAACAATTT-GAAAAACTTCAATACATTATATT
1 AAAAATGTCAATTTGCAGTTATTTTTATATTTTAACAGTTTAG-ATAGCTTCAATACATAATATT
*** * ** *
45236 AAACTTGCCCAAATGATTGAACTTGATTTTCAT-AGTTGATACATGTG-AAAAGTTACCGTTTAT
65 AAACTTTTTCGAATGATTGAACTTGATTTTCATGA-TTGATATGTGTGAAAAAGTTACCATTTAT
* * ** * *
45299 ATCTTTTTAAGACTTCGTTGTGCAGTTAAAG-GAC
129 GTCTTTTTAGGACTTTTTTATGCCGTTAAAGAG-C
* * * * * * * *
45333 AAAAATATAAATATGCAGTTATATTTAT-GTTTAAGAGTTTAGATAGCTTAAATACATGATATTA
1 AAAAATGTCAATTTGCAGTTATTTTTATATTTTAACAGTTTAGATAGCTTCAATACATAATATTA
* * * ***
45397 AAC-TTGTCTAAATTATTGAACTT-AGTTTTCCATGATTG--ATGTGTGAAAAAGTTATTGTTTA
66 AACTTTTTC-GAATGATTGAACTTGA-TTTT-CATGATTGATATGTGTGAAAAAGTTACCATTTA
* * * *
45458 TGTCTATTTAGCACTTTTTTGTGCCGTTAAA-AGGT
128 TGTCTTTTTAGGACTTTTTTATGCCGTTAAAGA-GC
* * * ** * * * *
45493 TAGAATG-CAAATTTACTTTTATTATTCTATTTTAACAGTTTAGATAACTTCAATAAATAATATT
1 AAAAATGTC-AATTTGCAGTTATTTTTATATTTTAACAGTTTAGATAGCTTCAATACATAATATT
* ** * ** *
45557 AAACTTGTTT-GAATGATTGAACTT-AGTTTGCATGGCTGATATGTGTAAAAAAGTTGTCATTAA
65 AAACTT-TTTCGAATGATTGAACTTGA-TTTTCATGATTGATATGTGTGAAAAAGTTACCATTTA
* * **
45620 TGTCTATTTAGGA-TTTTTTATACTATTAAA-AGGC
128 TGTCTTTTTAGGACTTTTTTATGCCGTTAAAGA-GC
* * * * *
45654 CAAAATG-CAAATTT--ATGTTTATTATT-T-TTTTAATAGTTTAGATAGTTTCAGTACATAATA
1 AAAAATGTC-AATTTGCA-G-TTATTTTTATATTTTAACAGTTTAGATAGCTTCAATACATAATA
* * ** * *
45714 TTAAACTTGTCCGGGTAATTGAACTTGATTTTTATGATTGATATGTGTGAAAAAGTTACCATTTA
63 TTAAACTTTTTCGAATGATTGAACTTGATTTTCATGATTGATATGTGTGAAAAAGTTACCATTTA
* *
45779 TGTCTTTTTAGGACTTTGTTATGCCGTTAAAGAGT
128 TGTCTTTTTAGGACTTTTTTATGCCGTTAAAGAGC
* * * * * * *
45814 AAAAATGTCATTTTGCAATTATTTTTATACTTTAACAATTTAGATAGCTTAAATGCATTATATTA
1 AAAAATGTCAATTTGCAGTTATTTTTATATTTTAACAGTTTAGATAGCTTCAATACATAATATTA
* * * * *
45879 AACTTTTTCGAATGATTGAACTTGATTTCCATGAATAATATGTGTGAAAAAGTTACCACTTATAT
66 AACTTTTTCGAATGATTGAACTTGATTTTCATGATTGATATGTGTGAAAAAGTTACCATTTATGT
* * * *
45944 CTGTTTAGCACTTTTTTATGTCGATAAA-AGGC
131 CTTTTTAGGACTTTTTTATGCCGTTAAAGA-GC
* * * * * * *
45976 CAAAATG-CAAATTTGTATTTATTATTCTATTTTGACAGTTTAGATAGTTTCAATACATAATATT
1 AAAAATGTC-AATTTGCAGTTATTTTTATATTTTAACAGTTTAGATAGCTTCAATACATAATATT
* * * * * ***
46040 AAAC-TTGTCTAAATGATTGAACTTGGTTTTCACGATTGATATGTGTGAAAATGTTATGGTTTAT
65 AAACTTTTTC-GAATGATTGAACTTGATTTTCATGATTGATATGTGTGAAAAAGTTACCATTTAT
* * * **
46104 ATCTTTTTAGGACTTTATTACGTTGTTAAATG-GC
129 GTCTTTTTAGGACTTTTTTATGCCGTTAAA-GAGC
* * ** * * *
46138 AAAAATAT-AATTTTACAGTTACATTTATGTTTTAATAGTTTAGATAGCTTCAATACATGATATT
1 AAAAATGTCAA-TTTGCAGTTATTTTTATATTTTAACAGTTTAGATAGCTTCAATACATAATATT
* * * ** * * * * *
46202 AAACTTGTTCGAATGATTGAATTTGGTTTTCACCATTTGCTATATATGAATAAGTTACGATTTAT
65 AAACTTTTTCGAATGATTGAACTTGATTTTCATGA-TTGATATGTGTGAAAAAGTTACCATTTAT
** *
46267 GTCTGATTAGGACTTTTTGTA--ACGTTAAA-AGGC
129 GTCTTTTTAGGACTTTTT-TATGCCGTTAAAGA-GC
* * * * * *
46300 AAAAATGTAAATTAT--AATTATTGTTCTGTTTTAATAGTTTAGATAGCT
1 AAAAATGTCAATT-TGCAGTTATTTTTATATTTTAACAGTTTAGATAGCT
46348 CCTATTACAT
Statistics
Matches: 790, Mismatches: 186, Indels: 78
0.75 0.18 0.07
Matches are distributed among these distances:
158 1 0.00
159 96 0.12
160 139 0.18
161 158 0.20
162 350 0.44
163 44 0.06
164 2 0.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (162 bp):
AAAAATGTCAATTTGCAGTTATTTTTATATTTTAACAGTTTAGATAGCTTCAATACATAATATTA
AACTTTTTCGAATGATTGAACTTGATTTTCATGATTGATATGTGTGAAAAAGTTACCATTTATGT
CTTTTTAGGACTTTTTTATGCCGTTAAAGAGC
Found at i:46298 original size:324 final size:319
Alignment explanation
Indices: 45362--46345 Score: 946
Period size: 324 Copynumber: 3.1 Consensus size: 319
45352 TATATTTATG
* * * * * *
45362 TTTAAGAGTTTAGATAGCTTAAATACATGATATTAAACTTGTCTAAATTATTGAACTTAGTTTTC
1 TTTAATAGTTTAGATAGTTTCAATACATAATATTAAACTTGTCTAAATAATTGAACTTGGTTTT-
* * * * *
45427 CATGATTG--ATGTGTGAAAAAGTTATTGTTTATGTCTATTTAGCACTTTTTTGTGCCGTTAAAA
65 CATGATTGATATGTGTGAAAAAGTTATCGTTTATGTCTTTTTAGGACTTTATTATGCCGTT-AAA
* * * * ** * *
45490 GGTTAGAATGCAAATTTACTTTTATTATTCTA-TTTTAACAGTTTAGATAACTTCAATAAATAAT
129 GGTAAAAATGTAATTTTACAATTA-TATT-TATTTTTAACAGTTTAGATAGCTTCAATACATAAT
* * * * *
45554 ATTAAACTTGTTTGAATGATTGAACTTAG-TTT--GCATGGCTGATATGTGTAAAAAAGTTGTCA
192 ATTAAACTTGTTCGAATGATTGAACTTGGTTTTCACCATTGCT-ATATGTG--AAAAAGTT-ACA
* * *
45616 TTAATGTCT-ATTTAGGA-TTTTTTATACTATTAAAAGGCCAAAATGCAAATTTATGTTTATTAT
253 TTTATGTCTGA-TTAGGACTTTTTTATAC-GTTAAAAGGCCAAAATGCAAATTTATATTTATTAT
45679 T-TT
316 TCTT
* **** * *
45682 TTTAATAGTTTAGATAGTTTCAGTACATAATATTAAACTTGTCCGGGTAATTGAACTTGATTTTT
1 TTTAATAGTTTAGATAGTTTCAATACATAATATTAAACTTGTCTAAATAATTGAACTTGGTTTTC
* * *
45747 ATGATTGATATGTGTGAAAAAGTTACCATTTATGTCTTTTTAGGACTTTGTTATGCCGTTAAAGA
66 ATGATTGATATGTGTGAAAAAGTTATCGTTTATGTCTTTTTAGGACTTTATTATGCCGTTAAAG-
* * * * * * * *
45812 GTAAAAATGTCATTTTGCAATTATTTTTATACTTTAACAATTTAGATAGCTTAAATGCATTATAT
130 GTAAAAATGTAATTTTACAATTATATTTAT-TTTTAACAGTTTAGATAGCTTCAATACATAATAT
* * * ** * ** * *
45877 TAAACTTTTTCGAATGATTGAACTTGATTTCCATGAATAATATGTGTGAAAAAGTTACCACTTAT
194 TAAACTTGTTCGAATGATTGAACTTGGTTTTCACCATTGCTATATGTGAAAAAGTTA-CATTTAT
* * * * * *
45942 ATCTGTTTAGCACTTTTTTATGTCGATAAAAGGCCAAAATGCAAATTTGTATTTATTATTCTAT
258 GTCTGATTAGGACTTTTTTAT-ACGTTAAAAGGCCAAAATGCAAATTTATATTTATTATTCT-T
* * *
46006 TTTGACAGTTTAGATAGTTTCAATACATAATATTAAACTTGTCTAAATGATTGAACTTGGTTTTC
1 TTTAATAGTTTAGATAGTTTCAATACATAATATTAAACTTGTCTAAATAATTGAACTTGGTTTTC
* * * * * **
46071 ACGATTGATATGTGTGAAAATGTTATGGTTTATATCTTTTTAGGACTTTATTACGTTGTTAAATG
66 ATGATTGATATGTGTGAAAAAGTTATCGTTTATGTCTTTTTAGGACTTTATTATGCCGTTAAA-G
* * * * * *
46136 GCAAAAATATAATTTTACAGTTACATTTATGTTTTAATAGTTTAGATAGCTTCAATACATGATAT
130 GTAAAAATGTAATTTTACAATTATATTTAT-TTTTAACAGTTTAGATAGCTTCAATACATAATAT
* * *
46201 TAAACTTGTTCGAATGATTGAATTTGGTTTTCACCATTTGCTATATATGAATAAGTTACGATTTA
194 TAAACTTGTTCGAATGATTGAACTTGGTTTTCACCA-TTGCTATATGTGAAAAAGTTAC-ATTTA
* * * *
46266 TGTCTGATTAGGACTTTTTGTA-ACGTTAAAAGGCAAAAATGTAAA-TTATAATTATTGTTCTGT
257 TGTCTGATTAGGACTTTTT-TATACGTTAAAAGGCCAAAATGCAAATTTATATTTATTATTCT-T
46329 TTTAATAGTTTAGATAG
1 TTTAATAGTTTAGATAG
46346 CTCCTATTAC
Statistics
Matches: 527, Mismatches: 119, Indels: 33
0.78 0.18 0.05
Matches are distributed among these distances:
319 9 0.02
320 59 0.11
321 130 0.25
322 42 0.08
323 37 0.07
324 212 0.40
325 36 0.07
326 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (319 bp):
TTTAATAGTTTAGATAGTTTCAATACATAATATTAAACTTGTCTAAATAATTGAACTTGGTTTTC
ATGATTGATATGTGTGAAAAAGTTATCGTTTATGTCTTTTTAGGACTTTATTATGCCGTTAAAGG
TAAAAATGTAATTTTACAATTATATTTATTTTTAACAGTTTAGATAGCTTCAATACATAATATTA
AACTTGTTCGAATGATTGAACTTGGTTTTCACCATTGCTATATGTGAAAAAGTTACATTTATGTC
TGATTAGGACTTTTTTATACGTTAAAAGGCCAAAATGCAAATTTATATTTATTATTCTT
Found at i:52034 original size:17 final size:17
Alignment explanation
Indices: 51989--52035 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
51979 ATCATCATGG
* * *
51989 TAATTTAATCACTAAGA
1 TAATTTTATCATTAAAA
*
52006 TAATTATATCATTAAAA
1 TAATTTTATCATTAAAA
52023 TAATTTTATCATT
1 TAATTTTATCATT
52036 TGTGATCTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (17 bp):
TAATTTTATCATTAAAA
Found at i:55191 original size:2 final size:2
Alignment explanation
Indices: 55184--55218 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
55174 GCAGTCTTTC
55184 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55219 TTGCTTCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:62773 original size:17 final size:17
Alignment explanation
Indices: 62748--62802 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
62738 TTTTAAAATT
*
62748 ATTATGATAATTTAATC
1 ATTAAGATAATTTAATC
*
62765 ATTAAGATAA-TTATATT
1 ATTAAGATAATTTA-ATC
* *
62782 ATTAAAATAATTTTATC
1 ATTAAGATAATTTAATC
62799 ATTA
1 ATTA
62803 GTGATTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 3 0.10
17 26 0.84
18 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (17 bp):
ATTAAGATAATTTAATC
Found at i:64165 original size:233 final size:233
Alignment explanation
Indices: 63758--64224 Score: 731
Period size: 233 Copynumber: 2.0 Consensus size: 233
63748 GAATTTTATA
* * * *
63758 TGGATGAAAAACTCTTTGAGTCTATTGTCTAATGGAGCAAATAAAATCTAAACCTAAATTTTCTA
1 TGGATGAAAAACTCTTTAAGTCTATTGTATAATGAAGCAAACAAAATCTAAACCTAAATTTTCTA
* *
63823 AGAAATGATTTTGAATTTTTACTAGAGACTATGTAATTATTAAACTACAGCATAAAGGTTAGTTT
66 AGAAATGATTTTGAATTTTTACTAGAGACTATGCAATTATTAAACTACAGCATAAAGGATAGTTT
* * *
63888 TAAAAATTCATTATAATTTTTATACATTGAATGAGATGATAAATTTTGTATGGATAGAAAGCCCC
131 TAAAAATTCACTATAATTTTTATACATTGAATGAGATAATAAATTTTATATGGATAGAAAGCCCC
*
63953 TTAAGTATAG-TTTCTAAATCTTCAAACAAATCTTGATT
196 TTAAGTATAGTTTTC-AAATCTTCAAACAAATCTTAATT
* * * *
63991 TGGATGAAAAACTTTTTAAGTCTACTT-TATAATGAAGTAAACAAAATCTAAATCTAAATTTTTT
1 TGGATGAAAAACTCTTTAAGTCTA-TTGTATAATGAAGCAAACAAAATCTAAACCTAAATTTTCT
64055 AAGAAATGATTTTGAATTTTTACTAGAGACTATGCAATTATTAAACTACAGCATAAAGGATAGTT
65 AAGAAATGATTTTGAATTTTTACTAGAGACTATGCAATTATTAAACTACAGCATAAAGGATAGTT
* * * *
64120 TTGAAAATTCACTATAATTTTTATACATTGAATTAGATAATAAATTTTATATGGATAGAACGTCC
130 TTAAAAATTCACTATAATTTTTATACATTGAATGAGATAATAAATTTTATATGGATAGAAAGCCC
*
64185 CTTAAGTATAGTTTTCAAATCTTCAAACAGATCTTAATT
195 CTTAAGTATAGTTTTCAAATCTTCAAACAAATCTTAATT
64224 T
1 T
64225 AGAATTATAT
Statistics
Matches: 213, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
233 207 0.97
234 6 0.03
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (233 bp):
TGGATGAAAAACTCTTTAAGTCTATTGTATAATGAAGCAAACAAAATCTAAACCTAAATTTTCTA
AGAAATGATTTTGAATTTTTACTAGAGACTATGCAATTATTAAACTACAGCATAAAGGATAGTTT
TAAAAATTCACTATAATTTTTATACATTGAATGAGATAATAAATTTTATATGGATAGAAAGCCCC
TTAAGTATAGTTTTCAAATCTTCAAACAAATCTTAATT
Found at i:64392 original size:21 final size:21
Alignment explanation
Indices: 64363--64419 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
64353 CCTATAAAAT
*
64363 GGATTGATCCATTCTAAAAGC
1 GGATCGATCCATTCTAAAAGC
* * *
64384 GGATCGATCCCCTAC-AAAAGT
1 GGATCGAT-CCATTCTAAAAGC
*
64405 GGATCGATTCATTCT
1 GGATCGATCCATTCT
64420 TCTGCAATGA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
20 3 0.11
21 20 0.74
22 4 0.15
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (21 bp):
GGATCGATCCATTCTAAAAGC
Found at i:66272 original size:13 final size:13
Alignment explanation
Indices: 66254--66294 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
66244 ACATAATCAA
66254 ATAATAATTAAAT
1 ATAATAATTAAAT
66267 ATAATAATTAAAT
1 ATAATAATTAAAT
* *
66280 ACAA-AATTTAAT
1 ATAATAATTAAAT
66292 ATA
1 ATA
66295 TGTGATCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATTAAAT
Found at i:66293 original size:25 final size:24
Alignment explanation
Indices: 66246--66294 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
66236 AGTAATGTAC
*
66246 ATAATCAAATAATAATTAAATATA
1 ATAATCAAATAAAAATTAAATATA
* *
66270 ATAATTAAATACAAAATTTAATATA
1 ATAATCAAATA-AAAATTAAATATA
66295 TGTGATCACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAATCAAATAAAAATTAAATATA
Found at i:69417 original size:54 final size:54
Alignment explanation
Indices: 69359--69462 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
69349 TAATGCTTGG
* *
69359 ATTTTATGAAATATTTTTGAAACATGTTTGTTTTGTGCTTAACTGATTTACTAA
1 ATTTTATGAAATATTTTTGAAACATGCTTGTTATGTGCTTAACTGATTTACTAA
* * * *
69413 ATTTTGTGAAATATTTTTGAAATATGCTTGTTATGTTCTTAATTGATTTA
1 ATTTTATGAAATATTTTTGAAACATGCTTGTTATGTGCTTAACTGATTTA
69463 TCTCTTTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (54 bp):
ATTTTATGAAATATTTTTGAAACATGCTTGTTATGTGCTTAACTGATTTACTAA
Found at i:71760 original size:14 final size:14
Alignment explanation
Indices: 71741--71770 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71731 ATGCTCTAAA
71741 TTGAAAATATTTGC
1 TTGAAAATATTTGC
*
71755 TTGAAATTATTTGC
1 TTGAAAATATTTGC
71769 TT
1 TT
71771 CTGAATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (14 bp):
TTGAAAATATTTGC
Found at i:79016 original size:19 final size:19
Alignment explanation
Indices: 78992--79031 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
78982 GTTGTCAAAA
*
78992 TTTTTTATTAAAAATGGTT
1 TTTTTTATTAAAAATAGTT
79011 TTTTTTATTAAAAATAGTT
1 TTTTTTATTAAAAATAGTT
79030 TT
1 TT
79032 AATAGAGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTTTATTAAAAATAGTT
Found at i:84997 original size:21 final size:21
Alignment explanation
Indices: 84973--85017 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
84963 TTTGAAAAAC
* *
84973 ATTTTACGAAGAATTGTCAAT
1 ATTTTACAAAGAATTATCAAT
84994 ATTTTACAAAGAATTATCAAT
1 ATTTTACAAAGAATTATCAAT
85015 ATT
1 ATT
85018 GGAAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
ATTTTACAAAGAATTATCAAT
Found at i:89307 original size:16 final size:16
Alignment explanation
Indices: 89286--89321 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
89276 CATTTCTTTC
89286 TTTATACTTGAAAATT
1 TTTATACTTGAAAATT
89302 TTTATACTTGAAAATT
1 TTTATACTTGAAAATT
89318 TTTA
1 TTTA
89322 ATATTTCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTATACTTGAAAATT
Found at i:91967 original size:3 final size:3
Alignment explanation
Indices: 91959--91993 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
91949 CTCTTCCTTG
91959 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
91994 CTTCATCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:95870 original size:55 final size:55
Alignment explanation
Indices: 95811--95922 Score: 167
Period size: 55 Copynumber: 2.0 Consensus size: 55
95801 TGAGTTTTGG
95811 TTACCAA-TATGTTGAGTTTTTATCT-GTTGTT-TATTTGTTGAAATTTGTTTGGGTT
1 TTACCAAGT-TGTTGAGTTTTTAT-TGGTT-TTATATTTGTTGAAATTTGTTTGGGTT
*
95866 TTACCAAGTTGTTGAGTTTTTGTTGGTTTTATATTTGTTGAAATTTGTTTGGGTT
1 TTACCAAGTTGTTGAGTTTTTATTGGTTTTATATTTGTTGAAATTTGTTTGGGTT
95921 TT
1 TT
95923 GGTTATATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
54 3 0.06
55 49 0.92
56 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.21, T:0.57
Consensus pattern (55 bp):
TTACCAAGTTGTTGAGTTTTTATTGGTTTTATATTTGTTGAAATTTGTTTGGGTT
Found at i:95916 original size:29 final size:29
Alignment explanation
Indices: 95842--95944 Score: 81
Period size: 33 Copynumber: 3.5 Consensus size: 29
95832 ATCTGTTGTT
95842 TATTTGTTGAAATTTGTTTG--GGTTTTA
1 TATTTGTTGAAATTTGTTTGTTGGTTTTA
* * *
95869 CCAAGTTGTTG--AGTT-TTTGTTGGTTTTA
1 --TATTTGTTGAAATTTGTTTGTTGGTTTTA
*
95897 TATTTGTTGAAATTTGTTTGGGTTTTGGTTATA
1 TATTTGTTGAAATTTGTTT--G--TTGGTTTTA
95930 TATTTGTTGAAATTT
1 TATTTGTTGAAATTT
95945 ATTGGTTACA
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
26 11 0.19
27 3 0.05
28 10 0.17
29 10 0.17
31 1 0.02
33 23 0.40
ACGTcount: A:0.18, C:0.02, G:0.22, T:0.57
Consensus pattern (29 bp):
TATTTGTTGAAATTTGTTTGTTGGTTTTA
Found at i:96295 original size:22 final size:21
Alignment explanation
Indices: 96265--96336 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
96255 TTAAAGTTAT
96265 AATTTATATATTGTTTTGAAG
1 AATTTATATATTGTTTTGAAG
*
96286 AACTTTATATA-T-TATT-AAG
1 AA-TTTATATATTGTTTTGAAG
*
96305 -ATTTATAT-TTGTTTTGAAAT
1 AATTTATATATTGTTTTG-AAG
96325 AATTTATATATT
1 AATTTATATATT
96337 TGATAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
17 8 0.20
18 4 0.10
19 3 0.07
20 5 0.12
21 11 0.27
22 10 0.24
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.54
Consensus pattern (21 bp):
AATTTATATATTGTTTTGAAG
Found at i:97318 original size:54 final size:54
Alignment explanation
Indices: 97236--97344 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
97226 ATAAAAATAA
97236 AAAATTCCTATAGTAGAATGGTTATAGATGCTATATATCTTGATTTTGAGATGG
1 AAAATTCCTATAGTAGAATGGTTATAGATGCTATATATCTTGATTTTGAGATGG
*
97290 AAAATTCCTATAGTAGAATGGTTATAGATGCTATATATCTTGATTTTGATATGG
1 AAAATTCCTATAGTAGAATGGTTATAGATGCTATATATCTTGATTTTGAGATGG
97344 A
1 A
97345 CGCAACAAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.39
Consensus pattern (54 bp):
AAAATTCCTATAGTAGAATGGTTATAGATGCTATATATCTTGATTTTGAGATGG
Found at i:103096 original size:15 final size:15
Alignment explanation
Indices: 103076--103108 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
103066 GATGGATGCT
*
103076 ATGGATTTTTTATAG
1 ATGGATATTTTATAG
103091 ATGGATATTTTATAG
1 ATGGATATTTTATAG
103106 ATG
1 ATG
103109 TTATAGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
ATGGATATTTTATAG
Found at i:103707 original size:22 final size:22
Alignment explanation
Indices: 103653--103715 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
103643 ATAAAGAAAT
*
103653 AATTTTAA-ATATA-TTTTTAA
1 AATTTTAATATTTATTTTTTAA
*
103673 AA-TTAAATGTATTTATTTTTTAA
1 AATTTTAA--TATTTATTTTTTAA
*
103696 AATTTTAATATTAATTTTTT
1 AATTTTAATATTTATTTTTT
103716 TATGAGGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
22 15 0.44
23 9 0.26
24 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
AATTTTAATATTTATTTTTTAA
Found at i:109020 original size:2 final size:2
Alignment explanation
Indices: 109007--109040 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
108997 ACAAAAGGAA
*
109007 AT AT AT AA 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
109041 CCTCCATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:115126 original size:3 final size:3
Alignment explanation
Indices: 115118--115151 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
115108 TAACACTACG
115118 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
115152 GTATATTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:116159 original size:2 final size:2
Alignment explanation
Indices: 116152--116180 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
116142 ATTTTGGGAC
116152 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 A
116181 ACAAAACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121107 original size:3 final size:3
Alignment explanation
Indices: 121099--121138 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
121089 AGTCAGCAAC
*
121099 ATA ATA ATA ATA AT- ATA ACA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
121139 GAGGCAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:122015 original size:57 final size:58
Alignment explanation
Indices: 121921--122188 Score: 362
Period size: 58 Copynumber: 4.7 Consensus size: 58
121911 TTGTGCAGAA
* *
121921 AAAATTGATACTTTCAACTTTTCCCC-AAAATATTTTTTAGAAATTTTAATCTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAACTTTAATTTCGAGG
* * * *
121978 AAAATTGATACTTTCAACTTTTCCCCAAAATTATTTTTTGGAAACCTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAACTTTAATTTCGAGG
* ** * * **
122036 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-CGTTTTA-AAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAACTTTAATTTCGAGG
* * * *
122092 AAAATTGGTACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAACTTTAATTTCGAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAACTTTAATTTCGAGG
122150 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
122189 TTAGATTTTA
Statistics
Matches: 178, Mismatches: 30, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
56 40 0.22
57 34 0.19
58 104 0.58
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.42
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAACTTTAATTTCGAGG
Found at i:122130 original size:114 final size:113
Alignment explanation
Indices: 121918--122186 Score: 387
Period size: 114 Copynumber: 2.4 Consensus size: 113
121908 TTTTTGTGCA
* *
121918 GAAAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAATTTTAATCTCGAGGAAAAT
1 GAAAAAATTGATACTTTCAACTTTTCCCCAAAA-ATGTTTTAGAAATTTTAATCTCAAGGAAAAT
*
121983 TGATACTTTCAACTTTTCCCCAAAATTATTTTTTGGAAACCTTAATTTC
65 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACCTTAATTTC
* * * *
122032 GAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATCGTTTTA-AAATTTTATTTTTAAGGAAAA
1 GA-AAAAATTGATACTTTCAACTTTTCCCCAAAAAT-GTTTTAGAAATTTTAATCTCAAGGAAAA
* * * *
122096 TTGGTACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAACTTTAATTTC
64 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACCTTAATTTC
*
122146 GAAGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTT
1 GAA-AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTT
122187 TTTTAGATTT
Statistics
Matches: 139, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
113 5 0.04
114 99 0.71
115 35 0.25
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (113 bp):
GAAAAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTAGAAATTTTAATCTCAAGGAAAATT
GATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACCTTAATTTC
Found at i:122261 original size:6 final size:6
Alignment explanation
Indices: 122206--122295 Score: 64
Period size: 6 Copynumber: 15.5 Consensus size: 6
122196 TTATTTAAAG
* * * *
122206 AAAAT- AAAATA ATAAA-A CAAAATA AAAGTG AAAATA AAAA-A TAAAGA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
122253 AAAGT- AAAACA AAAATA AAAATA AAAAT- AAAATA AAGATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
122296 GAAATATTAA
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
5 17 0.26
6 43 0.66
7 5 0.08
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:122284 original size:17 final size:17
Alignment explanation
Indices: 122206--122295 Score: 78
Period size: 17 Copynumber: 5.2 Consensus size: 17
122196 TTATTTAAAG
122206 AAAATAAAATAATAAA-A
1 AAAATAAAATAA-AAATA
*
122223 CAAAATAAAAGTGAAAATA
1 -AAAATAAAA-TAAAAATA
* *
122242 AAAA-ATAAAGAAAAGTA
1 AAAATA-AAATAAAAATA
122259 AAACA-AAAATAAAAATA
1 AAA-ATAAAATAAAAATA
*
122276 AAAATAAAATAAAGATA
1 AAAATAAAATAAAAATA
122293 AAA
1 AAA
122296 GAAATATTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
16 1 0.02
17 35 0.58
18 21 0.35
19 3 0.05
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:122293 original size:23 final size:22
Alignment explanation
Indices: 122207--122295 Score: 74
Period size: 23 Copynumber: 3.9 Consensus size: 22
122197 TATTTAAAGA
122207 AAATAAAATAATAAA-ACAAAATA
1 AAATAAAATAA-AAATA-AAAATA
*
122230 AAAGTGAAAATAAAAAATAAAGA-A
1 AAA-T-AAAAT-AAAAATAAAAATA
* *
122254 AAGTAAAACAAAAATAAAAATAA
1 AAATAAAATAAAAATAAAAAT-A
*
122277 AAATAAAATAAAGATAAAA
1 AAATAAAATAAAAATAAAA
122296 GAAATATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
21 10 0.19
22 4 0.08
23 21 0.40
24 4 0.08
25 11 0.21
26 3 0.06
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.15
Consensus pattern (22 bp):
AAATAAAATAAAAATAAAAATA
Found at i:123171 original size:23 final size:23
Alignment explanation
Indices: 123137--123189 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
123127 TCTACAGCCG
123137 AATAAATCAAAAAAATAAAAAAA
1 AATAAATCAAAAAAATAAAAAAA
* * *
123160 AATCAAAT-AAAAATATTAATAAA
1 AAT-AAATCAAAAAAATAAAAAAA
123183 AATAAAT
1 AATAAAT
123190 TAGATAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 18 0.69
24 4 0.15
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (23 bp):
AATAAATCAAAAAAATAAAAAAA
Found at i:123350 original size:15 final size:16
Alignment explanation
Indices: 123330--123363 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
123320 TAAATAGTAG
123330 TAATAAATAAATAA-A
1 TAATAAATAAATAAGA
*
123345 TAATAAATACATAAGA
1 TAATAAATAAATAAGA
123361 TAA
1 TAA
123364 CAATAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
TAATAAATAAATAAGA
Found at i:123427 original size:7 final size:7
Alignment explanation
Indices: 123417--123442 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
123407 AAATAAAATA
123417 AAAATGT
1 AAAATGT
123424 AAAATGT
1 AAAATGT
123431 AAAATGT
1 AAAATGT
123438 AAAAT
1 AAAAT
123443 ACAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AAAATGT
Found at i:123448 original size:14 final size:13
Alignment explanation
Indices: 123400--123448 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
123390 AACAATAATA
123400 AAAATAAAAA--T
1 AAAATAAAAATGT
123411 AAAATAAAAATGT
1 AAAATAAAAATGT
*
123424 AAAATGTAAAATGT
1 AAAAT-AAAAATGT
123438 AAAATACAAAA
1 AAAATA-AAAA
123449 AAAAAATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 10 0.31
13 6 0.19
14 16 0.50
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (13 bp):
AAAATAAAAATGT
Found at i:123764 original size:41 final size:41
Alignment explanation
Indices: 123630--124042 Score: 423
Period size: 42 Copynumber: 10.1 Consensus size: 41
123620 TTGATCAAAA
* * * * *
123630 CTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATGG
1 CTCCTCTAATCAGAGGCACCACGACTTTG-AAAAGTAAATTG
* * * *
123672 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGG
1 CTCCTCTAATCAGAGGCACCACGACTTTG-AAAAGTAAATTG
* * *
123714 CTCTTCTAATCAGAGACACCATGACTTTGAAAAGTAAATTG
1 CTCCTCTAATCAGAGGCACCACGACTTTGAAAAGTAAATTG
*** *
123755 CTCCTCTAATCAGAGGCTTAACGACTTTGAAAAAATAAA-TG
1 CTCCTCTAATCAGAGGCACCACGACTTTG-AAAAGTAAATTG
* * *
123796 ACTCCTCTAATTAGAGGCACCTCAACTTTTGAAAAGTAAATTG
1 -CTCCTCTAATCAGAGGCACCACGAC-TTTGAAAAGTAAATTG
*
123839 CTCCTCTAAAT-AGAGGCACCACAACTTTGAAAAGTAAATTG
1 CTCCTCT-AATCAGAGGCACCACGACTTTGAAAAGTAAATTG
* *
123880 CTCCTCTAAACAGAGGCACCACGACTTT---TAG--AA---
1 CTCCTCTAATCAGAGGCACCACGACTTTGAAAAGTAAATTG
* *
123913 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTA
1 CTCCTCTAATCAGAGGCACCACGACTTTGAAAAGTAAATTG
* * *
123954 CTCCTCTAAACAGAGGCACCACTACTTTTGGAAAGTAAATTG
1 CTCCTCTAATCAGAGGCACCACGAC-TTTGAAAAGTAAATTG
* *
123996 CTCCTCTAAACAGAGGCACCACGACTTTTAGAAAGTAAATTG
1 CTCCTCTAATCAGAGGCACCACGACTTTGA-AAAGTAAATTG
124038 CTCCT
1 CTCCT
124043 TGACAATCAT
Statistics
Matches: 322, Mismatches: 33, Indels: 32
0.83 0.09 0.08
Matches are distributed among these distances:
33 28 0.09
36 4 0.01
38 4 0.01
40 2 0.01
41 101 0.31
42 174 0.54
43 9 0.03
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (41 bp):
CTCCTCTAATCAGAGGCACCACGACTTTGAAAAGTAAATTG
Found at i:123778 original size:83 final size:82
Alignment explanation
Indices: 123629--124023 Score: 373
Period size: 83 Copynumber: 4.9 Consensus size: 82
123619 TTTGATCAAA
* * * * * * *
123629 ACTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAAC
1 ACTCCTCTAAACAGAGGCACCATGACTTTG-AAAAGTAAATTGCTCCTCTAATCAGAGGCACAAC
123694 GACTTTGAAAAAATAAATG
65 GACTTTG-AAAAATAAATG
* * * * **
123713 GCTCTTCTAATCAGAGACACCATGACTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCTTAACG
1 ACTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACAACG
123778 ACTTTGAAAAAATAAATG
66 ACTTTG-AAAAATAAATG
** * *
123796 ACTCCTCTAATTAGAGGCACC-TCAACTTTTGAAAAGTAAATTGCTCCTCTAAAT-AGAGGCACC
1 ACTCCTCTAAACAGAGGCACCAT-GAC-TTTGAAAAGTAAATTGCTCCTCT-AATCAGAGGCACA
* *
123859 ACAACTTTGAAAAGTAAATTG
63 ACGACTTTGAAAAATAAA-TG
* * * *
123880 -CTCCTCTAAACAGAGGCACCACGACTTT---TAG--AA---CTCCTCTAAACAGAGGCACCACG
1 ACTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACAACG
* *
123936 ACTTTGAAAAGTAAATT
66 ACTTTGAAAAATAAATG
* * *
123953 ACTCCTCTAAACAGAGGCACCACT-ACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 ACTCCTCTAAACAGAGGCACCA-TGAC-TTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACAA
124017 CGACTTT
64 CGACTTT
124024 TAGAAAGTAA
Statistics
Matches: 264, Mismatches: 30, Indels: 35
0.80 0.09 0.11
Matches are distributed among these distances:
73 3 0.01
74 56 0.21
75 3 0.01
77 2 0.01
78 2 0.01
79 2 0.01
80 2 0.01
82 4 0.02
83 125 0.47
84 62 0.23
85 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (82 bp):
ACTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCACAACG
ACTTTGAAAAATAAATG
Found at i:123859 original size:125 final size:123
Alignment explanation
Indices: 123630--124023 Score: 448
Period size: 125 Copynumber: 3.2 Consensus size: 123
123620 TTGATCAAAA
* * * *
123630 CTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACG
1 CTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATGACTCCTCTAATCAGAGGCACCACG
* * * *
123695 ACTTTGAAAAAATAAATGGCTCTTCT-AATCAGAGACACCATGACTTTGAAAAGTAAATTG
66 ACTTTG-AAAAGTAAATTGCTCCTCTAAAT-AGAGGCACCAT-ACTTTGAAAAGTAAATTG
* * * * *
123755 CTCCTCTAATCAGAGGCTTAACGACTTTGAAAAAATAAATGACTCCTCTAATTAGAGGCACCTCA
1 CTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATGACTCCTCTAATCAGAGGCACCACG
*
123820 ACTTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAGTAAATTG
66 AC-TTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCA-TACTTTGAAAAGTAAATTG
* * * *
123880 CTCCTCTAAACAGAGGCACCACGACTTT-------TAGA--ACTCCTCTAAACAGAGGCACCACG
1 CTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATGACTCCTCTAATCAGAGGCACCACG
* * *
123936 ACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACTACTTTTGGAAAGTAAATTG
66 ACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCA-TAC-TTTGAAAAGTAAATTG
* *
123996 CTCCTCTAAACAGAGGCACCACGACTTT
1 CTCCTCTAAACAGAGGCTCAACGACTTT
124024 TAGAAAGTAA
Statistics
Matches: 239, Mismatches: 26, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
115 38 0.16
116 65 0.27
118 3 0.01
125 126 0.53
126 7 0.03
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (123 bp):
CTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATGACTCCTCTAATCAGAGGCACCACG
ACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCATACTTTGAAAAGTAAATTG
Found at i:124001 original size:116 final size:116
Alignment explanation
Indices: 123796--124028 Score: 378
Period size: 116 Copynumber: 2.0 Consensus size: 116
123786 AAAATAAATG
** * * *
123796 ACTCCTCTAATTAGAGGCACCTCAACTTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCAC
1 ACTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCAC
123861 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTAGA
66 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTAGA
*
123912 ACTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCAC
1 ACTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCAC
* *
123976 TACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTAGA
66 AAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTAGA
124028 A
1 A
124029 AGTAAATTGC
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
115 38 0.35
116 70 0.65
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (116 bp):
ACTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCAC
AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTAGA
Found at i:135530 original size:57 final size:56
Alignment explanation
Indices: 135442--135875 Score: 443
Period size: 57 Copynumber: 7.7 Consensus size: 56
135432 TTTTATGCAG
* *
135442 GAAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAATTTTAATCTCGA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTT-GAAACTTTAATTTCGA
* * * *
135499 GAAAAATTGACACTTTTAACTTTTCCCCAAAATATCTTTTGAAACTTTAATTTTGA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTGAAACTTTAATTTCGA
* * * **
135555 GAAAAATTGATACTTTCAATTTTTCCTCAAAAAAGTTTTTTG-AA----AATTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAATA-TTTTTTGAAACTTTAATTTCGA
* *
135607 GAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAACCTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTC-CCCAAAATATTTTTT-GAAACTTTAATTTCGA
* * ** * * * **
135665 G-GAAATTGATACTTTCAACTTTTCCTCAAAA-ACCGTTTTAAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAATA-TTTTTTGAAACTTTAATTTCGA
* * *
135720 GAAAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTTGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAAC-TTTTCCCCAAAATA-TTTTTTGAAACTTTAATTTCGA
* * * **
135778 GAAAAATTGATACTTTCAACTTTTCCTCAAAA-ACCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAATA--TTTTTTGAAACTTTAATTTCGA
*
135835 GAAAAATTGATACTTTTAACTTTTCCCCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCCC-AAAATATTTTTT
135876 TTGGATTTTA
Statistics
Matches: 308, Mismatches: 54, Indels: 30
0.79 0.14 0.08
Matches are distributed among these distances:
52 37 0.12
53 7 0.02
54 2 0.01
55 12 0.04
56 70 0.23
57 133 0.43
58 46 0.15
59 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (56 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTGAAACTTTAATTTCGA
Found at i:135622 original size:165 final size:167
Alignment explanation
Indices: 135442--135875 Score: 513
Period size: 165 Copynumber: 2.6 Consensus size: 167
135432 TTTTATGCAG
* *
135442 GAAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAATTTTAATCTCGAGAAAAATT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTT-GAAAATTTAATTTCGAGAAAAATT
* * * *
135507 GACACTTTTAACTTTTCCCCAAAATATCTTTTGAAACTTTAATTTTGAGAAAAATTGATACTTTC
65 GATACTTTTAACTTTTCCCCAAAATATCTTTTAAAAATTTAATTTTAAGAAAAATTGATACTTTC
*
135572 AA-TTTTTCCTCAAAAA-AGTTTTTTG-AA-AATTTTAA
130 AACTTTTT-CTCAAAAATAGTTTTTTGAAATAATTTCAA
* ** *
135607 GAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAACCTTAATTTCGAG-GAAAT
1 GAAAAATTGATACTTTCAACTTTTC-CCCAAAATATTTTTT-GAAAATTTAATTTCGAGAAAAAT
* * * *
135671 TGATACTTTCAACTTTTCCTCAAAA-ACCGTTTTAAAAATTTATTTTTAAGAAAAATTGATACTT
64 TGATACTTTTAACTTTTCCCCAAAATATC-TTTTAAAAATTTAATTTTAAGAAAAATTGATACTT
* * *
135735 TTAACTTTTTCTCAAAAATATTTTTTTGAAACTTTAATTTCGA
128 TCAACTTTTTCTCAAAAATAGTTTTTTGAAA---TAATTTCAA
* * **
135778 GAAAAATTGATACTTTCAACTTTTCCTCAAAA-ACCTTTTTTGAAAATTTATTTTTAAGAAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAATA--TTTTTTGAAAATTTAATTTCGAGAAAAAT
*
135842 TGATACTTTTAACTTTTCCCCAAAAATATTTTTT
64 TGATACTTTTAACTTTTCCCC-AAAATATCTTTT
135876 TTGGATTTTA
Statistics
Matches: 225, Mismatches: 30, Indels: 21
0.82 0.11 0.08
Matches are distributed among these distances:
164 2 0.01
165 93 0.41
166 41 0.18
167 2 0.01
169 1 0.00
170 17 0.08
171 60 0.27
172 8 0.04
173 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (167 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTGAAAATTTAATTTCGAGAAAAATTG
ATACTTTTAACTTTTCCCCAAAATATCTTTTAAAAATTTAATTTTAAGAAAAATTGATACTTTCA
ACTTTTTCTCAAAAATAGTTTTTTGAAATAATTTCAA
Found at i:135932 original size:6 final size:6
Alignment explanation
Indices: 135893--135985 Score: 52
Period size: 6 Copynumber: 15.5 Consensus size: 6
135883 TTATTTAAAG
* * *
135893 AAAAT- AAAATA ATAAA-A CAAAATC AAAGTG AAAATA AAAA-A ATAAA-A
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA A-AAATA
* * *
135940 AAAATA AAAAAA GTAAAACA AAAATA AAAAT- AAAATA AAGATA AAA
1 AAAATA AAAATA --AAAATA AAAATA AAAATA AAAATA AAAATA AAA
135986 GAAATATTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
5 15 0.22
6 45 0.65
7 4 0.06
8 5 0.07
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:135943 original size:17 final size:18
Alignment explanation
Indices: 135923--135991 Score: 79
Period size: 17 Copynumber: 3.8 Consensus size: 18
135913 AATCAAAGTG
135923 AAAATAAAAAAATAAAA-
1 AAAATAAAAAAATAAAAC
135940 AAAATAAAAAAAGTAAAAC
1 AAAATAAAAAAA-TAAAAC
* *
135959 AAAA-ATAAAAATAAAAT
1 AAAATAAAAAAATAAAAC
135976 AAAGATAAAAGAAATA
1 AAA-ATAAAA-AAATA
135992 TTAAATAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 20 0.45
18 12 0.27
19 7 0.16
20 5 0.11
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAATAAAAAAATAAAAC
Found at i:135957 original size:9 final size:8
Alignment explanation
Indices: 135923--135974 Score: 61
Period size: 8 Copynumber: 6.1 Consensus size: 8
135913 AATCAAAGTG
135923 AAAATAAA
1 AAAATAAA
135931 AAAATAAAA
1 AAAAT-AAA
135940 AAAATAAA
1 AAAATAAA
135948 AAAAGTAAA
1 AAAA-TAAA
135957 ACAAA-AATA
1 A-AAATAA-A
135966 AAAATAAA
1 AAAATAAA
135974 A
1 A
135975 TAAAGATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
8 19 0.49
9 17 0.44
10 3 0.08
ACGTcount: A:0.85, C:0.02, G:0.02, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:135975 original size:48 final size:47
Alignment explanation
Indices: 135888--135978 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 47
135878 GGATTTTATT
* * * *
135888 TAAAGAAAATAAAATAATAAAACAAAATCAAAGTGAAAATAAAAAAA
1 TAAAAAAAATAAAAAAATAAAACAAAATAAAAATGAAAATAAAAAAA
135935 TAAAAAAAATAAAAAAAGTAAAACAAAAATAAAAAT-AAAATAAA
1 TAAAAAAAATAAAAAAA-TAAAAC-AAAATAAAAATGAAAATAAA
135979 GATAAAAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
47 15 0.39
48 14 0.37
49 9 0.24
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.14
Consensus pattern (47 bp):
TAAAAAAAATAAAAAAATAAAACAAAATAAAAATGAAAATAAAAAAA
Found at i:135983 original size:11 final size:11
Alignment explanation
Indices: 135893--136000 Score: 56
Period size: 11 Copynumber: 9.2 Consensus size: 11
135883 TTATTTAAAG
135893 AAAATAAAATAA
1 AAAATAAAAT-A
* *
135905 TAAAACAAAATC
1 -AAAATAAAATA
*
135917 AAAGTGAAAATAAA
1 AAAAT-AAAAT--A
*
135931 AAAATAAAAAA
1 AAAATAAAATA
*
135942 AATAAAAAAAGTA
1 AA-AATAAAA-TA
135955 AAACA-AAAATA
1 AAA-ATAAAATA
135966 AAAATAAAATA
1 AAAATAAAATA
* *
135977 AAGATAAAAGA
1 AAAATAAAATA
* *
135988 AATATTAAATA
1 AAAATAAAATA
135999 AA
1 AA
136001 CCTAATCTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
10 1 0.01
11 36 0.49
12 16 0.22
13 17 0.23
14 4 0.05
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:136161 original size:77 final size:77
Alignment explanation
Indices: 136039--136210 Score: 299
Period size: 77 Copynumber: 2.2 Consensus size: 77
136029 AAACCTGGAG
136039 CGGCTCGGCTAACGGCTCGGCTCATCTCGGCTTAAGGAAGAAAAATGGCTCGGAGAACACGGCTT
1 CGGCTCGGCTAACGGCTCGGCTCATCTCGGCTTAAGGAAGAAAAATGGCTCGGAGAACACGGCTT
136104 GAAACATCGGCT
66 GAAACATCGGCT
* * *
136116 CGGCTCGGCTAACGGCTCGGTTCCTCTCGGCTTAAGGAAGAAAAATGGCTCGGAGAACATGGCTT
1 CGGCTCGGCTAACGGCTCGGCTCATCTCGGCTTAAGGAAGAAAAATGGCTCGGAGAACACGGCTT
*
136181 GGAACATCGGCT
66 GAAACATCGGCT
*
136193 TGGCTCGGCTAACGGCTC
1 CGGCTCGGCTAACGGCTC
136211 AGGGAGGCAG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 90 1.00
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.20
Consensus pattern (77 bp):
CGGCTCGGCTAACGGCTCGGCTCATCTCGGCTTAAGGAAGAAAAATGGCTCGGAGAACACGGCTT
GAAACATCGGCT
Found at i:136551 original size:19 final size:19
Alignment explanation
Indices: 136527--136570 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
136517 GGAATTCTCA
**
136527 CCGAAAACTGGGAAGTTGG
1 CCGAAAACTGCAAAGTTGG
*
136546 CCGAAAACTTCAAAGTTGG
1 CCGAAAACTGCAAAGTTGG
136565 CCGAAA
1 CCGAAA
136571 TAGTCGCCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.16
Consensus pattern (19 bp):
CCGAAAACTGCAAAGTTGG
Found at i:137004 original size:12 final size:12
Alignment explanation
Indices: 136987--137026 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
136977 ATAAATAAAA
136987 AAATTAACAGAT
1 AAATTAACAGAT
136999 AAATT-A-AGATT
1 AAATTAACAGA-T
137010 AAA-TAACAGAT
1 AAATTAACAGAT
137021 AAATTA
1 AAATTA
137027 TAACATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (12 bp):
AAATTAACAGAT
Found at i:137130 original size:15 final size:16
Alignment explanation
Indices: 137110--137150 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
137100 TAAATAGTAG
137110 TAATAAATAAATAA-A
1 TAATAAATAAATAAGA
*
137125 TAATAAATACATAAGA
1 TAATAAATAAATAAGA
137141 TAA-AAATAAA
1 TAATAAATAAA
137151 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (16 bp):
TAATAAATAAATAAGA
Found at i:138654 original size:15 final size:14
Alignment explanation
Indices: 138613--138647 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
138603 GTGTTTTATT
*
138613 TATTTA-AGAAAAA
1 TATTTATAGTAAAA
138626 TATTTATAGTAAAA
1 TATTTATAGTAAAA
138640 TATTTATA
1 TATTTATA
138648 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (14 bp):
TATTTATAGTAAAA
Found at i:147866 original size:11 final size:11
Alignment explanation
Indices: 147850--147883 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
147840 TTTCGCCAAT
*
147850 CCCTAATCCAC
1 CCCTAACCCAC
147861 CCCTAACCCAC
1 CCCTAACCCAC
147872 CCCTAACCCAC
1 CCCTAACCCAC
147883 C
1 C
147884 TCTCTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.26, C:0.62, G:0.00, T:0.12
Consensus pattern (11 bp):
CCCTAACCCAC
Found at i:158521 original size:34 final size:34
Alignment explanation
Indices: 158477--158543 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
158467 AGAGTTAGAT
* *
158477 CATTTCGTAACTATGGAATGGAATAACCATTAAC
1 CATTTAGTAACTAAGGAATGGAATAACCATTAAC
158511 CATTTAGTAACTAAGGAATGGAATAACCATTAA
1 CATTTAGTAACTAAGGAATGGAATAACCATTAA
158544 TCTTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (34 bp):
CATTTAGTAACTAAGGAATGGAATAACCATTAAC
Found at i:158940 original size:3 final size:3
Alignment explanation
Indices: 158932--158966 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
158922 TAGCTTTTCC
158932 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
158967 AACTCTTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:160922 original size:29 final size:29
Alignment explanation
Indices: 160880--160938 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
160870 AGGCTTAAGA
160880 GATTGTTAGAATGGAATATATATAGGATG
1 GATTGTTAGAATGGAATATATATAGGATG
*
160909 GATTGTTAGAATGGAATATATATGGGATG
1 GATTGTTAGAATGGAATATATATAGGATG
160938 G
1 G
160939 GTTTTAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.34
Consensus pattern (29 bp):
GATTGTTAGAATGGAATATATATAGGATG
Found at i:161377 original size:42 final size:42
Alignment explanation
Indices: 161325--161406 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
161315 AAACTTAGAT
*
161325 TAATTGGAAGTGATAAGTTTTTGAATAAAAAATATTTTAAGA
1 TAATTAGAAGTGATAAGTTTTTGAATAAAAAATATTTTAAGA
*
161367 TAATTAGAAGTGATAGGTTTTTGAATAAAAAATATTTTAA
1 TAATTAGAAGTGATAAGTTTTTGAATAAAAAATATTTTAA
161407 ATTTATCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (42 bp):
TAATTAGAAGTGATAAGTTTTTGAATAAAAAATATTTTAAGA
Found at i:167332 original size:2 final size:2
Alignment explanation
Indices: 167325--167353 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
167315 TTTATATTGA
167325 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
167354 CATTCACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:170458 original size:3 final size:3
Alignment explanation
Indices: 170450--170497 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
170440 TTTTTACAAT
170450 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
170498 TATCAAAACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:174704 original size:42 final size:42
Alignment explanation
Indices: 174647--174760 Score: 156
Period size: 47 Copynumber: 2.6 Consensus size: 42
174637 CTGCTTTGAA
*
174647 CTCTCGTTAGTCTTATGATTTTGTCAAATCAACGTTTACTCC
1 CTCTCGTTATTCTTATGATTTTGTCAAATCAACGTTTACTCC
*
174689 CTCTTGTTATTCTTATGGTTTGATTTTGTCAAATCAACGTTTACTCC
1 CTCTCGTTATTCTTA-----TGATTTTGTCAAATCAACGTTTACTCC
*
174736 CTCTCGTTATTCTTATGGTTTTGTC
1 CTCTCGTTATTCTTATGATTTTGTC
174761 TTACTAAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
42 22 0.35
47 41 0.65
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.48
Consensus pattern (42 bp):
CTCTCGTTATTCTTATGATTTTGTCAAATCAACGTTTACTCC
Found at i:174731 original size:47 final size:47
Alignment explanation
Indices: 174662--174756 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
174652 GTTAGTCTTA
*
174662 TGATTTTGTCAAATCAACGTTTACTCCCTCTTGTTATTCTTATGGTT
1 TGATTTTGTCAAATCAACGTTTACTCCCTCTCGTTATTCTTATGGTT
174709 TGATTTTGTCAAATCAACGTTTACTCCCTCTCGTTATTCTTATGGTT
1 TGATTTTGTCAAATCAACGTTTACTCCCTCTCGTTATTCTTATGGTT
174756 T
1 T
174757 TGTCTTACTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (47 bp):
TGATTTTGTCAAATCAACGTTTACTCCCTCTCGTTATTCTTATGGTT
Found at i:194341 original size:61 final size:61
Alignment explanation
Indices: 194210--194441 Score: 310
Period size: 61 Copynumber: 3.8 Consensus size: 61
194200 TGTACAAGGG
* * * * *
194210 AAAATTAATACTTTCAACTTTTCCTTAAAAAAAACTTTTTTTGAAA-ATTT-ATTCTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAAATACTTTTTTTGAAATTTTTAATT-TTGAGA
194270 AAAATTGATACTTTCAACTTTTCCCTAAAAATATA-TTTTTTTGAAATTTTTAATTTTGAGA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAA-ATACTTTTTTTGAAATTTTTAATTTTGAGA
* *
194331 AAAATTGATACTTTCAACTTTTCCCTAAAAAATATTTTTTTTGGAATTTTTAATTTTGAGA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAAATACTTTTTTTGAAATTTTTAATTTTGAGA
* ** **
194392 AAAATTGATACTTTCAACTTTT-CCTCAAAAATGTTTTTTTTTTAATTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAAATACTTTTTTTGAAATTTTT
194442 TTTGAATTTT
Statistics
Matches: 158, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
60 67 0.42
61 88 0.56
62 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.48
Consensus pattern (61 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAAATACTTTTTTTGAAATTTTTAATTTTGAGA
Found at i:194490 original size:15 final size:14
Alignment explanation
Indices: 194455--194520 Score: 71
Period size: 15 Copynumber: 4.6 Consensus size: 14
194445 GAATTTTATT
* *
194455 TAAAGAAAATGAAA
1 TAAATAAAATAAAA
194469 TAAATAAAATAAATA
1 TAAATAAAATAAA-A
* *
194484 AAAATAACA-AAAA
1 TAAATAAAATAAAA
194497 TAAATAAAATGAAAA
1 TAAATAAAAT-AAAA
194512 TAAATAAAA
1 TAAATAAAA
194521 AAATAGAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
13 8 0.19
14 14 0.33
15 21 0.49
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (14 bp):
TAAATAAAATAAAA
Found at i:194498 original size:28 final size:27
Alignment explanation
Indices: 194466--194525 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
194456 AAAGAAAATG
194466 AAATAAATAAAAT-AAATAAAAATAACAA
1 AAATAAATAAAATGAAA-AAAAATAA-AA
*
194494 AAATAAATAAAATGAAAATAAATAAAA
1 AAATAAATAAAATGAAAAAAAATAAAA
194521 AAATA
1 AAATA
194526 GAAAGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 7 0.23
28 20 0.67
29 3 0.10
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (27 bp):
AAATAAATAAAATGAAAAAAAATAAAA
Found at i:194525 original size:42 final size:42
Alignment explanation
Indices: 194455--194539 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
194445 GAATTTTATT
* *
194455 TAAAGAAAATGAAATAAATAAAATAAATAAAAATAACAAAAA
1 TAAAGAAAATGAAATAAATAAAATAAATAAAAAGAAAAAAAA
* *
194497 TAAATAAAATGAAAATAAATAAAA-AAATAGAAAGAAAAAAAA
1 TAAAGAAAATG-AAATAAATAAAATAAATAAAAAGAAAAAAAA
194539 T
1 T
194540 TAAACAACCC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 26 0.68
43 12 0.32
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.16
Consensus pattern (42 bp):
TAAAGAAAATGAAATAAATAAAATAAATAAAAAGAAAAAAAA
Found at i:194580 original size:25 final size:26
Alignment explanation
Indices: 194552--194604 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
194542 AACAACCCTT
* *
194552 AATAATAATAAATAAATA-AATAAAA
1 AATAATAAAAAATAAAAATAATAAAA
*
194577 AATATTAAAAAATAAAAATAATAAAA
1 AATAATAAAAAATAAAAATAATAAAA
194603 AA
1 AA
194605 ATGAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (26 bp):
AATAATAAAAAATAAAAATAATAAAA
Found at i:194591 original size:17 final size:16
Alignment explanation
Indices: 194552--194604 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
194542 AACAACCCTT
*
194552 AATAATAATAAATAAATA
1 AATAAAAAT-AATAAA-A
*
194570 AATAAAAAATATTAAAA
1 AAT-AAAAATAATAAAA
194587 AATAAAAATAATAAAA
1 AATAAAAATAATAAAA
194603 AA
1 AA
194605 ATGAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 14 0.45
17 4 0.13
18 8 0.26
19 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAAATAATAAAA
Found at i:194604 original size:11 final size:12
Alignment explanation
Indices: 194558--194616 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
194548 CCTTAATAAT
*
194558 AATAAATAAATA
1 AATAAAAAAATA
194570 AATAAAAAATATTA
1 AATAAAAAA-A-TA
*
194584 AAAAATAAAAAT-
1 AATAA-AAAAATA
*
194596 AATAAAAAAATG
1 AATAAAAAAATA
194608 AA-AAAAAAA
1 AATAAAAAAA
194617 CATAGAGCGG
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
11 13 0.32
12 14 0.35
13 2 0.05
14 7 0.17
15 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (12 bp):
AATAAAAAAATA
Found at i:194612 original size:9 final size:8
Alignment explanation
Indices: 194466--194614 Score: 84
Period size: 9 Copynumber: 16.4 Consensus size: 8
194456 AAAGAAAATG
194466 AAATAAATA
1 AAATAAA-A
194475 AAATAAATAA
1 AAAT-AA-AA
194485 AAATAACAA
1 AAATAA-AA
194494 AAATAAATA
1 AAATAAA-A
194503 AAATGAAAA
1 AAAT-AAAA
194512 TAAATAAAA
1 -AAATAAAA
194521 AAATAGAAA
1 AAATA-AAA
*
194530 GAA-AAAA
1 AAATAAAA
*
194537 AATTAAACA
1 AAATAAA-A
194546 ACCCTTAATAATAA
1 A-----AATAA-AA
*
194560 TAAATAAAT
1 -AAATAAAA
194569 AAATAAAA
1 AAATAAAA
*
194577 AATATTAAA
1 AA-ATAAAA
194586 AAATAAAA
1 AAATAAAA
194594 ATAATAAAA
1 A-AATAAAA
194603 AAATGAAAA
1 AAAT-AAAA
194612 AAA
1 AAA
194615 AACATAGAGC
Statistics
Matches: 113, Mismatches: 9, Indels: 36
0.72 0.06 0.23
Matches are distributed among these distances:
7 4 0.04
8 28 0.25
9 54 0.48
10 19 0.17
11 1 0.01
14 5 0.04
15 2 0.02
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (8 bp):
AAATAAAA
Found at i:195531 original size:39 final size:39
Alignment explanation
Indices: 195466--195540 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
195456 AAAGAAAATC
*
195466 AGATAAATAAACAAATATTAATAGATAATTAGAAAAAAAA
1 AGATAAATAAACAAATATTAATAGATAAATA-AAAAAAAA
195506 AGATAAATAAA-AAATATTACA-AGATAAATAAAAAA
1 AGATAAATAAACAAATATTA-ATAGATAAATAAAAAA
195541 TAATAATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
38 5 0.15
39 16 0.48
40 12 0.36
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (39 bp):
AGATAAATAAACAAATATTAATAGATAAATAAAAAAAAA
Found at i:195638 original size:12 final size:13
Alignment explanation
Indices: 195621--195649 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
195611 ATATTAACAG
195621 AAAAG-AAAGAAA
1 AAAAGAAAAGAAA
195633 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
195646 AAAA
1 AAAA
195650 AATAAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:195641 original size:17 final size:16
Alignment explanation
Indices: 195619--195651 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
195609 AAATATTAAC
195619 AGAAAAGAAAGAAAAAA
1 AGAAAAGAAA-AAAAAA
195636 AGAAAAGAAAAAAAAA
1 AGAAAAGAAAAAAAAA
195652 TAAAGATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAAAAAAAA
Found at i:195710 original size:8 final size:7
Alignment explanation
Indices: 195669--195711 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
195659 ATACATATAT
195669 TAATAAA
1 TAATAAA
*
195676 TAGT-AA
1 TAATAAA
195682 TAATAAA
1 TAATAAA
195689 TAAGTAAA
1 TAA-TAAA
195697 TAATAAA
1 TAATAAA
195704 TACATAAA
1 TA-ATAAA
195712 AGATAAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 14 0.45
8 12 0.39
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (7 bp):
TAATAAA
Found at i:195711 original size:15 final size:14
Alignment explanation
Indices: 195669--195711 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
195659 ATACATATAT
*
195669 TAATAAATAGT-AA
1 TAATAAATAATAAA
195682 TAATAAATAAGTAAA
1 TAATAAATAA-TAAA
195697 TAATAAATACATAAA
1 TAATAAATA-ATAAA
195712 AGATAAAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 9 0.35
14 1 0.04
15 15 0.58
16 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:196074 original size:43 final size:44
Alignment explanation
Indices: 195930--196063 Score: 200
Period size: 43 Copynumber: 3.0 Consensus size: 44
195920 ATCAAAACTT
* * *
195930 CTCTAAGCAGCGGCTCAACGACTTTTGAAAAACATAAACCAAGCTC
1 CTCTAATCAGAGGCTCAACGACTTTTG-AAAA-ATAAACAAAGCTC
*
195976 CTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATAAAGCTC
1 CTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACAAAGCTC
196019 CTCTAATCAGAGGCTCAACGACTTTTG-AAAATAAACAAAGCTC
1 CTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACAAAGCTC
196062 CT
1 CT
196064 TTAAATAGAG
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
43 50 0.61
44 8 0.10
45 4 0.05
46 20 0.24
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (44 bp):
CTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACAAAGCTC
Found at i:196098 original size:15 final size:15
Alignment explanation
Indices: 196078--196128 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
196068 ATAGAGGGAA
196078 TTTTTGTTTTTGTTT
1 TTTTTGTTTTTGTTT
196093 TTTTTGTTTTAT-TTT
1 TTTTTGTTTT-TGTTT
196108 TTTTAATG-TTTTGTTT
1 TTTT--TGTTTTTGTTT
196124 TTTTT
1 TTTTT
196129 AATGTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
14 1 0.03
15 18 0.56
16 11 0.34
17 2 0.06
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.84
Consensus pattern (15 bp):
TTTTTGTTTTTGTTT
Found at i:196125 original size:18 final size:17
Alignment explanation
Indices: 196097--196151 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
196087 TTGTTTTTTT
196097 TGTTTTATTTTTTTTAA
1 TGTTTTATTTTTTTTAA
*
196114 TGTTTTGTTTTTTTTAA
1 TGTTTTATTTTTTTTAA
196131 TGTTTTATTTTTTTTTAA
1 TGTTTTA-TTTTTTTTAA
196149 TGT
1 TGT
196152 GATCAAAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 22 0.63
18 13 0.37
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TGTTTTATTTTTTTTAA
Found at i:196372 original size:41 final size:42
Alignment explanation
Indices: 196159--196372 Score: 236
Period size: 42 Copynumber: 5.1 Consensus size: 42
196149 TGTGATCAAA
* * * *
196159 GCTCCTCTAAGCAGAGGCTCAACAACTTTGGAAAA-TAAA-T
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
* * * * * * *
196199 GACTTCTCTAACCAGAGGCTCGACAACTTTGGAAAAATAAATG
1 G-CTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
* *
196242 GCTCCTCTAATCAGAGGCACCCCAACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
* *
196284 GCTCCTCTAAATAGAGGCACCACTACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
* *
196326 GCTCCTCTAAACAGAGGTACCACGA-TTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
*
196367 ACTCCT
1 GCTCCT
196373 TGACGATCAT
Statistics
Matches: 151, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 52 0.34
42 97 0.64
43 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
Found at i:197391 original size:7 final size:7
Alignment explanation
Indices: 197381--197413 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
197371 TTCATTCACT
197381 TTTTTTA
1 TTTTTTA
197388 TTTTTTA
1 TTTTTTA
197395 TTTTTT-
1 TTTTTTA
*
197401 TATTTTA
1 TTTTTTA
197408 TTTTTT
1 TTTTTT
197414 TAAGCATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:197398 original size:15 final size:13
Alignment explanation
Indices: 197380--197415 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 13
197370 TTTCATTCAC
197380 TTTTTTTATTTTTTA
1 TTTTTTTA--TTTTA
197395 TTTTTTTATTTTA
1 TTTTTTTATTTTA
197408 TTTTTTTA
1 TTTTTTTA
197416 AGCATAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
15 8 0.38
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:201837 original size:106 final size:106
Alignment explanation
Indices: 201716--201922 Score: 351
Period size: 106 Copynumber: 2.0 Consensus size: 106
201706 TTTTTGAAAC
* * * *
201716 AATTAATTAATTAATTTATTATTGATTTACACGTTTGCTTGTGAGCAATTATAATAGATTAAGAT
1 AATTAATTAATTAATTTATTATTGATTTACACGTTTACTTGTCAGCAATTAGAATAGATTAAGAC
* *
201781 AGTGATGTGAACAAATTAAGACATTTACCAAAATTTAAAAT
66 AGTGATATGAACAAATTAAGACATTCACCAAAATTTAAAAT
201822 AATTAATTAATTAATTTATTATTGATTTACACGTTTACTTGTCAGCAATTAGAATAGATTAAGAC
1 AATTAATTAATTAATTTATTATTGATTTACACGTTTACTTGTCAGCAATTAGAATAGATTAAGAC
*
201887 AGTGATATGAACAAATTAAGACCTTCACCAAAATTT
66 AGTGATATGAACAAATTAAGACATTCACCAAAATTT
201923 CGCCAAGTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 94 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.38
Consensus pattern (106 bp):
AATTAATTAATTAATTTATTATTGATTTACACGTTTACTTGTCAGCAATTAGAATAGATTAAGAC
AGTGATATGAACAAATTAAGACATTCACCAAAATTTAAAAT
Found at i:202615 original size:21 final size:20
Alignment explanation
Indices: 202592--202628 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
202582 AGCCCAAGTC
202592 TCTCT-TTTACACGTCAATG
1 TCTCTATTTACACGTCAATG
202611 TCTCTATTTACACGTCAA
1 TCTCTATTTACACGTCAA
202629 GGGCACAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (20 bp):
TCTCTATTTACACGTCAATG
Found at i:204940 original size:2 final size:2
Alignment explanation
Indices: 204935--204962 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
204925 GTGTGTGTGA
204935 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
204963 CAAAACAAAG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:209335 original size:19 final size:20
Alignment explanation
Indices: 209313--209362 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
209303 AATTATTTGC
*
209313 ATATTTATTTTAA-AAATTA
1 ATATTTATTTTAATAAAATA
209332 ATATTTATTCATTAATAAAATA
1 ATATTTATT--TTAATAAAATA
209354 ATA-TTATTT
1 ATATTTATTT
209363 AATTTATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 10 0.37
21 9 0.33
22 8 0.30
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTATTTTAATAAAATA
Found at i:214851 original size:14 final size:15
Alignment explanation
Indices: 214815--214856 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
214805 AAATTAAATT
* *
214815 AATAATTTTTATTAA
1 AATAATTTCTAATAA
*
214830 AATTATTTCTAAT-A
1 AATAATTTCTAATAA
214844 AATAATTTCTAAT
1 AATAATTTCTAAT
214857 TATTATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAATTTCTAATAA
Found at i:217141 original size:15 final size:15
Alignment explanation
Indices: 217103--217146 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 15
217093 AAAATCTAAA
*
217103 TATATATAA-ATAAT
1 TATATATAATTTAAT
217117 TATA-ATAATTTAAT
1 TATATATAATTTAAT
217131 TATATATAATTTAAT
1 TATATATAATTTAAT
217146 T
1 T
217147 GAGTTGAGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 12 0.44
15 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATATAATTTAAT
Found at i:221912 original size:130 final size:125
Alignment explanation
Indices: 221736--221987 Score: 346
Period size: 130 Copynumber: 2.0 Consensus size: 125
221726 TGAAAGTGTT
** *
221736 AATTTTTCTTGAAAATAAAAATTTTAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTC
1 AATTTTTCTTGAAAATAAAAATTAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTCC
* * *
221801 GTAAAGAATAAAAATTTCAAAAAAAAGTATTTTTGAGGAAAAGTTGACAGTATCAATTTTTCTAT
66 GTAAAG-ATAAAAATTTC--AAAAAA-TATTTTTCA--AAAAATTGAAAGTATCAATTTTTCTAT
221866 C
125 C
221867 AATTTTT-TT-AAAATAAAAATTAAAAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTC
1 AATTTTTCTTGAAAATAAAAATTAAAAAAA-ATATTTTAAGGAAAAGTTGAAAGTATCAATTTTC
* * *
221930 CTTAAAGATGAAATTTTCAAAAAATATTTTTCAAAAAATTGAAAGTATCAATTTTTCT
65 CGTAAAGATAAAAATTTCAAAAAATATTTTTCAAAAAATTGAAAGTATCAATTTTTCT
221988 TAAAAATGAA
Statistics
Matches: 111, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
124 23 0.21
126 8 0.07
127 6 0.05
129 26 0.23
130 41 0.37
131 7 0.06
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.38
Consensus pattern (125 bp):
AATTTTTCTTGAAAATAAAAATTAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTCC
GTAAAGATAAAAATTTCAAAAAATATTTTTCAAAAAATTGAAAGTATCAATTTTTCTATC
Found at i:222042 original size:58 final size:58
Alignment explanation
Indices: 221863--222046 Score: 211
Period size: 56 Copynumber: 3.2 Consensus size: 58
221853 TCAATTTTTC
** *
221863 TATCAATTTTT-TT-AAAAT-AAAAATTAAAAAAATATATTTTAAGGAAAAGTTGAAAG
1 TATCAATTTTTCTTAAAAATGAAATTTTCAAAAAATAT-TTTTAAGGAAAAGTTGAAAG
* *
221919 TATCAATTTTCCTTAAAGATGAAATTTTCAAAAAATATTTTTCAA--AAAA-TTGAAAG
1 TATCAATTTTTCTTAAAAATGAAATTTTCAAAAAATATTTTT-AAGGAAAAGTTGAAAG
* * * *
221975 TATCAATTTTTCTTAAAAATGAAAATTTT-GAAAGATTTTTTTGAGGAAAAGTTGAAAG
1 TATCAATTTTTCTTAAAAATG-AAATTTTCAAAAAATATTTTTAAGGAAAAGTTGAAAG
222033 TATCAATTTTTCTT
1 TATCAATTTTTCTT
222047 GAATAAAGGC
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
55 1 0.01
56 46 0.42
57 17 0.16
58 29 0.27
59 16 0.15
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (58 bp):
TATCAATTTTTCTTAAAAATGAAATTTTCAAAAAATATTTTTAAGGAAAAGTTGAAAG
Found at i:225964 original size:211 final size:211
Alignment explanation
Indices: 225598--226017 Score: 786
Period size: 211 Copynumber: 2.0 Consensus size: 211
225588 TCATTTGGTT
225598 TGAACCCTTTAAACATATGTTTTGAGCCTATTTTATCCATTTCTTTCATGACGCCTCACTATAGC
1 TGAACCCTTTAAACATATGTTTTGAGCCTATTTTATCCATTTCTTTCATGACGCCTCACTATAGC
225663 CTACATTACAACCTTTAAAAGTCTATTTTAATTGAATGTGAATGCTCAAATTGAATTATCATATG
66 CTACATTACAACCTTTAAAAGTCTATTTTAATTGAATGTGAATGCTCAAATTGAATTATCATATG
225728 TTGGACTAAGGTATGGTCATGATGGAGTAAGGTAATCATGCTTTGTTCTTATGTTTTAAAGATTG
131 TTGGACTAAGGTATGGTCATGATGGAGTAAGGTAATCATGCTTTGTTCTTATGTTTTAAAGATTG
225793 ATGTGTAGAAGATATG
196 ATGTGTAGAAGATATG
* * * *
225809 TGAACCCTTTAAACATATGTTTTGGGCCTATTTTATCCATTTTTTTCATGACGCCTCATTATATC
1 TGAACCCTTTAAACATATGTTTTGAGCCTATTTTATCCATTTCTTTCATGACGCCTCACTATAGC
*
225874 CTACATTACAACCTTTAAAAGTCTATTTTGATTGAATGTGAATGCTCAAATTGAATTATCATATG
66 CTACATTACAACCTTTAAAAGTCTATTTTAATTGAATGTGAATGCTCAAATTGAATTATCATATG
*
225939 TTGGACTAAGGTATGGTCGTGATGGAGTAAGGTAATCATGCTTTGTTCTTATGTTTTAAAGATTG
131 TTGGACTAAGGTATGGTCATGATGGAGTAAGGTAATCATGCTTTGTTCTTATGTTTTAAAGATTG
226004 ATGTGTAGAAGATA
196 ATGTGTAGAAGATA
226018 CTAATAATGG
Statistics
Matches: 203, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
211 203 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (211 bp):
TGAACCCTTTAAACATATGTTTTGAGCCTATTTTATCCATTTCTTTCATGACGCCTCACTATAGC
CTACATTACAACCTTTAAAAGTCTATTTTAATTGAATGTGAATGCTCAAATTGAATTATCATATG
TTGGACTAAGGTATGGTCATGATGGAGTAAGGTAATCATGCTTTGTTCTTATGTTTTAAAGATTG
ATGTGTAGAAGATATG
Found at i:226055 original size:7 final size:7
Alignment explanation
Indices: 226040--226091 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
226030 GAAGTAGAAG
*
226040 AAAAGAA
1 AAAATAA
226047 AAAATAA
1 AAAATAA
226054 AAAAT-A
1 AAAATAA
226060 AAAATAA
1 AAAATAA
226067 AAAATAAGA
1 AAAAT-A-A
*
226076 AAAATGA
1 AAAATAA
226083 AAAA-AA
1 AAAATAA
226089 AAA
1 AAA
226092 GAAGACTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
6 10 0.26
7 22 0.56
8 1 0.03
9 6 0.15
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.10
Consensus pattern (7 bp):
AAAATAA
Found at i:226062 original size:13 final size:13
Alignment explanation
Indices: 226046--226073 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
226036 GAAGAAAAGA
226046 AAAAATAAAAAAT
1 AAAAATAAAAAAT
226059 AAAAATAAAAAAT
1 AAAAATAAAAAAT
226072 AA
1 AA
226074 GAAAAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:226096 original size:21 final size:22
Alignment explanation
Indices: 226053--226096 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
226043 AGAAAAAATA
*
226053 AAAAATAAAAATAAAAAATAAG
1 AAAAATAAAAATAAAAAAGAAG
*
226075 AAAAATGAAAA-AAAAAAGAAG
1 AAAAATAAAAATAAAAAAGAAG
226096 A
1 A
226097 CTCAAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAATAAAAATAAAAAAGAAG
Found at i:227283 original size:21 final size:21
Alignment explanation
Indices: 227243--227282 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
227233 TTCATAATTC
*
227243 AATGAGAATATTTGAATTTTA
1 AATGAGAATACTTGAATTTTA
227264 AATGAGAAT-CTTGAATTTT
1 AATGAGAATACTTGAATTTT
227283 TTTATGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (21 bp):
AATGAGAATACTTGAATTTTA
Found at i:227331 original size:22 final size:23
Alignment explanation
Indices: 227303--227372 Score: 76
Period size: 21 Copynumber: 3.2 Consensus size: 23
227293 TCCCCAGTGT
227303 TTTTGAATTAGAATCCT-TGAAA
1 TTTTGAATTAGAATCCTATGAAA
* *
227325 TTTTGAA-TAAAATCCTAT-AAT
1 TTTTGAATTAGAATCCTATGAAA
* *
227346 TTTTGAATGAGAA-CCTCTGAAA
1 TTTTGAATTAGAATCCTATGAAA
227368 TTTTG
1 TTTTG
227373 GTTGTGAGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 21 0.54
22 18 0.46
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (23 bp):
TTTTGAATTAGAATCCTATGAAA
Found at i:227502 original size:17 final size:17
Alignment explanation
Indices: 227477--227550 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
227467 TTGTGAACAA
*
227477 AAAATTTTTGCGAATCTT
1 AAAA-TTTTGCGAATCTG
* *
227495 CAAATTTTGCAAATCTG
1 AAAATTTTGCGAATCTG
* *
227512 AAAATCTTGCGAATCTC
1 AAAATTTTGCGAATCTG
* * *
227529 TAATTTTTGTGAATCT-
1 AAAATTTTGCGAATCTG
227545 AAAATT
1 AAAATT
227551 CTTATGAATC
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
16 4 0.09
17 36 0.84
18 3 0.07
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATTTTGCGAATCTG
Found at i:227537 original size:34 final size:34
Alignment explanation
Indices: 227484--227680 Score: 112
Period size: 34 Copynumber: 5.8 Consensus size: 34
227474 CAAAAAATTT
*
227484 TTGCGAATCT-TCAAATTTTGCAAATCTGAAAATC
1 TTGCGAATCTCT-AATTTTTGCAAATCTGAAAATC
**
227518 TTGCGAATCTCTAATTTTTGTGAATCT-AAAATTC
1 TTGCGAATCTCTAATTTTTGCAAATCTGAAAA-TC
** * * * *
227552 TTATGAATCTCCAATTCTTACGAATCTGAAAATC
1 TTGCGAATCTCTAATTTTTGCAAATCTGAAAATC
** * * *
227586 ATT-TAAAGCTCTAATTTTTGCAAATTTGAAAATT
1 -TTGCGAATCTCTAATTTTTGCAAATCTGAAAATC
** * *** * **
227620 TTGTTAACCAAAAATTCTTGCAAATCTTCAAATC
1 TTGCGAATCTCTAATTTTTGCAAATCTGAAAATC
* * *
227654 TTACGAATCTCCACTTTTTGCAAATCT
1 TTGCGAATCTCTAATTTTTGCAAATCT
227681 TCAAAAATTT
Statistics
Matches: 122, Mismatches: 36, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
33 6 0.05
34 109 0.89
35 7 0.06
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (34 bp):
TTGCGAATCTCTAATTTTTGCAAATCTGAAAATC
Found at i:227558 original size:17 final size:17
Alignment explanation
Indices: 227538--227584 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
227528 CTAATTTTTG
227538 TGAATCTAAAATTCTTA
1 TGAATCTAAAATTCTTA
**
227555 TGAATCTCCAATTCTTA
1 TGAATCTAAAATTCTTA
*
227572 CGAATCTGAAAAT
1 TGAATCT-AAAAT
227585 CATTTAAAGC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (17 bp):
TGAATCTAAAATTCTTA
Found at i:227836 original size:59 final size:58
Alignment explanation
Indices: 227683--228029 Score: 317
Period size: 59 Copynumber: 5.8 Consensus size: 58
227673 GCAAATCTTC
* * * * *
227683 AAAAATTTC-AAAAAACA-TTTTAAGAAAAAATTGAGAGTAT-AGATTTTCCTTAAAGAAT
1 AAAAA-TTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCA-ATTTTTCTTGAA-AAT
* * *
227741 AAAAATTTCAAAAAGAATATTTTTGAGAAAAAGTTGAAAGTGTCAATTTTTCTCGAAAAT
1 AAAAA-TTCAAAAA-AATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* * *
227801 AAAAATT-AAAAAATATATATTTTAAGAAAAAGTTGAAAGTATTAATTTTCCTTAAAGAAT
1 AAAAATTCAAAAAA-ATAT-TTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAA-AAT
* * *
227861 AAAAATTTTGAAAAAAAGTATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCATTGAAAAT
1 AAAAA--TTCAAAAAAA-TATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTC-TTGAAAAT
* *
227922 AAAAATTCAAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
1 AAAAATTCAAAAAAATAT-TTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* ** * * * * *
227981 GAAAATTTTGAAAGAGTTTTTTTGAGAAAAAATTGAAAGTATCAATTTT
1 -AAAAATTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTT
228030 CATTGAATAA
Statistics
Matches: 242, Mismatches: 32, Indels: 29
0.80 0.11 0.10
Matches are distributed among these distances:
57 1 0.00
58 20 0.08
59 106 0.44
60 35 0.14
61 40 0.17
62 31 0.13
63 9 0.04
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (58 bp):
AAAAATTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
Found at i:227926 original size:121 final size:121
Alignment explanation
Indices: 227692--228036 Score: 454
Period size: 121 Copynumber: 2.9 Consensus size: 121
227682 CAAAAATTTC
* * * *
227692 AAAAAACATTTTAAGAAAAAATTGAGAGTA-TAGATTTTCCTTAAAGAATAAAAA-TTTCAAAAA
1 AAAAAATATTTTAAGAAAAAGTTGAAAGTATTA-ATTTTCCTTAAAGAATAAAAATTTTGAAAAA
* *
227755 GAA-TATTTTTGAGAAAAAGTTGAAAGTGTCAATTTTTC-TCGAAAATAAAAATT-AAA
65 -AAGTATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCATTGAAAATAAAAATTCAAA
*
227811 AAATATATATTTTAAGAAAAAGTTGAAAGTATTAATTTTCCTTAAAGAATAAAAATTTTGAAAAA
1 AAA-AAATATTTTAAGAAAAAGTTGAAAGTATTAATTTTCCTTAAAGAATAAAAATTTTGAAAAA
*
227876 AAGTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCATTGAAAATAAAAATTCAAA
65 AAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCATTGAAAATAAAAATTCAAA
* * * * * *
227933 AAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAA-AATGAAAATTTTG--AAAG
1 AAAAAATATTTTAAGAAAAAGTTGAAAGTATTAATTTTCCTTAAAGAATAAAAATTTTGAAAAAA
* *
227995 AGTTTTTTTGAGAAAAAATTGAAAGTATCAATTTTCATTGAA
66 AGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCATTGAA
228037 TAAATGCATG
Statistics
Matches: 202, Mismatches: 18, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
118 42 0.21
119 3 0.01
120 63 0.31
121 88 0.44
122 6 0.03
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (121 bp):
AAAAAATATTTTAAGAAAAAGTTGAAAGTATTAATTTTCCTTAAAGAATAAAAATTTTGAAAAAA
AGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCATTGAAAATAAAAATTCAAA
Found at i:229822 original size:22 final size:22
Alignment explanation
Indices: 229797--229913 Score: 91
Period size: 22 Copynumber: 5.5 Consensus size: 22
229787 GATAATATAG
229797 TAGTAAATAATTAATAACTTAA
1 TAGTAAATAATTAATAACTTAA
* ** *
229819 TAGTTAATTGTTAAAAACTTAA
1 TAGTAAATAATTAATAACTTAA
229841 -ATGT-AATCAA-T-ATAACTTAA
1 TA-GTAAAT-AATTAATAACTTAA
* *
229861 TA-TTAATTATTAATAACTTAA
1 TAGTAAATAATTAATAACTTAA
* * * *
229882 TAATAAATTAGTAATAATTTAA
1 TAGTAAATAATTAATAACTTAA
229904 TAGTAAATAA
1 TAGTAAATAA
229914 ATGATCGTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
19 2 0.03
20 12 0.16
21 17 0.23
22 44 0.59
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.39
Consensus pattern (22 bp):
TAGTAAATAATTAATAACTTAA
Found at i:229867 original size:20 final size:22
Alignment explanation
Indices: 229808--229883 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 22
229798 AGTAAATAAT
***
229808 TAATAACTTAATA-GTTAATTGT
1 TAATAACTTAATATG-TAATCAA
*
229830 TAAAAACTTAA-ATGTAATCAA
1 TAATAACTTAATATGTAATCAA
* *
229851 T-ATAACTTAATAT-TAATTAT
1 TAATAACTTAATATGTAATCAA
229871 TAATAACTTAATA
1 TAATAACTTAATA
229884 ATAAATTAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 14 0.32
21 19 0.43
22 11 0.25
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAATAACTTAATATGTAATCAA
Done.