Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold49
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: 1668912
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 42860 characters in sequence are not A, C, G, or T
File 6 of 9
Found at i:956458 original size:20 final size:20
Alignment explanation
Indices: 956433--956501 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
956423 CTGCTAAGGA
956433 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
956453 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
956468 --TGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
956486 AATGTATCGATACATT
1 AATGTATCGATACATT
956502 GTATCGATAC
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.26
16 2 0.05
17 2 0.05
20 27 0.64
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:956473 original size:13 final size:13
Alignment explanation
Indices: 956455--956513 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
956445 CATTATTCAA
956455 TGTATCGATACAT
1 TGTATCGATACAT
956468 TGTATCGATACA-
1 TGTATCGATACAT
*
956480 T-TAT---T-CAA
1 TGTATCGATACAT
956488 TGTATCGATACAT
1 TGTATCGATACAT
956501 TGTATCGATACAT
1 TGTATCGATACAT
956514 CGATCTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 3 0.08
11 3 0.08
12 2 0.05
13 27 0.69
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:956477 original size:33 final size:33
Alignment explanation
Indices: 956435--956638 Score: 173
Period size: 33 Copynumber: 6.0 Consensus size: 33
956425 GCTAAGGAAA
*
956435 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTACTCAATGTATCGATACAT
*
956468 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTACTCAATGTATCGATACAT
* ** *
956501 TGTATCGATACATCGA-TCTTTGTATCGAT-CAA
1 TGTATCGATACAT-TACTCAATGTATCGATACAT
* * ** *
956533 TCTA-GGA-AGTTTACCCAGATGTATCGATACATTTTGCAT
1 TGTATCGATACATTACTCA-ATGTATCGAT--A-----CAT
* *
956572 TGTATCGATACATTGCTCATTGTATCGATACAT
1 TGTATCGATACATTACTCAATGTATCGATACAT
*
956605 TGTATCGATACATTGCTCAATGTATCGATACAT
1 TGTATCGATACATTACTCAATGTATCGATACAT
956638 T
1 T
956639 CAAGCATTTT
Statistics
Matches: 137, Mismatches: 21, Indels: 26
0.74 0.11 0.14
Matches are distributed among these distances:
29 1 0.01
30 3 0.02
31 11 0.08
32 5 0.04
33 93 0.68
34 1 0.01
38 1 0.01
39 5 0.04
40 11 0.08
41 6 0.04
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATTACTCAATGTATCGATACAT
Found at i:956577 original size:20 final size:20
Alignment explanation
Indices: 956552--956638 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
956542 TTTACCCAGA
*
956552 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
956572 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
956592 TGTATCGAT--A-----CAT
1 TGTATCGATACATTGCTCAT
*
956605 TGTATCGATACATTGCTCAA
1 TGTATCGATACATTGCTCAT
956625 TGTATCGATACATT
1 TGTATCGATACATT
956639 CAAGCATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
13 12 0.21
15 1 0.02
18 1 0.02
20 42 0.74
21 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:956605 original size:13 final size:13
Alignment explanation
Indices: 956589--956619 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
956579 ATACATTGCT
956589 CATTGTATCGATA
1 CATTGTATCGATA
956602 CATTGTATCGATA
1 CATTGTATCGATA
956615 CATTG
1 CATTG
956620 CTCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:958998 original size:28 final size:27
Alignment explanation
Indices: 958935--959002 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
958925 CATCTCGAGG
*
958935 ATACTCCAACCCCGTTATTTCATCAGGG
1 ATACTCCAACCCCGTTATTTCA-CAGGA
*
958963 ATATTCCAACCCCGTTATTTC-CGAGTGA
1 ATACTCCAACCCCGTTATTTCAC-AG-GA
958991 ATACTCCAACCC
1 ATACTCCAACCC
959003 TCACTTTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 2 0.06
28 32 0.91
ACGTcount: A:0.26, C:0.34, G:0.12, T:0.28
Consensus pattern (27 bp):
ATACTCCAACCCCGTTATTTCACAGGA
Found at i:959166 original size:51 final size:51
Alignment explanation
Indices: 959096--959214 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
959086 TTATTTTTGA
* *
959096 GGGGATACTCCAACCCCAATTTTATTTCTAAAATACCAAATTT-TCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACACC-AATTTCTCACAATC
* * *
959147 GGGGATACTTCAACTCCAATTTTTTTTCCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
*
959198 AGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
959215 GTTATTATCA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
50 5 0.08
51 54 0.92
ACGTcount: A:0.33, C:0.29, G:0.09, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:959400 original size:79 final size:78
Alignment explanation
Indices: 959148--959447 Score: 247
Period size: 79 Copynumber: 3.8 Consensus size: 78
959138 TTCACAATCG
* * * *
959148 GGGATACTTCAACTCCAATTTT-TTTTCCAAAACACCAA-TTTCTCACAATCAGG-GATACTCCA
1 GGGATACTCCAACCCCTATTTTATTTT-CAAAACATCAATTTTCT-ACAATCAGGAGATACTCCA
959210 ACCCCGTTATTATCACG-
64 A-CCCGTTATT-TC-CGA
*** * *
959227 GGGATACTCCAA-CCCTGGCCTTA-TTTCTAAAGCATCGATTTTCTACAATC-GGAGATACTCCA
1 GGGATACTCCAACCCCT-ATTTTATTTTC-AAAACATCAATTTTCTACAATCAGGAGATACTCCA
* *
959289 ATCCCGCTATTTTCGA
64 A-CCCGTTATTTCCGA
* *
959305 GGGGATACTCCAACCCCTATTTTATTTTCAAAACATCAATTTTCTATAATCAAG-GATACTCCAA
1 -GGGATACTCCAACCCCTATTTTATTTTCAAAACATCAATTTTCTACAATCAGGAGATACTCCAA
959369 CCCTGTTATTTCCGA
65 CCC-GTTATTTCCGA
* * * * * * * * *
959384 GGAGATACTCTAACCCCGATTTTATTTTCAGAATATCGATTTTCCATAACCATGAGATACTCCA
1 GG-GATACTCCAACCCCTATTTTATTTTCAAAACATCAATTTTCTACAATCAGGAGATACTCCA
959448 GCCCCGTTGT
Statistics
Matches: 179, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
77 2 0.01
78 11 0.06
79 143 0.80
80 23 0.13
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCCTATTTTATTTTCAAAACATCAATTTTCTACAATCAGGAGATACTCCAAC
CCGTTATTTCCGA
Found at i:965801 original size:21 final size:21
Alignment explanation
Indices: 965777--965823 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
965767 TAAAATTTTC
965777 AATAAAACTCCCCCTTCATAA
1 AATAAAACTCCCCCTTCATAA
** *
965798 AATAATTCTCCCCCTTGATAA
1 AATAAAACTCCCCCTTCATAA
965819 AATAA
1 AATAA
965824 TTAAAGCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAAAACTCCCCCTTCATAA
Found at i:965824 original size:21 final size:21
Alignment explanation
Indices: 965784--965825 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
965774 TTCAATAAAA
965784 CTCCCCCTTCATAAAATAATT
1 CTCCCCCTTCATAAAATAATT
*
965805 CTCCCCCTTGATAAAATAATT
1 CTCCCCCTTCATAAAATAATT
965826 AAAGCTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.33
Consensus pattern (21 bp):
CTCCCCCTTCATAAAATAATT
Found at i:970186 original size:36 final size:36
Alignment explanation
Indices: 970124--970233 Score: 193
Period size: 36 Copynumber: 3.0 Consensus size: 36
970114 GATGAAAGTA
* *
970124 GCTTATGCTAGACCTTTTTCCTTTATAAAGTTCATAT
1 GCTTATGTTAGGCC-TTTTCCTTTATAAAGTTCATAT
970161 GCTTATGTTAGGCCTTTTCCTTTATAAAGTTCATAT
1 GCTTATGTTAGGCCTTTTCCTTTATAAAGTTCATAT
970197 GCTTATGTTAGGCCTTTTCCTTTATAAAGTTCATAT
1 GCTTATGTTAGGCCTTTTCCTTTATAAAGTTCATAT
970233 G
1 G
970234 GAGTTTTCTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 59 0.83
37 12 0.17
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (36 bp):
GCTTATGTTAGGCCTTTTCCTTTATAAAGTTCATAT
Found at i:972347 original size:31 final size:31
Alignment explanation
Indices: 972312--972430 Score: 105
Period size: 31 Copynumber: 3.5 Consensus size: 31
972302 CATTTTTTTA
972312 ATGTATCGATACATTTTATCTTTTTACCTAG
1 ATGTATCGATACATTTTATCTTTTTACCTAG
* *
972343 ATGTATCGATACATTTT-TCAATGTATCGATACATGTATG
1 ATGTATCGATACATTTTATC--T-T-T--TTAC--CTA-G
* *
972382 AATGTATCGATACATTCTATCTTTTTACCCAG
1 -ATGTATCGATACATTTTATCTTTTTACCTAG
972414 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
972431 TTAATGTATC
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
30 2 0.03
31 33 0.47
32 2 0.03
33 2 0.03
34 1 0.01
35 3 0.04
36 3 0.04
37 1 0.01
38 3 0.04
39 2 0.03
40 16 0.23
41 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (31 bp):
ATGTATCGATACATTTTATCTTTTTACCTAG
Found at i:972368 original size:20 final size:20
Alignment explanation
Indices: 972343--972402 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
972333 TTTTACCTAG
*
972343 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* *
972363 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
972383 ATGTATCGATACATTCTATC
1 ATGTATCGATACATT-TATC
972403 TTTTTACCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 31 0.91
21 3 0.09
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:972403 original size:71 final size:71
Alignment explanation
Indices: 972291--972447 Score: 251
Period size: 71 Copynumber: 2.2 Consensus size: 71
972281 TTTTATCCAG
* * * * *
972291 ATGTATCGATACATTTTTTTAATGTATCGATACATTTTATCTTTTTACCTAGATGTATCGATACA
1 ATGTATCGATACA-TGTATGAATGTATCGATACATTCTATCTTTTTACCCAGATGTATCGATACA
972356 TTTTTCA
65 TTTTTCA
972363 ATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTTACCCAGATGTATCGATACAT
1 ATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTTACCCAGATGTATCGATACAT
*
972428 TTTTTA
66 TTTTCA
972434 ATGTATCGATACAT
1 ATGTATCGATACAT
972448 CTAGTTAAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 66 0.84
72 13 0.16
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (71 bp):
ATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTTACCCAGATGTATCGATACAT
TTTTCA
Found at i:972819 original size:13 final size:13
Alignment explanation
Indices: 972801--972861 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
972791 ATACAAAGAT
972801 CAATGTATCGATA
1 CAATGTATCGATA
972814 CAATGTATCGATA
1 CAATGTATCGATA
972827 C-A--T-T-GA-A
1 CAATGTATCGATA
*
972834 TAATGTATCGATA
1 CAATGTATCGATA
972847 CAATGTATCGATA
1 CAATGTATCGATA
972860 CA
1 CA
972862 TTGAATAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
9 1 0.03
10 2 0.05
11 1 0.03
12 3 0.08
13 29 0.73
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:972825 original size:33 final size:33
Alignment explanation
Indices: 972783--972881 Score: 137
Period size: 33 Copynumber: 3.0 Consensus size: 33
972773 AAATTCCTAG
972783 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
972816 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
** *
972849 ATGTATCGATACATTGAATAATGTATCAATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
972882 TTTCCTTAGC
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
33 60 0.97
34 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:972840 original size:20 final size:20
Alignment explanation
Indices: 972815--972883 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
972805 GTATCGATAC
972815 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
972835 AATGTATCGATAC-------
1 AATGTATCGATACATTGAAT
972848 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
*
972868 AATGTATCAATACATT
1 AATGTATCGATACATT
972884 TCCTTAGCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 13 0.32
20 28 0.68
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:972939 original size:19 final size:19
Alignment explanation
Indices: 972915--972975 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
972905 CGATGCATTA
972915 TATCGATACAACACTTATG
1 TATCGATACAACACTTATG
*
972934 TATCGAT---ATA--T-TG
1 TATCGATACAACACTTATG
972947 TATCGATACAACACTTATG
1 TATCGATACAACACTTATG
972966 TATCGATACA
1 TATCGATACA
972976 TTTACTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
16 4 0.12
18 1 0.03
19 19 0.56
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (19 bp):
TATCGATACAACACTTATG
Found at i:973917 original size:49 final size:49
Alignment explanation
Indices: 973864--974103 Score: 231
Period size: 49 Copynumber: 5.2 Consensus size: 49
973854 ACGATATCGA
*
973864 ACTTAAAGATAAAGATACCAATGTGCTGATTCAAAGCCGACGACATTGG
1 ACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGACGACATTGG
* * * * * *
973913 ACTTAAAG-----G-TGCTAATATGCTAATTCAAGGCC-AGCGATATTAG
1 ACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGA-CGACATTGG
973956 ACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGACGACATTGG
1 ACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGACGACATTGG
* * * *
974005 ACTTAAAG-----G-TGCCAATATGCTGATTCAAGG-CTAGCGATATTGG
1 ACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGA-CGACATTGG
* * *
974048 ACTTAAAGATAAAAATACCAATGTGCTAATTCAAGGCTGACGACATTGG
1 ACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGACGACATTGG
974097 AC-TAAAG
1 ACTTAAAG
974104 GTGCCAATAT
Statistics
Matches: 151, Mismatches: 24, Indels: 33
0.73 0.12 0.16
Matches are distributed among these distances:
42 3 0.02
43 68 0.45
44 2 0.01
48 6 0.04
49 70 0.46
50 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (49 bp):
ACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGACGACATTGG
Found at i:973940 original size:43 final size:44
Alignment explanation
Indices: 973881--974143 Score: 225
Period size: 43 Copynumber: 5.9 Consensus size: 44
973871 GATAAAGATA
* *
973881 CCAATGTGCTGATTCAAAGCCGA-CGACATTGGACTTAAAGGTG
1 CCAATATGCTGATTCAAGGCCGAGCGACATTGGACTTAAAGGTG
* * * * *
973924 CTAATATGCTAATTCAAGGCC-AGCGATATTAGACTTAAAGATAAAGATA
1 CCAATATGCTGATTCAAGGCCGAGCGACATTGGACTTAAAG-----G-TG
*
973973 CCAATGTGCTGATTCAAGGCCGA-CGACATTGGACTTAAAGGTG
1 CCAATATGCTGATTCAAGGCCGAGCGACATTGGACTTAAAGGTG
* * * *
974016 CCAATATGCTGATTCAAGG-CTAGCGATATTGGACTTAAAGATAAAAATA
1 CCAATATGCTGATTCAAGGCCGAGCGACATTGGACTTAAAG------GTG
* * *
974065 CCAATGTGCTAATTCAAGGCTGA-CGACATTGGAC-TAAAGGTG
1 CCAATATGCTGATTCAAGGCCGAGCGACATTGGACTTAAAGGTG
*
974107 CCAATATGCTGATTCAAGGCC-AGCGATATTGGACTTA
1 CCAATATGCTGATTCAAGGCCGAGCGACATTGGACTTA
974144 GAAGAAGATG
Statistics
Matches: 173, Mismatches: 29, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
41 1 0.01
42 32 0.18
43 69 0.40
44 1 0.01
48 6 0.03
49 62 0.36
50 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (44 bp):
CCAATATGCTGATTCAAGGCCGAGCGACATTGGACTTAAAGGTG
Found at i:974160 original size:92 final size:92
Alignment explanation
Indices: 973855--974148 Score: 482
Period size: 92 Copynumber: 3.2 Consensus size: 92
973845 GCCAATATGA
* * *
973855 CGATATCGAACTTAAAGATAAAGATACCAATGTGCTGATTCAAAGCCGACGACATTGGACTTAAA
1 CGATATTGGACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGACGACATTGGACTTAAA
* *
973920 GGTGCTAATATGCTAATTCAAGGCCAG
66 GGTGCCAATATGCTGATTCAAGGCCAG
*
973947 CGATATTAGACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGACGACATTGGACTTAAA
1 CGATATTGGACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGACGACATTGGACTTAAA
*
974012 GGTGCCAATATGCTGATTCAAGGCTAG
66 GGTGCCAATATGCTGATTCAAGGCCAG
* * *
974039 CGATATTGGACTTAAAGATAAAAATACCAATGTGCTAATTCAAGGCTGACGACATTGGAC-TAAA
1 CGATATTGGACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGACGACATTGGACTTAAA
974103 GGTGCCAATATGCTGATTCAAGGCCAG
66 GGTGCCAATATGCTGATTCAAGGCCAG
974130 CGATATTGGACTTAGAAGA
1 CGATATTGGACTTA-AAGA
974149 AGATGCCACC
Statistics
Matches: 189, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
91 44 0.23
92 145 0.77
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (92 bp):
CGATATTGGACTTAAAGATAAAGATACCAATGTGCTGATTCAAGGCCGACGACATTGGACTTAAA
GGTGCCAATATGCTGATTCAAGGCCAG
Found at i:974193 original size:31 final size:31
Alignment explanation
Indices: 974152--974658 Score: 212
Period size: 28 Copynumber: 17.5 Consensus size: 31
974142 TAGAAGAAGA
974152 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAA-GGT
974184 TG-CACCAACTTGTGT--GCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * *
974211 TGCCACTGAC-T-TGTGGGCTTTTGAAAAGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
* ** * *
974240 TACCACTGAC-T-TGTGGGCTTTGGAAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTTG-AAAGGT
* **
974270 TGTCACTGAC-T-TGTGGGCTTTT-AAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * * * *
974298 TGCCACTGAC-T-TATGGGCTTTGGAAAAGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
* *
974327 TGTCACGAAC-T-TGTGGGCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * *
974355 TGCCACTGAC-T-TGTGGGCTTTGGAAAGGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * *
974384 TGCCACTGAC-T-TGTGGGCTTTGGAAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTTG-AAAGGT
**
974414 TGCCACTGAC-T-TGTGGGCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * *
974442 TGCCACTGAC-T-TGTGGGCTTTGGAAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTTG-AAAGGT
**
974472 TGCCACTGAC-T-TGTGGGCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * * *
974500 TGCCACTGAC-T-TGTGGGCTTTGGAAAAGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
**
974529 TGCCACTGAC-T-TGTGGGCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
* * *
974557 TGCCACTAAC-T-TGTGGGCTTTGGAAAGGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * *
974586 TGCCACTGAC-T-TGTGGGCTTTGGAAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTTG-AAAGGT
**
974616 TGCCACTGAC-T-TGTGGGCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
*
974644 TGCCACTAACTTGTG
1 TGCCACCAACTTGTG
974659 AGCTTTGGAA
Statistics
Matches: 410, Mismatches: 50, Indels: 32
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.01
27 6 0.01
28 149 0.36
29 132 0.32
30 105 0.26
31 13 0.03
32 2 0.00
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
Found at i:974297 original size:87 final size:87
Alignment explanation
Indices: 974165--974699 Score: 685
Period size: 87 Copynumber: 6.2 Consensus size: 87
974155 CACCAACTTG
* ** * *
974165 TGTGGGCTTTTG-AAAGGGTTG-CACCAACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGG
1 TGTGGGCTTTGGAAAAGGG-TGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGG
* *
974228 CTTTTGAAAAGATACCACTGACT
65 CTTTGGAAAAGATGCCACTGACT
* *
974251 TGTGGGCTTTGGAAAAGGGTGTCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTATGGGC
1 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGC
*
974316 TTTGGAAAAGATGTCAC-GAACT
66 TTTGGAAAAGATGCCACTG-ACT
* * * *
974338 TGTGGGCTTTTG--AAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGG
1 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTT-TAAAGGTTGCCACTGACTTGTGGG
*
974401 CTTTGGAAAAGGGTGCCACTGACT
65 CTTTGGAAAA-GATGCCACTGACT
* * * *
974425 TGTGGGCTTTTG--AAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGG
1 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTT--TAAAGGTTGCCACTGACTTGTGG
* * *
974488 GCTTTTG-AAGGTTGCCACTGACT
64 GCTTTGGAAAAGATGCCACTGACT
* * *
974511 TGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGC
1 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGC
*
974575 TTTGGAAAGGATGCCACTGACT
66 TTTGGAAAAGATGCCACTGACT
* * *
974597 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGAGC
1 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGC
974662 TTTGGAAAAGATGCCA-TGACT
66 TTTGGAAAAGATGCCACTGACT
974683 TGTGGGCTTTGGAAAAG
1 TGTGGGCTTTGGAAAAG
974700 TGAGGAATGT
Statistics
Matches: 405, Mismatches: 33, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
85 49 0.12
86 121 0.30
87 204 0.50
88 31 0.08
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.31
Consensus pattern (87 bp):
TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGC
TTTGGAAAAGATGCCACTGACT
Found at i:974427 original size:144 final size:145
Alignment explanation
Indices: 974165--974699 Score: 823
Period size: 144 Copynumber: 3.7 Consensus size: 145
974155 CACCAACTTG
* ** *
974165 TGTGGGCTTTTG-AAAGGGTTG-CACCAACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGG
1 TGTGGGCTTTGGAAAAGGG-TGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGG
* * *
974228 CTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGGTGTCACTGACTTGTGGGCTTTTA
65 CTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTA
974293 AAGGTTGCCACTGACT
130 AAGGTTGCCACTGACT
* * *
974309 TATGGGCTTTGGAAAA-GATGTCAC-GAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGG
1 TGTGGGCTTTGGAAAAGGGTGCCACTG-ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGG
* *
974372 CTTTGGAAAGGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG
65 CTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTA
974437 AAGGTTGCCACTGACT
130 AAGGTTGCCACTGACT
974453 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGC
* * * *
974518 TTTGGAAAAGATGCCACTGACTTGTGGGCTTTTG--AAGGTTGCCACTAACTTGTGGGCTTTGGA
66 TTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTT-TA
*
974581 AAGGATGCCACTGACT
130 AAGGTTGCCACTGACT
* *
974597 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGAGC
1 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGC
974662 TTTGGAAAAGATGCCA-TGACTTGTGGGCTTTGGAAAAG
66 TTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAG
974700 TGAGGAATGT
Statistics
Matches: 360, Mismatches: 23, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
143 42 0.12
144 235 0.65
145 82 0.23
146 1 0.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.31
Consensus pattern (145 bp):
TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGC
TTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTAA
AGGTTGCCACTGACT
Found at i:974507 original size:202 final size:202
Alignment explanation
Indices: 974206--974692 Score: 827
Period size: 202 Copynumber: 2.4 Consensus size: 202
974196 TGTGCTTTTG
* * * *
974206 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGGT
1 AAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGT
* *
974271 GTCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTATGGGCTTTGGAAAAGATGTCAC-GA
65 GCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTATGGGCTTTGGAAAAGATGCCACTG-
*
974335 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGG
129 ACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGG
974400 GCTTTGGAA
194 GCTTTGGAA
974409 AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTG
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTG
* *
974474 CCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGAC
66 CCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTATGGGCTTTGGAAAAGATGCCACTGAC
974539 TTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGC
131 TTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGC
974604 TTTGGAA
196 TTTGGAA
* * *
974611 AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGAGCTTTGGAAAA-GATG
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTG
974675 CCA-TGACTTGTGGGCTTT
66 CCACTGACTTGTGGGCTTT
974693 GGAAAAGTGA
Statistics
Matches: 271, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
200 15 0.06
201 6 0.02
202 222 0.82
203 28 0.10
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (202 bp):
AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTG
CCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTATGGGCTTTGGAAAAGATGCCACTGAC
TTGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGC
TTTGGAA
Found at i:976125 original size:1 final size:1
Alignment explanation
Indices: 976121--976232 Score: 53
Period size: 1 Copynumber: 112.0 Consensus size: 1
976111 CTTTTTGTTG
* * * * * ** * * * *
976121 TTTTTTTTTTGTTTTGTTTGTTTTTTTGTTTGTTTTTTTTGGTTTATTTTGTTATTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * *
976186 CTTTGTTTTTTTCTTCTTTTTTTCTTTTTTCTCTCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
976233 GCGGAGGATG
Statistics
Matches: 75, Mismatches: 36, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.02, C:0.06, G:0.09, T:0.83
Consensus pattern (1 bp):
T
Found at i:976132 original size:11 final size:11
Alignment explanation
Indices: 976112--976230 Score: 73
Period size: 11 Copynumber: 10.7 Consensus size: 11
976102 ATCCGGACCC
*
976112 TTTTTGTTGTT
1 TTTTTTTTGTT
976123 TTTTTTTTG--
1 TTTTTTTTGTT
*
976132 TTTTGTTTGTT
1 TTTTTTTTGTT
976143 TTTTTGTTTG-T
1 TTTTT-TTTGTT
*
976154 TTTTTTTGGTT
1 TTTTTTTTGTT
* *
976165 TATTTTGTTATT
1 T-TTTTTTTGTT
*
976177 TTTTTGTTTCTT
1 TTTTT-TTTGTT
*
976189 TGTTTTTTTCTT
1 T-TTTTTTTGTT
* *
976201 CTTTTTTTCTT
1 TTTTTTTTGTT
* * *
976212 TTTTCTCTCTT
1 TTTTTTTTGTT
976223 TTTTTTTT
1 TTTTTTTT
976231 TTGCGGAGGA
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
9 8 0.09
10 3 0.03
11 48 0.56
12 23 0.27
13 4 0.05
ACGTcount: A:0.02, C:0.06, G:0.10, T:0.82
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:976135 original size:8 final size:8
Alignment explanation
Indices: 976112--976233 Score: 72
Period size: 8 Copynumber: 14.8 Consensus size: 8
976102 ATCCGGACCC
976112 TTTTTG-T
1 TTTTTGTT
*
976119 TGTTT-TT
1 TTTTTGTT
976126 TTTTTGTT
1 TTTTTGTT
976134 TTGTTTGTT
1 TT-TTTGTT
976143 TTTTTGTT
1 TTTTTGTT
976151 TGTTTT-TT
1 T-TTTTGTT
*
976159 TTGGTTTATT
1 TT--TTTGTT
* *
976169 TTGTTATT
1 TTTTTGTT
976177 TTTTTGTT
1 TTTTTGTT
*
976185 TCTTTGTT
1 TTTTTGTT
*
976193 TTTTTCTT
1 TTTTTGTT
*
976201 CTTTTTTTCT
1 -TTTTTGT-T
*
976211 TTTTTCTCT
1 TTTTTGT-T
976220 CTTTTT-TT
1 -TTTTTGTT
976228 TTTTTG
1 TTTTTG
976234 CGGAGGATGC
Statistics
Matches: 94, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
7 15 0.16
8 39 0.41
9 30 0.32
10 10 0.11
ACGTcount: A:0.02, C:0.06, G:0.11, T:0.82
Consensus pattern (8 bp):
TTTTTGTT
Found at i:976150 original size:31 final size:32
Alignment explanation
Indices: 976112--976194 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 32
976102 ATCCGGACCC
976112 TTTTTGTTGTTTTTTTTTTGTTT-TGTTTGTT-
1 TTTTTGTTGTTTTTTTTTTGTTTAT-TTTGTTA
*
976143 TTTTTGTT-TGTTTTTTTTGGTTTATTTTGTTA
1 TTTTTGTTGT-TTTTTTTTTGTTTATTTTGTTA
976175 TTTTT-TTGTTTCTTTGTTTT
1 TTTTTGTTGTTT-TTT-TTTT
976195 TTTCTTCTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
30 1 0.02
31 30 0.68
32 10 0.23
33 3 0.07
ACGTcount: A:0.02, C:0.01, G:0.14, T:0.82
Consensus pattern (32 bp):
TTTTTGTTGTTTTTTTTTTGTTTATTTTGTTA
Found at i:976153 original size:35 final size:35
Alignment explanation
Indices: 976114--976215 Score: 102
Period size: 35 Copynumber: 2.9 Consensus size: 35
976104 CCGGACCCTT
* *
976114 TTTGTTGTTTTTTTTTTGTTTTGTTTGTTTTTTTG
1 TTTGTTGTTTTTTTTTTATTTTGTTTATTTTTTTG
*
976149 TTTGTT-TTTTTTGGTTTATTTTG-TTATTTTTTTG
1 TTTGTTGTTTTTT-TTTTATTTTGTTTATTTTTTTG
* * * *
976183 TTTCTTTGTTTTTTTCTTCTTTT-TTTCTTTTTT
1 TTT-GTTGTTTTTTTTTTATTTTGTTTATTTTTT
976216 CTCTCTTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
34 19 0.35
35 30 0.55
36 6 0.11
ACGTcount: A:0.02, C:0.04, G:0.12, T:0.82
Consensus pattern (35 bp):
TTTGTTGTTTTTTTTTTATTTTGTTTATTTTTTTG
Found at i:976173 original size:19 final size:18
Alignment explanation
Indices: 976149--976197 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
976139 TGTTTTTTTG
*
976149 TTTGTTTTTTTTGGTTTAT
1 TTTGTTTTTTTTGGTTT-C
*
976168 TTTGTTATTTTTTTGTTTC
1 TTTGTT-TTTTTTGGTTTC
976187 TTTGTTTTTTT
1 TTTGTTTTTTT
976198 CTTCTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 5 0.19
19 12 0.44
20 10 0.37
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (18 bp):
TTTGTTTTTTTTGGTTTC
Found at i:976213 original size:18 final size:18
Alignment explanation
Indices: 976191--976232 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
976181 TGTTTCTTTG
976191 TTTTTTTCT-TCTTTTTT
1 TTTTTTTCTCTCTTTTTT
976208 TCTTTTTTCTCTCTTTTTT
1 T-TTTTTTCTCTCTTTTTT
976227 TTTTTT
1 TTTTTT
976233 GCGGAGGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.04
18 13 0.57
19 9 0.39
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTTCTCTCTTTTTT
Found at i:976213 original size:19 final size:19
Alignment explanation
Indices: 976191--976232 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
976181 TGTTTCTTTG
976191 TTTTTTTCT-TCTTTTTTT
1 TTTTTTTCTCTCTTTTTTT
*
976209 CTTTTTTCTCTCTTTTTTT
1 TTTTTTTCTCTCTTTTTTT
976228 TTTTT
1 TTTTT
976233 GCGGAGGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTCTCTCTTTTTTT
Found at i:977892 original size:728 final size:728
Alignment explanation
Indices: 976496--977947 Score: 2823
Period size: 728 Copynumber: 2.0 Consensus size: 728
976486 TGGGCCCGAA
*
976496 TCATGCGTTTCTGATACATTTGACCATGGCAGATGGCTCTCAGGCGCTTTTCTTCGATAAGGTTG
1 TCATGCGTTTCTGATACATTTGACCATGGCAGATGGCTCTCAGGCACTTTTCTTCGATAAGGTTG
*
976561 AGCTGGTCATATCTATTCTTGATCCATTTAGCCTCTTTAAGTTTAGCTTCCATCAAGACTCTAAG
66 AGCTGGTCATATCTATTCTTGATCCATTCAGCCTCTTTAAGTTTAGCTTCCATCAAGACTCTAAG
976626 AGAAAGGATCTCGACTTCGACTGGCAAAACGGCTTCCATGCCATAGACAAGAGAGAATGGGGTAG
131 AGAAAGGATCTCGACTTCGACTGGCAAAACGGCTTCCATGCCATAGACAAGAGAGAATGGGGTAG
*
976691 CACCTGTGGAGGTACGAACTGAAGTTCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAG
196 CACCTGTGGAGGTACGAACTGAAGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAG
976756 TCTTTGTAAATCTCGACCATTTTCTCAACTATTATTTTGATGTTTTTGTTAGCTGCCTCGACTGC
261 TCTTTGTAAATCTCGACCATTTTCTCAACTATTATTTTGATGTTTTTGTTAGCTGCCTCGACTGC
976821 CCCATTCATCTTTGGACGGTAAGGGACAGAATTATGATACTGGATGTTAAACTGAGAGCAGACTG
326 CCCATTCATCTTTGGACGGTAAGGGACAGAATTATGATACTGGATGTTAAACTGAGAGCAGACTG
976886 CTTACATCATTTTATTGTTTAAGTTGGTTGCATTATCTGTGATGATTTGATTCGGGAGGCCATAT
391 CTTACATCATTTTATTGTTTAAGTTGGTTGCATTATCTGTGATGATTTGATTCGGGAGGCCATAT
976951 CTGCAGATAATGTCTCATTTGACGAACTTACAGACAGCTAATCTGGAGACATTTGCATACGAGGT
456 CTGCAGATAATGTCTCATTTGACGAACTTACAGACAGCTAATCTGGAGACATTTGCATACGAGGT
977016 AGCCTCTACCCACTTGGTGAAATAGTCAATTGCTACCAAGATGAAACGATGTCCATTGGAAGCTT
521 AGCCTCTACCCACTTGGTGAAATAGTCAATTGCTACCAAGATGAAACGATGTCCATTGGAAGCTT
*
977081 TAGGAGTGATTGGCCTAATCACATCAATGCCCCACATAGAGAAGGGCCACGGGGTTGTCAGGACA
586 TAGGAGTGATTGGCCCAATCACATCAATGCCCCACATAGAGAAGGGCCACGGGGTTGTCAGGACA
977146 TGGAGTGGTGCTGGCGAGACATTGATCTTGTCAGCATAGATTTGACATTTATGGAATTTCTAAGC
651 TGGAGTGGTGCTGGCGAGACATTGATCTTGTCAGCATAGATTTGACATTTATGGAATTTCTAAGC
977211 ATAATTGATCTTG
716 ATAATTGATCTTG
977224 TCATGCGTTTCTGATACATTTGACCATGGCAGATGGCTCTCAGGCACTTTTCTTCGATAAGGTTG
1 TCATGCGTTTCTGATACATTTGACCATGGCAGATGGCTCTCAGGCACTTTTCTTCGATAAGGTTG
977289 AGCTGGTCATATCTATTCTTGATCCATTCAGCCTCTTTAAGTTTAGCTTCCATCAAGACTCTAAG
66 AGCTGGTCATATCTATTCTTGATCCATTCAGCCTCTTTAAGTTTAGCTTCCATCAAGACTCTAAG
* *
977354 AGAAGGGATCTCGACTTCGATTGGCAAAACGGCTTCCATGCCATAGACAAGAGAGAATGGGGTAG
131 AGAAAGGATCTCGACTTCGACTGGCAAAACGGCTTCCATGCCATAGACAAGAGAGAATGGGGTAG
*
977419 CACCTGTGGAGGTACGAACTGAAGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCTAG
196 CACCTGTGGAGGTACGAACTGAAGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAG
977484 TCTTTGTAAATCTCGACCATTTTCTCAACTATTATTTTGATGTTTTTGTTAGCTGCCTCGACTGC
261 TCTTTGTAAATCTCGACCATTTTCTCAACTATTATTTTGATGTTTTTGTTAGCTGCCTCGACTGC
977549 CCCATTCATCTTTGGACGGTAAGGGACAGAATTATGATACTGGATGTTAAACTGAGAGCAGACTG
326 CCCATTCATCTTTGGACGGTAAGGGACAGAATTATGATACTGGATGTTAAACTGAGAGCAGACTG
977614 CTTACATCATTTTATTGTTTAAGTTGGTTGCATTATCTGTGATGATTTGATTCGGGAGGCCATAT
391 CTTACATCATTTTATTGTTTAAGTTGGTTGCATTATCTGTGATGATTTGATTCGGGAGGCCATAT
*
977679 CTGCAGATAATGTCTCGTTTGACGAACTTACAGACAGCTAATCTGGAGACATTTGCATACGAGGT
456 CTGCAGATAATGTCTCATTTGACGAACTTACAGACAGCTAATCTGGAGACATTTGCATACGAGGT
977744 AGCCTCTACCCACTTGGTGAAATAGTCAATTGCTACCAAGATGAAACGATGTCCATTGGAAGCTT
521 AGCCTCTACCCACTTGGTGAAATAGTCAATTGCTACCAAGATGAAACGATGTCCATTGGAAGCTT
*
977809 TAGGAGTGATTGGCCCAATCACATCAATGCCCCATATAGAGAAGGGCCACGGGGTTGTCAGGACA
586 TAGGAGTGATTGGCCCAATCACATCAATGCCCCACATAGAGAAGGGCCACGGGGTTGTCAGGACA
977874 TGGAGTGGTGCTGGCGAGACATTGATCTTGTCAGCATAGATTTGACATTTATGGAATTTCTAAGC
651 TGGAGTGGTGCTGGCGAGACATTGATCTTGTCAGCATAGATTTGACATTTATGGAATTTCTAAGC
977939 ATAATTGAT
716 ATAATTGAT
977948 GCAGTCTCTC
Statistics
Matches: 715, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
728 715 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (728 bp):
TCATGCGTTTCTGATACATTTGACCATGGCAGATGGCTCTCAGGCACTTTTCTTCGATAAGGTTG
AGCTGGTCATATCTATTCTTGATCCATTCAGCCTCTTTAAGTTTAGCTTCCATCAAGACTCTAAG
AGAAAGGATCTCGACTTCGACTGGCAAAACGGCTTCCATGCCATAGACAAGAGAGAATGGGGTAG
CACCTGTGGAGGTACGAACTGAAGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAG
TCTTTGTAAATCTCGACCATTTTCTCAACTATTATTTTGATGTTTTTGTTAGCTGCCTCGACTGC
CCCATTCATCTTTGGACGGTAAGGGACAGAATTATGATACTGGATGTTAAACTGAGAGCAGACTG
CTTACATCATTTTATTGTTTAAGTTGGTTGCATTATCTGTGATGATTTGATTCGGGAGGCCATAT
CTGCAGATAATGTCTCATTTGACGAACTTACAGACAGCTAATCTGGAGACATTTGCATACGAGGT
AGCCTCTACCCACTTGGTGAAATAGTCAATTGCTACCAAGATGAAACGATGTCCATTGGAAGCTT
TAGGAGTGATTGGCCCAATCACATCAATGCCCCACATAGAGAAGGGCCACGGGGTTGTCAGGACA
TGGAGTGGTGCTGGCGAGACATTGATCTTGTCAGCATAGATTTGACATTTATGGAATTTCTAAGC
ATAATTGATCTTG
Found at i:989160 original size:19 final size:16
Alignment explanation
Indices: 989117--989166 Score: 66
Period size: 15 Copynumber: 3.0 Consensus size: 16
989107 TTATAGCAAT
989117 ACATTGTATCGATAC-
1 ACATTGTATCGATACA
989132 ACATTGTATCGATACA
1 ACATTGTATCGATACA
989148 ACACTTATGTATCGATACA
1 ACA--T-TGTATCGATACA
989167 TTTACTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.48
16 3 0.10
18 1 0.03
19 12 0.39
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (16 bp):
ACATTGTATCGATACA
Found at i:990724 original size:20 final size:22
Alignment explanation
Indices: 990684--990724 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
990674 TAGCCTTTGA
*
990684 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
990706 CCATGCA-TTTTTAAC-ATGT
1 CCATGCATTTTTTAACTATGT
990725 ATAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:995471 original size:13 final size:13
Alignment explanation
Indices: 995453--995482 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
995443 ACTTTTTACC
995453 ATGTATCGATACA
1 ATGTATCGATACA
995466 ATGTATCGATACA
1 ATGTATCGATACA
995479 ATGT
1 ATGT
995483 CCTATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:995490 original size:33 final size:33
Alignment explanation
Indices: 995430--995498 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
995420 GCCGTTAGGC
** *
995430 ACAATGTATCGATACTTTTTACCATGTATCGAT
1 ACAATGTATCGATACAATGTACCATGTATCGAT
995463 ACAATGTATCGATACAATGT-CCTATGTATCGAT
1 ACAATGTATCGATACAATGTACC-ATGTATCGAT
995496 ACA
1 ACA
995499 TTTCACTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (33 bp):
ACAATGTATCGATACAATGTACCATGTATCGAT
Found at i:997099 original size:10 final size:10
Alignment explanation
Indices: 997084--997118 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
997074 TAAATGAAAG
997084 TGAAAGTTTT
1 TGAAAGTTTT
997094 TGAAAGTTTT
1 TGAAAGTTTT
*
997104 TGAAAGGTTT
1 TGAAAGTTTT
997114 TGAAA
1 TGAAA
997119 TTGGAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (10 bp):
TGAAAGTTTT
Found at i:997531 original size:21 final size:21
Alignment explanation
Indices: 997505--997547 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
997495 ATACTCATTG
997505 TATTGATACAATGCCATATTT
1 TATTGATACAATGCCATATTT
* *
997526 TATTGATACAATGTCATGTTT
1 TATTGATACAATGCCATATTT
997547 T
1 T
997548 TCATGGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (21 bp):
TATTGATACAATGCCATATTT
Found at i:999218 original size:58 final size:57
Alignment explanation
Indices: 999156--999410 Score: 205
Period size: 58 Copynumber: 4.4 Consensus size: 57
999146 TTTTAGGGTT
** *
999156 ATTTTAGTAATTTATCATGTTTTAGGGGTTGTTTTGTAATTTCATGCATCTTTGTGTC
1 ATTTTAGTAATTTATCATGTTTTAGGGCAT-TTATGTAATTTCATGCATCTTTGTGTC
* ** * * * *
999214 ATTTTAGTCATTTGCCATGTTTAAGGACCATTTATGCAATTTCATGCA-CTTTAGGGTC
1 ATTTTAGTAATTTATCATGTTTTAGG-GCATTTATGTAATTTCATGCATCTTT-GTGTC
* * * *
999272 ATTTTAGTAATTTATCAT-TATTAAGACATTTATGCT-ATTTCATGCAT-TTTATAGTC
1 ATTTTAGTAATTTATCATGTTTTAGGGCATTTATG-TAATTTCATGCATCTTTGT-GTC
* * * * * *
999328 ATTTTAGTAATTTAACATGTTTTAGGGTCATTTGTGCAATTTCATAC-TTTTTGGGGTC
1 ATTTTAGTAATTTATCATGTTTTAGGG-CATTTATGTAATTTCATGCATCTTT-GTGTC
* * *
999386 ATTTTAATAATTTGTCACGTTTTAG
1 ATTTTAGTAATTTATCATGTTTTAG
999411 TAATATCATG
Statistics
Matches: 154, Mismatches: 33, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
56 41 0.27
57 14 0.09
58 98 0.64
59 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (57 bp):
ATTTTAGTAATTTATCATGTTTTAGGGCATTTATGTAATTTCATGCATCTTTGTGTC
Found at i:999274 original size:29 final size:28
Alignment explanation
Indices: 999242--999390 Score: 83
Period size: 29 Copynumber: 5.2 Consensus size: 28
999232 GTTTAAGGAC
* *
999242 CATTTATGCAATTTCATGCACTTTAGGGT
1 CATTT-TGCAATTTCATGCATTTTAGAGT
* *
999271 CATTTTAGTAATTT-AT-CATTATTA-AGA
1 CATTTT-GCAATTTCATGCATT-TTAGAGT
* *
999298 CATTTATGCTATTTCATGCATTTTATAGT
1 CATTT-TGCAATTTCATGCATTTTAGAGT
* *
999327 CATTTTAGTAATTTAACATG--TTTTAGGGT
1 CATTTT-GCAATTT--CATGCATTTTAGAGT
* * * *
999356 CATTTGTGCAATTTCATACTTTTTGGGGT
1 CATTT-TGCAATTTCATGCATTTTAGAGT
999385 CATTTT
1 CATTTT
999391 AATAATTTGT
Statistics
Matches: 94, Mismatches: 14, Indels: 25
0.71 0.11 0.19
Matches are distributed among these distances:
27 17 0.18
28 14 0.15
29 58 0.62
30 1 0.01
31 4 0.04
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (28 bp):
CATTTTGCAATTTCATGCATTTTAGAGT
Found at i:1000794 original size:14 final size:15
Alignment explanation
Indices: 1000775--1000807 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
1000765 GTTATTTGAT
1000775 TTATTTATTTT-TTG
1 TTATTTATTTTCTTG
1000789 TTATTTATTTTCTTG
1 TTATTTATTTTCTTG
1000804 TTAT
1 TTAT
1000808 AATATTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (15 bp):
TTATTTATTTTCTTG
Found at i:1007300 original size:64 final size:64
Alignment explanation
Indices: 1007224--1007366 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 64
1007214 CCTTTTCTCA
* * * * *
1007224 ACTAATAGGTTTTGCCCTAATCGTTTCTTTTAATCAATAGGTTTCACACGAGTCATCCTTTTTG
1 ACTAATAGGTTTTGCCCTAATCATCTCCTTTAATCAATAAGTTTCACACGAGTCATCCCTTTTG
* * * * * * *
1007288 ACTAATAGGTTTTGGCTTAGTCATCTCCTTTGATTAATAAGTTTCACCCTAGTCATCCCTTTTG
1 ACTAATAGGTTTTGCCCTAATCATCTCCTTTAATCAATAAGTTTCACACGAGTCATCCCTTTTG
*
1007352 ACTAATAAGTTTTGC
1 ACTAATAGGTTTTGC
1007367 TAGTGGTTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (64 bp):
ACTAATAGGTTTTGCCCTAATCATCTCCTTTAATCAATAAGTTTCACACGAGTCATCCCTTTTG
Found at i:1007310 original size:32 final size:32
Alignment explanation
Indices: 1007274--1007609 Score: 130
Period size: 32 Copynumber: 10.7 Consensus size: 32
1007264 GTTTCACACG
* * *
1007274 AGTCATCCTTTTTGACTAATAGGTTTTGGCTT
1 AGTCATCCTTTTTGACTAATAAGTTTTGCCCT
* * **
1007306 AGTCAT-CTCCTTTGATTAATAAGTTTCACCCT
1 AGTCATCCT-TTTTGACTAATAAGTTTTGCCCT
*
1007338 AGTCATCCCTTTTGACTAATAAGTTTTG--CT
1 AGTCATCCTTTTTGACTAATAAGTTTTGCCCT
** * * *
1007368 AGTGGT-TTTTTTGACTAACAA-TTTT-CACTTT
1 AGTCATCCTTTTTGACTAATAAGTTTTGC-C-CT
* * * *
1007399 AGTCAT-CTCTTTTGATTGA-AGGTTTTTCCCT
1 AGTCATCCT-TTTTGACTAATAAGTTTTGCCCT
* * * *
1007430 AGTCAT-ATTTTCTCCACAAAAAAGTTTTG-CCT
1 AGTCATCCTTTT-T-GACTAATAAGTTTTGCCCT
* *
1007462 AGTCGT-CTCTTTTGACTAAT-AGATTTTTCCCT
1 AGTCATCCT-TTTTGACTAATAAG-TTTTGCCCT
* * *
1007494 AGTCATCCTTTTCGACTAATAGGTTTTGCCTT
1 AGTCATCCTTTTTGACTAATAAGTTTTGCCCT
* * *
1007526 AGTC-GCTTCTTTTGACTAAT-AGCTTT-CACCT
1 AGTCATCCT-TTTTGACTAATAAGTTTTGC-CCT
* * ** * *
1007557 TGTCATCCCTTTCAACAAATAAGTTTTTCCCT
1 AGTCATCCTTTTTGACTAATAAGTTTTGCCCT
1007589 AGT-A-CCTTTTTTTGACTAATA
1 AGTCATCC--TTTTTGACTAATA
1007610 GCTTTTATGC
Statistics
Matches: 218, Mismatches: 62, Indels: 48
0.66 0.19 0.15
Matches are distributed among these distances:
28 4 0.02
29 12 0.06
30 14 0.06
31 46 0.21
32 127 0.58
33 15 0.07
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.44
Consensus pattern (32 bp):
AGTCATCCTTTTTGACTAATAAGTTTTGCCCT
Found at i:1007520 original size:63 final size:65
Alignment explanation
Indices: 1007397--1007547 Score: 175
Period size: 64 Copynumber: 2.4 Consensus size: 65
1007387 AATTTTCACT
* * * * *
1007397 TTAGTCATCTCTTTTGATTGA-AGGTTTTTCCCTAGTCATATTTTCTCCACAAAAAAGTTTTGCC
1 TTAGTCGTCTCTTTTGACTAATAGATTTTTCCCTAGTCATACTTTCTCCACAAAAAAGTTTTGCC
* * * * *
1007461 -TAGTCGTCTCTTTTGACTAATAGATTTTTCCCTAGTCATCCTTT-TCGACTAATAGGTTTTGCC
1 TTAGTCGTCTCTTTTGACTAATAGATTTTTCCCTAGTCATACTTTCTCCACAAAAAAGTTTTGCC
1007524 TTAGTCG-CTTCTTTTGACTAATAG
1 TTAGTCGTC-TCTTTTGACTAATAG
1007548 CTTTCACCTT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
63 33 0.45
64 41 0.55
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (65 bp):
TTAGTCGTCTCTTTTGACTAATAGATTTTTCCCTAGTCATACTTTCTCCACAAAAAAGTTTTGCC
Found at i:1007583 original size:63 final size:61
Alignment explanation
Indices: 1007445--1007614 Score: 182
Period size: 63 Copynumber: 2.7 Consensus size: 61
1007435 TATTTTCTCC
* * * *
1007445 ACAAAAAAGTTTTGCCTAGTCG-TCTCTTTTGACTAATAGATTTTTCCCTAGTCATCCTTTTCG
1 ACAAATAAGTTTTGCCTAGTCGCT-TCTTTTGACTAATAG--CTTTCCCTAGTCATCCCTTTCA
* * *
1007508 ACTAATAGGTTTTGCCTTAGTCGCTTCTTTTGACTAATAGCTTTCACCTTGTCATCCCTTTCA
1 ACAAATAAGTTTTGCC-TAGTCGCTTCTTTTGACTAATAGCTTTC-CCTAGTCATCCCTTTCA
* *
1007571 ACAAATAAGTTTTTCCCTAGTAC-CTTTTTTTGACTAATAGCTTT
1 ACAAATAAG-TTTTGCCTAGT-CGCTTCTTTTGACTAATAGCTTT
1007615 TATGCAAGTC
Statistics
Matches: 91, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
62 4 0.04
63 58 0.64
64 28 0.31
65 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (61 bp):
ACAAATAAGTTTTGCCTAGTCGCTTCTTTTGACTAATAGCTTTCCCTAGTCATCCCTTTCA
Found at i:1007768 original size:30 final size:30
Alignment explanation
Indices: 1007723--1007787 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
1007713 CAATTAATTG
* *
1007723 GTTTCGCCCAAGTCATCTTTATGGCTATTA
1 GTTTTGCCCAAGTCATCTTTATGACTATTA
* *
1007753 GTTTTGCCTAAGTCATCTTTTTGACTATTA
1 GTTTTGCCCAAGTCATCTTTATGACTATTA
1007783 GTTTT
1 GTTTT
1007788 ATTAGGTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (30 bp):
GTTTTGCCCAAGTCATCTTTATGACTATTA
Found at i:1008470 original size:13 final size:13
Alignment explanation
Indices: 1008452--1008476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1008442 CATAAAATGT
1008452 TGTATCGATACAA
1 TGTATCGATACAA
1008465 TGTATCGATACA
1 TGTATCGATACA
1008477 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1008474 original size:33 final size:33
Alignment explanation
Indices: 1008432--1008501 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1008422 TTCAACGATT
1008432 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1008465 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1008498 TGTA
1 TGTA
1008502 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1012435 original size:166 final size:164
Alignment explanation
Indices: 1012200--1012552 Score: 390
Period size: 166 Copynumber: 2.1 Consensus size: 164
1012190 ATTATTTCAT
* * *
1012200 TTTCATGAGTTTTGAATTTTTTCTTGAAATTTTCCTATTTTCGAAATATGGAGTTTTCCACTCCG
1 TTTCATGAGTTTTGAATTTTTTCTTGAAATTTTCCTATTTTCAAAATATGAAATTTTCCACTCCG
* * *
1012265 TAAAT-TTGTTCGAGAAGA-TTTTTCTTAGTTTATAATTTTTAAATTTCATC-AGATATCATCAT
66 TAAATGTT-TTC-A-AAGAGTTTTTCTCAGTTTAAAATTTTTAAACTTCATCTA-ATATCATCA-
* * **
1012327 CT-AATTCACATTAAATCAGTTTTGAAAATTTCCTTTTA
126 CTAAATTCACATTAAACCAGTTTTGAAAAATTCAATTTA
* * * ** * *
1012365 TTTCATGAGTTTTTTATTTTTTTCTTGAAATTTTCCTATTTTTAAAATATGAAATTTTTTATTTC
1 TTTCATGAG-TTTTGAATTTTTTCTTGAAATTTTCCTATTTTCAAAATATGAAATTTTCCACTCC
* **
1012430 GTAAATGTTTTCAAAGAGGTTTTTCTCGGTTTAAAATTTTTAAACTTCATCTAATATTGTCACTA
65 GTAAATGTTTTCAAAGA-GTTTTTCTCAGTTTAAAATTTTTAAACTTCATCTAATATCATCACTA
* *
1012495 AATTCTCATTAAACCATTTTTGAAAAATTCAATTTA
129 AATTCACATTAAACCAGTTTTGAAAAATTCAATTTA
* **
1012531 TTTCATGAATTTAAAATTTTTT
1 TTTCATGAGTTTTGAATTTTTT
1012553 TTGTATATAT
Statistics
Matches: 156, Mismatches: 26, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
164 4 0.03
165 22 0.14
166 127 0.81
167 3 0.02
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.50
Consensus pattern (164 bp):
TTTCATGAGTTTTGAATTTTTTCTTGAAATTTTCCTATTTTCAAAATATGAAATTTTCCACTCCG
TAAATGTTTTCAAAGAGTTTTTCTCAGTTTAAAATTTTTAAACTTCATCTAATATCATCACTAAA
TTCACATTAAACCAGTTTTGAAAAATTCAATTTA
Found at i:1015254 original size:35 final size:35
Alignment explanation
Indices: 1015209--1015283 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
1015199 AACGAGTCCC
1015209 AGGTA-ACCACCAGGTCCACTTTCACGCTGAATGT
1 AGGTATACCACCAGGTCCACTTTCACGCTGAATGT
1015243 AGGTATACCACCAGGTCCACTTTCACGCTGAATGT
1 AGGTATACCACCAGGTCCACTTTCACGCTGAATGT
*
1015278 TGGTAT
1 AGGTAT
1015284 TAGGAGTAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 5 0.13
35 34 0.87
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (35 bp):
AGGTATACCACCAGGTCCACTTTCACGCTGAATGT
Found at i:1018237 original size:29 final size:26
Alignment explanation
Indices: 1018204--1018298 Score: 75
Period size: 29 Copynumber: 3.3 Consensus size: 26
1018194 GGTACTTTTA
1018204 TGTAATTTCATGCACTTTAATGTCATTT
1 TGTAATTTCATGCA-TTTAA-GTCATTT
*
1018232 TGGTAAATTTTCATG-ATTTAAGACAATTT
1 T-GT-AA-TTTCATGCATTTAAGTC-ATTT
*
1018261 ATATAATTTCATGCATTTTAAGGTCATTT
1 -TGTAATTTCATGCA-TTTAA-GTCATTT
1018290 TAGTAATTT
1 T-GTAATTT
1018299 ACCATGTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
27 7 0.13
28 7 0.13
29 27 0.50
30 6 0.11
31 7 0.13
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (26 bp):
TGTAATTTCATGCATTTAAGTCATTT
Found at i:1018247 original size:58 final size:59
Alignment explanation
Indices: 1018179--1018304 Score: 143
Period size: 58 Copynumber: 2.2 Consensus size: 59
1018169 AAATTTAATC
* * * *
1018179 ATTTTCCATGA-CTAAGGTAC-TTTTATGTAATTTCATGCACTTTAATGTCATTTTGGTAA
1 ATTTTCCATGATCTAA-G-ACAATTTATATAATTTCATGCACTTTAAGGTCATTTTAGTAA
* *
1018238 ATTTT-CATGATTTAAGACAATTTATATAATTTCATGCATTTTAAGGTCATTTTAGT-A
1 ATTTTCCATGATCTAAGACAATTTATATAATTTCATGCACTTTAAGGTCATTTTAGTAA
*
1018295 ATTTACCATG
1 ATTTTCCATG
1018305 TTTTAGGGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
57 7 0.12
58 42 0.74
59 8 0.14
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (59 bp):
ATTTTCCATGATCTAAGACAATTTATATAATTTCATGCACTTTAAGGTCATTTTAGTAA
Found at i:1018327 original size:58 final size:59
Alignment explanation
Indices: 1018202--1018777 Score: 345
Period size: 58 Copynumber: 9.9 Consensus size: 59
1018192 AAGGTACTTT
* ** * * * * ***
1018202 TATGTAATTTCATGCACTTTAATGTCATTTTGGTAAATTT-TCATGATTTAAGACAATT-
1 TATGTAATTTCATGCATTTTAGGGTCATTTTAGT-AATTTGCCATGTTTTAGGGTTATTA
* * *
1018260 TATATAATTTCATGCATTTTAAGGTCATTTTAGTAATTTACCATGTTTTAGGGGTTATTA
1 TATGTAATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATGTTTTA-GGGTTATTA
* ** * * * ***
1018320 T-TG-AATTTAATGCATTGTT-GCATCATTGTAGTCATTTGCCAT-TATTTAAGACCATT-
1 TATGTAATTTCATGCATT-TTAGGGTCATTTTAGTAATTTGCCATGT-TTTAGGGTTATTA
* * * *
1018376 TATGTAATTTCATGCATTTTAGGGTCATTTTAATAATTTGGCATGTTTTAAGGTCATT-
1 TATGTAATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATGTTTTAGGGTTATTA
** * * *
1018434 TATACAATTTCATGCA-TTTAGGGTTATTTTAGTAATTTGTCATGTTTTAGGGTCATT-
1 TATGTAATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATGTTTTAGGGTTATTA
** * * ** *
1018491 TATGTAATTTTGTGTAATTTAGGGTCATTTCTAG-AATTTTTCACGTTTTAGGGGTTA-T-
1 TATGTAATTTCATGCATTTTAGGGTCATTT-TAGTAATTTGCCATGTTTTA-GGGTTATTA
* * *** * * * **** *
1018549 TATGTAATCTCATGCATTTTTGCACCATTTTAGTCATTTGTCATGTTTTTGAACCATTT
1 TATGTAATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATGTTTTAGGGTTATTA
* * * * * * ** *
1018608 TAAGTAATTTCATGCATTTTGGGGCCGTTTTAGTAATTTGGCATGATTTTAAGACTATTT
1 TATGTAATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATG-TTTTAGGGTTATTA
* * * * * * *
1018668 TGTGCAATTTCATGCATTTTAGGTTTATTTTAATAATTTGACATGTTTTAGGGGTATT-
1 TATGTAATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATGTTTTAGGGTTATTA
** * *
1018726 TATG-AATTTCATGCATTTTAAAGTTATTTTAGTAATTTACCATGTTTTAGGG
1 TATGTAATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATGTTTTAGGG
1018778 ATTTTATGCA
Statistics
Matches: 407, Mismatches: 95, Indels: 33
0.76 0.18 0.06
Matches are distributed among these distances:
56 1 0.00
57 109 0.27
58 188 0.46
59 63 0.15
60 46 0.11
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (59 bp):
TATGTAATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATGTTTTAGGGTTATTA
Found at i:1018377 original size:116 final size:116
Alignment explanation
Indices: 1018226--1018791 Score: 411
Period size: 116 Copynumber: 4.9 Consensus size: 116
1018216 CACTTTAATG
* * * *
1018226 TCATTTTGGTAAATTT-TCATGATTTAAGACAATTTATATAATTTCATGCATTTTAAGGTCATTT
1 TCATTTTAGT-AATTTGTCATGTTTTAAGACCATTTATATAATTTCATGCATTTTAGGGTCATTT
*
1018290 TAGTAATTTACCATGTTTTAGGGGTTATTATTG-AATTTAATGCATTGTTGCA
65 TAGTAATTTACCATGTTTTAGGGGTTATTATTGCAATTTCATGCATT-TTGCA
* * * *
1018342 TCATTGTAGTCATTTGCCAT-TATTTAAGACCATTTATGTAATTTCATGCATTTTAGGGTCATTT
1 TCATTTTAGTAATTTGTCATGT-TTTAAGACCATTTATATAATTTCATGCATTTTAGGGTCATTT
* ** * * * * **
1018406 TAATAATTTGGCATGTTTTA-AGGTCATT-TATACAATTTCATGCATTTAGGG
65 TAGTAATTTACCATGTTTTAGGGGTTATTAT-TGCAATTTCATGCATTTTGCA
* * ** * ** * *
1018457 TTATTTTAGTAATTTGTCATGTTTTAGGGTCATTTATGTAATTTTGTGTAATTTAGGGTCATTTC
1 TCATTTTAGTAATTTGTCATGTTTTAAGACCATTTATATAATTTCATGCATTTTAGGGTCATTT-
** * * *
1018522 TAG-AATTTTTCACGTTTTAGGGGTTATTA-TGTAATCTCATGCATTTTTGCA
65 TAGTAATTTACCATGTTTTAGGGGTTATTATTGCAATTTCATGCA-TTTTGCA
* * * * * *
1018573 CCATTTTAGTCATTTGTCATGTTTT-TGAACCATTT-TAAGTAATTTCATGCATTTTGGGGCCGT
1 TCATTTTAGTAATTTGTCATGTTTTAAG-ACCATTTAT-A-TAATTTCATGCATTTTAGGGTCAT
** * ** * **
1018636 TTTAGTAATTTGGCATGATTTTA-AGACTATTTTGTGCAATTTCATGCATTTTAGGT
63 TTTAGTAATTTACCATG-TTTTAGGGGTTATTAT-TGCAATTTCATGCATTTT-GCA
* * * * *** * ** *
1018692 TTATTTTAATAATTTGACATGTTTTAGGGGTATTTAT-GAATTTCATGCATTTTAAAGTTATTTT
1 TCATTTTAGTAATTTGTCATGTTTTAAGACCATTTATATAATTTCATGCATTTTAGGGTCATTTT
*
1018756 AGTAATTTACCATGTTTTAGGGATT-TTA-TGCAATTT
66 AGTAATTTACCATGTTTTAGGGGTTATTATTGCAATTT
1018792 AGTACCATTT
Statistics
Matches: 343, Mismatches: 87, Indels: 42
0.73 0.18 0.09
Matches are distributed among these distances:
114 9 0.03
115 90 0.26
116 129 0.38
117 67 0.20
118 9 0.03
119 37 0.11
120 2 0.01
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (116 bp):
TCATTTTAGTAATTTGTCATGTTTTAAGACCATTTATATAATTTCATGCATTTTAGGGTCATTTT
AGTAATTTACCATGTTTTAGGGGTTATTATTGCAATTTCATGCATTTTGCA
Found at i:1018404 original size:29 final size:28
Alignment explanation
Indices: 1018372--1018520 Score: 110
Period size: 29 Copynumber: 5.2 Consensus size: 28
1018362 TATTTAAGAC
1018372 CATTTATGTAATTTCATGCATTTTAGGGT
1 CATTTATGTAATTTCATG-ATTTTAGGGT
* *
1018401 CATTT-TAATAATTTGGCATG-TTTTAAGGT
1 CATTTAT-GTAATTT--CATGATTTTAGGGT
**
1018430 CATTTATACAATTTCATGCA-TTTAGGGT
1 CATTTATGTAATTTCATG-ATTTTAGGGT
*
1018458 TATTT-TAGTAATTTGTCATG-TTTTAGGGT
1 CATTTAT-GTAA-TT-TCATGATTTTAGGGT
** *
1018487 CATTTATGTAATTTTGTGTAATTTAGGGT
1 CATTTATGTAATTTCATG-ATTTTAGGGT
1018516 CATTT
1 CATTT
1018521 CTAGAATTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
27 8 0.08
28 16 0.17
29 61 0.64
30 7 0.07
31 4 0.04
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (28 bp):
CATTTATGTAATTTCATGATTTTAGGGT
Found at i:1018540 original size:29 final size:28
Alignment explanation
Indices: 1018392--1018543 Score: 84
Period size: 29 Copynumber: 5.3 Consensus size: 28
1018382 ATTTCATGCA
* **
1018392 TTTTAGGGTCATTTTAATAATTTGGCATG
1 TTTTAGGGTCATTTTAGTAATTTTTCA-G
* *
1018421 TTTTAAGGTCA-TTTA-TACA-ATTTCATG
1 TTTTAGGGTCATTTTAGTA-ATTTTTCA-G
* * *
1018448 CATTTAGGGTTATTTTAGTAATTTGTCATG
1 -TTTTAGGGTCATTTTAGTAATTTTTCA-G
1018478 TTTTAGGGTCA-TTTATGTAATTTTGT--G
1 TTTTAGGGTCATTTTA-GTAATTTT-TCAG
1018505 TAATTTAGGGTCATTTCTAG-AATTTTTCACG
1 T--TTTAGGGTCATTT-TAGTAATTTTTCA-G
1018536 TTTTAGGG
1 TTTTAGGG
1018544 GTTATTATGT
Statistics
Matches: 97, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
27 9 0.09
28 18 0.19
29 54 0.56
30 12 0.12
31 4 0.04
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (28 bp):
TTTTAGGGTCATTTTAGTAATTTTTCAG
Found at i:1018621 original size:59 final size:60
Alignment explanation
Indices: 1018552--1018687 Score: 148
Period size: 59 Copynumber: 2.3 Consensus size: 60
1018542 GGGTTATTAT
* * * * * *
1018552 GTAATCTCATGCATTTTTGCACCATTTTAGTCATTTGTCATGTTTTTGA-ACCATTTTAA
1 GTAATTTCATGCATTTTGGCACCATTTTAGTAATTTGGCATGATTTTAAGACCATTTTAA
** * * **
1018611 GTAATTTCATGCATTTTGGGGCCGTTTTAGTAATTTGGCATGATTTTAAGACTATTTTGT
1 GTAATTTCATGCATTTTGGCACCATTTTAGTAATTTGGCATGATTTTAAGACCATTTTAA
*
1018671 GCAATTTCATGCATTTT
1 GTAATTTCATGCATTTT
1018688 AGGTTTATTT
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
59 40 0.63
60 23 0.37
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (60 bp):
GTAATTTCATGCATTTTGGCACCATTTTAGTAATTTGGCATGATTTTAAGACCATTTTAA
Found at i:1018627 original size:29 final size:28
Alignment explanation
Indices: 1018552--1018687 Score: 80
Period size: 29 Copynumber: 4.6 Consensus size: 28
1018542 GGGTTATTAT
* *
1018552 GTAATCTCATGCATTTTTGCACCATTTTA
1 GTAATTTCATGCA-TTTTGAACCATTTTA
* *
1018581 GTCATTTGTCATG-TTTTTGAACCATTTTAA
1 GT-AATT-TCATGCATTTTGAACCATTTT-A
** *
1018611 GTAATTTCATGCATTTTGGGGCCGTTTTA
1 GTAATTTCATGCATTTT-GAACCATTTTA
* *
1018640 GTAATTTGGCATG-ATTTTAAGACTATTTT-
1 GTAATTT--CATGCATTTTGA-ACCATTTTA
1018669 GTGCAATTTCATGCATTTT
1 GT--AATTTCATGCATTTT
1018688 AGGTTTATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
28 5 0.06
29 36 0.44
30 27 0.33
31 14 0.17
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (28 bp):
GTAATTTCATGCATTTTGAACCATTTTA
Found at i:1018706 original size:29 final size:28
Alignment explanation
Indices: 1018673--1018763 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 28
1018663 TATTTTGTGC
1018673 AATTTCATGCATTTTAGGTTTATTTTAAT
1 AATTTCATGCATTTTAGG-TTATTTTAAT
*
1018702 AATTTGACATG--TTTTAGGGGTA-TTT-AT
1 AATTT--CATGCATTTTA-GGTTATTTTAAT
* *
1018729 GAATTTCATGCATTTTAAAGTTATTTTAGT
1 -AATTTCATGCATTTT-AGGTTATTTTAAT
1018759 AATTT
1 AATTT
1018764 ACCATGTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
26 4 0.08
27 2 0.04
28 15 0.31
29 21 0.43
30 3 0.06
31 4 0.08
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (28 bp):
AATTTCATGCATTTTAGGTTATTTTAAT
Found at i:1019928 original size:19 final size:19
Alignment explanation
Indices: 1019906--1019972 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
1019896 TAGCCAAACT
1019906 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
1019925 TGTATCGAT--A-C-A--A
1 TGTATCGATACACCAAGTA
1019938 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
1019957 TGTATCGATACACCAA
1 TGTATCGATACACCAA
1019973 AAAATTGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
16 2 0.05
17 2 0.05
19 26 0.62
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (19 bp):
TGTATCGATACACCAAGTA
Found at i:1019942 original size:13 final size:13
Alignment explanation
Indices: 1019924--1019949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1019914 TACACCAAGT
1019924 ATGTATCGATACA
1 ATGTATCGATACA
1019937 ATGTATCGATACA
1 ATGTATCGATACA
1019950 CCAAGTATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1019947 original size:32 final size:32
Alignment explanation
Indices: 1019906--1019968 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1019896 TAGCCAAACT
1019906 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
1019938 TGTATCGATACACCAAGTATGTATCGATACA
1 TGTATCGATACACCAAGTATGTATCGATACA
1019969 CCAAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACCAAGTATGTATCGATACAA
Found at i:1019983 original size:21 final size:19
Alignment explanation
Indices: 1019936--1019989 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
1019926 GTATCGATAC
*
1019936 AATGTATCGATACACCAAG
1 AATGTATCGATACACCAAA
*
1019955 TATGTATCGATACACCAAAA
1 AATGTATCGATACACC-AAA
1019975 AATTGTATCGATACA
1 AA-TGTATCGATACA
1019990 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 15 0.50
20 3 0.10
21 12 0.40
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (19 bp):
AATGTATCGATACACCAAA
Found at i:1021602 original size:12 final size:12
Alignment explanation
Indices: 1021570--1021603 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1021560 AACCATCAAG
*
1021570 GATGAAGAAGAT
1 GATGAAGATGAT
*
1021582 GATGAAGATGTT
1 GATGAAGATGAT
1021594 GATGAAGATG
1 GATGAAGATG
1021604 GTGACTCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:1022207 original size:21 final size:20
Alignment explanation
Indices: 1022160--1022228 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
1022150 AAAACTTTGA
1022160 AATGAAATAAATGAATT-GC-
1 AATGAAATAAA-GAATTAGCT
1022179 AAGTTGAAATAAAGAACTTAGCT
1 AA--TGAAATAAAGAA-TTAGCT
*
1022202 AATGAAAATAATGAATTAGCT
1 AATG-AAATAAAGAATTAGCT
1022223 AA-GAAA
1 AATGAAA
1022229 AATAAAAACT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
19 5 0.12
20 4 0.09
21 21 0.49
22 11 0.26
23 2 0.05
ACGTcount: A:0.54, C:0.06, G:0.16, T:0.25
Consensus pattern (20 bp):
AATGAAATAAAGAATTAGCT
Found at i:1022230 original size:21 final size:22
Alignment explanation
Indices: 1022185--1022239 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
1022175 TTGCAAGTTG
1022185 AAATAAAGAACTTAGCTAATGA
1 AAATAAAGAACTTAGCTAATGA
*
1022207 AAATAATGAA-TTAGCTAA-GAA
1 AAATAAAGAACTTAGCTAATG-A
1022228 AAATAAA-AACTT
1 AAATAAAGAACTT
1022240 GCATGATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 3 0.10
21 17 0.59
22 9 0.31
ACGTcount: A:0.58, C:0.07, G:0.11, T:0.24
Consensus pattern (22 bp):
AAATAAAGAACTTAGCTAATGA
Found at i:1026161 original size:13 final size:13
Alignment explanation
Indices: 1026143--1026178 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1026133 TTTTTCTTTG
1026143 TATCGATACATTA
1 TATCGATACATTA
*
1026156 TATCGATACATTG
1 TATCGATACATTA
1026169 TATCGATACA
1 TATCGATACA
1026179 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:1026342 original size:20 final size:20
Alignment explanation
Indices: 1026299--1026344 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1026289 AAATCTTTTG
1026299 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1026320 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1026340 CAAAA
1 CAAAA
1026345 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1027833 original size:13 final size:13
Alignment explanation
Indices: 1027815--1027839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1027805 CATAAAATGT
1027815 TGTATCGATACAA
1 TGTATCGATACAA
1027828 TGTATCGATACA
1 TGTATCGATACA
1027840 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1027837 original size:33 final size:33
Alignment explanation
Indices: 1027795--1027864 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1027785 TTCAACGATT
1027795 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1027828 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1027861 TGTA
1 TGTA
1027865 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1027924 original size:13 final size:13
Alignment explanation
Indices: 1027906--1027930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1027896 ATTACTCACA
1027906 TGTATCGATACAT
1 TGTATCGATACAT
1027919 TGTATCGATACA
1 TGTATCGATACA
1027931 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1028067 original size:52 final size:52
Alignment explanation
Indices: 1027939--1028059 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1027929 CACTGATCTT
*
1027939 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1027991 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1028043 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1028060 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1033704 original size:24 final size:24
Alignment explanation
Indices: 1033677--1033725 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1033667 AGAAAAGGTT
1033677 AATTAAAAGGTCCAAGAAAAATTA
1 AATTAAAAGGTCCAAGAAAAATTA
1033701 AATTAAAAGGTCCAAGAAAAATTA
1 AATTAAAAGGTCCAAGAAAAATTA
1033725 A
1 A
1033726 GTATTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.20
Consensus pattern (24 bp):
AATTAAAAGGTCCAAGAAAAATTA
Found at i:1037873 original size:3 final size:3
Alignment explanation
Indices: 1037865--1037898 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1037855 TTACTAGCAT
1037865 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1037899 GTGAGAGAGC
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1038934 original size:7 final size:7
Alignment explanation
Indices: 1038914--1038967 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
1038904 ACTTTTACTA
1038914 TTTTTAT
1 TTTTTAT
**
1038921 TAATTAT
1 TTTTTAT
1038928 TTTTTAT
1 TTTTTAT
1038935 TTTTTAT
1 TTTTTAT
1038942 TTTTTAT
1 TTTTTAT
1038949 TTTTTAT
1 TTTTTAT
1038956 TTTTTAT
1 TTTTTAT
1038963 TTTTT
1 TTTTT
1038968 TAAATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTAT
Found at i:1039086 original size:18 final size:16
Alignment explanation
Indices: 1039063--1039100 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
1039053 AAATAAAAAA
1039063 TTTATTTTATTAATTATT
1 TTTATTTTATT--TTATT
1039081 TTTATTTTATTTTATT
1 TTTATTTTATTTTATT
1039097 TTTA
1 TTTA
1039101 ATTGATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTTATTTTATT
Found at i:1043228 original size:26 final size:26
Alignment explanation
Indices: 1043156--1043229 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
1043146 CTTTGGTTGC
1043156 AAATAAAACTCATCAAGCCTAAGAAGT
1 AAAT-AAACTCATCAAGCCTAAGAAGT
* **
1043183 AAACAGAACTCATCAAGCCTGGGAAGT
1 AAATA-AACTCATCAAGCCTAAGAAGT
*
1043210 AAATAAACTCATCAGGCCTA
1 AAATAAACTCATCAAGCCTA
1043230 GGGGGTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 14 0.35
27 26 0.65
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.18
Consensus pattern (26 bp):
AAATAAACTCATCAAGCCTAAGAAGT
Found at i:1043237 original size:26 final size:26
Alignment explanation
Indices: 1043156--1043238 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
1043146 CTTTGGTTGC
* *
1043156 AAATAAAACTCATCAAGCCTAAGAAGT
1 AAAT-AAACTCATCAAGCCTAGGGAGT
*
1043183 AAACAGAACTCATCAAGCCT-GGGAAGT
1 AAATA-AACTCATCAAGCCTAGGG-AGT
* *
1043210 AAATAAACTCATCAGGCCTAGGGGGT
1 AAATAAACTCATCAAGCCTAGGGAGT
1043236 AAA
1 AAA
1043239 AATTGCCTCC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
26 20 0.43
27 27 0.57
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (26 bp):
AAATAAACTCATCAAGCCTAGGGAGT
Found at i:1046969 original size:22 final size:21
Alignment explanation
Indices: 1046942--1047000 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
1046932 TTTCAAAATA
1046942 TAATTTATTTAAAATTTATATT
1 TAATTTATTTAAAATTTATA-T
1046964 TAATTTA-TTAATAA--TATAT
1 TAATTTATTTAA-AATTTATAT
* *
1046983 AAATTTATTAAAAATTTA
1 TAATTTATTTAAAATTTA
1047001 AAATAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 9 0.29
20 7 0.23
21 6 0.19
22 9 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTTATTTAAAATTTATAT
Found at i:1047034 original size:25 final size:24
Alignment explanation
Indices: 1047006--1047104 Score: 61
Period size: 25 Copynumber: 4.2 Consensus size: 24
1046996 ATTTAAAATA
1047006 AATATAAATTATTTAATTAATTAAT
1 AATATAAATTATTTAATTAATT-AT
* *
1047031 AATACAAATTTATTAAATATAAATT-T
1 AATATAAA-TTATTTAAT-T-AATTAT
*
1047057 -AT-TAAAAT-TTTAA--AA-TA-
1 AATATAAATTATTTAATTAATTAT
*
1047074 AATATAAATTATTTAATTTATTAAT
1 AATATAAATTATTTAATTAATT-AT
1047099 AATATA
1 AATATA
1047105 TATTTATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 24
0.64 0.08 0.28
Matches are distributed among these distances:
17 1 0.02
18 4 0.07
19 5 0.09
20 5 0.09
22 5 0.09
23 2 0.04
24 4 0.07
25 15 0.27
26 9 0.16
27 1 0.02
28 4 0.07
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (24 bp):
AATATAAATTATTTAATTAATTAT
Found at i:1047051 original size:68 final size:68
Alignment explanation
Indices: 1046979--1047111 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 68
1046969 TATTAATAAT
1046979 ATATAAATTTATTAAAAATTTAAAATAAATATAAATTATTTAATTAATTAATAATACAAATTTAT
1 ATATAAATTTATTAAAAATTTAAAATAAATATAAATTATTTAATTAATTAATAATACAAATTTAT
1047044 TAA
66 TAA
* * * *
1047047 ATATAAATTTATTAAAATTTTAAAATAAATATAAATTATTTAATTTATTAATAATATATATTTAT
1 ATATAAATTTATTAAAAATTTAAAATAAATATAAATTATTTAATTAATTAATAATACAAATTTAT
1047112 ATATTTTTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (68 bp):
ATATAAATTTATTAAAAATTTAAAATAAATATAAATTATTTAATTAATTAATAATACAAATTTAT
TAA
Found at i:1047054 original size:15 final size:14
Alignment explanation
Indices: 1047004--1047062 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 14
1046994 AAATTTAAAA
1047004 TAAATATAAATTAT
1 TAAATATAAATTAT
* *
1047018 TTAAT-T-AATTAA
1 TAAATATAAATTAT
*
1047030 T-AATACAAATTTAT
1 TAAATATAAA-TTAT
1047044 TAAATATAAATTTAT
1 TAAATATAAA-TTAT
1047059 TAAA
1 TAAA
1047063 ATTTTAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
11 3 0.08
12 6 0.17
13 3 0.08
14 8 0.22
15 16 0.44
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAATATAAATTAT
Found at i:1047092 original size:36 final size:35
Alignment explanation
Indices: 1046984--1047097 Score: 121
Period size: 36 Copynumber: 3.3 Consensus size: 35
1046974 ATAATATATA
1046984 AATTTATTAAAAATTTAAAATAAATATAAATTATTT
1 AATTTATT-AAAATTTAAAATAAATATAAATTATTT
* ** *
1047020 AATTAATTAATAA--TACAAATTTAT-TAAA-TA-TA
1 AATTTATTAA-AATTTA-AAATAAATATAAATTATTT
1047052 AATTTATTAAAATTTTAAAATAAATATAAATTATTT
1 AATTTATTAAAA-TTTAAAATAAATATAAATTATTT
1047088 AATTTATTAA
1 AATTTATTAA
1047098 TAATATATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
31 2 0.03
32 10 0.16
33 8 0.13
34 12 0.19
35 10 0.16
36 20 0.32
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (35 bp):
AATTTATTAAAATTTAAAATAAATATAAATTATTT
Found at i:1047141 original size:22 final size:25
Alignment explanation
Indices: 1047046--1047141 Score: 74
Period size: 27 Copynumber: 3.8 Consensus size: 25
1047036 AAATTTATTA
* * *
1047046 AATATAAATTTATTAAAATTTTAA-
1 AATATATATTTATTTAATTTTTAAT
*
1047070 AATAAATATAAATTATTTAATTTATTAAT
1 AAT--ATAT-ATTTATTTAATTT-TTAAT
* *
1047099 AATATATATTTATATATTTTTTAA-
1 AATATATATTTATTTAATTTTTAAT
1047123 AATAT-TATTT-TTTAATTTT
1 AATATATATTTATTTAATTTT
1047142 AATTTATTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
22 7 0.12
23 5 0.09
24 8 0.14
25 4 0.07
26 13 0.22
27 14 0.24
28 4 0.07
29 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AATATATATTTATTTAATTTTTAAT
Found at i:1047369 original size:20 final size:19
Alignment explanation
Indices: 1047345--1047388 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
1047335 TAATTATGAA
1047345 AATAAATAAATAAAATATT
1 AATAAATAAATAAAATATT
* * *
1047364 ATATAATTATATATAATATT
1 A-ATAAATAAATAAAATATT
1047384 AATAA
1 AATAA
1047389 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAAATAAATAAAATATT
Found at i:1047850 original size:27 final size:28
Alignment explanation
Indices: 1047810--1047875 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
1047800 ATAAATTTAA
*
1047810 TAAAAA-AATATTA-TAACTTTTAAATT
1 TAAAAATAATTTTATTAACTTTTAAATT
*
1047836 TAAAAATAATTTTATTTAATTTTTAAATT
1 TAAAAATAATTTTA-TTAACTTTTAAATT
1047865 T--AAATAATTTT
1 TAAAAATAATTTT
1047876 TTTTAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 6 0.17
27 16 0.46
29 13 0.37
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
TAAAAATAATTTTATTAACTTTTAAATT
Found at i:1047880 original size:27 final size:28
Alignment explanation
Indices: 1047818--1047905 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
1047808 AATAAAAAAA
*
1047818 TATTATAACTTTTAAATTTAAAAATAATTT
1 TATT-TAATTTTTAAATTT-AAAATAATTT
1047848 TATTTAATTTTTAAATTT-AAATAATTT
1 TATTTAATTTTTAAATTTAAAATAATTT
* * *
1047875 TTTTTAA-ATTT-AATATAAAAT-ATATT
1 TATTTAATTTTTAAATTTAAAATAAT-TT
1047901 TATTT
1 TATTT
1047906 TATAAAATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
25 6 0.12
26 13 0.25
27 15 0.29
29 13 0.25
30 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (28 bp):
TATTTAATTTTTAAATTTAAAATAATTT
Found at i:1047901 original size:16 final size:18
Alignment explanation
Indices: 1047882--1047923 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1047872 TTTTTTTTAA
1047882 ATTTA-ATATAAAATA-T
1 ATTTATATATAAAATATT
*
1047898 ATTTATTTTATAAAATATT
1 ATTTA-TATATAAAATATT
1047917 ATTTATA
1 ATTTATA
1047924 GATTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTATATATAAAATATT
Found at i:1047906 original size:27 final size:25
Alignment explanation
Indices: 1047801--1047907 Score: 62
Period size: 29 Copynumber: 4.1 Consensus size: 25
1047791 TTTTTAATTA
*
1047801 TAAATTTAATAAAAAAATATTATAACTTT
1 TAAATTTAA-AAAAATATATT-T-A-TTT
*
1047830 TAAATTTAAAAATAATTTTATTTAATTTT
1 TAAATTTAAAAA-AA-TATATTT-A-TTT
*
1047859 TAAATTT----AAATA-ATTTTTTT
1 TAAATTTAAAAAAATATATTTATTT
1047879 TAAATTTAATATAAAATATATTTATTT
1 TAAATTTAA-A-AAAATATATTTATTT
1047906 TA
1 TA
1047908 TAAAATATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
20 10 0.16
22 4 0.06
23 1 0.02
24 2 0.03
25 1 0.02
26 5 0.08
27 9 0.14
28 3 0.05
29 24 0.38
30 4 0.06
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
TAAATTTAAAAAAATATATTTATTT
Found at i:1047993 original size:25 final size:26
Alignment explanation
Indices: 1047949--1048003 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
1047939 AAAAATTAAA
* *
1047949 TATATTTTTTATTAATTATTTATT-TT
1 TATATTTTTTATAAAATATTT-TTATT
1047975 TATATTTTTTA-AAAATATTTTTATT
1 TATATTTTTTATAAAATATTTTTATT
1048000 TATA
1 TATA
1048004 AAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 13 0.50
26 11 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TATATTTTTTATAAAATATTTTTATT
Found at i:1048011 original size:18 final size:18
Alignment explanation
Indices: 1047984--1048020 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1047974 TTATATTTTT
*
1047984 TAAAAATATTTTTATTTA
1 TAAAAATATTTTTAATTA
*
1048002 TAAAATTATTTTTAATTA
1 TAAAAATATTTTTAATTA
1048020 T
1 T
1048021 TATTAAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAAAATATTTTTAATTA
Found at i:1048412 original size:24 final size:23
Alignment explanation
Indices: 1048360--1048413 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
1048350 AAATTTTAAT
1048360 AAATAT-TAGTTTATTAATAGAA
1 AAATATATAGTTTATTAATAGAA
*** *
1048382 TGCTATATAGTTTTTTAATAGATA
1 AAATATATAGTTTATTAATAGA-A
1048406 AAATATAT
1 AAATATAT
1048414 TTTTTATATA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 3 0.13
23 14 0.61
24 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (23 bp):
AAATATATAGTTTATTAATAGAA
Found at i:1051684 original size:2 final size:2
Alignment explanation
Indices: 1051679--1051708 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1051669 TGTATAATGC
1051679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1051709 TGGTGAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1051805 original size:25 final size:25
Alignment explanation
Indices: 1051771--1051818 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
1051761 GATCTACGGT
*
1051771 GAGTTTCAATGAAAATTTATATGAC
1 GAGTTTCAATGAAAATGTATATGAC
*
1051796 GAGTTTCAATTAAAATGTATATG
1 GAGTTTCAATGAAAATGTATATG
1051819 GTAATTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (25 bp):
GAGTTTCAATGAAAATGTATATGAC
Found at i:1062915 original size:23 final size:24
Alignment explanation
Indices: 1062869--1062916 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1062859 AAAAATTAAA
* *
1062869 TGATGAGTAAAATAGTTTTAAATT
1 TGATGAATAAAATAGATTTAAATT
1062893 TGATGAATAAAATA-ATTTAAATT
1 TGATGAATAAAATAGATTTAAATT
1062916 T
1 T
1062917 TAATAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (24 bp):
TGATGAATAAAATAGATTTAAATT
Found at i:1064128 original size:13 final size:13
Alignment explanation
Indices: 1064110--1064135 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1064100 ACACCAAAGT
1064110 ATGTATCGATACA
1 ATGTATCGATACA
1064123 ATGTATCGATACA
1 ATGTATCGATACA
1064136 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1064133 original size:33 final size:33
Alignment explanation
Indices: 1064091--1064155 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1064081 TAGCCAAACT
* *
1064091 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
1064124 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1064156 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1070318 original size:13 final size:13
Alignment explanation
Indices: 1070300--1070338 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1070290 ACATTTTTCT
1070300 TTGTATCGATACA
1 TTGTATCGATACA
1070313 TTGTATCGATACA
1 TTGTATCGATACA
*
1070326 CTGTATCGATACA
1 TTGTATCGATACA
1070339 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1070502 original size:20 final size:20
Alignment explanation
Indices: 1070459--1070504 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1070449 AAATCTTTTG
1070459 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1070480 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1070500 CAAAA
1 CAAAA
1070505 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1070804 original size:20 final size:21
Alignment explanation
Indices: 1070781--1070821 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1070771 CAGCACCACT
*
1070781 AGGTCGCGACC-GGCACTCCC
1 AGGTCGCAACCAGGCACTCCC
*
1070801 AGGTCGCAACCAGGCAGTCCC
1 AGGTCGCAACCAGGCACTCCC
1070822 TATACTAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.20, C:0.41, G:0.29, T:0.10
Consensus pattern (21 bp):
AGGTCGCAACCAGGCACTCCC
Found at i:1072844 original size:20 final size:19
Alignment explanation
Indices: 1072790--1072844 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
1072780 AAAACCCTTA
*
1072790 AAAGTATCGATACACAATTC
1 AAAGTATCGATACA-TATTC
1072810 AAAGTATCGATACATATTGC
1 AAAGTATCGATACATATT-C
*
1072830 AATGTATCGATACAT
1 AAAGTATCGATACAT
1072845 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATATTC
Found at i:1072934 original size:13 final size:13
Alignment explanation
Indices: 1072916--1072941 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1072906 ACACCAAAGT
1072916 ATGTATCGATACA
1 ATGTATCGATACA
1072929 ATGTATCGATACA
1 ATGTATCGATACA
1072942 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1072939 original size:33 final size:33
Alignment explanation
Indices: 1072897--1072961 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1072887 TAGCCAAACT
* *
1072897 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
1072930 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1072962 TTGGCTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1073853 original size:14 final size:15
Alignment explanation
Indices: 1073827--1073855 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1073817 TCTTTATTAA
1073827 AATATTATTTATATT
1 AATATTATTTATATT
1073842 AATATT-TTTATATT
1 AATATTATTTATATT
1073856 TTTATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATATTATTTATATT
Found at i:1074448 original size:29 final size:31
Alignment explanation
Indices: 1074409--1074475 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
1074399 CATTTCAAAT
**
1074409 TATTATTCAATATTTTAATTTTTATT-AATAA
1 TATTA-TCAATATAATAATTTTTATTCAATAA
1074440 T-TTATCAATATAATAATTTTTATTCAATAA
1 TATTATCAATATAATAATTTTTATTCAATAA
1074470 TATTAT
1 TATTAT
1074476 ACAAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 18 0.56
30 9 0.28
31 5 0.16
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (31 bp):
TATTATCAATATAATAATTTTTATTCAATAA
Found at i:1074485 original size:29 final size:27
Alignment explanation
Indices: 1074423--1074485 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 27
1074413 ATTCAATATT
1074423 TTAATTTTTATTAATAATTTATCAATA
1 TTAATTTTTATTAATAATTTATCAATA
1074450 TAATAATTTTTATTCAATAATATTATACAA-A
1 T--TAATTTTTATT-AATAAT-TTAT-CAATA
1074481 TTAAT
1 TTAAT
1074486 ATAACTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
27 1 0.03
29 15 0.48
30 6 0.19
31 6 0.19
32 3 0.10
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (27 bp):
TTAATTTTTATTAATAATTTATCAATA
Found at i:1080996 original size:158 final size:157
Alignment explanation
Indices: 1080610--1081015 Score: 369
Period size: 157 Copynumber: 2.6 Consensus size: 157
1080600 TAAAAACGGG
* * * * * * * * *
1080610 TTAGAATATCTCCTC-GGAAATAATAAGGTTGGAGTATCCCCAATTA-TGAAAAATCAATGTTTT
1 TTAGAGTATC-CCTCAGAAAATAACAGGGTTGAAGTATCCCCGA-TAGTGAAAAATTAGTATTTT
* * *
1080673 AGAAATAAAATTAGGGTTCGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGG
64 AGAAATAAAATGAGGGTTCGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATGGTGA
* *
1080738 AAATCGGTATTTTAGAGATAAAACCGAGA
129 AAATCAGTATTTTAGAAATAAAACCGAGA
** * * * *
1080767 TTAGAGTATCCCTTTGAAAATAACAGGGTTGGAGTATCCCTGATTGTGAAAAATTAGTGTTTT-G
1 TTAGAGTATCCCTCAGAAAATAACAGGGTTGAAGTATCCCCGATAGTGAAAAATTAGTATTTTAG
* * * * * * *
1080831 AAAATAAAATCGA-GGTTGGAGTATTCCTTCAGAAATAAC-AGGGTTGGAGTGTCCCTAATTGTG
66 -AAATAAAAT-GAGGGTTCGAGTATCCCCTCAAAAATAACGA-GGTTGGAGTATCCCCAATGGTG
*
1080894 AAAAATCAGTATTTTAGAAATAAAACCGGGA
128 -AAAATCAGTATTTTAGAAATAAAACCGAGA
** * * *
1080925 TTCTAGTATCACCTCAG-AAATAACGGGGTTGAAGTATCCCCGATAGTGGAAAATTGGTATTTTA
1 TTAGAGTATC-CCTCAGAAAATAACAGGGTTGAAGTATCCCCGATAGTGAAAAATTAGTATTTTA
*
1080989 GATATAAAACTG-GGGTT-GAAGTATCCC
65 GAAATAAAA-TGAGGGTTCG-AGTATCCC
1081016 GATTATGGAA
Statistics
Matches: 202, Mismatches: 36, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
156 6 0.03
157 97 0.48
158 93 0.46
159 6 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (157 bp):
TTAGAGTATCCCTCAGAAAATAACAGGGTTGAAGTATCCCCGATAGTGAAAAATTAGTATTTTAG
AAATAAAATGAGGGTTCGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATGGTGAAA
ATCAGTATTTTAGAAATAAAACCGAGA
Found at i:1080998 original size:79 final size:78
Alignment explanation
Indices: 1080589--1081015 Score: 337
Period size: 79 Copynumber: 5.4 Consensus size: 78
1080579 AAAAGTTTAA
* * * * * * * *
1080589 TATTTTGGAGATAAAAACGGG-TTAGAATATCTCCTCGGAAATAATAAGGTTGGAGTATCCCCAA
1 TATTTTAGAAATAAAACCGGGATTAGAGTATC-CCTCAGAAATAACAGGGTTGGAGTATCCCCGA
* *
1080653 TTATGAAAAATCAA
65 TTGTGAAAAATCAG
* ** * *
1080667 TGTTTTAGAAATAAAATTAGGG-TTCGAGTATCCCCTCAAAAATAAC-GAGGTTGGAGTATCCCC
1 TATTTTAGAAATAAAA-CCGGGATTAGAGTAT-CCCTCAGAAATAACAG-GGTTGGAGTATCCCC
* * *
1080730 GATGGTG-GAAATCGG
63 GATTGTGAAAAATCAG
* * ** *
1080745 TATTTTAGAGATAAAACCGAGATTAGAGTATCCCTTTGAAAATAACAGGGTTGGAGTATCCCTGA
1 TATTTTAGAAATAAAACCGGGATTAGAGTATCCCTCAG-AAATAACAGGGTTGGAGTATCCCCGA
*
1080810 TTGTGAAAAATTAG
65 TTGTGAAAAATCAG
* * * * * *
1080824 TGTTTT-GAAAATAAAATCGAGG-TTGGAGTATTCCTTCAGAAATAACAGGGTTGGAGTGTCCCT
1 TATTTTAG-AAATAAAACCG-GGATTAGAGTA-TCCCTCAGAAATAACAGGGTTGGAGTATCCCC
*
1080887 AATTGTGAAAAATCAG
63 GATTGTGAAAAATCAG
** * *
1080903 TATTTTAGAAATAAAACCGGGATTCTAGTATCACCTCAGAAATAACGGGGTTGAAGTATCCCCGA
1 TATTTTAGAAATAAAACCGGGATTAGAGTATC-CCTCAGAAATAACAGGGTTGGAGTATCCCCGA
* * **
1080968 TAGTGGAAAATTGG
65 TTGTGAAAAATCAG
* * *
1080982 TATTTTAGATATAAAACTGGGGTT-GAAGTATCCC
1 TATTTTAGAAATAAAACCGGGATTAG-AGTATCCC
1081016 GATTATGGAA
Statistics
Matches: 275, Mismatches: 60, Indels: 28
0.76 0.17 0.08
Matches are distributed among these distances:
77 6 0.02
78 74 0.27
79 187 0.68
80 8 0.03
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (78 bp):
TATTTTAGAAATAAAACCGGGATTAGAGTATCCCTCAGAAATAACAGGGTTGGAGTATCCCCGAT
TGTGAAAAATCAG
Found at i:1081009 original size:51 final size:51
Alignment explanation
Indices: 1080948--1081065 Score: 152
Period size: 50 Copynumber: 2.3 Consensus size: 51
1080938 TCAGAAATAA
* *
1080948 CGGGGTTGAAGTATCCCCGA-TAGTGGAAAATTGGTATTTT-AGATATAAAAC
1 CGGGGTTGAAGTATCCCCGATTA-TGGAAAATTAGTATTTTGA-AAATAAAAC
* *
1080999 TGGGGTTGAAGTAT-CCCGATTATGGAAAATTAGTGTTTTGAAAATAAAAC
1 CGGGGTTGAAGTATCCCCGATTATGGAAAATTAGTATTTTGAAAATAAAAC
*
1081049 CGGGGTTGGAGTATCCC
1 CGGGGTTGAAGTATCCC
1081066 TTCAGAAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
50 40 0.69
51 18 0.31
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
CGGGGTTGAAGTATCCCCGATTATGGAAAATTAGTATTTTGAAAATAAAAC
Found at i:1083762 original size:13 final size:13
Alignment explanation
Indices: 1083744--1083769 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1083734 AAAAGTACTT
1083744 TTTCGATCCCTCA
1 TTTCGATCCCTCA
1083757 TTTCGATCCCTCA
1 TTTCGATCCCTCA
1083770 ATCTAAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.08, T:0.38
Consensus pattern (13 bp):
TTTCGATCCCTCA
Found at i:1085862 original size:13 final size:13
Alignment explanation
Indices: 1085844--1085868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1085834 ATATTGCTTA
1085844 GTATCGATACATT
1 GTATCGATACATT
1085857 GTATCGATACAT
1 GTATCGATACAT
1085869 GTTCTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1085865 original size:33 final size:32
Alignment explanation
Indices: 1085823--1085886 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1085813 CACACCCAGA
1085823 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATT-CTTAGTATCGATACAT
* *
1085856 TGTATCGATACATGTTCTTTGTATCGATACA
1 TGTATCGATACATATTCTTAGTATCGATACA
1085887 CCATAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATATTCTTAGTATCGATACAT
Found at i:1087618 original size:3 final size:3
Alignment explanation
Indices: 1087610--1087655 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
1087600 TCAACCATCA
* *
1087610 ATG ATG ATG AAG ATG ATG GTG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1087656 GGTTGGCTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:1088199 original size:21 final size:21
Alignment explanation
Indices: 1088148--1088203 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
1088138 AAATGAGTTG
1088148 CAAGAAGTTAATAAAGAATTAAC
1 CAAGAAG--AATAAAGAATTAAC
* *
1088171 CAATAAGAATAACGAATTAAC
1 CAAGAAGAATAAAGAATTAAC
* *
1088192 TAGGAAGAATAA
1 CAAGAAGAATAA
1088204 GAACTTGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 22 0.79
23 6 0.21
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (21 bp):
CAAGAAGAATAAAGAATTAAC
Found at i:1092287 original size:21 final size:22
Alignment explanation
Indices: 1092247--1092287 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1092237 AACCCTAGAT
1092247 TTCTAATCTTCAAATTCATCCA
1 TTCTAATCTTCAAATTCATCCA
1092269 TTCTAA-CTT-AAATTTCATC
1 TTCTAATCTTCAAA-TTCATC
1092288 TTTTTCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 9 0.50
22 6 0.33
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (22 bp):
TTCTAATCTTCAAATTCATCCA
Found at i:1094784 original size:32 final size:32
Alignment explanation
Indices: 1094742--1094810 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
1094732 GATGCATGGT
1094742 AAATTGTATCGATACATTGAGTCCAACGGCTA
1 AAATTGTATCGATACATTGAGTCCAACGGCTA
* *
1094774 TAATTGTATCGATGCATTGAGTCCAACGGCTA
1 AAATTGTATCGATACATTGAGTCCAACGGCTA
1094806 AAATT
1 AAATT
1094811 TTAAATGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (32 bp):
AAATTGTATCGATACATTGAGTCCAACGGCTA
Found at i:1094821 original size:30 final size:32
Alignment explanation
Indices: 1094742--1094822 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
1094732 GATGCATGGT
** *
1094742 AAATTGTATCGATACATTGAGTCCAACGGCTA
1 AAATTGTATAAATGCATTGAGTCCAACGGCTA
* **
1094774 TAATTGTATCGATGCATTGAGTCCAACGGCTA
1 AAATTGTATAAATGCATTGAGTCCAACGGCTA
1094806 AAATT-T-TAAATGCATTG
1 AAATTGTATAAATGCATTG
1094823 TATTGATACA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 9 0.20
31 1 0.02
32 34 0.77
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (32 bp):
AAATTGTATAAATGCATTGAGTCCAACGGCTA
Found at i:1098401 original size:174 final size:174
Alignment explanation
Indices: 1098106--1098447 Score: 621
Period size: 174 Copynumber: 2.0 Consensus size: 174
1098096 GTTGCTCAAG
1098106 TTAAATAAATGATCTTATAATTGCTTTTGAAAATTTAAGTGCATTTATGTGTCAATATATAGTAC
1 TTAAATAAATGATCTTATAATTGCTTTTGAAAATTTAAGTGCATTTATGTGTCAATATATAGTAC
* *
1098171 ACATTCTTGAAAGATAGAAAATGTATTTTCTGAAAGACTTATATTGACACGATGAAATGTTTTAT
66 ACATTCTCGAAAGATAGAAAATGTATTTTCTGAAAGACCTATATTGACACGATGAAATGTTTTAT
*
1098236 TTTAAGGTGATGATGAAGATTGTATCATACCTTTACGACTTTAT
131 TTTAAGGTGATGATGAAGATCGTATCATACCTTTACGACTTTAT
* *
1098280 TTAAGTAAATGATCTTATAATTGCTTTTGAAATTTTAAGTGCATTTATGTGTCAATATATAGTAC
1 TTAAATAAATGATCTTATAATTGCTTTTGAAAATTTAAGTGCATTTATGTGTCAATATATAGTAC
*
1098345 ACATTCTCGAAAGATAGAAAATGTATTTTCTGAAAGCCCTATATTGACACGATGAAATGTTTTAT
66 ACATTCTCGAAAGATAGAAAATGTATTTTCTGAAAGACCTATATTGACACGATGAAATGTTTTAT
*
1098410 TTTAGGGTGATGATGAAGATCGTATCATACCTTTACGA
131 TTTAAGGTGATGATGAAGATCGTATCATACCTTTACGA
1098448 TGTTTTAAAA
Statistics
Matches: 161, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 161 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (174 bp):
TTAAATAAATGATCTTATAATTGCTTTTGAAAATTTAAGTGCATTTATGTGTCAATATATAGTAC
ACATTCTCGAAAGATAGAAAATGTATTTTCTGAAAGACCTATATTGACACGATGAAATGTTTTAT
TTTAAGGTGATGATGAAGATCGTATCATACCTTTACGACTTTAT
Done.