Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 4 of 235
Found at i:873991 original size:11 final size:10
Alignment explanation
Indices: 873964--873990 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
873954 AGTGTCCTAG
873964 TTTTTTTCTT
1 TTTTTTTCTT
873974 TTTTTTTCTT
1 TTTTTTTCTT
873984 TTTTTTT
1 TTTTTTT
873991 TGTGAATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:875807 original size:132 final size:132
Alignment explanation
Indices: 875569--875813 Score: 348
Period size: 132 Copynumber: 1.9 Consensus size: 132
875559 AAGTATTCAT
* * * *
875569 TTAAAAATTCTTTAAAGCGAAGACGAGATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAACA
1 TTAAAAAGTCTTTAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATAGTGCCCTAACA
* * * *
875634 TGTTGGGTTGCAATTTCGCTTTTGCTCGAAATAATCGAATATCCCTTCAAACTTTCACTCATGCC
66 TGTTAGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTTCACTCATGCC
875699 TC
131 TC
* * *
875701 TTAAAAAGTCTTTAAAACGAAGGCAA-AGTTTGATATTTAGCAATTCGCGGAATTGTGCCCTAAC
1 TTAAAAAGTCTTTAAAACGAAGACAAGA-TTCGATATTTAGCAATTCGCGGAATAGTGCCCTAAC
* * *
875765 GTGTTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATTCCTTC
65 ATGTTAGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTC
875814 GAGATTCCGT
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
131 1 0.01
132 97 0.99
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (132 bp):
TTAAAAAGTCTTTAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATAGTGCCCTAACA
TGTTAGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTTCACTCATGCC
TC
Found at i:875838 original size:132 final size:132
Alignment explanation
Indices: 875600--875858 Score: 326
Period size: 132 Copynumber: 2.0 Consensus size: 132
875590 GACGAGATTC
* * * *
875600 GATATTTGGCAATTCGCGGAATAGTGCCCTAACATGTTGGGTTGCAATTTCGCTTTTGCTCGAAA
1 GATATTTAGCAATTCGCGGAATAGTGCCCTAACATGTTAGGTTGCAATTTCGCGTTTGCTCAAAA
* * * *
875665 TAATCGAATATCCCTTCAAACTTTCACTCATGCCTCTTAAAAAGT-CTTTAAAACGAAGGCAAAG
66 TAATCAAATATCCCTTCAAACTTCCACTCAGGCCTCTTAAAAA-TCCTCTAAAACGAAGGCAAAG
875729 TTT
130 TTT
* * *
875732 GATATTTAGCAATTCGCGGAATTGTGCCCTAACGTGTTAGGTTGCAATTTCTCGTTTGCTCAAAA
1 GATATTTAGCAATTCGCGGAATAGTGCCCTAACATGTTAGGTTGCAATTTCGCGTTTGCTCAAAA
* * ** *
875797 TAATCAAATATTCCTTCGAGA-TTCCGTTCAGGTCT-TCTAAAAATCCTCTAAAACGAAGGCAA
66 TAATCAAATATCCCTTC-AAACTTCCACTCAGGCCTCT-TAAAAATCCTCTAAAACGAAGGCAA
875859 TACTCGGTGT
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
131 2 0.02
132 104 0.96
133 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (132 bp):
GATATTTAGCAATTCGCGGAATAGTGCCCTAACATGTTAGGTTGCAATTTCGCGTTTGCTCAAAA
TAATCAAATATCCCTTCAAACTTCCACTCAGGCCTCTTAAAAATCCTCTAAAACGAAGGCAAAGT
TT
Found at i:875877 original size:132 final size:132
Alignment explanation
Indices: 875598--875893 Score: 309
Period size: 132 Copynumber: 2.2 Consensus size: 132
875588 AAGACGAGAT
* * * *
875598 TCGATATTTGGCAATTCGCGGAATAGTGCCCTAACATGTTGGGTTGCAATTTCGCTTTTGCTCGA
1 TCGATATTTGACAATTCGCGGAATAGTGCCCTAACATGTTAGGTTGCAATTTCGCGTTTGCTCAA
* * * *
875663 AATAATCGAATATCCCTTCAAACTTTCACTCATGCCTCTTAAAAAGTCTTTAAAACGAAGGCAAA
66 AATAATCAAATATCCCTTCAAACTTCCACTCAGGCCTCTTAAAAAGTCTCTAAAACGAAGGCAAA
*
875728 GT
131 GC
* * * *
875730 TTGATATTT-AGCAATTCGCGGAATTGTGCCCTAACGTGTTAGGTTGCAATTTCTCGTTTGCTCA
1 TCGATATTTGA-CAATTCGCGGAATAGTGCCCTAACATGTTAGGTTGCAATTTCGCGTTTGCTCA
* * ** *
875794 AAATAATCAAATATTCCTTCGAGA-TTCCGTTCAGGTCT-TCTAAAAA-TCCTCTAAAACGAAGG
65 AAATAATCAAATATCCCTTC-AAACTTCCACTCAGGCCTCT-TAAAAAGT-CTCTAAAACGAAGG
875856 CAATA-C
127 CAA-AGC
* *
875862 TCGGTGTTTGACAATTCG-GGAATCA-TGCCCTA
1 TCGATATTTGACAATTCGCGGAAT-AGTGCCCTA
875894 TCGTTCTGGG
Statistics
Matches: 135, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
131 14 0.10
132 117 0.87
133 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (132 bp):
TCGATATTTGACAATTCGCGGAATAGTGCCCTAACATGTTAGGTTGCAATTTCGCGTTTGCTCAA
AATAATCAAATATCCCTTCAAACTTCCACTCAGGCCTCTTAAAAAGTCTCTAAAACGAAGGCAAA
GC
Found at i:877057 original size:85 final size:85
Alignment explanation
Indices: 876906--877072 Score: 208
Period size: 85 Copynumber: 2.0 Consensus size: 85
876896 TAGGACACGC
* * * * * *
876906 TTTCACCATAGGTAAGATAATATCAGAGTTCATGTCAGAATCCAATTTCAAATGATTCTATCACA
1 TTTCACCATAAGTAAAATAATATCAGAGATCAGGTCAAAATCCAATTTCAAATGATGCTATCACA
*
876971 TACCTACAACAATACAAATA
66 TACCTACAACAACACAAATA
* * * * *
876991 TTTCACCATAAGTAAAATAATGTCAGAGATCAGGTCAAAATCTAATTTCGAATGATGCTGTGACA
1 TTTCACCATAAGTAAAATAATATCAGAGATCAGGTCAAAATCCAATTTCAAATGATGCTATCACA
* *
877056 TACTTGCAACAACACAA
66 TACCTACAACAACACAA
877073 GTATGTAGAG
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (85 bp):
TTTCACCATAAGTAAAATAATATCAGAGATCAGGTCAAAATCCAATTTCAAATGATGCTATCACA
TACCTACAACAACACAAATA
Found at i:888463 original size:20 final size:20
Alignment explanation
Indices: 888434--888472 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
888424 TGATTGGTTG
* *
888434 TGATTGAATTGTATTTGAAT
1 TGATTAAATTGTATGTGAAT
888454 TGATTAAATTGTATGTGAA
1 TGATTAAATTGTATGTGAA
888473 ATGTATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
TGATTAAATTGTATGTGAAT
Found at i:890069 original size:40 final size:40
Alignment explanation
Indices: 890025--890171 Score: 154
Period size: 40 Copynumber: 3.7 Consensus size: 40
890015 AGAGTATTCT
*
890025 TTTTAGTAGATTCAGTAGGTATGGCTCGAAAACACATACG
1 TTTTAGTAGATTCAGTAGGTATGGCTCGAAAACGCATACG
* ** *
890065 TTTTAGTAGATTCAATAGGCGTGGCTC-AAAAGCGCATATG
1 TTTTAGTAGATTCAGTAGGTATGGCTCGAAAA-CGCATACG
* * ** *
890105 TTTCAGTAGATTCAGTAAGTACAAG-TCGAAAGCGCATACG
1 TTTTAGTAGATTCAGTAGGTA-TGGCTCGAAAACGCATACG
* *
890145 TTTTAATATATTCAGTAGGTATGGCTC
1 TTTTAGTAGATTCAGTAGGTATGGCTC
890172 TTCTGAGCAC
Statistics
Matches: 83, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
39 5 0.06
40 74 0.89
41 4 0.05
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (40 bp):
TTTTAGTAGATTCAGTAGGTATGGCTCGAAAACGCATACG
Found at i:897203 original size:17 final size:17
Alignment explanation
Indices: 897181--897220 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
897171 TCAACAAAAC
897181 ATCAATTTAATTTATAA
1 ATCAATTTAATTTATAA
897198 ATCAATTTAATTTATAA
1 ATCAATTTAATTTATAA
897215 AT-AATT
1 ATCAATT
897221 AGAAGTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
ATCAATTTAATTTATAA
Found at i:899451 original size:14 final size:14
Alignment explanation
Indices: 899432--899468 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
899422 TACAATATCC
899432 AAATAATAACAATA
1 AAATAATAACAATA
*
899446 AAATAATATCAATA
1 AAATAATAACAATA
*
899460 TAATAATAA
1 AAATAATAA
899469 AATGGCAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:900661 original size:6 final size:6
Alignment explanation
Indices: 900650--900692 Score: 68
Period size: 6 Copynumber: 7.0 Consensus size: 6
900640 AAAAATCGTA
*
900650 ATAATT ATAATT ATAATT ATAATT ATAATT ATTAATT AAAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT A-TAATT ATAATT
900693 TTGACGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
ATAATT
Found at i:908193 original size:15 final size:16
Alignment explanation
Indices: 908168--908200 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
908158 AATTAAAGAG
*
908168 TAAATTATTATTTTTT
1 TAAATTATTATTTATT
908184 TAAATT-TTATTTATT
1 TAAATTATTATTTATT
908199 TA
1 TA
908201 TATTGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TAAATTATTATTTATT
Found at i:918842 original size:17 final size:17
Alignment explanation
Indices: 918822--918880 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
918812 TTTCTTTTGA
918822 AAAAGTTTT-TAATTTTT
1 AAAA-TTTTATAATTTTT
*
918839 AAAATTTTATAGTTTTT
1 AAAATTTTATAATTTTT
*
918856 -AATTTTTATGAATTTTT
1 AAAATTTTAT-AATTTTT
918873 AATAATTT
1 AA-AATTT
918881 ATTTAAGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 12 0.35
17 17 0.50
18 1 0.03
19 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
AAAATTTTATAATTTTT
Found at i:925304 original size:25 final size:25
Alignment explanation
Indices: 925270--925317 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
925260 NNNNNTACCA
925270 TTATTCAGCTCGGA-AGAGCTTACAG
1 TTATTCAGCTCGGAGA-AGCTTACAG
*
925295 TTATTCAGCTTGGAGAAGCTTAC
1 TTATTCAGCTCGGAGAAGCTTAC
925318 CATTTACAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
TTATTCAGCTCGGAGAAGCTTACAG
Found at i:937864 original size:18 final size:18
Alignment explanation
Indices: 937841--937883 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
937831 AAAATTTAAA
937841 ATATAAATTTAGTAATAT
1 ATATAAATTTAGTAATAT
*
937859 ATATAAATTTATTAATAT
1 ATATAAATTTAGTAATAT
*
937877 ATGTAAA
1 ATATAAA
937884 AACAGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (18 bp):
ATATAAATTTAGTAATAT
Found at i:937876 original size:16 final size:17
Alignment explanation
Indices: 937836--937878 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
937826 AAAAAAAAAT
*
937836 TTAAAATATAAATTTAG
1 TTAATATATAAATTTAG
*
937853 TAATATATATAAATTTA-
1 TTA-ATATATAAATTTAG
937870 TTAATATAT
1 TTAATATAT
937879 GTAAAAACAG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 6 0.27
17 4 0.18
18 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TTAATATATAAATTTAG
Found at i:937988 original size:14 final size:14
Alignment explanation
Indices: 937969--938007 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
937959 CTAGAAAAGT
937969 AAATCATTTTCCAA
1 AAATCATTTTCCAA
*
937983 AAATCATTTTCCGA
1 AAATCATTTTCCAA
937997 AAATCATTTTC
1 AAATCATTTTC
938008 GACTATCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:940942 original size:29 final size:29
Alignment explanation
Indices: 940903--940962 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
940893 ATGGACCACT
*
940903 TCTATTGCCATAATTGAAATAACCAAAAA
1 TCTATTGCCATAATCGAAATAACCAAAAA
940932 TCTATTGCCATAATCGAAATAACCAAAAA
1 TCTATTGCCATAATCGAAATAACCAAAAA
940961 TC
1 TC
940963 GAAGCTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (29 bp):
TCTATTGCCATAATCGAAATAACCAAAAA
Found at i:942641 original size:46 final size:46
Alignment explanation
Indices: 942575--942717 Score: 133
Period size: 46 Copynumber: 3.0 Consensus size: 46
942565 CACATTGTCA
* * * * *
942575 CACATCACACACCAAAGCCATAGCCCTGCCATGGTCTTATATGGAT
1 CACATAACATACCAATGCCATAGCCCAGCTATGGTCTTATATGGAT
* * * *
942621 CACATAACATACCAATGCCATATCCCAGATATGGTCTTATACAGAAT
1 CACATAACATACCAATGCCATAGCCCAGCTATGGTCTTATA-TGGAT
*
942668 CACATTATCACATCACACCAATGCCATAGCCCAGCTATGGTCGTATATGG
1 CACA-TA--ACAT---ACCAATGCCATAGCCCAGCTATGGTCTTATATGG
942718 GAACATGAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
46 34 0.45
47 7 0.09
48 2 0.03
50 4 0.05
52 1 0.01
53 28 0.37
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (46 bp):
CACATAACATACCAATGCCATAGCCCAGCTATGGTCTTATATGGAT
Found at i:945039 original size:10 final size:10
Alignment explanation
Indices: 945012--945071 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
945002 TGAAATTCTA
945012 AAAGATAAAT
1 AAAGATAAAT
*
945022 ACAA-ATAATT
1 A-AAGATAAAT
*
945032 AAAGATAATT
1 AAAGATAAAT
945042 AAAGATAAAT
1 AAAGATAAAT
945052 AAAGATAAAT
1 AAAGATAAAT
945062 GAAA-ATAAAT
1 -AAAGATAAAT
945072 CCTAGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:945653 original size:21 final size:20
Alignment explanation
Indices: 945624--945663 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
945614 CTTTGACACA
*
945624 GGGCACACGCTCGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
945644 GGGCAACACGCCCGTGTGGA
1 GGGC-ACACGCCCGTGTGGA
945664 ACTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:948889 original size:5 final size:5
Alignment explanation
Indices: 948881--948920 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
948871 ATTATTAAGT
948881 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
948921 AAACATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:949993 original size:43 final size:42
Alignment explanation
Indices: 949944--950037 Score: 111
Period size: 41 Copynumber: 2.2 Consensus size: 42
949934 CGACCTCAAG
*
949944 TCGATGAGGCACTATATGCGTCGTAATATTGCTTCGGA-T-AAT
1 TCGATGAGGCAC--TATGCGTCGTAATATTGCTTCAGATTAAAT
* * *
949986 TCCGATGAGACACTATGTGTCGTATTATTGCTTCAGATTAAAT
1 T-CGATGAGGCACTATGCGTCGTAATATTGCTTCAGATTAAAT
950029 TCGATGAGG
1 TCGATGAGG
950038 TATTAGGTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 21 0.48
42 9 0.20
43 14 0.32
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (42 bp):
TCGATGAGGCACTATGCGTCGTAATATTGCTTCAGATTAAAT
Found at i:954528 original size:18 final size:19
Alignment explanation
Indices: 954505--954541 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
954495 TGGAATATAT
*
954505 TATTAAAAA-ATAAATAAA
1 TATTAAAAATAAAAATAAA
954523 TATTAAAAATAAAAATAAA
1 TATTAAAAATAAAAATAAA
954542 AAATAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
TATTAAAAATAAAAATAAA
Found at i:959244 original size:15 final size:16
Alignment explanation
Indices: 959219--959251 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
959209 CAACAATGTC
959219 AATTAAACTAAAACTT
1 AATTAAACTAAAACTT
*
959235 AATT-AACTAAAATTT
1 AATTAAACTAAAACTT
959250 AA
1 AA
959252 AATTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAACTAAAACTT
Found at i:959904 original size:26 final size:27
Alignment explanation
Indices: 959852--959904 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
959842 GGAATCAAGG
* *
959852 ATTCAAAATGTTTGAAACTAATCTACT
1 ATTCAAAATGATTAAAACTAATCTACT
*
959879 ATTCAAATTGATTAAAACTAAT-TACT
1 ATTCAAAATGATTAAAACTAATCTACT
959905 TGCATTAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (27 bp):
ATTCAAAATGATTAAAACTAATCTACT
Found at i:961734 original size:14 final size:13
Alignment explanation
Indices: 961703--961727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
961693 ATGGAATTAA
961703 ATAATTTTTTTTC
1 ATAATTTTTTTTC
961716 ATAATTTTTTTT
1 ATAATTTTTTTT
961728 ATTTAATGAT
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:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
ATAATTTTTTTTC
Found at i:968333 original size:11 final size:11
Alignment explanation
Indices: 968306--968344 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
968296 CTGTCCACGG
968306 TTATTTTTTTA
1 TTATTTTTTTA
* *
968317 CT-TTTTTTTG
1 TTATTTTTTTA
968327 TTATTTTTTTA
1 TTATTTTTTTA
968338 TTATTTT
1 TTATTTT
968345 GGTATCATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:969877 original size:16 final size:15
Alignment explanation
Indices: 969845--969920 Score: 52
Period size: 16 Copynumber: 5.1 Consensus size: 15
969835 TTGTTGCATC
* *
969845 AAAA-TTAAAATTCT
1 AAAATTTAAAAATAT
969859 AAAATTCTAAAAATAT
1 AAAATT-TAAAAATAT
* *
969875 AAAGA-TTAATAATGAA
1 AAA-ATTTAAAAAT-AT
969891 AAAATTTAAAAATAT
1 AAAATTTAAAAATAT
*
969906 -AAA-TTAAATATAT
1 AAAATTTAAAAATAT
969919 AA
1 AA
969921 TTTTACGGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
13 9 0.18
14 8 0.16
15 9 0.18
16 22 0.45
17 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (15 bp):
AAAATTTAAAAATAT
Found at i:989243 original size:30 final size:30
Alignment explanation
Indices: 989207--989266 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
989197 TTAGAAAGGA
989207 ATAAAGAAATCATGGATGAATCCAAGCGAT
1 ATAAAGAAATCATGGATGAATCCAAGCGAT
989237 ATAAAGAAATCATGGATGAATCCAAGCGAT
1 ATAAAGAAATCATGGATGAATCCAAGCGAT
989267 CTTTTCGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (30 bp):
ATAAAGAAATCATGGATGAATCCAAGCGAT
Found at i:994013 original size:31 final size:29
Alignment explanation
Indices: 993945--993999 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
993935 TTAAAATCTG
*
993945 AAAAGTAGAGAGACTAAATTCCTAAAAAT
1 AAAAGTATAGAGACTAAATTCCTAAAAAT
993974 AAAAGTATAGAGACTAAATTCC-AAAA
1 AAAAGTATAGAGACTAAATTCCTAAAA
994000 TTTTAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.56, C:0.11, G:0.13, T:0.20
Consensus pattern (29 bp):
AAAAGTATAGAGACTAAATTCCTAAAAAT
Found at i:998771 original size:6 final size:6
Alignment explanation
Indices: 998760--998784 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
998750 TTAGGGCTGC
998760 AATGCA AATGCA AATGCA AATGCA A
1 AATGCA AATGCA AATGCA AATGCA A
998785 TTTTTCTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AATGCA
Found at i:1001246 original size:16 final size:18
Alignment explanation
Indices: 1001209--1001247 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
1001199 TAATTTGAAT
1001209 AAATGATCCTAAAACTTA
1 AAATGATCCTAAAACTTA
*
1001227 AAATGA-CCTAAATC-TA
1 AAATGATCCTAAAACTTA
1001243 AAATG
1 AAATG
1001248 TCAAGAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 7 0.35
18 6 0.30
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.26
Consensus pattern (18 bp):
AAATGATCCTAAAACTTA
Found at i:1002293 original size:28 final size:30
Alignment explanation
Indices: 1002245--1002301 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
1002235 ATTTCAATTC
1002245 TTTATATTATTTTTAAATTTAA-AATTTAA
1 TTTATATTATTTTTAAATTTAAGAATTTAA
**
1002274 TTTAT-TTATTTTTATTTTTAAGAATTTA
1 TTTATATTATTTTTAAATTTAAGAATTTA
1002302 GTTCTTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (30 bp):
TTTATATTATTTTTAAATTTAAGAATTTAA
Found at i:1002309 original size:28 final size:28
Alignment explanation
Indices: 1002246--1002310 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
1002236 TTTCAATTCT
*
1002246 TTATATTATTTTTAAATTTAAAATTTAAT
1 TTAT-TTATTTTTAAATTTAAAATTTAAG
**
1002275 TTATTTATTTTTATTTTTAAGAATTT-AG
1 TTATTTATTTTTAAATTTAA-AATTTAAG
*
1002303 TTCTTTAT
1 TTATTTAT
1002311 GCAAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (28 bp):
TTATTTATTTTTAAATTTAAAATTTAAG
Found at i:1004925 original size:25 final size:25
Alignment explanation
Indices: 1004897--1004949 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
1004887 ATGCATTAGC
1004897 CAATAAAAATGTATGTAATTTTTAA
1 CAATAAAAATGTATGTAATTTTTAA
1004922 CAATAAAAATGTATGTAATTTTTAA
1 CAATAAAAATGTATGTAATTTTTAA
1004947 CAA
1 CAA
1004950 ACGTACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.38
Consensus pattern (25 bp):
CAATAAAAATGTATGTAATTTTTAA
Found at i:1008036 original size:19 final size:20
Alignment explanation
Indices: 1007999--1008036 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1007989 TATTTTAAAA
*
1007999 AAAATGAATCAATCGGATCT
1 AAAATCAATCAATCGGATCT
*
1008019 AAAATCAAT-AATCTGATC
1 AAAATCAATCAATCGGATC
1008037 AGTTTGGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (20 bp):
AAAATCAATCAATCGGATCT
Found at i:1011740 original size:46 final size:46
Alignment explanation
Indices: 1011690--1011862 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
1011680 TGGTTGAGCA
1011690 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
1011736 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
1011781 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
1011829 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
1011863 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:1011846 original size:93 final size:93
Alignment explanation
Indices: 1011687--1011857 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
1011677 GGATGGTTGA
* *
1011687 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
1011752 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
1011780 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
1011845 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
1011858 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:1019327 original size:46 final size:46
Alignment explanation
Indices: 1019277--1019452 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
1019267 TGGTTGAGCA
1019277 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
1019323 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
1019368 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
1019416 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1019453 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:1019433 original size:93 final size:93
Alignment explanation
Indices: 1019274--1019445 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
1019264 GGATGGTTGA
* *
1019274 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
1019339 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
1019367 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
1019432 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
1019446 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:1031906 original size:21 final size:21
Alignment explanation
Indices: 1031880--1031919 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1031870 CAAAACAATG
*
1031880 TAGTTTTGTCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
1031901 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
1031920 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:1032280 original size:19 final size:18
Alignment explanation
Indices: 1032245--1032293 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
1032235 TTTTTAAAAA
*
1032245 TATAAATA-TTAGAATTT
1 TATAAATATTTTGAATTT
1032262 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
1032281 TAAAAATTATTTT
1 TATAAA-TATTTT
1032294 CAAATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:1032301 original size:20 final size:21
Alignment explanation
Indices: 1032276--1032314 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1032266 AAATATTTTG
1032276 AATTTTAAAAATTA-TTTTCA
1 AATTTTAAAAATTACTTTTCA
*
1032296 AATTTTGAAAATTACTTTT
1 AATTTTAAAAATTACTTTT
1032315 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (21 bp):
AATTTTAAAAATTACTTTTCA
Found at i:1036179 original size:20 final size:19
Alignment explanation
Indices: 1036135--1036172 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1036125 CATCCAAACA
1036135 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
1036154 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
1036173 TCTAGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:1036970 original size:2 final size:2
Alignment explanation
Indices: 1036958--1036987 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1036948 GATTACAGTT
*
1036958 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1036988 AAGATAGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1044443 original size:5 final size:5
Alignment explanation
Indices: 1044433--1044470 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
1044423 TTGTGTGTTC
1044433 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1044471 TTCACAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:1054077 original size:24 final size:24
Alignment explanation
Indices: 1054048--1054125 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
1054038 TTTCTTGAAC
1054048 CTTCCCGATATTGGCTCATATAAG
1 CTTCCCGATATTGGCTCATATAAG
1054072 CTTCCCGATATTGGCTCATATAAG
1 CTTCCCGATATTGGCTCATATAAG
* * * *
1054096 GTTCCCGTTAATGGCTCTTGA-AAG
1 CTTCCCGATATTGGCTCAT-ATAAG
1054120 CTTCCC
1 CTTCCC
1054126 ATTTATGTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 47 0.98
25 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (24 bp):
CTTCCCGATATTGGCTCATATAAG
Found at i:1062571 original size:21 final size:21
Alignment explanation
Indices: 1062511--1062572 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
1062501 GAGCTAAATA
* * *
1062511 GAAACCCATAAGGGTTGAATG
1 GAAACCCATAAAGGTTAAACG
* * * * *
1062532 GAAGCTCGTAAAAGCTAAACG
1 GAAACCCATAAAGGTTAAACG
1062553 GAAACCCATAAAGGTTAAAC
1 GAAACCCATAAAGGTTAAAC
1062573 AAAAGCTTAA
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
GAAACCCATAAAGGTTAAACG
Found at i:1062635 original size:42 final size:42
Alignment explanation
Indices: 1062486--1062661 Score: 147
Period size: 42 Copynumber: 4.2 Consensus size: 42
1062476 CCGAAGGCTG
** *
1062486 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTG
1 AACAGAAGCTCAAAAGAGCTAAATAGAAACCCATAAGGGTTA
** * ** *
1062528 AATGGAAGCTCGTAAA-AGCTAAACGGAAACCCATAAAGGTTA
1 AACAGAAGCTC-AAAAGAGCTAAATAGAAACCCATAAGGGTTA
* * *** * *
1062570 AACAAAAGCTTAAAAGTTTTGAATAGAAACCTATAAGGGTTA
1 AACAGAAGCTCAAAAGAGCTAAATAGAAACCCATAAGGGTTA
* * * * *
1062612 AACAGAAGCTCAAAAGAGCTGAATGGAAACTCATATGAGTTA
1 AACAGAAGCTCAAAAGAGCTAAATAGAAACCCATAAGGGTTA
1062654 AACAGAAG
1 AACAGAAG
1062662 TTGTGAGAGC
Statistics
Matches: 100, Mismatches: 32, Indels: 4
0.74 0.24 0.03
Matches are distributed among these distances:
41 3 0.03
42 96 0.96
43 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCAAAAGAGCTAAATAGAAACCCATAAGGGTTA
Found at i:1070123 original size:21 final size:21
Alignment explanation
Indices: 1070094--1070133 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1070084 ACCAAACCAA
1070094 TACTCCCTTTCTTTTCATCAT
1 TACTCCCTTTCTTTTCATCAT
*
1070115 TACTTCCTTTCTTTTCATC
1 TACTCCCTTTCTTTTCATC
1070134 CCCCTTGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.55
Consensus pattern (21 bp):
TACTCCCTTTCTTTTCATCAT
Found at i:1071206 original size:11 final size:11
Alignment explanation
Indices: 1071180--1071244 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
1071170 ATTTTGATAT
1071180 ACATGATATG-
1 ACATGATATGC
1071190 ACATGATATGC
1 ACATGATATGC
1071201 ACATGATATG-
1 ACATGATATGC
** *
1071211 TTATGAGATGC
1 ACATGATATGC
*
1071222 ACATGATATAC
1 ACATGATATGC
* *
1071233 TCATTATATGC
1 ACATGATATGC
1071244 A
1 A
1071245 TGGGTTGGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 17 0.40
11 25 0.60
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:1071206 original size:21 final size:21
Alignment explanation
Indices: 1071180--1071230 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1071170 ATTTTGATAT
*
1071180 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
**
1071201 ACATGATATGTTATGAGATGC
1 ACATGATATGACATGAGATGC
1071222 ACATGATAT
1 ACATGATAT
1071231 ACTCATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:1071242 original size:32 final size:31
Alignment explanation
Indices: 1071182--1071242 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
1071172 TTTGATATAC
* *
1071182 ATGATATGACATGATATGCACATGATATGTT
1 ATGAGATGACATGATATACACATGATATGTT
* *
1071213 ATGAGATGCACATGATATACTCATTATATG
1 ATGAGATG-ACATGATATACACATGATATG
1071243 CATGGGTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (31 bp):
ATGAGATGACATGATATACACATGATATGTT
Found at i:1071312 original size:25 final size:25
Alignment explanation
Indices: 1071276--1071347 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
1071266 GGAGGAAGTG
**
1071276 CAAAAAGGGCTTTGCCTTAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* * *
1071301 CGAAAAGAGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAC
1071326 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
1071348 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:1071360 original size:24 final size:25
Alignment explanation
Indices: 1071278--1071360 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
1071268 AGGAAGTGCA
** *
1071278 AAAAG-GGCTTTGCCTTAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
1071302 GAAAAGA-GCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
*
1071327 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
1071351 AAAAGAGGCT
1 AAAAGAGGCT
1071361 AGGCCTCCGG
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
23 1 0.02
24 16 0.32
25 33 0.66
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:1071633 original size:30 final size:31
Alignment explanation
Indices: 1071566--1071643 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
1071556 CGCTTACAGT
* *
1071566 AAAGGCTTCGGCCCAGTGATTTGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATTTAAATTATGA
1071597 AAAGGCTTCGGCCCAGTG-TTGTAAATTATG-
1 AAAGGCTTCGGCCCAGTGATT-TAAATTATGA
*
1071627 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
1071644 ATATGTTGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATTTAAATTATGA
Found at i:1073034 original size:6 final size:5
Alignment explanation
Indices: 1073013--1073070 Score: 53
Period size: 6 Copynumber: 10.2 Consensus size: 5
1073003 AAATAAGTCT
1073013 AATAA AATAA CAATAA ACATAAA AATAGA AATAA AACTAAA AATAAA AATAA
1 AATAA AATAA -AATAA A-AT-AA AATA-A AATAA AA-T-AA AAT-AA AATAA
1073065 AATAA A
1 AATAA A
1073071 TGGACTCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
5 18 0.38
6 22 0.47
7 7 0.15
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:1073039 original size:12 final size:11
Alignment explanation
Indices: 1073013--1073070 Score: 71
Period size: 12 Copynumber: 5.0 Consensus size: 11
1073003 AAATAAGTCT
*
1073013 AATAAAATAAC
1 AATAAAATAAA
1073024 AATAAACATAAA
1 AATAAA-ATAAA
1073036 AATAGAAATAAA
1 AATA-AAATAAA
*
1073048 ACTAAAAATAAA
1 AAT-AAAATAAA
1073060 AATAAAATAAA
1 AATAAAATAAA
1073071 TGGACTCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.34
12 24 0.59
13 3 0.07
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:1073039 original size:18 final size:16
Alignment explanation
Indices: 1073016--1073070 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 16
1073006 TAAGTCTAAT
1073016 AAAATAACAATAAACATA
1 AAAATAA-AATAAA-ATA
1073034 AAAATAGAAATAAAACTA
1 AAAATA-AAATAAAA-TA
1073052 AAAATAAAAATAAAATA
1 AAAAT-AAAATAAAATA
1073069 AA
1 AA
1073071 TGGACTCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.15
18 27 0.79
19 2 0.06
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:1078730 original size:41 final size:43
Alignment explanation
Indices: 1078632--1078786 Score: 176
Period size: 41 Copynumber: 3.6 Consensus size: 43
1078622 ATATCGTACA
* *
1078632 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCAAATATCG
*
1078675 ATGCCACTGTCCCAGACAAGGTCTTACACG-AATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* *
1078716 ATGCTGA-TGTCCCAGACATGGTCTTACACATAATCACATATATCG
1 ATGC-CACTGTCCCAGACATGGTCTTACACGTAATCA-A-ATATCG
*
1078761 ATGCCAAC-GTCCCAGACGTGGTCTTA
1 ATGCC-ACTGTCCCAGACATGGTCTTA
1078787 TAGGAGAACA
Statistics
Matches: 96, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
41 27 0.28
42 16 0.17
43 26 0.27
44 3 0.03
45 24 0.25
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:1084388 original size:20 final size:21
Alignment explanation
Indices: 1084359--1084399 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1084349 ACATCTTGGA
1084359 TTTTCCCTTTTT-TTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
*
1084379 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
1084400 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCCCTTTTTCTTTCTTTC
Found at i:1086054 original size:27 final size:24
Alignment explanation
Indices: 1085992--1086168 Score: 90
Period size: 27 Copynumber: 7.0 Consensus size: 24
1085982 ATGGACAATG
*
1085992 TATAAAAACTTAAAATAAATAATA
1 TATAAAAATTTAAAATAAATAATA
**
1086016 -A-AAGGAGCTTTAAAATAAATAATA
1 TATAA--AAATTTAAAATAAATAATA
* *
1086040 TATATATAAATTTTAAAATGAATAACA
1 TATA-A-AAA-TTTAAAATAAATAATA
* *
1086067 TATAAAAAGTGTAAATTAAATACTATA
1 TATAAAAA-TTTAAAATAAATA--ATA
* * * *
1086094 CATGAAAATTT-GAATAGATAATA
1 TATAAAAATTTAAAATAAATAATA
* * *
1086117 TATGGAATAATCTAAAATAAAGAATA
1 TAT--AAAAATTTAAAATAAATAATA
1086143 TATAAAAATATTTTAAAATAAATAAT
1 TAT-AAAA-A-TTTAAAATAAATAAT
1086169 TTACGGAAGG
Statistics
Matches: 110, Mismatches: 30, Indels: 23
0.67 0.18 0.14
Matches are distributed among these distances:
22 2 0.02
23 6 0.05
24 16 0.15
25 28 0.25
26 18 0.16
27 40 0.36
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (24 bp):
TATAAAAATTTAAAATAAATAATA
Found at i:1093269 original size:2 final size:2
Alignment explanation
Indices: 1093264--1093332 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
1093254 TGTTTATATA
1093264 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1093306 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1093333 TTTTGTGTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:1099685 original size:24 final size:25
Alignment explanation
Indices: 1099638--1099687 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
1099628 AAAATTCTTT
1099638 TATATATTTTATAATTAAATTTAAA
1 TATATATTTTATAATTAAATTTAAA
*
1099663 TATA-ATTTTATTATTTAAA-TTAAA
1 TATATATTTTA-TAATTAAATTTAAA
1099687 T
1 T
1099688 TTGGGCGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TATATATTTTATAATTAAATTTAAA
Found at i:1106152 original size:32 final size:32
Alignment explanation
Indices: 1106111--1106194 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
1106101 GGGTTCAATT
*
1106111 AAGTACTTGAACTTGATTTTCTTGGT-CTAATC
1 AAGTACTTGAACTTG-TTTTCTTGGTGCAAATC
*
1106143 AAGTACTTGAACTTGGTTTCTTGGTGCAAATC
1 AAGTACTTGAACTTGTTTTCTTGGTGCAAATC
* *
1106175 TAGTGCTTGAACTTGGTTTT
1 AAGTACTTGAACTT-GTTTT
1106195 TTTTGGTCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 9 0.20
32 32 0.71
33 4 0.09
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (32 bp):
AAGTACTTGAACTTGTTTTCTTGGTGCAAATC
Found at i:1108061 original size:20 final size:20
Alignment explanation
Indices: 1108020--1108062 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1108010 AAATCCAAAT
*
1108020 TAAAATCCTAAAATTCAGGA
1 TAAAATCCTAAAATACAGGA
* *
1108040 TAAAATTCTAAAATACATGA
1 TAAAATCCTAAAATACAGGA
1108060 TAA
1 TAA
1108063 GAATATTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (20 bp):
TAAAATCCTAAAATACAGGA
Found at i:1110553 original size:23 final size:22
Alignment explanation
Indices: 1110526--1110582 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
1110516 TAAGTAAAGA
* *
1110526 AAAAGAAAGATAAAAATGAAAC
1 AAAAGAAAGAAAAAAAGGAAAC
*
1110548 ACAAAGAAAAGAAAAAAAGGAAAG
1 A-AAAG-AAAGAAAAAAAGGAAAC
1110572 AAAAG-AAGAAA
1 AAAAGAAAGAAA
1110583 GAAGGAGACG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 6 0.20
22 1 0.03
23 8 0.27
24 15 0.50
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (22 bp):
AAAAGAAAGAAAAAAAGGAAAC
Found at i:1110573 original size:18 final size:20
Alignment explanation
Indices: 1110550--1110588 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
1110540 AATGAAACAC
1110550 AAAGAAAAGAA-AAA-AAGG
1 AAAGAAAAGAAGAAAGAAGG
1110568 AAAGAAAAGAAGAAAGAAGG
1 AAAGAAAAGAAGAAAGAAGG
1110588 A
1 A
1110589 GACGAACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.58
19 3 0.16
20 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAAGAAAAGAAGAAAGAAGG
Found at i:1112756 original size:15 final size:15
Alignment explanation
Indices: 1112731--1112768 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1112721 AGATTTTTAA
*
1112731 AATATATATTATTTAT
1 AATAAATATTATTT-T
1112747 AA-AAATATTATTTT
1 AATAAATATTATTTT
1112761 AATAAATA
1 AATAAATA
1112769 AATTTCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 15 0.75
16 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATATTATTTT
Found at i:1112765 original size:17 final size:19
Alignment explanation
Indices: 1112729--1112766 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
1112719 GTAGATTTTT
*
1112729 AAAATATATATTATTTATA
1 AAAATATATATTATTAATA
1112748 AAAATAT-TATT-TTAATA
1 AAAATATATATTATTAATA
1112765 AA
1 AA
1112767 TAAATTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATATATATTATTAATA
Found at i:1114079 original size:20 final size:21
Alignment explanation
Indices: 1114042--1114081 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1114032 TTAAAAAAAT
*
1114042 ATTTTTAATGTAATATTTTAG
1 ATTTTTAATGTAAAATTTTAG
*
1114063 ATTTTTTAT-TAAAATTTTA
1 ATTTTTAATGTAAAATTTTA
1114082 AGGGATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
ATTTTTAATGTAAAATTTTAG
Found at i:1117343 original size:39 final size:39
Alignment explanation
Indices: 1117289--1117368 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
1117279 AAGAGATTAC
* *
1117289 ATAGTTTTGTTCGTCAAAAACATCAGTTGCATATCAATG
1 ATAGTTTTCTTCGTCAAAAACATCAGTTGCATATAAATG
*
1117328 ATAGTTTTCTTCGTCAAAAACATCTGTTGCATATAAATG
1 ATAGTTTTCTTCGTCAAAAACATCAGTTGCATATAAATG
1117367 AT
1 AT
1117369 TAAAATTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (39 bp):
ATAGTTTTCTTCGTCAAAAACATCAGTTGCATATAAATG
Found at i:1118252 original size:58 final size:59
Alignment explanation
Indices: 1118140--1118253 Score: 133
Period size: 58 Copynumber: 1.9 Consensus size: 59
1118130 TTTGATAGTT
* * * *
1118140 GTCTTCAATTTTAGGATCGTTTTCTGTTAAAACCTTTATAGTGGCAAGTTTCACATCTA
1 GTCTTCAATTTCAGGATCATTTTCTATTAAAACCTTTATAGTGGCAAGTATCACATCTA
* * * *
1118199 GTCTTCAATTTCAGGTTCATTTT-TATTAAAGCTTTTATAAG-GGCATGTATCACAT
1 GTCTTCAATTTCAGGATCATTTTCTATTAAAACCTTTAT-AGTGGCAAGTATCACAT
1118254 TCTTTCAAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
58 24 0.52
59 22 0.48
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (59 bp):
GTCTTCAATTTCAGGATCATTTTCTATTAAAACCTTTATAGTGGCAAGTATCACATCTA
Found at i:1119887 original size:16 final size:17
Alignment explanation
Indices: 1119868--1119901 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1119858 GAGATGAAAG
*
1119868 AAAATG-AAACTTTTGA
1 AAAATGCAAAATTTTGA
1119884 AAAATGCAAAATTTTGA
1 AAAATGCAAAATTTTGA
1119901 A
1 A
1119902 TTTAAATGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
AAAATGCAAAATTTTGA
Found at i:1119912 original size:51 final size:51
Alignment explanation
Indices: 1119854--1119956 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
1119844 TTGAGTTGAA
1119854 AAATGAGATGAAAGAAAATGAAACTTTTGAAAAATGCAAAATTTTGAATTT
1 AAATGAGATGAAAGAAAATGAAACTTTTGAAAAATGCAAAATTTTGAATTT
* * * **
1119905 AAATGAGATGAAAGAAATTGGAACTTTTGAAAATTGCGTAATTTTGAATTT
1 AAATGAGATGAAAGAAAATGAAACTTTTGAAAAATGCAAAATTTTGAATTT
1119956 A
1 A
1119957 CTTTTGTCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (51 bp):
AAATGAGATGAAAGAAAATGAAACTTTTGAAAAATGCAAAATTTTGAATTT
Found at i:1126802 original size:21 final size:20
Alignment explanation
Indices: 1126778--1126817 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1126768 ATTTTTAAGT
*
1126778 AATTTTTAAAATAATTAAAAA
1 AATTTTAAAAAT-ATTAAAAA
1126799 AATTTTAAAAATATTAAAA
1 AATTTTAAAAATATTAAAA
1126818 TGATAGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTTAAAAATATTAAAAA
Found at i:1127854 original size:20 final size:20
Alignment explanation
Indices: 1127817--1127854 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1127807 TGATGGGGAG
*
1127817 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
1127837 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
1127855 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:1149738 original size:29 final size:30
Alignment explanation
Indices: 1149695--1149758 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
1149685 AGTGAAGAGT
1149695 TCGCAGGTAAGCTCTCATGC-TTGGTGAGC
1 TCGCAGGTAAGCTCTCATGCTTTGGTGAGC
1149724 TCGCAGGTGAA-CTCTCATGCTTTGGTGAGC
1 TCGCAGGT-AAGCTCTCATGCTTTGGTGAGC
1149754 TCGCA
1 TCGCA
1149759 ATGTTGGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.28
Consensus pattern (30 bp):
TCGCAGGTAAGCTCTCATGCTTTGGTGAGC
Found at i:1149785 original size:18 final size:17
Alignment explanation
Indices: 1149744--1149786 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1149734 ACTCTCATGC
1149744 TTTGGTGAGCTCGCAAT
1 TTTGGTGAGCTCGCAAT
* *
1149761 GTTGGTGAGCTCGTATAT
1 TTTGGTGAGCTCGCA-AT
1149779 TTTGGTGA
1 TTTGGTGA
1149787 ACTGGTAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.16, C:0.12, G:0.33, T:0.40
Consensus pattern (17 bp):
TTTGGTGAGCTCGCAAT
Found at i:1152865 original size:11 final size:11
Alignment explanation
Indices: 1152851--1152890 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
1152841 TGTTTTCTCC
1152851 CTATTTTGCTA
1 CTATTTTGCTA
*
1152862 CTATTTTACTA
1 CTATTTTGCTA
* *
1152873 TTATGTTGCTA
1 CTATTTTGCTA
1152884 CTATTTT
1 CTATTTT
1152891 ATTGTTATAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:1152976 original size:30 final size:30
Alignment explanation
Indices: 1152931--1152989 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1152921 TATTTTATTG
*
1152931 TTAAATTTGTTATTATTTTAAAGGAATTTA
1 TTAAATTTATTATTATTTTAAAGGAATTTA
* * *
1152961 TTAATTTTATTATTATTTTAGAGGCATTT
1 TTAAATTTATTATTATTTTAAAGGAATTT
1152990 GCTTGTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (30 bp):
TTAAATTTATTATTATTTTAAAGGAATTTA
Found at i:1153574 original size:28 final size:29
Alignment explanation
Indices: 1153520--1153595 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
1153510 TAATAGTCTA
* *
1153520 TAATTTTATAATTTTTAAAAGATTAAA-T-
1 TAATTTTATCA-TTTTAAAAGACTAAAGTG
*
1153548 TAGATTTTATCATTTTAAAAGGCTAAAGTG
1 TA-ATTTTATCATTTTAAAAGACTAAAGTG
1153578 TAATTTTATCATTATTAA
1 TAATTTTATCATT-TTAA
1153596 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 15 0.37
29 20 0.49
30 6 0.15
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (29 bp):
TAATTTTATCATTTTAAAAGACTAAAGTG
Found at i:1172445 original size:13 final size:13
Alignment explanation
Indices: 1172424--1172463 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1172414 GGAGCAATTG
*
1172424 CACATGGGCGTGT
1 CACACGGGCGTGT
1172437 CACACGGGCGTGT
1 CACACGGGCGTGT
*
1172450 CACACAGGCGTGT
1 CACACGGGCGTGT
1172463 C
1 C
1172464 CCTGCTGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:1181076 original size:55 final size:54
Alignment explanation
Indices: 1180956--1181077 Score: 122
Period size: 55 Copynumber: 2.2 Consensus size: 54
1180946 GAGCTTGCCA
* *
1180956 AAAC-AACACGGGTGTTCGACACACCCGTGCCTCGAAACCATGGGCGAACCTGTC
1 AAACTAACACGGGCGTTCGACACACCCGTGCCTC-AAACCATGGGCGAACCTATC
* * * * *
1181010 AAACTAGCACGGGCGTTCGACACACCCTTGCC-CATCATCCGTGGGTGAACCTATC
1 AAACTAACACGGGCGTTCGACACACCCGTGCCTCA--AACCATGGGCGAACCTATC
**
1181065 AAGTTAACACGGG
1 AAACTAACACGGG
1181078 TGTGGACCTA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
53 1 0.02
54 5 0.09
55 49 0.89
ACGTcount: A:0.27, C:0.32, G:0.24, T:0.17
Consensus pattern (54 bp):
AAACTAACACGGGCGTTCGACACACCCGTGCCTCAAACCATGGGCGAACCTATC
Found at i:1183131 original size:54 final size:54
Alignment explanation
Indices: 1183072--1183181 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
1183062 TTATTAGGTT
*
1183072 TTATAATTATTATTTTACAATTTTTAATTTCGGCTAATTCATTATGAGAACTTA
1 TTATAATTATTATTTTACAATTTTTAATTTCGGCTAATTCATTACGAGAACTTA
1183126 TTATAATTATTATTTTACAATTTTTAATTTCGGCTAATTCATTACGAGAACTTA
1 TTATAATTATTATTTTACAATTTTTAATTTCGGCTAATTCATTACGAGAACTTA
1183180 TT
1 TT
1183182 CTTCCTTATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (54 bp):
TTATAATTATTATTTTACAATTTTTAATTTCGGCTAATTCATTACGAGAACTTA
Found at i:1185379 original size:46 final size:46
Alignment explanation
Indices: 1185223--1185385 Score: 174
Period size: 46 Copynumber: 3.5 Consensus size: 46
1185213 TAAGCGGACC
* * *
1185223 CGGACTCAACTCAATGA-TCTCGGGCGTTCGCATCCATAAGTGAACT
1 CGGACTCAACTCAACGAGT-TCGGACGTTCACATCCATAAGTGAACT
* * *
1185269 CGGACTCAACTCAACGAGCTCGGATGCTTACTTACATCTCA-CA---AACT
1 CGGACTCAACTCAACGAGTTCGGACG-TT-C--ACATC-CATAAGTGAACT
1185316 CGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACT
1 CGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACT
*
1185362 CGGACTTAACTCAACGAGTTCGGA
1 CGGACTCAACTCAACGAGTTCGGA
1185386 TGCCCAAATA
Statistics
Matches: 97, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
45 1 0.01
46 50 0.52
47 30 0.31
48 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
CGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACT
Found at i:1187728 original size:29 final size:28
Alignment explanation
Indices: 1187673--1187728 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
1187663 GATATATACA
* *
1187673 ATATAAAAATATATAAAAGAATTAGTAT
1 ATATAAAAATATATAAAAAAATGAGTAT
1187701 ATATAAAAA-ATATAAAATAAAGTGAGTA
1 ATATAAAAATATATAAAA-AAA-TGAGTA
1187729 ATTGTTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 11 0.46
29 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (28 bp):
ATATAAAAATATATAAAAAAATGAGTAT
Found at i:1187876 original size:16 final size:15
Alignment explanation
Indices: 1187835--1187886 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 15
1187825 TGAAACATAA
1187835 ATAATATAATAGATGAT
1 ATAATATAAT-GAT-AT
1187852 ATACGATATACATGATAT
1 ATA--ATATA-ATGATAT
1187870 ATAATATAAT-ATAT
1 ATAATATAATGATAT
1187884 ATA
1 ATA
1187887 CATGCATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.22
15 2 0.06
16 5 0.16
17 3 0.09
18 5 0.16
19 8 0.25
20 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (15 bp):
ATAATATAATGATAT
Found at i:1188305 original size:19 final size:19
Alignment explanation
Indices: 1188257--1188368 Score: 138
Period size: 19 Copynumber: 5.8 Consensus size: 19
1188247 AAATTAAATC
* *
1188257 TCTAAGATTACAAGATCATA
1 TCTAAGATTGC-ATATCATA
1188277 TCTTCAAGATTGCATATCATA
1 TC-T-AAGATTGCATATCATA
* *
1188298 TCCAAGATTGCATGTCATA
1 TCTAAGATTGCATATCATA
1188317 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
1188334 TCTAAGATTGCATATCGTA
1 TCTAAGATTGCATATCATA
1188353 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
1188369 CTTAAAGATT
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
17 16 0.20
19 46 0.57
20 2 0.02
21 10 0.12
22 7 0.09
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:1188334 original size:36 final size:37
Alignment explanation
Indices: 1188271--1188368 Score: 126
Period size: 36 Copynumber: 2.6 Consensus size: 37
1188261 AGATTACAAG
1188271 ATCATATCTTCAAGATTGCATATCATATCCAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCCAAGATTGCAT
* *
1188311 GTCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCCAAGATTGCAT
*
1188347 ATCGTATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
1188369 CTTAAAGATT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
36 33 0.63
38 11 0.21
39 1 0.02
40 7 0.13
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCCAAGATTGCAT
Found at i:1188368 original size:14 final size:15
Alignment explanation
Indices: 1188310--1188349 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
1188300 CAAGATTGCA
1188310 TGTCATATCTAAGAT
1 TGTCATATCTAAGAT
1188325 TGTATCATATCTAAGAT
1 TG--TCATATCTAAGAT
1188342 TG-CATATC
1 TGTCATATC
1188350 GTATCTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.26
15 2 0.09
17 15 0.65
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (15 bp):
TGTCATATCTAAGAT
Found at i:1188378 original size:17 final size:19
Alignment explanation
Indices: 1188282--1188378 Score: 85
Period size: 19 Copynumber: 5.3 Consensus size: 19
1188272 TCATATCTTC
* *
1188282 AAGATTGCATATCATATCC
1 AAGATTGCATATCCTATCA
* * *
1188301 AAGATTGCATGTCATATCT
1 AAGATTGCATATCCTATCA
* *
1188320 AAGATTG--TATCATATCT
1 AAGATTGCATATCCTATCA
* *
1188337 AAGATTGCATATCGTATCT
1 AAGATTGCATATCCTATCA
1188356 AAGATTGCATATCCT-T-A
1 AAGATTGCATATCCTATCA
1188373 AAGATT
1 AAGATT
1188379 ATATTTCCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
17 22 0.31
18 1 0.01
19 47 0.67
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCCTATCA
Found at i:1189259 original size:44 final size:44
Alignment explanation
Indices: 1189184--1189291 Score: 153
Period size: 44 Copynumber: 2.4 Consensus size: 44
1189174 ACAGGTGAAA
* * *
1189184 GCCAAATCAGCTATGTCTTCGATCTGCTCTCTGCCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTGATCTCTGACAATACAGAGAT
* *
1189230 GCCAAATCTGCTATCTTCGATGTGATCTCTGACAATATAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGATCTCTGACAATACAGAGAT
1189274 GCCAAATCTGCTATCTTC
1 GCCAAATCTGCTATCTTC
1189292 AACTTGTTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 45 0.79
46 12 0.21
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGATCTCTGACAATACAGAGAT
Found at i:1189316 original size:44 final size:44
Alignment explanation
Indices: 1189222--1189546 Score: 247
Period size: 44 Copynumber: 7.4 Consensus size: 44
1189212 CTCTGCCAAT
* * * * *
1189222 ACAGAGATGCCAAATCTGCTATCTTCGATGTGATCTCTGA-CAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGTTCCCT-ATAAAC
* *
1189266 ATAGAGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGAGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * * *
1189310 ACAGAGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGC
1 ACAGAGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* **
1189354 ACA-AGAGTGCCAGATCTATTATCTTCGATCTGTTCCCTATAAAC
1 ACAGAGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* *
1189398 ACAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGAGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
* ** * * * **
1189442 ACAGGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGT
1 ACAGAGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
*
1189486 ACAG-GAATGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGAG-ATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
1189530 ACA-AGGATGCCAAATCT
1 ACAGA-GATGCCAAATCT
1189547 TGTTTCTTTG
Statistics
Matches: 219, Mismatches: 44, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
42 4 0.02
43 28 0.13
44 153 0.70
45 30 0.14
46 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
ACAGAGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
Found at i:1189409 original size:132 final size:132
Alignment explanation
Indices: 1189271--1189546 Score: 471
Period size: 132 Copynumber: 2.1 Consensus size: 132
1189261 ACAATATAGA
1189271 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGAGATGCCATGCTGAAATCCTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGAGATGCCATGCTGAAATCCTCG
* * *
1189336 ATCTGCTTCGCTGTAAGCACAAGAGTGCCAGATCTATTATCTTCGATCTGTTCCCTATAAACACA
66 ATCTGCTTCGCTGTAAGCACAAGAATGCCAAATCTACTATCTTCGATCTGTTCCCTATAAACACA
*
1189401 GG
131 AG
*
1189403 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCCTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGAGATGCCATGCTGAAATCCTCG
* * * *
1189468 ATCTGCTTCGCTGTAAGTACAGGAATGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACA
66 ATCTGCTTCGCTGTAAGCACAAGAATGCCAAATCTACTATCTTCGATCTGTTCCCTATAAACACA
1189533 AG
131 AG
1189535 GATGCCAAATCT
1 GATGCCAAATCT
1189547 TGTTTCTTTG
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 135 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (132 bp):
GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGAGATGCCATGCTGAAATCCTCG
ATCTGCTTCGCTGTAAGCACAAGAATGCCAAATCTACTATCTTCGATCTGTTCCCTATAAACACA
AG
Found at i:1197279 original size:22 final size:21
Alignment explanation
Indices: 1197249--1197314 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
1197239 TACAAATTAA
1197249 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
1197271 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
1197292 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
1197311 ATCT
1 ATCT
1197315 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:1197301 original size:19 final size:19
Alignment explanation
Indices: 1197266--1197360 Score: 158
Period size: 19 Copynumber: 5.0 Consensus size: 19
1197256 AGATTACAAG
1197266 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
1197287 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
1197306 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
1197323 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
1197342 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
1197361 TTCCTTAAAG
Statistics
Matches: 72, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.24
19 46 0.64
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:1197308 original size:14 final size:15
Alignment explanation
Indices: 1197288--1197344 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
1197278 AGATTGCATA
1197288 TCATATCTAAGATTG
1 TCATATCTAAGATTG
1197303 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
1197322 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
1197339 -CATATC
1 TCATATC
1197345 ATATCTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:1197330 original size:36 final size:37
Alignment explanation
Indices: 1197266--1197357 Score: 150
Period size: 36 Copynumber: 2.4 Consensus size: 37
1197256 AGATTACAAG
1197266 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
1197306 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
1197342 ATCATATCTAAGATTG
1 ATCATATCTAAGATTG
1197358 CATTTCCTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
36 36 0.69
38 7 0.13
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:1202128 original size:93 final size:93
Alignment explanation
Indices: 1202019--1202188 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
1202009 CACCCATAAG
*
1202019 CGAACTCAGACTCAACTCAAAGAGCTCGGGCGTTCT-CATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAAAGAGCTCGGACGTT-TGCATCCATAAGTGAACTCGGACTCAACTC
1202083 AACGAGCTCGGATTCCTACTTACATCTCA
65 AACGAGCTCGGATTCCTACTTACATCTCA
* * * *
1202112 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAGTGAACTCGGACTCAACTGA
1 CGAACTCAGACTCAACTCAAAGAGCTCGGACGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
*
1202177 ACGAGTTCGGAT
66 ACGAGCTCGGAT
1202189 GCCCAAATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAAAGAGCTCGGACGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATTCCTACTTACATCTCA
Found at i:1202187 original size:46 final size:45
Alignment explanation
Indices: 1202012--1202187 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
1202002 TGTGACCCAC
* * *
1202012 CCATAAGCGAACTCAGACTCAACTCAAAGAGCTCGGGCGTTCTCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTT-TCAT
* *
1202058 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCCTACTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA--CGT--TT-CAT
* *
1202108 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTT-CAT
* * *
1202151 CCATAAGTGAACTCGGACTCAACTGAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
1202188 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 4 0.04
46 61 0.56
47 28 0.26
48 4 0.04
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTTCAT
Found at i:1204140 original size:73 final size:73
Alignment explanation
Indices: 1204060--1204205 Score: 265
Period size: 73 Copynumber: 2.0 Consensus size: 73
1204050 TATTAATAAG
1204060 ATAAAACTTATAAAGAAATAAATCGGCTACTTATTGCAATTAAAAGAAACAGAAACAGTAGTGTG
1 ATAAAACTTATAAAGAAATAAATCGGCTACTTATTGCAATTAAAAGAAACAGAAACAGTAGTGTG
*
1204125 GCCATCTC
66 GCAATCTC
* *
1204133 ATAAAACTTATAAAGAAATAAATTGGCTACTTATTGTAATTAAAAGAAACAGAAACAGTAGTGTG
1 ATAAAACTTATAAAGAAATAAATCGGCTACTTATTGCAATTAAAAGAAACAGAAACAGTAGTGTG
1204198 GCAATCTC
66 GCAATCTC
1204206 CGAGTCCCTC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (73 bp):
ATAAAACTTATAAAGAAATAAATCGGCTACTTATTGCAATTAAAAGAAACAGAAACAGTAGTGTG
GCAATCTC
Found at i:1204439 original size:31 final size:31
Alignment explanation
Indices: 1204397--1204506 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
1204387 TTTAGCAGTT
1204397 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
1204428 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
1204459 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
1204490 TCTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
1204507 ACTGTAAACG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:1204577 original size:42 final size:42
Alignment explanation
Indices: 1204530--1204621 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
1204520 TGGCTTATAG
* ** *
1204530 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
1204572 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1204614 GCCCATTT
1 GCCCATTT
1204622 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:1204840 original size:26 final size:26
Alignment explanation
Indices: 1204756--1204891 Score: 208
Period size: 26 Copynumber: 5.3 Consensus size: 26
1204746 ATGGAGGCCT
1204756 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* *
1204780 AGCCCTTTTCAGTAAATTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
1204805 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
1204831 AGCCCTTTTCGATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
1204857 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
1204883 AGCCCTTTT
1 AGCCCTTTT
1204892 GCACTTCCTC
Statistics
Matches: 103, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 32 0.31
26 60 0.58
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:1204966 original size:20 final size:20
Alignment explanation
Indices: 1204941--1205027 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
1204931 TTATGAATAC
1204941 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
1204961 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
1204981 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
1205001 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
1205021 ATCATGT
1 ATCATGT
1205028 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:1208160 original size:31 final size:31
Alignment explanation
Indices: 1208122--1208200 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
1208112 TTTAACGATT
1208122 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
1208153 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1208184 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
1208201 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:1208271 original size:42 final size:42
Alignment explanation
Indices: 1208224--1208315 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
1208214 TGGCCCATAG
* ** *
1208224 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
1208266 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1208308 GCCCATTT
1 GCCCATTT
1208316 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:1208532 original size:26 final size:26
Alignment explanation
Indices: 1208448--1208583 Score: 208
Period size: 26 Copynumber: 5.3 Consensus size: 26
1208438 CTGGAGGCCT
1208448 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
1208472 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
1208497 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
1208523 AGCCCTTTTCGATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
1208549 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
1208575 AGCCCTTTT
1 AGCCCTTTT
1208584 GCACTTCCTC
Statistics
Matches: 103, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 33 0.32
26 60 0.58
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:1208658 original size:20 final size:20
Alignment explanation
Indices: 1208633--1208699 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
1208623 TTATGAATAC
1208633 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
1208653 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
1208673 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
1208693 ATCATGT
1 ATCATGT
1208700 ATATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:1209461 original size:27 final size:27
Alignment explanation
Indices: 1209400--1209476 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
1209390 GGCGTATTCA
1209400 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
1209427 TCACTTTACCCTACAAGGGCT-TTGCGG
1 TCATTTTACCATACAAGGG-TATTACGG
* *
1209454 TCTTTTTACC-TATTAAGGGTATT
1 TCATTTTACCATA-CAAGGGTATT
1209477 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:1209711 original size:27 final size:27
Alignment explanation
Indices: 1209681--1209772 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
1209671 GTAATTTCAC
* *
1209681 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
1209708 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * *
1209735 AATTGAGGGTAAAACAGTAATGCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
1209762 AATCGAGGGTA
1 AATCGAGGGTA
1209773 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:1209820 original size:55 final size:54
Alignment explanation
Indices: 1209761--1209882 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 54
1209751 GTAATGCTAT
* **
1209761 AAATCGAGGGTACTTTGGTAATTTTTACAAGTC-GAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTACTTTAGTAA-TTTTACAAACCAG-GGGTATTTCAGTAATTTTAC
* * * * **
1209816 AAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTATTAATTTTGT
1 AAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTAC
1209871 AAATCGAGGGTA
1 AAATCGAGGGTA
1209883 AAACGATAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
54 6 0.11
55 35 0.64
56 14 0.25
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTAC
Found at i:1209865 original size:27 final size:28
Alignment explanation
Indices: 1209796--1209868 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
1209786 TACAAGTCGA
* *
1209796 GGGTATTTCAGTAATTTTACAAATCAGG
1 GGGTATTTTAGTAATTTTACAAACCAGG
1209824 GGGTATTTTAGTAATTTTACAAACCA-G
1 GGGTATTTTAGTAATTTTACAAACCAGG
*
1209851 GGGTATTTTATTAATTTT
1 GGGTATTTTAGTAATTTT
1209869 GTAAATCGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 18 0.43
28 24 0.57
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (28 bp):
GGGTATTTTAGTAATTTTACAAACCAGG
Found at i:1209881 original size:27 final size:27
Alignment explanation
Indices: 1209523--1209882 Score: 122
Period size: 27 Copynumber: 13.2 Consensus size: 27
1209513 CTACAAACCA
* * *
1209523 AGGGTATTTTAGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTATAAATCG
* * *
1209550 ATGGTATTTCTA-TAATTTTTAGAAAGTCA
1 AGGGTATTT-TAGTAA-TTTTATAAA-TCG
* *
1209579 AGGGTATTTTTGTAATTTTGTAAATC-
1 AGGGTATTTTAGTAATTTTATAAATCG
* * * *
1209605 AGGGGTGTTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTAGTAATTTTATAAATCG
* * * *** *
1209632 AGGGGTGTTTTGGTAATTCTACCCTATAG
1 A-GGGTATTTTAGTAATTTTA-TAAATCG
* * *
1209661 -GGGTATTTCAGTAATTTCA-CAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
***** * *
1209686 AGGGTAAAACGGTAATTTTGTAAATCA
1 AGGGTATTTTAGTAATTTTATAAATCG
**** * * *
1209713 AGGGTAAAACAGTAATTCTGTAAATTG
1 AGGGTATTTTAGTAATTTTATAAATCG
**** **
1209740 AGGGTAAAACAGTAATGCTATAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
* *
1209767 AGGGTACTTTGGTAATTTT-TACAAGTCG
1 AGGGTATTTTAGTAATTTTATA-AA-TCG
* *
1209795 AGGGTATTTCAGTAATTTTACAAATCAG
1 AGGGTATTTTAGTAATTTTATAAATC-G
* * *
1209823 GGGGTATTTTAGTAATTTTACAAA-CC
1 AGGGTATTTTAGTAATTTTATAAATCG
* *
1209849 AGGGGTATTTTATTAATTTTGTAAATCG
1 A-GGGTATTTTAGTAATTTTATAAATCG
1209877 AGGGTA
1 AGGGTA
1209883 AAACGATAAT
Statistics
Matches: 259, Mismatches: 58, Indels: 32
0.74 0.17 0.09
Matches are distributed among these distances:
25 4 0.02
26 17 0.07
27 159 0.61
28 65 0.25
29 14 0.05
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTATAAATCG
Found at i:1209892 original size:27 final size:27
Alignment explanation
Indices: 1209870--1209963 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 27
1209860 ATTAATTTTG
1209870 TAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
* * *
1209897 TAAATCGAGGATAAAAAGGTAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
* * * * *
1209924 CAAATCGAGGGTAGAACAACAATTCTG
1 TAAATCGAGGGTAAAACGATAATTCTA
1209951 TAAATCGAGGGTA
1 TAAATCGAGGGTA
1209964 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGATAATTCTA
Found at i:1229622 original size:15 final size:14
Alignment explanation
Indices: 1229590--1229638 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
1229580 ATTAGATAAA
* *
1229590 TATTATTTTATTAA
1 TATTTTTTTATTAT
1229604 TATTTTTTTCATTAT
1 TATTTTTTT-ATTAT
*
1229619 TATTTTATTATTAAT
1 TATTTTTTTATT-AT
1229634 TATTT
1 TATTT
1229639 AGTATAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTTTTTATTAT
Found at i:1231800 original size:19 final size:19
Alignment explanation
Indices: 1231776--1231814 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1231766 AATGTGTAAG
1231776 ACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACC
1231795 ACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACC
1231814 A
1 A
1231815 TGGCAACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
ACCATGGTTGAAAGATACC
Found at i:1231862 original size:46 final size:46
Alignment explanation
Indices: 1231795--1231947 Score: 225
Period size: 46 Copynumber: 3.3 Consensus size: 46
1231785 GAAAGATACC
**
1231795 ACCATGGTTGAAAGATACCATGGCAACATGATGGGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAG
* * *
1231841 ACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAG
* *
1231887 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAG
* *
1231933 ATCATAGTTGAAAGA
1 ACCATGGTTGAAAGA
1231948 CACAATAGAA
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAG
Found at i:1235222 original size:6 final size:6
Alignment explanation
Indices: 1235201--1235260 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
1235191 GCATTGAGTC
* *
1235201 TATTTT T-TTATT TATTTT TATTATT CAATTTT TATTTT TATTTT T-TGTT
1 TATTTT TATT-TT TATTTT TATT-TT -TATTTT TATTTT TATTTT TATTTT
*
1235250 TATTTG TATTT
1 TATTTT TATTT
1235261 CCTAGACTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
5 6 0.14
6 29 0.66
7 6 0.14
8 3 0.07
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (6 bp):
TATTTT
Done.