Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 209 of 311
Found at i:72120037 original size:15 final size:15
Alignment explanation
Indices: 72119995--72120044 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
72119985 ATAACTTTGA
*
72119995 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
72120009 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
72120024 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
72120038 ATGCAAA
1 ATGCAAA
72120045 AAAGAATATC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:72122728 original size:68 final size:67
Alignment explanation
Indices: 72122656--72122805 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
72122646 CATCATGTGT
* * * *
72122656 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
72122718 ATGTAG
62 ATGTAG
** * *
72122724 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
72122789 AG
66 AG
72122791 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
72122806 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:72122761 original size:64 final size:64
Alignment explanation
Indices: 72122680--72122863 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
72122670 AGACATTATG
* *
72122680 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
72122744 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
72122809 AA
63 AA
* * * *
72122811 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
72122864 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:72129917 original size:3 final size:3
Alignment explanation
Indices: 72129893--72129934 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
72129883 TTATTATGAC
*
72129893 ATT A-T ATT A-T ATT AAT -TT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
72129935 TTAAGTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 5 0.15
3 29 0.85
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:72133062 original size:23 final size:22
Alignment explanation
Indices: 72133028--72133070 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
72133018 ATCAAAACCA
72133028 AAAAAAAGCTTAAACTAAACCCT
1 AAAAAAAGCTTAAA-TAAACCCT
*
72133051 AAAAAAATCTTAAATAAACC
1 AAAAAAAGCTTAAATAAACC
72133071 TTAGAAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAAAAGCTTAAATAAACCCT
Found at i:72146263 original size:55 final size:54
Alignment explanation
Indices: 72146163--72146409 Score: 233
Period size: 55 Copynumber: 4.6 Consensus size: 54
72146153 TTAATGGTAC
* * *
72146163 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-TCTAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGCAAGGATAT
* * *
72146218 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-TCT
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC-AAGGATAT
* * * *
72146273 CATGTAAGACCGTGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATAT
* * *
72146326 CATGTAAGACCATGTCAAGACATGGCAATGGTAA-TT-T-TCAA---AAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAT-AAGGCAAGGATAT
* * * *
72146375 CACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAG
72146410 GTACCCGCAT
Statistics
Matches: 164, Mismatches: 21, Indels: 19
0.80 0.10 0.09
Matches are distributed among these distances:
49 39 0.24
51 1 0.01
52 8 0.05
53 40 0.24
54 8 0.05
55 64 0.39
56 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGGATAT
Found at i:72148093 original size:3 final size:3
Alignment explanation
Indices: 72148085--72148128 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
72148075 AGAGGTCATA
72148085 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
72148129 CGTAAGAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:72151482 original size:16 final size:16
Alignment explanation
Indices: 72151461--72151493 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
72151451 GAAAAGCTAG
*
72151461 TGAGGCATACATTTGA
1 TGAGGCATACACTTGA
72151477 TGAGGCATACACTTGA
1 TGAGGCATACACTTGA
72151493 T
1 T
72151494 ATAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (16 bp):
TGAGGCATACACTTGA
Found at i:72152871 original size:12 final size:12
Alignment explanation
Indices: 72152856--72152882 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
72152846 ATTCATATAA
72152856 TAATAATTTTAT
1 TAATAATTTTAT
72152868 TAATAATTTTAT
1 TAATAATTTTAT
72152880 TAA
1 TAA
72152883 ATTATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAATAATTTTAT
Found at i:72152915 original size:58 final size:57
Alignment explanation
Indices: 72152816--72152991 Score: 184
Period size: 58 Copynumber: 3.1 Consensus size: 57
72152806 TATATATTAT
*
72152816 TTTTA-TAATATTATATATTATGATTT-TTTAATTCATA--TAATAATAATTTTATTAATAA
1 TTTTATTAA-ATTATATATTAT--TTTATTAAATT-ATATTTAATAATAATTTTATTAA-AA
*
72152874 TTTTATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATGA-TAAAA
1 TTTTATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATT-TTATTAAAA
* * * *
72152931 -TATAGTTAAATTATTTATTATTTTTATTAAATTATTTTTAATAATAATCTTATTAAAA
1 TTTTA-TTAAATTATATATTA-TTTTATTAAATTATATTTAATAATAATTTTATTAAAA
72152989 TTT
1 TTT
72152992 AATAACAATA
Statistics
Matches: 101, Mismatches: 8, Indels: 17
0.80 0.06 0.13
Matches are distributed among these distances:
56 9 0.09
57 24 0.24
58 62 0.61
59 6 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (57 bp):
TTTTATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTTTATTAAAA
Found at i:72153215 original size:16 final size:16
Alignment explanation
Indices: 72153181--72153226 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
72153171 ATTACAACTC
* * *
72153181 TATTCAATTATAATTT
1 TATTCAATTACAGTCT
72153197 TATTCAATTACAGTCT
1 TATTCAATTACAGTCT
*
72153213 TATTCTATTACAGT
1 TATTCAATTACAGT
72153227 GATCCAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.50
Consensus pattern (16 bp):
TATTCAATTACAGTCT
Found at i:72155091 original size:41 final size:40
Alignment explanation
Indices: 72155034--72155117 Score: 150
Period size: 41 Copynumber: 2.1 Consensus size: 40
72155024 GGACAGCATA
*
72155034 AACTATTTAGTCAAGCATGAAGCAGATATATAAATGTAAAG
1 AACTATTTAGTCAAGCATGAAGCAGATA-ATAAATGCAAAG
72155075 AACTATTTAGTCAAGCATGAAGCAGATAATAAATGCAAAG
1 AACTATTTAGTCAAGCATGAAGCAGATAATAAATGCAAAG
72155115 AAC
1 AAC
72155118 ATCATGCACA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 14 0.33
41 28 0.67
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (40 bp):
AACTATTTAGTCAAGCATGAAGCAGATAATAAATGCAAAG
Found at i:72158996 original size:7 final size:7
Alignment explanation
Indices: 72158984--72159015 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
72158974 AGCCAAAAAA
72158984 AAATAAT
1 AAATAAT
72158991 AAATAAT
1 AAATAAT
72158998 AAATAAT
1 AAATAAT
72159005 AAAATAAT
1 -AAATAAT
72159013 AAA
1 AAA
72159016 AAAAACCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAATAAT
Found at i:72162813 original size:23 final size:23
Alignment explanation
Indices: 72162787--72162858 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
72162777 TATAAAATAA
72162787 TAAATATGAATTTAAATAATATT
1 TAAATATGAATTTAAATAATATT
72162810 TAAAT-T-AA-TTAAATTATGATATT
1 TAAATATGAATTTAAA-TA--ATATT
* * *
72162833 TGAATATGAATATAAAAAATAATT
1 TAAATATGAATTTAAATAAT-ATT
72162857 TA
1 TA
72162859 TTATTACTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
20 5 0.13
21 4 0.11
22 1 0.03
23 16 0.42
24 5 0.13
25 3 0.08
26 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (23 bp):
TAAATATGAATTTAAATAATATT
Found at i:72163438 original size:20 final size:21
Alignment explanation
Indices: 72163391--72163438 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
72163381 GGTTAAACAT
72163391 TTCAAA-ATTATCAAATAATG
1 TTCAAATATTATCAAATAATG
* * *
72163411 TCCAAATATTTTCAAA-AGTG
1 TTCAAATATTATCAAATAATG
72163431 TTCAAATA
1 TTCAAATA
72163439 AAAGTTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (21 bp):
TTCAAATATTATCAAATAATG
Found at i:72167682 original size:43 final size:41
Alignment explanation
Indices: 72167620--72167741 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 41
72167610 TACCGTACTA
*
72167620 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACA-GTAATCTCATATCG
* * *
72167662 ATGCCAATAGCCCAGCTATGGTCTTACAGAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAGTAA-TCTCATATCG
* *
72167705 ATGCTATATCCCAGATGTGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACA-GTAATCTCA
72167742 GTAACCCTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACAGTAATCTCATATCG
Found at i:72170863 original size:27 final size:27
Alignment explanation
Indices: 72170767--72170884 Score: 98
Period size: 27 Copynumber: 4.3 Consensus size: 27
72170757 ATAGAGGCTG
*
72170767 TTCA-TTCATAATCCGCCACAAAGGGTAT
1 TTCATTTCATAATTCGCCACAAA-GGT-T
* * * * *
72170795 TTCCTTTCATAATTCACCACGCAAGCTA
1 TTCATTTCATAATTCGCCAC-AAAGGTT
*
72170823 TTCTTTTCA-AGATTCGCCACAAAGGTT
1 TTCATTTCATA-ATTCGCCACAAAGGTT
*
72170850 TTCATTTCATGATTCGCCACAAAGGCTT
1 TTCATTTCATAATTCGCCACAAAGG-TT
72170878 TTC-TTTC
1 TTCATTTC
72170885 TTGACATGTT
Statistics
Matches: 72, Mismatches: 13, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
27 31 0.43
28 24 0.33
29 15 0.21
30 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (27 bp):
TTCATTTCATAATTCGCCACAAAGGTT
Found at i:72172858 original size:27 final size:27
Alignment explanation
Indices: 72172802--72172902 Score: 150
Period size: 27 Copynumber: 3.8 Consensus size: 27
72172792 TCTCACCCCT
* * *
72172802 ATTTTACTCCCAGTAAAA-TTTTGACA
1 ATTTTACCCCCGGTAAAATTTTTAACA
72172828 ATTTTACCCCCGGTAAAATTTTTAACA
1 ATTTTACCCCCGGTAAAATTTTTAACA
72172855 ATTTTACCCCCGGTAAAATTTTTAACA
1 ATTTTACCCCCGGTAAAATTTTTAACA
**
72172882 ATTTTACCCTAGGTAAAATTT
1 ATTTTACCCCCGGTAAAATTT
72172903 CAAAAAAATA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 16 0.23
27 53 0.77
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.39
Consensus pattern (27 bp):
ATTTTACCCCCGGTAAAATTTTTAACA
Found at i:72180439 original size:6 final size:6
Alignment explanation
Indices: 72180428--72180453 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
72180418 TTATCAAAAT
72180428 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
72180454 GGAGAGGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:72184943 original size:14 final size:14
Alignment explanation
Indices: 72184924--72184951 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
72184914 ATATGCTTTA
72184924 CTTTTTTTTTTTTT
1 CTTTTTTTTTTTTT
72184938 CTTTTTTTTTTTTT
1 CTTTTTTTTTTTTT
72184952 TGGGGCGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (14 bp):
CTTTTTTTTTTTTT
Found at i:72184944 original size:13 final size:13
Alignment explanation
Indices: 72184926--72184950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72184916 ATGCTTTACT
72184926 TTTTTTTTTTTTC
1 TTTTTTTTTTTTC
72184939 TTTTTTTTTTTT
1 TTTTTTTTTTTT
72184951 TTGGGGCGTA
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:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:72197050 original size:25 final size:25
Alignment explanation
Indices: 72196997--72197055 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
72196987 TTTTTTTTAT
* * *
72196997 TAAATAAA-AAATTTTAAAATATAA
1 TAAATAAATACATTTAAAAACATAA
72197021 TAAATCAAATACATTTAAAAACATAA
1 TAAAT-AAATACATTTAAAAACATAA
72197047 -AAATAAATA
1 TAAATAAATA
72197056 TTAAAACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 7 0.23
26 13 0.43
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAATACATTTAAAAACATAA
Found at i:72197157 original size:7 final size:8
Alignment explanation
Indices: 72197139--72197164 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
72197129 TAATTATATT
72197139 AAAATTGA
1 AAAATTGA
72197147 AAAATTGA
1 AAAATTGA
72197155 AAAATTGA
1 AAAATTGA
72197163 AA
1 AA
72197165 CAAATTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (8 bp):
AAAATTGA
Found at i:72197823 original size:53 final size:53
Alignment explanation
Indices: 72197765--72197873 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
72197755 AAAACAATGA
* *
72197765 CTAAATAATAATTAGTGCACCACCGACATCATCTTCTTATTGGTGTCTTTTGT
1 CTAAATAATAATTAATGCACCACCGACATCATCTCCTTATTGGTGTCTTTTGT
*
72197818 CTAAATAATAATTAATGGACCACCGACATCATCTCCTTATTGGTGTCTTTTGT
1 CTAAATAATAATTAATGCACCACCGACATCATCTCCTTATTGGTGTCTTTTGT
72197871 CTA
1 CTA
72197874 TGATATTATG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (53 bp):
CTAAATAATAATTAATGCACCACCGACATCATCTCCTTATTGGTGTCTTTTGT
Found at i:72202163 original size:22 final size:21
Alignment explanation
Indices: 72202116--72202187 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 21
72202106 TCTTTATTTG
*
72202116 TTTATTATTATTTTTTAA-ATT
1 TTTATTATTATTTTATAATA-T
72202137 GTTTATTATTTATTTTATAATAT
1 -TTTATTA-TTATTTTATAATAT
* *
72202160 TTTA--AATGTTTTATAATAT
1 TTTATTATTATTTTATAATAT
*
72202179 TTTTTTATT
1 TTTATTATT
72202188 CAAACTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 15 0.37
20 1 0.02
21 2 0.05
22 11 0.27
23 11 0.27
24 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTATTATTATTTTATAATAT
Found at i:72202171 original size:9 final size:10
Alignment explanation
Indices: 72202147--72202181 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
72202137 GTTTATTATT
72202147 TATTTTATAA
1 TATTTTATAA
72202157 TATTTTA-AA
1 TATTTTATAA
*
72202166 TGTTTTATAA
1 TATTTTATAA
72202176 TATTTT
1 TATTTT
72202182 TTTATTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
TATTTTATAA
Found at i:72202215 original size:16 final size:17
Alignment explanation
Indices: 72202196--72202235 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
72202186 TTCAAACTTT
72202196 TTTTTTGAAATT-TTTA
1 TTTTTTGAAATTGTTTA
*
72202212 TTTTTTAAAATTGTTTA
1 TTTTTTGAAATTGTTTA
*
72202229 TTATTTG
1 TTTTTTG
72202236 TTTTATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (17 bp):
TTTTTTGAAATTGTTTA
Found at i:72202226 original size:87 final size:86
Alignment explanation
Indices: 72202123--72202285 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 86
72202113 TTGTTTATTA
*
72202123 TTATTTTTTAAATTGTTTATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTTTTTATT
1 TTATTTTTTAAATTGTTTATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTATTTATT
*
72202188 CAAACTTTTTTTTTGAAATTT
66 CAAACATTTTTTTTGAAATTT
*
72202209 TTATTTTTTAAAATTGTTTATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTATTTAT
1 TTATTTTTT-AAATTGTTTATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTATTTAT
72202274 TCAAACATTTTT
65 TCAAACATTTTT
72202286 AAAATTTATT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
86 9 0.12
87 64 0.88
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (86 bp):
TTATTTTTTAAATTGTTTATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTATTTATT
CAAACATTTTTTTTGAAATTT
Found at i:72202322 original size:36 final size:35
Alignment explanation
Indices: 72202226--72202330 Score: 92
Period size: 33 Copynumber: 3.0 Consensus size: 35
72202216 TTAAAATTGT
*
72202226 TTATTATTTGTTTTATAATATTTT-AAATGTTTTA
1 TTATTATTTGATTTATAATATTTTAAAATGTTTTA
* * *
72202260 -TAATATTT-ATTTATTCAAACATTTTTAAAATTTATTTA
1 TTATTATTTGATTTA-T--AATA-TTTTAAAATGT-TTTA
*
72202298 TTATTATTTGCTTTATAATATTTT-AAATGTTTT
1 TTATTATTTGATTTATAATATTTTAAAATGTTTT
72202331 GTAATATTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
32 4 0.07
33 8 0.15
34 3 0.05
35 8 0.15
36 8 0.15
37 8 0.15
38 4 0.07
39 8 0.15
40 4 0.07
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (35 bp):
TTATTATTTGATTTATAATATTTTAAAATGTTTTA
Found at i:72202357 original size:140 final size:136
Alignment explanation
Indices: 72202213--72202493 Score: 391
Period size: 140 Copynumber: 2.0 Consensus size: 136
72202203 AAATTTTTAT
* * *
72202213 TTTTTAAAATTGTTTATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTATTTATTCAA
1 TTTTTAAAATTATTTATAATTTATTTTATAATATTTTAAATGTTTTATAATATTTATTTATTCAA
* *
72202278 ACATTTTTAAAATTTATTTATTATTATTTGCTTTATAATATTTTAAATGTTTTGTAATATTTGTC
66 ACATTTTTAAAATTTATTTATTATT-TTT--TTTATAAT-TTTTAAATATTTTATAATATTTGTC
*
72202343 TATTAAAACG
127 TATTAAAACA
* * *
72202353 TTTTTTAATTTATTTATAATTTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAA
1 TTTTTAAAATTATTTATAATTTATTTTATAATATTTTAAATGTTTTATAATATTTATTTATTCAA
* ** * *
72202418 ACGTTTTTTTAATTTGTTTATTATTTTTTTTATAATTTTTAAATATTTTATAATATTTGTTTATT
66 ACATTTTTAAAATTTATTTATTATTTTTTTTATAATTTTTAAATATTTTATAATATTTGTCTATT
*
72202483 CAAACA
131 AAAACA
72202489 TTTTT
1 TTTTT
72202494 TTAATTATAT
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 35 0.28
137 8 0.06
139 3 0.02
140 80 0.63
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (136 bp):
TTTTTAAAATTATTTATAATTTATTTTATAATATTTTAAATGTTTTATAATATTTATTTATTCAA
ACATTTTTAAAATTTATTTATTATTTTTTTTATAATTTTTAAATATTTTATAATATTTGTCTATT
AAAACA
Found at i:72202389 original size:10 final size:10
Alignment explanation
Indices: 72202374--72202407 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
72202364 ATTTATAATT
72202374 TATTTTATAA
1 TATTTTATAA
72202384 TATTTTA-AA
1 TATTTTATAA
*
72202393 TGTTTTATAA
1 TATTTTATAA
72202403 TATTT
1 TATTT
72202408 GTTTATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:72202494 original size:68 final size:69
Alignment explanation
Indices: 72202211--72202506 Score: 398
Period size: 68 Copynumber: 4.3 Consensus size: 69
72202201 TGAAATTTTT
* * * * *
72202211 ATTTTTTAAAATTGTTTATTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTATTTATTC
1 ATTTTTTTAATTTATTTATTATTTTTTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTC
72202276 AAAC
66 AAAC
** * *
72202280 ATTTTTAAAATTTATTTATTATTATTTGCTTTATAATATTTTAAATGTTTTGTAATATTTGTCTA
1 ATTTTTTTAATTTATTTATTATT-TTT--TTTATAATATTTTAAATGTTTTATAATATTTGTTTA
*
72202345 TTAAAAC
63 TTCAAAC
* * *
72202352 -GTTTTTTAATTTATTTATAATTTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTC
1 ATTTTTTTAATTTATTTATTATTTTTTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTC
72202416 AAAC
66 AAAC
* * *
72202420 GTTTTTTTAATTTGTTTATTATTTTTTTTATAAT-TTTTAAATATTTTATAATATTTGTTTATTC
1 ATTTTTTTAATTTATTTATTATTTTTTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTC
72202484 AAAC
66 AAAC
72202488 ATTTTTTTAATTATATTTA
1 ATTTTTTTAATT-TATTTA
72202507 AATTTTTAAA
Statistics
Matches: 199, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
68 84 0.42
69 54 0.27
70 4 0.02
71 18 0.09
72 39 0.20
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (69 bp):
ATTTTTTTAATTTATTTATTATTTTTTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTC
AAAC
Found at i:72206494 original size:20 final size:20
Alignment explanation
Indices: 72206469--72206559 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 20
72206459 ACAATTGTTT
72206469 TTAATTTTATTTTATAGTTA
1 TTAATTTTATTTTATAGTTA
* *
72206489 TTAATTTTGTTTT-TA-TTG
1 TTAATTTTATTTTATAGTTA
* *
72206507 TGT--TTTAAAGTTTATAG-T-
1 T-TAATTT-TATTTTATAGTTA
72206525 TTAATTTTATTTTATAGTTA
1 TTAATTTTATTTTATAGTTA
*
72206545 TTTATTTTATTTTAT
1 TTAATTTTATTTTAT
72206560 CTTTTAAGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
17 4 0.07
18 15 0.27
19 10 0.18
20 26 0.47
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TTAATTTTATTTTATAGTTA
Found at i:72207662 original size:15 final size:15
Alignment explanation
Indices: 72207642--72207672 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
72207632 CTTTGAAGAA
72207642 TGTGATTTTTAATGT
1 TGTGATTTTTAATGT
72207657 TGTGATTTTTAATGT
1 TGTGATTTTTAATGT
72207672 T
1 T
72207673 CTCTTGCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (15 bp):
TGTGATTTTTAATGT
Found at i:72211588 original size:25 final size:25
Alignment explanation
Indices: 72211560--72211634 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
72211550 AAAATGTTAT
72211560 AAAACAAATAATAAAGAAATAAAGA
1 AAAACAAATAATAAAGAAATAAAGA
* *
72211585 AAAATAAATAATAAACAAATAAAGA
1 AAAACAAATAATAAAGAAATAAAGA
* * *
72211610 AAATCAAATAAAAAAGCAAAAAAAG
1 AAAACAAATAATAAAG-AAATAAAG
72211635 GACAAAAGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 35 0.83
26 7 0.17
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (25 bp):
AAAACAAATAATAAAGAAATAAAGA
Found at i:72211975 original size:14 final size:14
Alignment explanation
Indices: 72211958--72212008 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
72211948 AAAATATTAT
72211958 AAAACAAATAAAGA
1 AAAACAAATAAAGA
72211972 AAAACAAAT--A-A
1 AAAACAAATAAAGA
* *
72211983 TAAAGAAATAAAGA
1 AAAACAAATAAAGA
72211997 AAAACAAATAAA
1 AAAACAAATAAA
72212009 AAACAGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 8 0.27
12 1 0.03
13 1 0.03
14 20 0.67
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.10
Consensus pattern (14 bp):
AAAACAAATAAAGA
Found at i:72212010 original size:11 final size:11
Alignment explanation
Indices: 72211971--72212024 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
72211961 ACAAATAAAG
72211971 AAAAACAAATA
1 AAAAACAAATA
* *
72211982 ATAAAGAAATAAA
1 AAAAACAAAT--A
72211995 GAAAAACAAATA
1 -AAAAACAAATA
*
72212007 AAAAACAGATA
1 AAAAACAAATA
72212018 AAAAACA
1 AAAAACA
72212025 GAAGAAGGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 25 0.71
12 1 0.03
13 1 0.03
14 8 0.23
ACGTcount: A:0.78, C:0.07, G:0.06, T:0.09
Consensus pattern (11 bp):
AAAAACAAATA
Found at i:72212018 original size:25 final size:25
Alignment explanation
Indices: 72211958--72212019 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
72211948 AAAATATTAT
72211958 AAAACAAATAAAGAAAAACAAATAA
1 AAAACAAATAAAGAAAAACAAATAA
* *
72211983 TAAAGAAATAAAGAAAAACAAATAA
1 AAAACAAATAAAGAAAAACAAATAA
*
72212008 AAAACAGATAAA
1 AAAACAAATAAA
72212020 AAACAGAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (25 bp):
AAAACAAATAAAGAAAAACAAATAA
Found at i:72212213 original size:402 final size:401
Alignment explanation
Indices: 72211332--72212373 Score: 1453
Period size: 402 Copynumber: 2.6 Consensus size: 401
72211322 ATATCTCTCT
* * * *
72211332 CATTCATCCTCTGATAAAGTATAAGTCATTTTTTTTTCTTTCAACTCAGATTCATGTGTCAATGA
1 CATTCATCCTCTAACAAAGTATAAGTAATTTTTTTTTCTTTCAACTCAGATTCATGTGTCATTGA
** * * * * *
72211397 GAGGCTTGCATATACAAATTTGATCATGCCAAATAGAATGGTTCCACCAAATAAAATATTATTTT
66 GAGGCTTATATATATAAATTTGGTCAAGCCAAATAGAATGGCTCTACCAAATAAAATATTATTTT
* * *
72211462 TAAAAATTTTAATTATAAAAAAATAAATTAAAAAAGAACGTATTGGTGGTGGCGCCATTTAGAAT
131 TTAAATTTTTAA--ATATAAAAATAAATTAAAAAAGAACGTA-T--TGGTGGCGCCATTTAGAAT
* * * * *
72211527 GACTCCACTAAAAAAATATACATAAAATGTTATAAAACAAAT--AATAAAGAAATAAAGAAAAAT
191 GGCTCCAC-CAAAAAATATACATAAAATATTATAAAACAAATAAAAAAAACAAATAAAGAAAAAT
*
72211590 AAATAATAAACAAATAAAGAAAATCAAATAAAAAAGCAAAAAAAGGACAAAAGGTAGCAGAGGCG
255 AAAGAATAAACAAATAAAGAAAATCAAATAAAAAAGCAAAAAAAGGACAAAAGGTAGCAGAGGCG
* *
72211655 TTGGAATCTGGTGGTGCCAAATTATTTGGCTCTACCAAAAAAAGAAAATTTGTTTAAACCCCCTC
320 TTGGAATCTGGTGGCGCCAAATTATTTGGCTCCACCAAAAAAAGAAAATTTGTTTAAACCCCCTC
72211720 CCCCCATTTTTTCATCC
385 CCCCCATTTTTTCATCC
* * *
72211737 CACTCATCCTCTATCAAAGTATAAGTAA-TTTTTTTTCTTTTAACTCAGATTCATGTGTCATTGA
1 CATTCATCCTCTAACAAAGTATAAGTAATTTTTTTTTCTTTCAACTCAGATTCATGTGTCATTGA
* ** *
72211801 TAGGCTTATATATATAAATTTGGTCAAATCAAATATAATGGCTCTACCAAATAAAATATTATATT
66 GAGGCTTATATATATAAATTTGGTCAAGCCAAATAGAATGGCTCTACCAAATAAAATATTAT-TT
* * * *
72211866 TTTAAATTTTTAAATATAAAAA-AAATTAAAAAA-AATGTATTAGTAGCGCCATTTAGAATGGTT
130 TTTAAATTTTTAAATATAAAAATAAATTAAAAAAGAACGTATTGGTGGCGCCATTTAGAATGGCT
72211929 CCACCAAAAAATTATACATAAAATATTATAAAACAAATAAAGAAAAACAAATAATA-AAGAAATA
195 CCACCAAAAAA-TATACATAAAATATTATAAAACAAATAAA-AAAAACAAATAA-AGAA-AAATA
* * *
72211993 AAGAA-AAACAAAT-AA-AAAA-CAGATAAAAAA-CAGAAGAAGGACAAAAGGTAGCAGAGGCGT
256 AAGAATAAACAAATAAAGAAAATCAAATAAAAAAGCAAAAAAAGGACAAAAGGTAGCAGAGGCGT
*
72212053 TGGAATCTGGTGGCGCCAAATTATTTGGCTCCACCAGAAAAAGGAAAATTTGTTTAAAGTCCCCC
321 TGGAATCTGGTGGCGCCAAATTATTTGGCTCCACCA-AAAAAAGAAAATTTGTTTAAA--CCCCC
72212118 -CCTCCCCATTTTTTCATCC
383 TCC-CCCCATTTTTTCATCC
72212137 CATTCATCCTCTAACAAAGTATAAGTAATTTTTTTTTTCTTTCAACTCAGATTCATGTGTCATTG
1 CATTCATCCTCTAACAAAGTATAAGTAA-TTTTTTTTTCTTTCAACTCAGATTCATGTGTCATTG
* *
72212202 AGAGTCTTATATATATAAATTTGGTCACGCCAAATAGAATGGCT-TCACCAAATAAAATATTATT
65 AGAGGCTTATATATATAAATTTGGTCAAGCCAAATAGAATGGCTCT-ACCAAATAAAATATTATT
*
72212266 TTTTAAAATTTTTAAATATAAAAAATAAATTAAAAAAGAACGTATTGGTGGCACCATTTAGAATG
129 TTTT-AAATTTTTAAATAT-AAAAATAAATTAAAAAAGAACGTATTGGTGGCGCCATTTAGAATG
72212331 GCTCCACCAGAAAAATATACATAAAATATTATAAAACAAATAA
192 GCTCCACCA-AAAAATATACATAAAATATTATAAAACAAATAA
72212374 TAATAAAAAA
Statistics
Matches: 567, Mismatches: 51, Indels: 38
0.86 0.08 0.06
Matches are distributed among these distances:
397 68 0.12
398 78 0.14
399 6 0.01
400 51 0.09
401 31 0.05
402 124 0.22
403 13 0.02
404 96 0.17
405 95 0.17
406 5 0.01
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (401 bp):
CATTCATCCTCTAACAAAGTATAAGTAATTTTTTTTTCTTTCAACTCAGATTCATGTGTCATTGA
GAGGCTTATATATATAAATTTGGTCAAGCCAAATAGAATGGCTCTACCAAATAAAATATTATTTT
TTAAATTTTTAAATATAAAAATAAATTAAAAAAGAACGTATTGGTGGCGCCATTTAGAATGGCTC
CACCAAAAAATATACATAAAATATTATAAAACAAATAAAAAAAACAAATAAAGAAAAATAAAGAA
TAAACAAATAAAGAAAATCAAATAAAAAAGCAAAAAAAGGACAAAAGGTAGCAGAGGCGTTGGAA
TCTGGTGGCGCCAAATTATTTGGCTCCACCAAAAAAAGAAAATTTGTTTAAACCCCCTCCCCCCA
TTTTTTCATCC
Found at i:72214428 original size:42 final size:42
Alignment explanation
Indices: 72214377--72214475 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
72214367 ACACGGCCAG
* * * *
72214377 GACATATGCTCGTGTTCTAGGTCGTGTGACACACACAGCTGA
1 GACACATGCTCGTGTTCTAGGCCGTGTGACACACACAACTAA
72214419 GACACATGCTCGTGTTCTAGGCCGTGTGACACACACAACTAA
1 GACACATGCTCGTGTTCTAGGCCGTGTGACACACACAACTAA
* *
72214461 GACACACGCCCGTGT
1 GACACATGCTCGTGT
72214476 CTCTGCCCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (42 bp):
GACACATGCTCGTGTTCTAGGCCGTGTGACACACACAACTAA
Found at i:72225947 original size:24 final size:24
Alignment explanation
Indices: 72225882--72225947 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
72225872 GGATGCTTTG
* ** *
72225882 AAGAGCTATTAATAGGAAGCTCGC
1 AAGAGCTAATAACGGGAAGCTCAC
* *
72225906 AAGAACTATATAACGGGAAGCTCAT
1 AAGAGCTA-ATAACGGGAAGCTCAC
72225931 AAGAGCTAATAACGGGA
1 AAGAGCTAATAACGGGA
72225948 CACTCTTTCG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 16 0.47
25 18 0.53
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.18
Consensus pattern (24 bp):
AAGAGCTAATAACGGGAAGCTCAC
Found at i:72227767 original size:25 final size:25
Alignment explanation
Indices: 72227739--72227789 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
72227729 TTTAAATGTC
72227739 CAATTCTAATTATACGAACTTACCT
1 CAATTCTAATTATACGAACTTACCT
72227764 CAATTCTAATTATACGAACTTACCT
1 CAATTCTAATTATACGAACTTACCT
72227789 C
1 C
72227790 GTATCGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (25 bp):
CAATTCTAATTATACGAACTTACCT
Found at i:72228738 original size:8 final size:8
Alignment explanation
Indices: 72228725--72228751 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
72228715 GCTTAAACTT
72228725 TAATAAAA
1 TAATAAAA
72228733 TAATAAAA
1 TAATAAAA
72228741 TAATAAAA
1 TAATAAAA
72228749 TAA
1 TAA
72228752 ATATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAATAAAA
Found at i:72239522 original size:6 final size:6
Alignment explanation
Indices: 72239511--72239543 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
72239501 TTCTCACGAC
72239511 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATG
72239544 GAGAGAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.18
Consensus pattern (6 bp):
ATGAAG
Found at i:72244105 original size:40 final size:39
Alignment explanation
Indices: 72244030--72244125 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 39
72244020 CTATCTAAGT
* * * *
72244030 ATCGCACACTTAGTGCCTCATATAGCCGAAGCTATTCCAT
1 ATCGCACACTTAGTG-CTCATATAACCAAAACTATTCCAA
* *
72244070 TTCGCACACTTAGTGCT-ATTTATAACCAAAACTATTTCAA
1 ATCGCACACTTAGTGCTCA--TATAACCAAAACTATTCCAA
*
72244110 ATCACACACTTAGTGC
1 ATCGCACACTTAGTGC
72244126 CGAACATTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 43 0.93
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.30
Consensus pattern (39 bp):
ATCGCACACTTAGTGCTCATATAACCAAAACTATTCCAA
Found at i:72247279 original size:32 final size:33
Alignment explanation
Indices: 72247241--72247320 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 33
72247231 ATTACATCTT
* *
72247241 TTAAATAAACATAATTA-TTCAACTAATATATC
1 TTAAATAAACATAATTATTTAAACTAAAATATC
* * * * *
72247273 TTAAATAAATATAACTATTTAAAGTAAAATCTT
1 TTAAATAAACATAATTATTTAAACTAAAATATC
72247306 TTAAATAAACATAAT
1 TTAAATAAACATAAT
72247321 ATTACTTGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
32 15 0.39
33 23 0.61
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.38
Consensus pattern (33 bp):
TTAAATAAACATAATTATTTAAACTAAAATATC
Found at i:72250564 original size:24 final size:23
Alignment explanation
Indices: 72250537--72250585 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
72250527 TTTTGGAGAA
72250537 TTTTTATGTTT-ATGTTTTGAGGGT
1 TTTTTAT-TTTCATGTTTT-AGGGT
*
72250561 TTTTTATTTTCGTGTTTTAGGGT
1 TTTTTATTTTCATGTTTTAGGGT
72250584 TT
1 TT
72250586 AGTTTTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.10, C:0.02, G:0.22, T:0.65
Consensus pattern (23 bp):
TTTTTATTTTCATGTTTTAGGGT
Found at i:72252305 original size:16 final size:16
Alignment explanation
Indices: 72252284--72252314 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
72252274 TTGTTGAGTG
72252284 TGACTCATATTTCAGA
1 TGACTCATATTTCAGA
72252300 TGACTCATATTTCAG
1 TGACTCATATTTCAG
72252315 TTAAATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (16 bp):
TGACTCATATTTCAGA
Found at i:72255810 original size:27 final size:27
Alignment explanation
Indices: 72255776--72255828 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
72255766 CTAAATCCGA
72255776 TAAAAACCTTAG-GATTTCATTAAAATT
1 TAAAAACCTTAGAG-TTTCATTAAAATT
*
72255803 TAAAAACCTTATAGTTTCATTAAAAT
1 TAAAAACCTTAGAGTTTCATTAAAAT
72255829 GTAACACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (27 bp):
TAAAAACCTTAGAGTTTCATTAAAATT
Found at i:72256976 original size:152 final size:151
Alignment explanation
Indices: 72256737--72257037 Score: 387
Period size: 153 Copynumber: 2.0 Consensus size: 151
72256727 TTTAAAAAAT
*
72256737 CACTATTTTTTTTAAAAATCAGAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTACTTT
1 CACTATTTTTTTTAAAAATCAGAACTTTATTTCGAAATAGTTGAAAAAAATCAAAACTTTACTTT
* *
72256802 AAAAAATCTAACTTTTCCTTTAAAATGACT-AAAAATCA-AATTTTTATTTTAAAAATCTAAACT
66 AAAAAATCTAAATTTTCCTTTAAAATGACTAAAAAAACAGAATTTTTATTTTAAAAATCTAAACT
*
72256865 TTCTCTTTTTTTAAAAAAAACA
131 TTCT-TTTTTCTAAAAAAAACA
* *
72256887 CACTATTTTTTCTTAAAGATCA-AAGCTTTTATTTTGAAATAGTTGAAAAAAAATCAAAACTTT-
1 CACTATTTTTT-TTAAAAATCAGAA-C-TTTATTTCGAAATAGTTG-AAAAAAATCAAAACTTTA
* * * * ** * *
72256950 GTTTTAAAATTTTAAAATTTT-CTTTAAAATGACTAAAAAAACAGTTTTTTTGTTTTTAAAATCT
62 CTTTAAAAAATCT-AAATTTTCCTTTAAAATGACTAAAAAAACAGAATTTTTATTTTAAAAATCT
72257014 AAACTTTCTTTTTTCTAAAAAAAA
126 AAACTTTCTTTTTTCTAAAAAAAA
72257038 ATTAAAATTT
Statistics
Matches: 130, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
150 13 0.10
151 10 0.08
152 39 0.30
153 43 0.33
154 25 0.19
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (151 bp):
CACTATTTTTTTTAAAAATCAGAACTTTATTTCGAAATAGTTGAAAAAAATCAAAACTTTACTTT
AAAAAATCTAAATTTTCCTTTAAAATGACTAAAAAAACAGAATTTTTATTTTAAAAATCTAAACT
TTCTTTTTTCTAAAAAAAACA
Found at i:72261784 original size:34 final size:34
Alignment explanation
Indices: 72261741--72261809 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
72261731 CTAATTTGCC
72261741 AATTTTTTAAGCAAATGGGGTAAAATGCAATCTG
1 AATTTTTTAAGCAAATGGGGTAAAATGCAATCTG
72261775 AATTTTTTAAGCAAATGGGGTAAAATGCAATCTG
1 AATTTTTTAAGCAAATGGGGTAAAATGCAATCTG
72261809 A
1 A
72261810 CTCTTAATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (34 bp):
AATTTTTTAAGCAAATGGGGTAAAATGCAATCTG
Found at i:72265393 original size:30 final size:31
Alignment explanation
Indices: 72265353--72265415 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
72265343 ACACCTCTAC
* *
72265353 CAGTGCCTTAAAT-AAAATTTTTAAATAGTT
1 CAGTGACTTAAATGAAAATTTTTAAATAATT
72265383 CAGTGACTTAAATGAAAATTTTTAAATAATT
1 CAGTGACTTAAATGAAAATTTTTAAATAATT
72265414 CA
1 CA
72265416 ATGATCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (31 bp):
CAGTGACTTAAATGAAAATTTTTAAATAATT
Found at i:72270113 original size:26 final size:26
Alignment explanation
Indices: 72270084--72270137 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
72270074 CATCTTCTTT
72270084 CTCTCTTTCTCAGGCAAATCTCATTC
1 CTCTCTTTCTCAGGCAAATCTCATTC
72270110 CTCTCTTTCTCAGGCAAATCTCATTC
1 CTCTCTTTCTCAGGCAAATCTCATTC
72270136 CT
1 CT
72270138 TTTCACAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.35, G:0.07, T:0.39
Consensus pattern (26 bp):
CTCTCTTTCTCAGGCAAATCTCATTC
Found at i:72275470 original size:13 final size:13
Alignment explanation
Indices: 72275452--72275478 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72275442 AAGTTAGTTC
72275452 GAAAGGGGCGCAA
1 GAAAGGGGCGCAA
72275465 GAAAGGGGCGCAA
1 GAAAGGGGCGCAA
72275478 G
1 G
72275479 GCATACCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.48, T:0.00
Consensus pattern (13 bp):
GAAAGGGGCGCAA
Found at i:72285754 original size:24 final size:25
Alignment explanation
Indices: 72285709--72285755 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
72285699 ATTTATATGA
*
72285709 TAAATAAATTAGTACAAATGTATAG
1 TAAATAAAATAGTACAAATGTATAG
*
72285734 TAAATAAAATA-TACAAGTGTAT
1 TAAATAAAATAGTACAAATGTAT
72285756 GGATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.32
Consensus pattern (25 bp):
TAAATAAAATAGTACAAATGTATAG
Found at i:72285762 original size:25 final size:26
Alignment explanation
Indices: 72285702--72285762 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
72285692 ATAAGATATT
*
72285702 TATATGATAAATAAATTAGTACAAATG
1 TATA-GATAAATAAAATAGTACAAATG
*
72285729 TATAG-TAAATAAAATA-TACAAGTG
1 TATAGATAAATAAAATAGTACAAATG
*
72285753 TATGGATAAA
1 TATAGATAAA
72285763 AATACATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.37
25 14 0.47
26 1 0.03
27 4 0.13
ACGTcount: A:0.52, C:0.03, G:0.13, T:0.31
Consensus pattern (26 bp):
TATAGATAAATAAAATAGTACAAATG
Found at i:72285842 original size:22 final size:22
Alignment explanation
Indices: 72285796--72285842 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
72285786 TATTAGATAT
**
72285796 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
72285818 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
72285840 TAA
1 TAA
72285843 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:72288028 original size:23 final size:23
Alignment explanation
Indices: 72287922--72288036 Score: 72
Period size: 23 Copynumber: 4.9 Consensus size: 23
72287912 CGAAATACAA
**
72287922 CTCTTCGTGAGCTTCCTAATAGG
1 CTCTTCGTGAGCTTCCCGATAGG
* *
72287945 CTCTTTGTGAGCCTCCCGATAGTG
1 CTCTTCGTGAGCTTCCCGATAG-G
* * * *
72287969 CTC-GCTTGAACTTCTCGTTATATGG
1 CTCTTCGTGAGCTTCCCG--ATA-GG
* * *
72287994 CTATCCG-AAGCTTCCCGATAGG
1 CTCTTCGTGAGCTTCCCGATAGG
*
72288016 CTCTTCGTGAGCTTCACGATA
1 CTCTTCGTGAGCTTCCCGATA
72288037 TGGTTCTTTG
Statistics
Matches: 66, Mismatches: 20, Indels: 12
0.67 0.20 0.12
Matches are distributed among these distances:
22 7 0.11
23 40 0.61
24 4 0.06
25 13 0.20
26 2 0.03
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (23 bp):
CTCTTCGTGAGCTTCCCGATAGG
Found at i:72288479 original size:46 final size:46
Alignment explanation
Indices: 72288422--72288603 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
72288412 AGTGTGCTCT
* * *
72288422 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
72288468 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
72288514 GTGACATGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
72288560 ATGACA-GAAAACGAGTAAGACCATAGTTGAAAGATACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
72288604 TCATGTCGAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:72292876 original size:21 final size:21
Alignment explanation
Indices: 72292852--72292900 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
72292842 TATATACTCG
* *
72292852 TAATATATAAAAACGTATATA
1 TAATATATAAAAACATATACA
*
72292873 TAATAT-T-AAAACATTTACA
1 TAATATATAAAAACATATACA
72292892 TAATATATA
1 TAATATATA
72292901 TACATAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 15 0.65
20 2 0.09
21 6 0.26
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATATATAAAAACATATACA
Found at i:72292997 original size:23 final size:22
Alignment explanation
Indices: 72292946--72293000 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
72292936 TAATAACAAT
72292946 ACTACTAT-TACATAAAGATATA
1 ACTA-TATATACATAAAGATATA
*
72292968 CCTATATATACATTAAAGATATA
1 ACTATATATACA-TAAAGATATA
72292991 TAC-ATATATA
1 -ACTATATATA
72293001 AAAAACATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.11
22 7 0.25
23 17 0.61
24 1 0.04
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (22 bp):
ACTATATATACATAAAGATATA
Found at i:72293725 original size:15 final size:15
Alignment explanation
Indices: 72293707--72293736 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
72293697 TGAGTCGGCA
72293707 GAAGGCAAGTGGGGG
1 GAAGGCAAGTGGGGG
72293722 GAAGGCAAGTGGGGG
1 GAAGGCAAGTGGGGG
72293737 CTGATTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.60, T:0.07
Consensus pattern (15 bp):
GAAGGCAAGTGGGGG
Found at i:72294596 original size:160 final size:161
Alignment explanation
Indices: 72294393--72295078 Score: 717
Period size: 160 Copynumber: 4.2 Consensus size: 161
72294383 TGATATTGAG
* ** * ***
72294393 CTCA-CTCTCGCAATATGAGTTGGTCTTTTTGAAACTTAATTTGAAAAGTAGCTTTTGAAAATAC
1 CTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAACAGAATTTGAAAAATAGAAATTGAAAATAC
* * **
72294457 CTCGATATATGACCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA
64 CTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA
* *
72294522 TTGAAAATACATCAGC-GTGTCCTGAGGCTCAA
129 TTGAAAATACCTCAGCAGTGGCCTGAGGCTCAA
* **
72294554 CTCACTTCTCGCAATATGAGTTGATTTTTGAAACAGAATTTGAAAAATAGATTTTGAAAATACCT
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAATTTGAAAAATAGAAATTGAAAATACCT
* *
72294619 CGACATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG--AAACATAAATT
66 CGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATT
* * *
72294682 GAAAATACCTCAACA-TGTCTTGAGGCTCAA
131 GAAAATACCTCAGCAGTGGCCTGAGGCTCAA
* * * *
72294712 CTCACCTCTCTCAATATGAGTTGATTTTTGACAAACGGAAATTTGAGAAAACAGAAACTGAAAAT
1 CTCACCTCTCGCAATATGAGTTGATTTTTG--AAACAG-AATTTGA-AAAATAGAAATTGAAAAT
* * *
72294777 ACCTCGACATGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTGGAAACAGAAT
62 ACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT----------T
* * *
72294842 TTGAAAAACAGAATTTGAAAATACCTC-GACATGTGGCCCGAGGCTCAA
115 TTGACAAACAGAAATTGAAAATACCTCAG-CA-GTGGCCTGAGGCTCAA
* * * *
72294890 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTAAAAAATAAAAATTGAAAATACCT
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAATTTGAAAAATAGAAATTGAAAATACCT
* * * * *
72294955 C-AGA-GT-TCCTCGAGACTCAACTTACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAAC
66 CGACATGTGACC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAAT
*
72295017 TGAAAATACCTCGGCATGTGAGCC-GAGGCTCAA
130 TGAAAATACCTCAGCA-GTG-GCCTGAGGCTCAA
*
72295050 CTCACCTCTTGCAATATGAGTTGATTTTT
1 CTCACCTCTCGCAATATGAGTTGATTTTT
72295079 TTGAAAGACA
Statistics
Matches: 450, Mismatches: 49, Indels: 53
0.82 0.09 0.10
Matches are distributed among these distances:
158 64 0.14
160 159 0.35
161 16 0.04
162 76 0.17
164 2 0.00
170 2 0.00
171 1 0.00
172 32 0.07
173 2 0.00
174 24 0.05
175 5 0.01
176 26 0.06
178 41 0.09
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (161 bp):
CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAATTTGAAAAATAGAAATTGAAAATACCT
CGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATT
GAAAATACCTCAGCAGTGGCCTGAGGCTCAA
Found at i:72294727 original size:71 final size:72
Alignment explanation
Indices: 72294607--72294742 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 72
72294597 AAAATAGATT
* *
72294607 TTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 TTGAAAATACCTCAACATGT-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
72294672 AACATAAA
65 AACATAAA
** *
72294680 TTGAAAATACCTCAACATGT-CTTGAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGA
1 TTGAAAATACCTCAACATGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
72294743 CAAACGGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 39 0.67
73 19 0.33
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (72 bp):
TTGAAAATACCTCAACATGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
ACATAAA
Found at i:72294850 original size:14 final size:14
Alignment explanation
Indices: 72294833--72294862 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
72294823 TTGATTTTGG
72294833 AAACAGAATTTGAA
1 AAACAGAATTTGAA
72294847 AAACAGAATTTGAA
1 AAACAGAATTTGAA
72294861 AA
1 AA
72294863 TACCTCGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (14 bp):
AAACAGAATTTGAA
Found at i:72294862 original size:13 final size:13
Alignment explanation
Indices: 72294828--72294862 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
72294818 ATGAGTTGAT
*
72294828 TTTGGAAACAGAA
1 TTTGAAAACAGAA
72294841 TTTGAAAAACAGAA
1 TTTG-AAAACAGAA
72294855 TTTGAAAA
1 TTTGAAAA
72294863 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:72294887 original size:87 final size:86
Alignment explanation
Indices: 72294671--72295002 Score: 382
Period size: 87 Copynumber: 3.8 Consensus size: 86
72294661 TTGATTTTTG
* * ** *
72294671 AAACATAAATTGAAAATACCTCAACATGT-CTTGAGGCTCAACTCACCTCTCTCAATATGAGTTG
1 AAACAGAAATTGAAAATACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
72294735 ATTTTTGACAAACGGAAATTTGAGA
66 A-TTTTG-GAAACAG-AATTTGA-A
* * * *
72294760 AAACAGAAACTGAAAATACCTCGACATGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTT
1 AAACAGAAATTGAAAATACCTCGACATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
72294825 GATTTTGGAAACAGAATTTGAA
65 GATTTTGGAAACAGAATTTGAA
*
72294847 AAACAGAATTTGAAAATACCTCGACATGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCGACATGT-GCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * *
72294912 GATTTTTGAAACATAAATTAAA
65 GATTTTGGAAACAGAATTTGAA
* * * * * *
72294934 AAATAAAAATTGAAAATACCTC-AGA-GTTCCTCGAGACTCAACTTACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCGACATGTGCC-CGAGGCTCAACTCACCTCTCGCAATATGAGTT
72294997 GATTTT
65 GATTTT
72295003 TGACAAACAG
Statistics
Matches: 213, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
84 2 0.01
85 38 0.18
86 2 0.01
87 96 0.45
88 8 0.04
89 31 0.15
90 5 0.02
91 31 0.15
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (86 bp):
AAACAGAAATTGAAAATACCTCGACATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTGGAAACAGAATTTGAA
Found at i:72296917 original size:8 final size:8
Alignment explanation
Indices: 72296904--72296931 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
72296894 GTCATGACAT
72296904 GAAGGGGC
1 GAAGGGGC
72296912 GAAGGGGC
1 GAAGGGGC
72296920 GAAGGGGC
1 GAAGGGGC
72296928 GAAG
1 GAAG
72296932 TGAATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.61, T:0.00
Consensus pattern (8 bp):
GAAGGGGC
Found at i:72307586 original size:19 final size:20
Alignment explanation
Indices: 72307545--72307592 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
72307535 TATATACTCG
* *
72307545 TAATATATAAAACGTATATA
1 TAATATATAAAACATATACA
*
72307565 TAATAT-TAAAACATTTACA
1 TAATATATAAAACATATACA
72307584 TAATATATA
1 TAATATATA
72307593 TATACATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (20 bp):
TAATATATAAAACATATACA
Found at i:72307652 original size:29 final size:29
Alignment explanation
Indices: 72307620--72307677 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
72307610 TTAAAAAAGC
72307620 ATACTTAATATTAATAACAATACTAATAT
1 ATACTTAATATTAATAACAATACTAATAT
72307649 ATACTTAATATTAATAACAATACTAATAT
1 ATACTTAATATTAATAACAATACTAATAT
72307678 TACATAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (29 bp):
ATACTTAATATTAATAACAATACTAATAT
Found at i:72307715 original size:15 final size:16
Alignment explanation
Indices: 72307695--72307724 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
72307685 AGATATACCT
72307695 ATATATACAT-TAAAG
1 ATATATACATATAAAG
72307710 ATATATACATATAAA
1 ATATATACATATAAA
72307725 AAACATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (16 bp):
ATATATACATATAAAG
Found at i:72307721 original size:23 final size:22
Alignment explanation
Indices: 72307674--72307722 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
72307664 AACAATACTA
*
72307674 ATAT-TACATAAAGATATACCT
1 ATATATACATAAAGATATAACT
72307695 ATATATACATTAAAGATATATAC-
1 ATATATACA-TAAAGATATA-ACT
72307718 ATATA
1 ATATA
72307723 AAAAACATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.17
22 4 0.17
23 15 0.62
24 1 0.04
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATATACATAAAGATATAACT
Found at i:72308828 original size:34 final size:34
Alignment explanation
Indices: 72308766--72308834 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 34
72308756 AAAAATTTGT
*
72308766 TTGTTTTTTTATTATTTTTTACGTTTTATA-ATA
1 TTGTTTTTTTATTATTATTTACGTTTTATAGATA
*
72308799 TTGTTTTTTTACTTA-TATTTATGTGTTTATAGATA
1 TTGTTTTTTTA-TTATTATTTACGT-TTTATAGATA
72308834 T
1 T
72308835 AGAAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 18 0.58
34 9 0.29
35 4 0.13
ACGTcount: A:0.22, C:0.03, G:0.09, T:0.67
Consensus pattern (34 bp):
TTGTTTTTTTATTATTATTTACGTTTTATAGATA
Found at i:72309191 original size:15 final size:15
Alignment explanation
Indices: 72309173--72309202 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
72309163 TGAGTCGGCA
72309173 GAAGGCAAGTGGGGG
1 GAAGGCAAGTGGGGG
72309188 GAAGGCAAGTGGGGG
1 GAAGGCAAGTGGGGG
72309203 CTGATTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.60, T:0.07
Consensus pattern (15 bp):
GAAGGCAAGTGGGGG
Found at i:72310220 original size:41 final size:38
Alignment explanation
Indices: 72310117--72310224 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 38
72310107 AATTTAAAAT
*
72310117 AATAAATTGACACCAAGTGTCTCAT-TGACTAAACCGA
1 AATAAATTGACACCCAGTGTCTCATCTGACTAAACCGA
* * *
72310154 AATAAATTGGCACCCAGTG-CGTCATCTGATTAATCCGA
1 AATAAATTGACACCCAGTGTC-TCATCTGACTAAACCGA
*
72310192 AGTAGTAAATTAACACCCAGTGTCTCATC-GACT
1 A--A-TAAATTGACACCCAGTGTCTCATCTGACT
72310225 TGAAGTCGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
36 1 0.02
37 21 0.36
38 11 0.19
40 4 0.07
41 20 0.34
42 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (38 bp):
AATAAATTGACACCCAGTGTCTCATCTGACTAAACCGA
Found at i:72312952 original size:30 final size:30
Alignment explanation
Indices: 72312918--72312981 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
72312908 CCTTAACTCT
*
72312918 AACTTTAGAAAAATTACAATTTTGCCCCTA
1 AACTTTAGAAAAATTACAATTTTGCCCCAA
* * * * *
72312948 AACTTTTGCATATTTACACTTTTGCCCCAA
1 AACTTTAGAAAAATTACAATTTTGCCCCAA
72312978 AACT
1 AACT
72312982 CAAAAATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.36
Consensus pattern (30 bp):
AACTTTAGAAAAATTACAATTTTGCCCCAA
Found at i:72313851 original size:179 final size:179
Alignment explanation
Indices: 72313616--72313970 Score: 647
Period size: 179 Copynumber: 2.0 Consensus size: 179
72313606 CAACTTTTGC
** * *
72313616 AATTAAGTCCTCGTAGGCAAATTATACATGCAATTCATGAAATTTTCTATCGATATTCTAACACA
1 AATTAAGTCCTAATAGGAAAATTAGACATGCAATTCATGAAATTTTCTATCGATATTCTAACACA
*
72313681 TGCATCTAATCACTCAATAAATTATAAAAATTAATCGGAATAAATTTTTCTACTTCAGAATTGTG
66 TGCATCTAATCACTCAATAAATTATAAAAATTAATCGGAATAAATTTTCCTACTTCAGAATTGTG
72313746 GTTTCAAAACCACTATTCCGTTTAGGCCCTAATTCGGGATATCACAACT
131 GTTTCAAAACCACTATTCCGTTTAGGCCCTAATTCGGGATATCACAACT
72313795 AATTAAGTCCTAATAGGAAAATTAGACATGCAATTCATGAAATTTTCTATCGATATTCTAACACA
1 AATTAAGTCCTAATAGGAAAATTAGACATGCAATTCATGAAATTTTCTATCGATATTCTAACACA
*
72313860 TGCATCTAATCACTCAATAAATTATAAAAATTAATCGGAATAAATTTTCCTACTTCAGAGTTGTG
66 TGCATCTAATCACTCAATAAATTATAAAAATTAATCGGAATAAATTTTCCTACTTCAGAATTGTG
*
72313925 GTTTCGAAACCACTATTCCGTTTAGGCCCTAATTCGGGATATCACA
131 GTTTCAAAACCACTATTCCGTTTAGGCCCTAATTCGGGATATCACA
72313971 GATTTGGCTC
Statistics
Matches: 169, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
179 169 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (179 bp):
AATTAAGTCCTAATAGGAAAATTAGACATGCAATTCATGAAATTTTCTATCGATATTCTAACACA
TGCATCTAATCACTCAATAAATTATAAAAATTAATCGGAATAAATTTTCCTACTTCAGAATTGTG
GTTTCAAAACCACTATTCCGTTTAGGCCCTAATTCGGGATATCACAACT
Found at i:72322144 original size:29 final size:29
Alignment explanation
Indices: 72322071--72322144 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 29
72322061 TCTTTACAAA
* *
72322071 TTTAAAATTTAAAATTTAATACCTATACT
1 TTTAAATTTTAAAATTTAATACCTAGACT
* * ** *
72322100 TTT-ATTTTTAGGAATTTAATTTCTCGACT
1 TTTAAATTTTA-AAATTTAATACCTAGACT
72322129 TTTAAATTTTAAAATT
1 TTTAAATTTTAAAATT
72322145 CAGATTCATT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
28 5 0.15
29 23 0.68
30 6 0.18
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTAAATTTTAAAATTTAATACCTAGACT
Found at i:72326308 original size:14 final size:14
Alignment explanation
Indices: 72326289--72326316 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
72326279 GTACTTCATG
72326289 CTGACATGGCACTA
1 CTGACATGGCACTA
72326303 CTGACATGGCACTA
1 CTGACATGGCACTA
72326317 TTTGTCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (14 bp):
CTGACATGGCACTA
Found at i:72328472 original size:7 final size:7
Alignment explanation
Indices: 72328456--72328490 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
72328446 ATCAATTTCA
*
72328456 TTTCATT
1 TTTCACT
72328463 TTTCACT
1 TTTCACT
72328470 TTTCACT
1 TTTCACT
72328477 TTTCACT
1 TTTCACT
72328484 TTTCACT
1 TTTCACT
72328491 ATTATATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTCACT
Found at i:72329116 original size:220 final size:220
Alignment explanation
Indices: 72328734--72329173 Score: 862
Period size: 220 Copynumber: 2.0 Consensus size: 220
72328724 TCAAAATTTC
*
72328734 CTCAATTGGTATCGATACCCCTTGAAGGTACTGATACCAAATTTAGCTTCAATGTTTCATAAAAT
1 CTCAATTGGTATCGATACCCCTTGAAGGTACTGATACCAAATTTAACTTCAATGTTTCATAAAAT
72328799 TAAATTAAATCAAGAGCTATCAATACTAAACTTTAAGTACTAATACTTTCCTTTAGGTATAGATA
66 TAAATTAAATCAAGAGCTATCAATACTAAACTTTAAGTACTAATACTTTCCTTTAGGTATAGATA
*
72328864 GTGTTATTTGGTAATGTTACCATTTTAACATTCTGTTTTGTAACAATTTAAAGCCAAAGTTTAAT
131 GTGTTATTTGGTAATGATACCATTTTAACATTCTGTTTTGTAACAATTTAAAGCCAAAGTTTAAT
72328929 AGTATCGATACACATGTAATGTATT
196 AGTATCGATACACATGTAATGTATT
72328954 CTCAATTGGTATCGATACCCCTTGAAGGTACTGATACCAAATTTAACTTCAATGTTTCATAAAAT
1 CTCAATTGGTATCGATACCCCTTGAAGGTACTGATACCAAATTTAACTTCAATGTTTCATAAAAT
72329019 TAAATTAAATCAAGAGCTATCAATACTAAACTTTAAGTACTAATACTTTCCTTTAGGTATAGATA
66 TAAATTAAATCAAGAGCTATCAATACTAAACTTTAAGTACTAATACTTTCCTTTAGGTATAGATA
72329084 GTGTTATTTGGTAATGATACCATTTTAACATTCTGTTTTGTAACAATTTAAAGCCAAAGTTTAAT
131 GTGTTATTTGGTAATGATACCATTTTAACATTCTGTTTTGTAACAATTTAAAGCCAAAGTTTAAT
72329149 AGTATCGATACACATGTAATGTATT
196 AGTATCGATACACATGTAATGTATT
72329174 GATACCCTGA
Statistics
Matches: 218, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
220 218 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (220 bp):
CTCAATTGGTATCGATACCCCTTGAAGGTACTGATACCAAATTTAACTTCAATGTTTCATAAAAT
TAAATTAAATCAAGAGCTATCAATACTAAACTTTAAGTACTAATACTTTCCTTTAGGTATAGATA
GTGTTATTTGGTAATGATACCATTTTAACATTCTGTTTTGTAACAATTTAAAGCCAAAGTTTAAT
AGTATCGATACACATGTAATGTATT
Found at i:72330301 original size:29 final size:29
Alignment explanation
Indices: 72330258--72330318 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
72330248 ATTTTTCAGA
*
72330258 AAACTTAGCGTGGTTTCCTTAGGTTTATT
1 AAACTTAGCGCGGTTTCCTTAGGTTTATT
72330287 AAACTTAGCGCGGTTTCCTTAGGTTTATT
1 AAACTTAGCGCGGTTTCCTTAGGTTTATT
72330316 AAA
1 AAA
72330319 TACATCATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (29 bp):
AAACTTAGCGCGGTTTCCTTAGGTTTATT
Found at i:72331177 original size:29 final size:29
Alignment explanation
Indices: 72331114--72331177 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
72331104 ATGCTGCCAA
* **
72331114 AACTCCCATATTAGTGGATTAATCGGCAG
1 AACTCCCATATTAGTGGATTAAACCACAG
* *
72331143 AGCTCCCATATTTGTGGA-TAAACCACTAG
1 AACTCCCATATTAGTGGATTAAACCAC-AG
72331172 AACTCC
1 AACTCC
72331178 ATAGAATTCC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (29 bp):
AACTCCCATATTAGTGGATTAAACCACAG
Found at i:72343904 original size:37 final size:38
Alignment explanation
Indices: 72343854--72343928 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
72343844 TTCAAAAATT
*
72343854 TTAAATTGTTTAT-AT-AAACTTTAAAAATATAAAAAAAA
1 TTAAATTGATTATAATAAAAC-TTAAAAAT-TAAAAAAAA
*
72343892 TTAAATT-ATTATAATAAAACTTAAAACTTAAAAAAAA
1 TTAAATTGATTATAATAAAACTTAAAAATTAAAAAAAA
72343929 AAATTTTGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
37 13 0.39
38 16 0.48
39 4 0.12
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (38 bp):
TTAAATTGATTATAATAAAACTTAAAAATTAAAAAAAA
Found at i:72344528 original size:13 final size:13
Alignment explanation
Indices: 72344512--72344556 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
72344502 ATCTAATATT
72344512 TATTAAAAATAAA
1 TATTAAAAATAAA
* *
72344525 TATTATTAAATTAA
1 TATTA-AAAATAAA
72344539 TATTAAAAATAAA
1 TATTAAAAATAAA
72344552 TATTA
1 TATTA
72344557 TATTAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATTAAAAATAAA
Found at i:72344532 original size:16 final size:16
Alignment explanation
Indices: 72344506--72344557 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
72344496 AATTTAATCT
72344506 AATATTTATTAAAAATA
1 AATA-TTATTAAAAATA
72344523 AATATTATT--AAAT-
1 AATATTATTAAAAATA
*
72344536 --TAATATTAAAAATA
1 AATATTATTAAAAATA
72344550 AATATTAT
1 AATATTAT
72344558 ATTAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
11 6 0.21
13 4 0.14
14 4 0.14
16 10 0.36
17 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATTATTAAAAATA
Found at i:72344561 original size:24 final size:26
Alignment explanation
Indices: 72344512--72344591 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
72344502 ATCTAATATT
72344512 TATTAAAAATAAATATTATTAAATTAA
1 TATTAAAAATAAATATTATT-AATTAA
72344539 TATTAAAAATAAATATTA-T-ATTAA
1 TATTAAAAATAAATATTATTAATTAA
* * *
72344563 -ATTTAATATTAAATCTTATTAAATTAA
1 TA-TTAAAAATAAATATTATT-AATTAA
72344590 TA
1 TA
72344592 GAATATTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 1 0.02
24 18 0.40
25 1 0.02
26 1 0.02
27 23 0.51
28 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (26 bp):
TATTAAAAATAAATATTATTAATTAA
Found at i:72344571 original size:30 final size:27
Alignment explanation
Indices: 72344512--72344575 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
72344502 ATCTAATATT
72344512 TATTAAAAATAAATATTATTAAATTAA
1 TATTAAAAATAAATATTATTAAATTAA
72344539 TATTAAAAATAAATATTATATTAAATTTAA
1 TATTAAAAATAAATA-T-TATTAAA-TTAA
72344569 TATTAAA
1 TATTAAA
72344576 TCTTATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 15 0.44
28 1 0.03
29 7 0.21
30 11 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TATTAAAAATAAATATTATTAAATTAA
Found at i:72344716 original size:17 final size:17
Alignment explanation
Indices: 72344681--72344716 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
72344671 TTAAGATAAG
**
72344681 TATTAAATTTAATTTAA
1 TATTAAATTTAATAAAA
72344698 TATTAAATTTAATAAAA
1 TATTAAATTTAATAAAA
72344715 TA
1 TA
72344717 ATAATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTAAATTTAATAAAA
Found at i:72344719 original size:67 final size:65
Alignment explanation
Indices: 72344482--72344719 Score: 173
Period size: 67 Copynumber: 3.5 Consensus size: 65
72344472 TTAAAATTAA
** *
72344482 TTAATTTAATATTAAATTTAATCTAATATTTATTAAA--AATAAATATTATTAA-ATTAATATTA
1 TTAATTTAATATTAAATTTAATAAAATA-ATATTAAATTAATAAAT-TTATTAAGA-TAATATT-
*
72344544 AAAA
62 AAAT
* **
72344548 TAAATATT-ATATTAAATTTAATATTAAATCTTATTAAATTAATAGAATATTTATCTACAAGATA
1 TTAAT-TTAATATTAAATTTAATA--AAATAATATTAAATTAAT--AA-ATTTAT-T--AAGAT-
*
72344612 AACATTAAAT
56 AATATTAAAT
***
72344622 TTAATTTAATATTAAGA--TAATCACTTTAATATTAAATTAATAACATTTATTAAGATAAGTATT
1 TTAATTTAATATTAA-ATTTAAT-AAAATAATATTAAATTAATAA-ATTTATTAAGATAA-TATT
72344685 AAAT
62 AAAT
72344689 TTAATTTAATATTAAATTTAATAAAATAATA
1 TTAATTTAATATTAAATTTAATAAAATAATA
72344720 ATATTTTTTG
Statistics
Matches: 136, Mismatches: 17, Indels: 37
0.72 0.09 0.19
Matches are distributed among these distances:
66 21 0.15
67 43 0.32
68 7 0.05
69 4 0.03
70 8 0.06
71 6 0.04
72 16 0.12
73 6 0.04
74 18 0.13
75 7 0.05
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (65 bp):
TTAATTTAATATTAAATTTAATAAAATAATATTAAATTAATAAATTTATTAAGATAATATTAAAT
Found at i:72345124 original size:9 final size:9
Alignment explanation
Indices: 72345104--72345134 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
72345094 AAAATATTAT
72345104 ATTAATTTTA
1 ATTAA-TTTA
72345114 ATTAATTTA
1 ATTAATTTA
72345123 ATTAATTTA
1 ATTAATTTA
72345132 ATT
1 ATT
72345135 TTACTTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:72365084 original size:103 final size:104
Alignment explanation
Indices: 72364975--72365197 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
72364965 AATGGATATC
72364975 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
72365040 GGAT-ATCGCACTTAGCACCACCAATGAA-CCGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAATCCGGGAATCA
72365078 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
72365143 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAATCCGGGAATCA
**
72365182 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
72365198 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 88 0.79
104 24 0.21
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAATCCGGGAATCA
Found at i:72365558 original size:29 final size:29
Alignment explanation
Indices: 72365525--72365588 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
72365515 TAATCCACCA
72365525 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
72365554 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
72365584 CCCAA
1 CCCAA
72365589 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:72365562 original size:30 final size:30
Alignment explanation
Indices: 72365532--72365588 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
72365522 CCACCCAACT
72365532 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
72365561 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
72365589 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:72372793 original size:18 final size:18
Alignment explanation
Indices: 72372767--72372804 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
72372757 GTATATTAAT
72372767 ATATAATTTTA-AATCTTG
1 ATATAATTTTATAAT-TTG
*
72372785 ATATTATTTTATAATTTG
1 ATATAATTTTATAATTTG
72372803 AT
1 AT
72372805 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
ATATAATTTTATAATTTG
Found at i:72373007 original size:27 final size:29
Alignment explanation
Indices: 72372977--72373040 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
72372967 TATTATCCTC
*
72372977 ACTTAAAAT-TTTAAAATTTTTAT-AT-AA
1 ACTTAAAATATTT-AAATTATTATAATAAA
*
72373004 ACTTTAAATATTTAAATTATTATAATAAA
1 ACTTAAAATATTTAAATTATTATAATAAA
72373033 ACTTAAAA
1 ACTTAAAA
72373041 GAAAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 17 0.55
28 5 0.16
29 9 0.29
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (29 bp):
ACTTAAAATATTTAAATTATTATAATAAA
Found at i:72383093 original size:17 final size:18
Alignment explanation
Indices: 72383063--72383101 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
72383053 CGAACTTAAA
72383063 TATTAAAGAATTAAATTG
1 TATTAAAGAATTAAATTG
*
72383081 TATT-AAGAGTTAAATTG
1 TATTAAAGAATTAAATTG
72383098 TATT
1 TATT
72383102 TTTCTCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (18 bp):
TATTAAAGAATTAAATTG
Found at i:72383925 original size:18 final size:18
Alignment explanation
Indices: 72383902--72383938 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
72383892 TTTTCATTTA
72383902 AGTTATTAGGCTATTAGT
1 AGTTATTAGGCTATTAGT
72383920 AGTTATTAGGCTATTAGT
1 AGTTATTAGGCTATTAGT
72383938 A
1 A
72383939 AGTTTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (18 bp):
AGTTATTAGGCTATTAGT
Found at i:72386809 original size:25 final size:25
Alignment explanation
Indices: 72386781--72386856 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
72386771 CTTATGAGTG
* *
72386781 TTCCGATATTTGGCTCTCACGAGCT
1 TTCCGATACTTGGCTCTCAAGAGCT
* *
72386806 TTCCGCTACTTGGCTCTCATGAGCT
1 TTCCGATACTTGGCTCTCAAGAGCT
* * *
72386831 TCCCAATACTTGGCTCGCAAGAGCT
1 TTCCGATACTTGGCTCTCAAGAGCT
72386856 T
1 T
72386857 CTTGATATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (25 bp):
TTCCGATACTTGGCTCTCAAGAGCT
Found at i:72388935 original size:22 final size:21
Alignment explanation
Indices: 72388900--72388956 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
72388890 AAAATATATC
* *
72388900 TACAAATTAAATCTCCAAGAT
1 TACAAATCATATCTCCAAGAT
*
72388921 TACAAAATCATATCTTCAAGAT
1 TAC-AAATCATATCTCCAAGAT
* *
72388943 TGCATATCATATCT
1 TACAAATCATATCT
72388957 AAGATTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:72388962 original size:19 final size:19
Alignment explanation
Indices: 72388927--72389024 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
72388917 AGATTACAAA
72388927 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
72388948 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
72388965 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
72388984 ATCACATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
72389003 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
72389022 ATC
1 ATC
72389025 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:72388986 original size:14 final size:15
Alignment explanation
Indices: 72388949--72388986 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
72388939 AGATTGCATA
72388949 TCATATCTAAGATTG
1 TCATATCTAAGATTG
72388964 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
72388981 -CATATC
1 TCATATC
72388987 ACATCTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:72389558 original size:87 final size:85
Alignment explanation
Indices: 72389427--72389924 Score: 342
Period size: 87 Copynumber: 5.7 Consensus size: 85
72389417 AACAATACAG
* *
72389427 AGATGCCAAATCATCTTAGATCTGCTTCAGCGT-AAACA-CGTGAAAGCCAAATCTGCTATGTCT
1 AGATGCCAAATCATCTTGGATCTGCTTCA--GTAAAACATC-TGAAAGTCAAATCTGCTATGTCT
72389490 TCGATTTGCTCCTTGTGAACACAA
63 T-GATTTGCTCCTTGTGAACACAA
* * *
72389514 AGATGCTAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAAGTTACATCTGCTATG---T-
1 AGATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAAGTCAAATCTGCTATGTCTTG
* * ***
72389575 ATCTGCT-CTCCGTCGAA-ATGG
65 ATTTGCTCCT-TGT-GAACACAA
* ** * *
72389596 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTAT
1 AGATGCCAAATC----ATCTTGGATCTGC-TT-CAGT-AAAACATCTGAAAGTCAAATCTGCTAT
72389661 GTCTTCGATTTGCTCCTTGTGAACACAA
59 GTCTT-GATTTGCTCCTTGTGAACACAA
* * * * *
72389689 GGATGCCAAATCATCTTGGATCTGCTTTAGTAAAATCATCTGAAGGTTAGATCTGCTATG---T-
1 AGATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAAGTCAAATCTGCTATGTCTTG
* * * *
72389750 ATCTGCT-CTCCGTCGAA-ATAG
65 ATTTGCTCCT-TGT-GAACACAA
* * ** * *
72389771 AGATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTAT
1 AGATGCCAAATC----ATCTTGGATCTGC-TT-CAGT-AAAACATCTGAAAGTCAAATCTGCTAT
72389836 GTCTTTGATTTGCTCCTTGTGAACA-AA
59 GTC-TTGATTTGCTCCTTGTGAACACAA
* * *
72389863 AGGATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGT
1 A-GATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAAGTCAAATCTGCTATGT
72389925 ATCTGCTCTC
Statistics
Matches: 315, Mismatches: 58, Indels: 76
0.70 0.13 0.17
Matches are distributed among these distances:
81 4 0.01
82 39 0.12
83 6 0.02
84 2 0.01
85 2 0.01
86 34 0.11
87 95 0.30
88 50 0.16
89 31 0.10
91 1 0.00
92 9 0.03
93 38 0.12
94 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (85 bp):
AGATGCCAAATCATCTTGGATCTGCTTCAGTAAAACATCTGAAAGTCAAATCTGCTATGTCTTGA
TTTGCTCCTTGTGAACACAA
Found at i:72389660 original size:88 final size:86
Alignment explanation
Indices: 72389550--72390011 Score: 333
Period size: 88 Copynumber: 5.3 Consensus size: 86
72389540 TCAGTAAAAT
* * * *
72389550 CATCTGAAAGTTACATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTATC
1 CATCCGAAAGTCAGATCTGCTATGTATCTGCTCTCCGT-GAAATAGAGATGCCAGATCTGTTATC
72389615 TTGGATCTGCTTTGGTGTGAGAA
65 TTGGATCTGCTTTGGTGT-AGAA
* * * * *
72389638 CATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGCTC-CTTGTGAACACA-AGGATGCCAAATC
1 CATCCGAAAGTCAGATCTGCTATG---T--ATCTGCTCTC-CGTGAA-ATAGA-GATGCCAGATC
* *
72389701 ----ATCTTGGATCTGCTTT--AGTAAAA
58 TGTTATCTTGGATCTGCTTTGGTGTAGAA
* * *
72389724 TCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAGATGCCAGATCTGTTAT
1 -CATCCGAAAGTCAGATCTGCTATGTATCTGCTCTCCGT-GAAATAGAGATGCCAGATCTGTTAT
*
72389789 CTTGGATCTACTTTGGTGTGAGAA
64 CTTGGATCTGCTTTGGTGT-AGAA
* * * * * *
72389813 CATCCGAAAGTCAAATCTGCTATGTCTTTGATTTGCTCCTTGTGAACA-AAAGGATGCCAAATC-
1 CATCCGAAAGTCAGATCTGCTATGTATCTG--CT-CTCC--GTGAA-ATAGA-GATGCCAGATCT
** *
72389876 ---ATCTTGGATCTGC-TT-CAGTAAAA
59 GTTATCTTGGATCTGCTTTGGTGTAGAA
* * * * *
72389899 TCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTAAAAATGGAGATGCCAGATCTGTTAT
1 -CATCCGAAAGTCAGATCTGCTATGTATCTGCTCTCCGT-GAAATAGAGATGCCAGATCTGTTAT
*
72389964 CTTGAATCTGCTTTGGTGTAAGAA
64 CTTGGATCTGCTTTGGTGT-AGAA
*
72389988 CATCCGAAGGTCAGATCTGCTATG
1 CATCCGAAAGTCAGATCTGCTATG
72390012 CTTTAACCTG
Statistics
Matches: 287, Mismatches: 51, Indels: 72
0.70 0.12 0.18
Matches are distributed among these distances:
82 34 0.12
83 8 0.03
84 5 0.02
85 1 0.00
86 33 0.11
87 50 0.17
88 73 0.25
89 34 0.12
90 1 0.00
91 5 0.02
92 10 0.03
93 33 0.11
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (86 bp):
CATCCGAAAGTCAGATCTGCTATGTATCTGCTCTCCGTGAAATAGAGATGCCAGATCTGTTATCT
TGGATCTGCTTTGGTGTAGAA
Found at i:72389664 original size:175 final size:175
Alignment explanation
Indices: 72389468--72390011 Score: 937
Period size: 175 Copynumber: 3.1 Consensus size: 175
72389458 GTAAACACGT
* *
72389468 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCTAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
* *
72389533 ATCTGCTTCAGTAAAATCATCTGAAAGTTACATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
72389598 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
*
72389643 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
* *
72389708 ATCTGCTTTAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAG
66 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
*
72389773 ATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
*
72389818 GAAAGTCAAATCTGCTATGTCTTTGATTTGCTCCTTGTGAACA-AAAGGATGCCAAATCATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAA-GATGCCAAATCATCTTG
**
72389882 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTAAAAATGGA
65 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGA
* *
72389947 GATGCCAGATCTGTTATCTTGAATCTGCTTTGGTGTAAGAACATCC
130 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* *
72389993 GAAGGTCAGATCTGCTATG
1 GAAAGTCAAATCTGCTATG
72390012 CTTTAACCTG
Statistics
Matches: 349, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
174 2 0.01
175 347 0.99
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
Found at i:72390154 original size:84 final size:84
Alignment explanation
Indices: 72390013--72390470 Score: 570
Period size: 84 Copynumber: 5.4 Consensus size: 84
72390003 TCTGCTATGC
* * *
72390013 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTACTCCACTACTGTTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTT
*
72390077 AGGGAGTTAAGATCTGCAAA
65 AGGGAGATAAGATCTGCAAA
72390097 TTTAACCTGTTACCCTA-TCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTT
1 TTTAACCTGTTACCCTACT-GCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTT
*
72390161 AGGGAGATAAGATCTGTAAA
65 AGGGAGATAAGATCTGCAAA
* * *
72390181 TTTAACCTGTTACCCTACTACTCAGGGGATTAAAGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
* * *
72390246 GGAAGATAAGATCCGCAAT
66 GGGAGATAAGATCTGCAAA
* * * * * **
72390265 TTTGACATGTTACCCTACTGTTTAGGGGATTAAGGCGAGTCGTTGTTGATCTGCTCCGCTACTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC--T-TCGATCTGCTCCACTACTGC
** *
72390330 TTAGGGAGATAAGATCTATAAT
63 TTAGGGAGATAAGATCTGCAAA
* * *
72390352 TTTAGCCTGTTACCCTACTGCTTAGGGGATTAAAGCGAGTCGTCGTCGATCTGCTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
72390417 TTAGGGAGATAAGATCTGC---
63 TTAGGGAGATAAGATCTGCAAA
*
72390436 --GAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
72390471 CTGAATTTTG
Statistics
Matches: 327, Mismatches: 40, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
82 32 0.10
83 2 0.01
84 185 0.57
85 1 0.00
86 2 0.01
87 105 0.32
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAAA
Found at i:72391441 original size:18 final size:18
Alignment explanation
Indices: 72391418--72391452 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
72391408 GGCCTCTCCA
72391418 TTTTTCT-TTTTTATTTTT
1 TTTTTCTCTTTTT-TTTTT
72391436 TTTTTCTCTTTTTTTTT
1 TTTTTCTCTTTTTTTTT
72391453 GCTTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTTCTCTTTTTTTTTT
Found at i:72397744 original size:19 final size:19
Alignment explanation
Indices: 72397701--72397781 Score: 121
Period size: 19 Copynumber: 4.4 Consensus size: 19
72397691 GCATATCATA
72397701 TCATATCATATCTAAGA-T
1 TCATATCATATCTAAGATT
72397719 T-ATATCATATCTAAGATT
1 TCATATCATATCTAAGATT
*
72397737 TCATATCACATCTAAGATT
1 TCATATCATATCTAAGATT
*
72397756 GCATATCATATCTAAGATT
1 TCATATCATATCTAAGATT
*
72397775 GCATATC
1 TCATATC
72397782 CTTAAAGATT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.26
18 3 0.05
19 40 0.69
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.38
Consensus pattern (19 bp):
TCATATCATATCTAAGATT
Found at i:72399720 original size:55 final size:55
Alignment explanation
Indices: 72399654--72399798 Score: 202
Period size: 55 Copynumber: 2.6 Consensus size: 55
72399644 TCTTCTTAAT
72399654 TGTTGGAATACTGCTTCTTTTGAAACGATTTTTTATATGTTTAAATCGATTGTCA
1 TGTTGGAATACTGCTTCTTTTGAAACGATTTTTTATATGTTTAAATCGATTGTCA
* * * *
72399709 TGTTAGAATACTTCTTCTTTT-AAATCGATTGTTTATATGTTTAAATCGATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAAA-CGATTTTTTATATGTTTAAATCGATTGTCA
* * *
72399764 TGTTGGAATATTGCTTTTTTTGAATCGATTATTTT
1 TGTTGGAATACTGCTTCTTTTGAAACGATT-TTTT
72399799 TACGTAGCAC
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
54 3 0.04
55 69 0.90
56 5 0.06
ACGTcount: A:0.25, C:0.09, G:0.15, T:0.51
Consensus pattern (55 bp):
TGTTGGAATACTGCTTCTTTTGAAACGATTTTTTATATGTTTAAATCGATTGTCA
Found at i:72401717 original size:16 final size:16
Alignment explanation
Indices: 72401698--72401736 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
72401688 AGAGAGCAGG
* *
72401698 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
72401714 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
72401730 GGAAAAA
1 GGAAAAA
72401737 GGGGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:72402874 original size:47 final size:47
Alignment explanation
Indices: 72402812--72402928 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
72402802 GATATTATTA
* *
72402812 CTGT-TACCGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTCCAGATTTGTTCCGACGAGGTACT
* *
72402859 CTGTGTACCGTACTGTTACTGCTCCGGATTTGTTCCGACGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTCCAGATTTGTTCCGACGAGGTACT
72402906 CTGTGTACCGTACTGTTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
72402929 ACTGTTCCGA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 59 0.92
48 5 0.08
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.39
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTCCAGATTTGTTCCGACGAGGTACT
Found at i:72403103 original size:18 final size:18
Alignment explanation
Indices: 72403050--72403117 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
72403040 AAAGATCGAC
* *
72403050 TGTTGCTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
72403069 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
72403087 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
*
72403105 TGTTACTGGATAA
1 TGTTACTGAATAA
72403118 CCGATCAATT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 29 0.74
19 10 0.26
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.47
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:72406943 original size:38 final size:37
Alignment explanation
Indices: 72406880--72407027 Score: 115
Period size: 38 Copynumber: 3.9 Consensus size: 37
72406870 ATATTACGAG
72406880 TGTCATTTTTACGGTTTAC-CT-GATATTCATATCGCGGT
1 TGTCATTTTTACGG-TT-CGCTCGATATTCATAT-GCGGT
* **
72406918 TGTCATTTTTATGGTTCGCTCGATA-TCTATATGCAACCT
1 TGTCATTTTTACGGTTCGCTCGATATTC-ATATGC--GGT
* * *
72406957 TG-GATGTTTTAACAGTTCGCTTGATATTCATATAGCGGT
1 TGTCAT-TTTT-ACGGTTCGCTCGATATTCATAT-GCGGT
* *
72406996 TGTCATTTTTACGGTTTGCTCAATATTCATAT
1 TGTCATTTTTACGGTTCGCTCGATATTCATAT
72407028 TGCAACCTTC
Statistics
Matches: 86, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
36 1 0.01
37 8 0.09
38 41 0.48
39 14 0.16
40 18 0.21
41 4 0.05
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.45
Consensus pattern (37 bp):
TGTCATTTTTACGGTTCGCTCGATATTCATATGCGGT
Found at i:72407727 original size:17 final size:19
Alignment explanation
Indices: 72407705--72407742 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
72407695 TTAATAACGT
*
72407705 AAATTAA-AAT-ACTTTAA
1 AAATTAAGAATCAATTTAA
72407722 AAATTAAGAATCAATTTAA
1 AAATTAAGAATCAATTTAA
72407741 AA
1 AA
72407743 TCAAAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTAAGAATCAATTTAA
Found at i:72410425 original size:14 final size:14
Alignment explanation
Indices: 72410402--72410440 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
72410392 GCCTAAACTA
*
72410402 AAAGTAAGAGTCAC
1 AAAGTGAGAGTCAC
72410416 AAAGTGAGAGTCAC
1 AAAGTGAGAGTCAC
72410430 AAAGTGAGAGT
1 AAAGTGAGAGT
72410441 GTCTCATTGA
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:0.46, C:0.10, G:0.28, T:0.15
Consensus pattern (14 bp):
AAAGTGAGAGTCAC
Found at i:72416677 original size:31 final size:31
Alignment explanation
Indices: 72416642--72416741 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 31
72416632 TACTAAAACT
72416642 ATCTAAATATATCCATGAACATTAAACACAA
1 ATCTAAATATATCCATGAACATTAAACACAA
* * * *
72416673 ATCTAAAAAAAAAAT-CAT-ACACTACTAAA-AC-T
1 ATCT---AAATATATCCATGA-AC-ATTAAACACAA
72416705 ATCTAAATATATCCATGAACATTAAACACAA
1 ATCTAAATATATCCATGAACATTAAACACAA
72416736 ATCTAA
1 ATCTAA
72416742 TTTTTAAAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
29 11 0.21
30 7 0.13
31 11 0.21
32 5 0.10
33 7 0.13
34 11 0.21
ACGTcount: A:0.54, C:0.19, G:0.02, T:0.25
Consensus pattern (31 bp):
ATCTAAATATATCCATGAACATTAAACACAA
Found at i:72416690 original size:63 final size:63
Alignment explanation
Indices: 72416615--72416741 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
72416605 CTATTATTAC
72416615 AAAAAAAAATCATACACTACTAAAACTATCTAAATATATCCATGAACATTAAACACAAATCTA
1 AAAAAAAAATCATACACTACTAAAACTATCTAAATATATCCATGAACATTAAACACAAATCTA
72416678 AAAAAAAAATCATACACTACTAAAACTATCTAAATATATCCATGAACATTAAACACAAATCTA
1 AAAAAAAAATCATACACTACTAAAACTATCTAAATATATCCATGAACATTAAACACAAATCTA
72416741 A
1 A
72416742 TTTTTAAAAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.56, C:0.19, G:0.02, T:0.24
Consensus pattern (63 bp):
AAAAAAAAATCATACACTACTAAAACTATCTAAATATATCCATGAACATTAAACACAAATCTA
Found at i:72418072 original size:24 final size:24
Alignment explanation
Indices: 72418026--72418073 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
72418016 GACTCGACTC
**
72418026 TTGTTCAAACACTTGCTTGAACAA
1 TTGTTCAAACACTTGCTCAAACAA
*
72418050 TTGTTTAAACACTTGCTCAAACAA
1 TTGTTCAAACACTTGCTCAAACAA
72418074 GACCTTTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (24 bp):
TTGTTCAAACACTTGCTCAAACAA
Found at i:72419315 original size:42 final size:43
Alignment explanation
Indices: 72419213--72419322 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
72419203 AAAAAAGCCA
*
72419213 TAAAAGATCATGACTTTTAGCGGCGTTTATGGGGGAGGCACCGC
1 TAAAAG-TCATGACTTTTAGCGGCGTTTATGGGGGAAGCACCGC
* * * *
72419257 TAAAAGTCAT-AGCTTTTAGCTGCGTTTGT-GGTGAAGCGCCGC
1 TAAAAGTCATGA-CTTTTAGCGGCGTTTATGGGGGAAGCACCGC
*
72419299 TACAAGTCATGACTTTTAGCGGCG
1 TAAAAGTCATGACTTTTAGCGGCG
72419323 CTTTTGTTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 31 0.54
43 20 0.35
44 6 0.11
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
TAAAAGTCATGACTTTTAGCGGCGTTTATGGGGGAAGCACCGC
Found at i:72423829 original size:13 final size:14
Alignment explanation
Indices: 72423803--72423831 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
72423793 ACTAACGACG
72423803 AATTAAACCATTAT
1 AATTAAACCATTAT
72423817 AATTAAA-CATTAT
1 AATTAAACCATTAT
72423830 AA
1 AA
72423832 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Done.