Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 189 of 213
Found at i:56976249 original size:26 final size:25
Alignment explanation
Indices: 56976211--56976259 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
56976201 ATTAAATGGC
* *
56976211 TTTTGAGGGTATTTCTGAAATATGCA
1 TTTTGAGAGTATTT-TCAAATATGCA
*
56976237 TTTTGAGATTATTTTCAAATATG
1 TTTTGAGAGTATTTTCAAATATG
56976260 TGTTTCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (25 bp):
TTTTGAGAGTATTTTCAAATATGCA
Found at i:56978398 original size:19 final size:19
Alignment explanation
Indices: 56978364--56978416 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
56978354 TACACTTACA
*
56978364 CGCCAGGATGCACTTTGTG
1 CGCCAGGATGCGCTTTGTG
* * *
56978383 TGCTAGTATGCGCTTTGTG
1 CGCCAGGATGCGCTTTGTG
56978402 CGCCAGGATGCGCTT
1 CGCCAGGATGCGCTT
56978417 CGAGCACCAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.30
Consensus pattern (19 bp):
CGCCAGGATGCGCTTTGTG
Found at i:56981140 original size:43 final size:42
Alignment explanation
Indices: 56980986--56981141 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 42
56980976 GTGATTTTGC
56980986 GTAAGACCATGTCTGGGACGTTGGCATCG-ATTTGAGATTTACGT
1 GTAAGACCATGTCTGGGACGTTGGCATCGTATTT--GA-TTACGT
* *
56981030 GTAAGACCATGTCTGGGACATTGGCATCGTATATGATTACGT
1 GTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACGT
* * * *
56981072 GTAAGACCTTGTTTGGGACAG-TGGCATCGTTATTTGATTGCAT
1 GTAAGACCATGTCTGGGAC-GTTGGCATCG-TATTTGATTACGT
* *
56981115 GTAAGACCACGTCTGAGACGTTGGCAT
1 GTAAGACCATGTCTGGGACGTTGGCAT
56981142 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 32 0.33
43 33 0.34
44 28 0.29
45 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACGT
Found at i:56985093 original size:4 final size:4
Alignment explanation
Indices: 56985084--56985110 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
56985074 TCTGTAAGCT
56985084 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
56985111 TTTTTCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:56985812 original size:2 final size:2
Alignment explanation
Indices: 56985805--56985841 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
56985795 GACTATAGGA
56985805 TG TG TG TG TG 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 TG TG TG TG TG T
56985842 AATCTTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:56994934 original size:6 final size:6
Alignment explanation
Indices: 56994917--56994951 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
56994907 ACCGTTCTTC
*
56994917 TCCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCC
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCC
56994952 ATTGGGTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (6 bp):
TCCCCT
Found at i:56997025 original size:19 final size:19
Alignment explanation
Indices: 56997001--56997054 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
56996991 GAAAATAAAT
56997001 ATAATTTTAATAATTTT-TA
1 ATAA-TTTAATAATTTTGTA
*
56997020 ATAATTTATTAATTTTGTA
1 ATAATTTAATAATTTTGTA
** *
56997039 ATTGTTAAATAATTTT
1 ATAATTTAATAATTTT
56997055 AAAAACTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 11 0.38
19 18 0.62
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
ATAATTTAATAATTTTGTA
Found at i:56997033 original size:27 final size:27
Alignment explanation
Indices: 56997002--56997053 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
56996992 AAAATAAATA
*
56997002 TAATTTTAATAATT-TTTAATAATTTAT
1 TAATTTT-ATAATTGTTAAATAATTTAT
*
56997029 TAATTTTGTAATTGTTAAATAATTT
1 TAATTTTATAATTGTTAAATAATTT
56997054 TAAAAACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
TAATTTTATAATTGTTAAATAATTTAT
Found at i:56997193 original size:21 final size:21
Alignment explanation
Indices: 56997169--56997221 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
56997159 CGCTGTTTCT
* *
56997169 AATCTCACTACTACAGTATCC
1 AATCTCACCACTACAGTAACC
* *
56997190 AATCTCACCGCTACAGTAACT
1 AATCTCACCACTACAGTAACC
56997211 AATCTCACCAC
1 AATCTCACCAC
56997222 CACCGCTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.25
Consensus pattern (21 bp):
AATCTCACCACTACAGTAACC
Found at i:56999445 original size:21 final size:23
Alignment explanation
Indices: 56999419--56999474 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
56999409 GTTATTTCAC
*
56999419 TATTTTAAATAT-AAAATATTTA
1 TATTTTAAATATAAAAATAATTA
*
56999441 -ATTTTATATAATAAAAATAATTA
1 TATTTTAAAT-ATAAAAATAATTA
*
56999464 TATATTAAATA
1 TATTTTAAATA
56999475 AAATTATCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 8 0.30
22 2 0.07
23 10 0.37
24 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTTTAAATATAAAAATAATTA
Found at i:56999464 original size:17 final size:17
Alignment explanation
Indices: 56999444--56999481 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
56999434 ATATTTAATT
56999444 TTATATAATAAA-AATAA
1 TTATATAATAAATAA-AA
*
56999461 TTATATATTAAATAAAA
1 TTATATAATAAATAAAA
56999478 TTAT
1 TTAT
56999482 CAATTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTATATAATAAATAAAA
Found at i:57000787 original size:10 final size:10
Alignment explanation
Indices: 57000772--57000802 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
57000762 TGGTAAAAAG
57000772 AAAAGTGAGA
1 AAAAGTGAGA
*
57000782 AAAAGTGAAA
1 AAAAGTGAGA
57000792 AAAAGTGAGA
1 AAAAGTGAGA
57000802 A
1 A
57000803 TTCCCAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.10
Consensus pattern (10 bp):
AAAAGTGAGA
Found at i:57000921 original size:50 final size:49
Alignment explanation
Indices: 57000846--57001044 Score: 193
Period size: 51 Copynumber: 4.0 Consensus size: 49
57000836 AAGTGAAGTT
57000846 GATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
1 GATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
* * *** *
57000895 CGATAGGTCGCATGTGTAGTACTATGTGAAGGCTACTATACGTATCGGATA
1 -GATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A
* * * * * * *
57000946 GCTTCGATCACGTGTGTAGTACTATATGCAAGCTACTACGTGTATCAGATGAA
1 G-ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCG--GAA
* * *
57000999 AAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 GATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
57001045 GTATCATTGA
Statistics
Matches: 116, Mismatches: 28, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
48 1 0.01
50 45 0.39
51 65 0.56
52 2 0.02
53 1 0.01
54 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
Found at i:57005915 original size:19 final size:20
Alignment explanation
Indices: 57005842--57006082 Score: 116
Period size: 19 Copynumber: 11.5 Consensus size: 20
57005832 TTTAGATTAG
*
57005842 AATT-TTGTATGAATATTTT
1 AATTGTTGTATGAATATTGT
* *
57005861 AACTTTTTTGTATGAATATTAT
1 AA--TTGTTGTATGAATATTGT
* *
57005883 AATTTTTTTATGAATATTGT
1 AATTGTTGTATGAATATTGT
57005903 AA-TGTTGTATGAATATTGT
1 AATTGTTGTATGAATATTGT
* * *
57005922 AAATATTTTAT-AATTAAATTTGT
1 AATTGTTGTATGAA-T--A-TTGT
* * * * * *
57005945 ATTTATAGTCTTGGAT-TAGT
1 AATTGTTGT-ATGAATATTGT
*
57005965 AATTTTTGTATGAATATTGT
1 AATTGTTGTATGAATATTGT
*
57005985 AATT-TTGTATGAATATTAT
1 AATTGTTGTATGAATATTGT
*
57006004 AATTTTTTGTATGAATATTGT
1 AA-TTGTTGTATGAATATTGT
*
57006025 AATATTATAGTTTTGTATGAATATTGC
1 -A-A-T-T-G--TTGTATGAATATTGT
*
57006052 AATTTTTTTGTATGAATATTGT
1 AA--TTGTTGTATGAATATTGT
57006074 AATT-TTGTA
1 AATTGTTGTA
57006083 ATTTTGTATG
Statistics
Matches: 176, Mismatches: 26, Indels: 40
0.73 0.11 0.17
Matches are distributed among these distances:
19 46 0.26
20 45 0.26
21 16 0.09
22 34 0.19
23 12 0.07
24 3 0.02
25 3 0.02
26 3 0.02
27 14 0.08
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (20 bp):
AATTGTTGTATGAATATTGT
Found at i:57005985 original size:40 final size:41
Alignment explanation
Indices: 57005941--57006129 Score: 111
Period size: 40 Copynumber: 4.3 Consensus size: 41
57005931 ATAATTAAAT
*
57005941 TTGT-ATTTATAGTCTTG-GATTAGTAA-TTTTTGTATGAATA
1 TTGTAATTTATAGT-ATGAGATTA-TAATTTTTTGTATGAATA
*
57005981 TTGTAATTT-T-GTATGAATATTATAATTTTTTGTATGAATA
1 TTGTAATTTATAGTATG-AGATTATAATTTTTTGTATGAATA
* *
57006021 TTGTAATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATA
1 TTGTAAT-TTATAG-TATG-A-GATTA-T--AA-TTTTTTGTATGAATA
* *
57006070 TTGTAATTTTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATA
1 TTGTAA--TT-T-A--TAGTATG-AGATTATAATTTTTTGTATGAATA
57006117 TTGTAATATTATA
1 TTGTAAT-TTATA
57006130 ATTTTGTATG
Statistics
Matches: 117, Mismatches: 12, Indels: 38
0.70 0.07 0.23
Matches are distributed among these distances:
38 2 0.02
39 5 0.04
40 30 0.26
41 6 0.05
42 2 0.02
43 1 0.01
44 5 0.04
45 5 0.04
46 2 0.02
47 21 0.18
48 3 0.03
49 21 0.18
50 1 0.01
51 3 0.03
52 4 0.03
53 4 0.03
54 2 0.02
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (41 bp):
TTGTAATTTATAGTATGAGATTATAATTTTTTGTATGAATA
Found at i:57006033 original size:82 final size:84
Alignment explanation
Indices: 57005878--57006172 Score: 235
Period size: 96 Copynumber: 3.3 Consensus size: 84
57005868 TTGTATGAAT
* * * * * *
57005878 ATTA-TAATTTTTTTATGAATATTGTAATGTTGTATGAATATTGTAAATATTTTATAATTAA-AT
1 ATTAGTAATTTTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATTTTTTGT-ATGAATA-
57005941 TTGT-AT-TTATAGTCTTG-G-
63 TTGTAATATTATAGTCTTGTGA
57005959 ATTAGTAATTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTG
1 ATTAGTAATTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTG
*
57006024 TAATATTATAGTTTTGTATGA
66 TAATATTATAGTCTTG--TGA
* *
57006045 ATATTGCAATTTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTAT-ATTTTTTG
1 AT-TAGTAA--TTTTTGTATG-A-A---T-A--TTGTAATTTTGTATGAATATTATAATTTTTTG
* *
57006109 TATGAATATTGTAATATTATAATTTTGTATGA
55 TATGAATATTGTAATATTATAGTCTTG--TGA
* *
57006141 ATATTGCAATTTTTTTGTATGAATATTGTAAT
1 AT-TAGTAA--TTTTTGTATGAATATTGTAAT
57006173 GTGGGAATAT
Statistics
Matches: 185, Mismatches: 10, Indels: 31
0.82 0.04 0.14
Matches are distributed among these distances:
80 8 0.04
81 15 0.08
82 47 0.25
85 1 0.01
86 2 0.01
87 4 0.02
88 7 0.04
89 10 0.05
90 2 0.01
91 2 0.01
94 2 0.01
95 2 0.01
96 60 0.32
97 23 0.12
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (84 bp):
ATTAGTAATTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTG
TAATATTATAGTCTTGTGA
Found at i:57006046 original size:27 final size:24
Alignment explanation
Indices: 57005987--57006172 Score: 178
Period size: 27 Copynumber: 7.8 Consensus size: 24
57005977 AATATTGTAA
*
57005987 TTTTGTATGAATA-T-T-ATAATT
1 TTTTGTATGAATATTGTAATATTT
57006008 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATT-T
*
57006033 AGTTTTGTATGAATATTG-CA-ATTT
1 --TTTTGTATGAATATTGTAATATTT
*
57006057 TTTTGTATGAATATTGTAATTTTGT
1 TTTTGTATGAATATTGTAATATT-T
57006082 AATTTTGTATGAATA-T-T-ATA-TT
1 --TTTTGTATGAATATTGTAATATTT
57006104 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATT-T
*
57006129 AATTTTGTATGAATATTG-CA-ATTT
1 --TTTTGTATGAATATTGTAATATTT
57006153 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
57006173 GTGGGAATAT
Statistics
Matches: 138, Mismatches: 7, Indels: 37
0.76 0.04 0.20
Matches are distributed among these distances:
20 13 0.09
21 14 0.10
22 35 0.25
23 7 0.05
24 11 0.08
25 10 0.07
26 3 0.02
27 45 0.33
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (24 bp):
TTTTGTATGAATATTGTAATATTT
Found at i:57006088 original size:49 final size:49
Alignment explanation
Indices: 57005977--57006219 Score: 304
Period size: 49 Copynumber: 5.1 Consensus size: 49
57005967 TTTTTGTATG
**
57005977 AATATTGTAATTTTGTATGAATATTATAA-TTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
57006025 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
*
57006074 AATTTTGTAATTTTGTATGAATATT---ATATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAAT-TTTTTTGTATGAATATTGT
*
57006121 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* * * * *
57006170 AATGTGGGAATATATTG--T-AATATTGTAA-TTTTTTGTATGAATTTTGT
1 AATATTGTAAT-T-TTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
57006217 AAT
1 AAT
57006220 TATTTTATAA
Statistics
Matches: 173, Mismatches: 15, Indels: 15
0.85 0.07 0.07
Matches are distributed among these distances:
46 2 0.01
47 63 0.36
48 34 0.20
49 68 0.39
50 3 0.02
51 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:57006122 original size:96 final size:97
Alignment explanation
Indices: 57005981--57006219 Score: 378
Period size: 96 Copynumber: 2.5 Consensus size: 97
57005971 TGTATGAATA
*
57005981 TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAA
1 TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
*
57006046 TATTGCAATTTTTTTGTATGAATATTGTAATT
66 TATTGCAATTTTTTTGTATGAATATTGTAATG
57006078 TTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
1 TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
57006142 TATTGCAATTTTTTTGTATGAATATTGTAATG
66 TATTGCAATTTTTTTGTATGAATATTGTAATG
* * * *
57006174 TGGGAATATATTG--T-AATATTGTAATTTTTTGTATGAATTTTGTAAT
1 TTGTAAT-T-TTGTATGAATATTATAATTTTTTGTATGAATATTGTAAT
57006220 TATTTTATAA
Statistics
Matches: 133, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
95 7 0.05
96 99 0.74
97 24 0.18
98 3 0.02
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (97 bp):
TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
TATTGCAATTTTTTTGTATGAATATTGTAATG
Found at i:57006294 original size:60 final size:60
Alignment explanation
Indices: 57006212--57006334 Score: 167
Period size: 60 Copynumber: 2.0 Consensus size: 60
57006202 TTGTATGAAT
* * * * * *
57006212 TTTGTAATTATTTTATAATTAATTTGTTAGTAATTTGGGATTATGTTATAAATTTTTGTG
1 TTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
*
57006272 TTTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTG
1 TTTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
57006332 TTT
1 TTT
57006335 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (60 bp):
TTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
Found at i:57006413 original size:38 final size:38
Alignment explanation
Indices: 57006368--57006449 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
57006358 CATATAAAGT
57006368 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
57006406 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
57006444 TTATAA
1 TTATAA
57006450 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:57006523 original size:15 final size:15
Alignment explanation
Indices: 57006486--57006527 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
57006476 GTTAACTCAT
*
57006486 TTAATTTTTATATAA
1 TTAAATTTTATATAA
57006501 TGTAAATTTTATATAA
1 T-TAAATTTTATATAA
57006517 TTAAATTTTAT
1 TTAAATTTTAT
57006528 TTGATTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:57008163 original size:6 final size:6
Alignment explanation
Indices: 57008152--57008213 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
57008142 TCATGCACCG
* * * * *
57008152 GAGCCA GAGCCA AAGCCA GAGCTA GAGCTA GAGCTA GAGCCA GACCCA
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA
* *
57008200 GACCCA GACCCA GA
1 GAGCCA GAGCCA GA
57008214 ACTACATTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.35, C:0.32, G:0.27, T:0.05
Consensus pattern (6 bp):
GAGCCA
Found at i:57011571 original size:22 final size:21
Alignment explanation
Indices: 57011536--57011580 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
57011526 TACCTAATTT
*
57011536 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
57011557 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
57011579 TT
1 TT
57011581 ATTTCTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:57011684 original size:27 final size:28
Alignment explanation
Indices: 57011646--57011716 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
57011636 AAAATAATAG
*
57011646 CATTGGCGCCTCTCAGAAT-GACACAAC
1 CATTGGCGCCTCCCAGAATAGACACAAC
*
57011673 CATTGGCGCCTCCCAG-GTAGACACAAC
1 CATTGGCGCCTCCCAGAATAGACACAAC
*
57011700 CATTGACGCCTCCCAGA
1 CATTGGCGCCTCCCAGA
57011717 TAGGCGCCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.17
Consensus pattern (28 bp):
CATTGGCGCCTCCCAGAATAGACACAAC
Found at i:57018082 original size:16 final size:16
Alignment explanation
Indices: 57018061--57018100 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
57018051 TTCGTTGTAT
57018061 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
57018077 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
57018093 TTGAATAG
1 TGGAATAG
57018101 CAGTGTAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.23
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:57018363 original size:18 final size:17
Alignment explanation
Indices: 57018342--57018376 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57018332 TTATTATTAA
*
57018342 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57018360 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57018377 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57018483 original size:18 final size:17
Alignment explanation
Indices: 57018460--57018496 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
57018450 AATTATTATT
57018460 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
57018476 AAATATATGATTTAATA
1 AAATATATGATTTAATA
57018493 AAAT
1 AAAT
57018497 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:57018603 original size:18 final size:17
Alignment explanation
Indices: 57018580--57018616 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
57018570 AATTATTATT
57018580 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
57018596 AAATATATGATTTAATA
1 AAATATATGATTTAATA
57018613 AAAT
1 AAAT
57018617 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:57018724 original size:18 final size:17
Alignment explanation
Indices: 57018701--57018737 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
57018691 AATTATTATT
57018701 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
57018717 AAATATATGATTTAATA
1 AAATATATGATTTAATA
57018734 AAAT
1 AAAT
57018738 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:57018747 original size:121 final size:120
Alignment explanation
Indices: 57018328--57018738 Score: 779
Period size: 120 Copynumber: 3.4 Consensus size: 120
57018318 ATATTTTAAC
*
57018328 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
*
57018393 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT-AA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
57018447 CATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATA
1 -ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATA
57018512 TTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
65 TTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
57018568 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
57018633 TCTTATATGAATTTACTTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTAC-TAAAATCATAATATATGATACTATAAAATATAATTTGAA
57018689 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
57018739 TAAAATAATT
Statistics
Matches: 287, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
120 196 0.68
121 91 0.32
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:57018752 original size:54 final size:53
Alignment explanation
Indices: 57018676--57018837 Score: 149
Period size: 54 Copynumber: 3.1 Consensus size: 53
57018666 GATACTATAA
* *
57018676 AATATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTT
1 AATAAAATTTAAAATAATTATTATTAAATATATTTTAA-TAAAATATATGATTT
* * *
57018730 AATAAAATTTAAAATAATTATTACT-AATAAATTTT-CT----TATATGAATTT
1 AATAAAATTTAAAATAATTATTATTAAATATATTTTAATAAAATATATG-ATTT
* * * * *
57018778 -GTATAATTTAATATAATTATTATTAAATATAATTTAATAATAATATATAATTT
1 AATAAAATTTAAAATAATTATTATTAAATATATTTTAATAA-AATATATGATTT
*
57018831 CATAAAA
1 AATAAAA
57018838 CTCTTGATAA
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
47 26 0.31
48 12 0.14
49 1 0.01
51 1 0.01
53 13 0.15
54 31 0.37
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (53 bp):
AATAAAATTTAAAATAATTATTATTAAATATATTTTAATAAAATATATGATTT
Found at i:57018794 original size:101 final size:97
Alignment explanation
Indices: 57018677--57018960 Score: 276
Period size: 91 Copynumber: 3.0 Consensus size: 97
57018667 ATACTATAAA
*
57018677 ATATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTT-A
1 ATATAATTT-AAATAATTATTATTAAATATAATTTAA-TAAAATATAT-ATTT-ATAAAATTTCA
* *
57018741 AAATAATTATT-ACTAATAAATTTTCTTATATGAATTT
62 AAA-AACTATTGA-TAATAAATATTCTTATATGAATTT
* *
57018778 GTATAATTTAATATAATTATTATTAAATATAATTTAAT--AATA-ATA--TAT--AATTTCATAA
1 ATATAATTTAA-ATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
*
57018836 AACTCTTGATAATAAATATTCTTATATGAATTT
65 AACTATTGATAATAAATATTCTTATATGAATTT
* * *
57018869 ATATAATTTAAAATAATTAATATTAAATATAATTTAAT--AAT-GATA--TAT--AATTTCATAA
1 ATATAATTT-AAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
* * *
57018927 AATTCTTAATAATAAATATTCTTATATGAATTT
65 AACTATTGATAATAAATATTCTTATATGAATTT
57018960 A
1 A
57018961 CTAAAATCAT
Statistics
Matches: 168, Mismatches: 10, Indels: 20
0.85 0.05 0.10
Matches are distributed among these distances:
91 117 0.70
92 6 0.04
93 2 0.01
94 1 0.01
96 1 0.01
97 2 0.01
98 4 0.02
100 3 0.02
101 32 0.19
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (97 bp):
ATATAATTTAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAAA
ACTATTGATAATAAATATTCTTATATGAATTT
Found at i:57018829 original size:44 final size:43
Alignment explanation
Indices: 57018779--57018930 Score: 139
Period size: 44 Copynumber: 3.4 Consensus size: 43
57018769 TATGAATTTG
*
57018779 TATAATTTAATATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAATAAAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
57018823 TATAATTTCATAAAACTCTTGATAATAAATAT--TCTTATATGAATTTA
1 TATAATTTAATAAAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
57018870 TATAATTTAA-AATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAATAA-AATTATTATTAAATATAATTTAATAAT-ATA
*
57018914 TATAATTTCATAAAATT
1 TATAATTTAATAAAATT
57018931 CTTAATAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
43 3 0.03
44 40 0.47
45 8 0.09
46 8 0.09
47 24 0.28
48 3 0.03
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.45
Consensus pattern (43 bp):
TATAATTTAATAAAATTATTATTAAATATAATTTAATAATATA
Found at i:57018849 original size:91 final size:91
Alignment explanation
Indices: 57018754--57018960 Score: 351
Period size: 91 Copynumber: 2.3 Consensus size: 91
57018744 TAATTATTAC
* * * *
57018754 TAATAAATTTTCTTATATGAATTTGTATAATTTAATATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATATTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
57018819 AATATATAATTTCATAAAACTCTTGA
66 AATATATAATTTCATAAAACTCTTAA
57018845 TAATAAATATTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATATTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
57018910 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAACTCTTAA
57018936 TAATAAATATTCTTATATGAATTTA
1 TAATAAATATTCTTATATGAATTTA
57018961 CTAAAATCAT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 109 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATATTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAACTCTTAA
Found at i:57027841 original size:23 final size:23
Alignment explanation
Indices: 57027815--57027881 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 23
57027805 TTTTGAGCAA
57027815 TATATTTTAAGTCATGGTAACTT
1 TATATTTTAAGTCATGGTAACTT
* *
57027838 TATA----AAATCATGATCAA---
1 TATATTTTAAGTCATGGT-AACTT
57027855 TATATTTTAAGTCATGGTAACTT
1 TATATTTTAAGTCATGGTAACTT
57027878 TATA
1 TATA
57027882 AAAACATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 16
0.62 0.08 0.31
Matches are distributed among these distances:
17 4 0.12
19 8 0.25
20 4 0.12
21 8 0.25
23 8 0.25
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (23 bp):
TATATTTTAAGTCATGGTAACTT
Found at i:57029686 original size:27 final size:27
Alignment explanation
Indices: 57029621--57029690 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
57029611 CAAATTTTAG
* *
57029621 ATTGTTGGATTTTGATATATGTCTTGA
1 ATTGTTGGATATTGATATATGTCTTAA
* *
57029648 ATTGGTTAGATATTGAT-TATGTTTTAA
1 ATT-GTTGGATATTGATATATGTCTTAA
57029675 CATTGTTGGATATTGA
1 -ATTGTTGGATATTGA
57029691 ATTGATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (27 bp):
ATTGTTGGATATTGATATATGTCTTAA
Found at i:57031093 original size:14 final size:14
Alignment explanation
Indices: 57031070--57031111 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
57031060 ACAGAAAAGT
*
57031070 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
57031084 AAATCATTTTACGG
1 AAAACATTTTACAG
57031098 AAAACATTTTACAG
1 AAAACATTTTACAG
57031112 CCAATCAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:57031095 original size:34 final size:35
Alignment explanation
Indices: 57031035--57031101 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
57031025 CAAACACCAG
* *
57031035 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
57031070 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
57031102 CATTTTACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:57035470 original size:57 final size:57
Alignment explanation
Indices: 57035399--57035507 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
57035389 GATTCTATTC
*
57035399 TGATATAGCCCTCTCGAAGAATATGTGTGAAAA-AGATCTAGCCCGGATGGGTGATCT
1 TGATATAGCCCTCTCGAAGAATATGTG-GAAAATAGATCTAGCCCGGACGGGTGATCT
* *
57035456 TGATATAGCCCTCTCGAAGAATATGTGGAAAATGGATTTAGCCCGGACGGGT
1 TGATATAGCCCTCTCGAAGAATATGTGGAAAATAGATCTAGCCCGGACGGGT
57035508 AATCCGAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 5 0.10
57 43 0.90
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (57 bp):
TGATATAGCCCTCTCGAAGAATATGTGGAAAATAGATCTAGCCCGGACGGGTGATCT
Found at i:57035745 original size:67 final size:67
Alignment explanation
Indices: 57035637--57035765 Score: 240
Period size: 67 Copynumber: 1.9 Consensus size: 67
57035627 TATATTACAT
*
57035637 GGGATTTAGCCTGGACTAGTAATCCCGTTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTGC
1 GGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTGC
57035702 AG
66 AG
*
57035704 GGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGTGGGAGTGTGCTCTCT
1 GGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
57035766 GAATTGAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.29
Consensus pattern (67 bp):
GGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTGC
AG
Found at i:57040988 original size:18 final size:19
Alignment explanation
Indices: 57040953--57040989 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
57040943 AGCCTGCTTC
57040953 AACTTCAACAACAGCTTTA
1 AACTTCAACAACAGCTTTA
*
57040972 AACTTCAAGAACA-CTTTA
1 AACTTCAACAACAGCTTTA
57040990 GACACCTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.27
Consensus pattern (19 bp):
AACTTCAACAACAGCTTTA
Found at i:57044977 original size:12 final size:12
Alignment explanation
Indices: 57044962--57045016 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
57044952 TCATTTTTTT
57044962 TTTCATTTCAAA
1 TTTCATTTCAAA
57044974 TTTCATTT--AA
1 TTTCATTTCAAA
* *
57044984 TTACATTTC-AT
1 TTTCATTTCAAA
57044995 TTTCATTTCAAA
1 TTTCATTTCAAA
*
57045007 CTTCATTTCA
1 TTTCATTTCA
57045017 TTAAATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 9 0.25
11 9 0.25
12 18 0.50
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTCATTTCAAA
Found at i:57044998 original size:33 final size:33
Alignment explanation
Indices: 57044961--57045024 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
57044951 GTCATTTTTT
* *
57044961 TTTTCATTTCAAATTTCATTTAATTACATTTCA
1 TTTTCATTTCAAACTTCATTTAATTAAATTTCA
*
57044994 TTTTCATTTCAAACTTCATTTCATTAAATTT
1 TTTTCATTTCAAACTTCATTTAATTAAATTT
57045025 TTTTCCATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.55
Consensus pattern (33 bp):
TTTTCATTTCAAACTTCATTTAATTAAATTTCA
Found at i:57045060 original size:21 final size:20
Alignment explanation
Indices: 57045008--57045060 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
57044998 CATTTCAAAC
57045008 TTCATTTC-ATTAAATTTTT
1 TTCATTTCAATTAAATTTTT
* * *
57045027 TTCCATCTAAATTTAATTTTT
1 TT-CATTTCAATTAAATTTTT
57045048 TCTCATTTCAATT
1 T-TCATTTCAATT
57045061 CTTTTTTCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 2 0.08
20 4 0.15
21 19 0.73
22 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.58
Consensus pattern (20 bp):
TTCATTTCAATTAAATTTTT
Found at i:57045129 original size:5 final size:5
Alignment explanation
Indices: 57045121--57045180 Score: 57
Period size: 5 Copynumber: 10.8 Consensus size: 5
57045111 TCATCTTATA
*
57045121 TTCAT TTCAACT TTCAT TTCAT TTCAT GTTCAT TTCAAAT ATCAT TTCAT
1 TTCAT TTC-A-T TTCAT TTCAT TTCAT -TTCAT TTC--AT TTCAT TTCAT
57045171 ATTCAT TTCA
1 -TTCAT TTCA
57045181 AATTTTGTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
5 27 0.57
6 12 0.26
7 8 0.17
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.52
Consensus pattern (5 bp):
TTCAT
Found at i:57045135 original size:23 final size:24
Alignment explanation
Indices: 57045109--57045185 Score: 77
Period size: 23 Copynumber: 3.1 Consensus size: 24
57045099 TATATTTTAT
*
57045109 TTTCATCTT-ATATTCATTTCAAC
1 TTTCATCTTCATATTCATTTCAAA
*
57045132 TTTCATTTCATTTCATGTTCATTTCAAA
1 TTTCA--TC--TTCATATTCATTTCAAA
*
57045160 TATCAT-TTCATATTCATTTCAAA
1 TTTCATCTTCATATTCATTTCAAA
57045183 TTT
1 TTT
57045186 TGTCTTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
23 23 0.52
25 2 0.05
26 1 0.02
27 2 0.05
28 16 0.36
ACGTcount: A:0.27, C:0.18, G:0.01, T:0.53
Consensus pattern (24 bp):
TTTCATCTTCATATTCATTTCAAA
Found at i:57045140 original size:28 final size:28
Alignment explanation
Indices: 57045109--57045180 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
57045099 TATATTTTAT
* *
57045109 TTTCATCTT-ATATTCATTTCAACTTTCA
1 TTTCAT-TTCATATTCATTTCAAATATCA
*
57045137 TTTCATTTCATGTTCATTTCAAATATCA
1 TTTCATTTCATATTCATTTCAAATATCA
57045165 TTTCATATTCAT-TTCA
1 TTTCAT-TTCATATTCA
57045181 AATTTTGTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 2 0.05
28 32 0.82
29 5 0.13
ACGTcount: A:0.26, C:0.19, G:0.01, T:0.53
Consensus pattern (28 bp):
TTTCATTTCATATTCATTTCAAATATCA
Found at i:57045154 original size:11 final size:11
Alignment explanation
Indices: 57045132--57045180 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
57045122 TCATTTCAAC
57045132 TTTCAT-TTCA
1 TTTCATATTCA
*
57045142 TTTCATGTTCA
1 TTTCATATTCA
*
57045153 TTTCAAATATCA
1 TTTCATAT-TCA
57045165 TTTCATATTCA
1 TTTCATATTCA
57045176 TTTCA
1 TTTCA
57045181 AATTTTGTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 6 0.18
11 18 0.53
12 10 0.29
ACGTcount: A:0.27, C:0.18, G:0.02, T:0.53
Consensus pattern (11 bp):
TTTCATATTCA
Found at i:57045220 original size:17 final size:17
Alignment explanation
Indices: 57045198--57045236 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
57045188 TCTTATTTAA
*
57045198 TTAAATTT-TTTCTCATT
1 TTAAATTTCATTC-CATT
57045215 TTAAATTTCATTCCATT
1 TTAAATTTCATTCCATT
57045232 TTAAA
1 TTAAA
57045237 ATGTTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTTCATTCCATT
Found at i:57045262 original size:25 final size:25
Alignment explanation
Indices: 57045215--57045263 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
57045205 TTTTCTCATT
* * *
57045215 TTAAATTTCATTCCATTTTAAAATG
1 TTAAATTTCATTCAAATTCAAAATG
*
57045240 TTAAATTTCATTTAAATTCAAAAT
1 TTAAATTTCATTCAAATTCAAAAT
57045264 TTTTCTCATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (25 bp):
TTAAATTTCATTCAAATTCAAAATG
Found at i:57045399 original size:5 final size:5
Alignment explanation
Indices: 57045391--57045579 Score: 53
Period size: 5 Copynumber: 33.6 Consensus size: 5
57045381 ATTTTATTTT
*
57045391 TTTCA TTTCAA TTTTCA TTTCTCA TTTCA TTTCA TTTCACA TTTCA ATTCA
1 TTTCA TTTC-A -TTTCA -TT-TCA TTTCA TTTCA TTT--CA TTTCA TTTCA
* * * *
57045442 TTTCAA TTT-A TTTTCTA ATTCA TTTCAA TTTAA GTTT-T TTTCA TATTAA
1 TTTC-A TTTCA -TTTC-A TTTCA TTTC-A TTTCA -TTTCA TTTCA T-TTCA
** *
57045491 TTTTT TTGTCTTA TTTCAA TTT-A TTTCA TTTTTCA TTTCAA TTTAGAA
1 TTTCA TT-TC--A TTTC-A TTTCA TTTCA --TTTCA TTTC-A TTT--CA
57045539 TTT-A TTTTCA TTTCA TATTCA TTTCGAA TTTCA TTTCA TTT
1 TTTCA -TTTCA TTTCA T-TTCA TTTC--A TTTCA TTTCA TTT
57045580 AAATTTATTT
Statistics
Matches: 143, Mismatches: 14, Indels: 54
0.68 0.07 0.26
Matches are distributed among these distances:
4 9 0.06
5 63 0.44
6 40 0.28
7 29 0.20
8 2 0.01
ACGTcount: A:0.24, C:0.14, G:0.02, T:0.59
Consensus pattern (5 bp):
TTTCA
Found at i:57045407 original size:12 final size:12
Alignment explanation
Indices: 57045390--57045450 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
57045380 AATTTTATTT
57045390 TTTTCATTTCAA
1 TTTTCATTTCAA
*
57045402 TTTTCATTTCTCA
1 TTTTCATTTC-AA
57045415 -TTTCATTTC-A
1 TTTTCATTTCAA
*
57045425 TTTCACATTTCAA
1 TTT-TCATTTCAA
57045438 --TTCATTTCAA
1 TTTTCATTTCAA
57045448 TTT
1 TTT
57045451 ATTTTCTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
10 9 0.22
11 3 0.08
12 26 0.65
13 2 0.05
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTCATTTCAA
Found at i:57045441 original size:22 final size:21
Alignment explanation
Indices: 57045392--57045474 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 21
57045382 TTTTATTTTT
* *
57045392 TTCATTTCAATTTTCATTTCTCAT
1 TTCATTTC-A-TTTAATTTCT-AA
57045416 TTCATTTCATTTCACATTTC-AA
1 TTCATTTCATTT-A-ATTTCTAA
*
57045438 TTCATTTCAATTTATTTTCTAA
1 TTCATTTC-ATTTAATTTCTAA
57045460 TTCATTTCAATTTAA
1 TTCATTTC-ATTTAA
57045475 GTTTTTTTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
21 4 0.08
22 29 0.57
23 5 0.10
24 13 0.25
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (21 bp):
TTCATTTCATTTAATTTCTAA
Found at i:57045446 original size:17 final size:17
Alignment explanation
Indices: 57045394--57045450 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
57045384 TTATTTTTTT
*
57045394 CATTTCAATTTTCATTTCT
1 CATTTCAA--TTCATTTCA
*
57045413 CATTTCATTTCATTTCA
1 CATTTCAATTCATTTCA
57045430 CATTTCAATTCATTTCA
1 CATTTCAATTCATTTCA
57045447 -ATTT
1 CATTT
57045451 ATTTTCTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.11
17 24 0.69
19 7 0.20
ACGTcount: A:0.25, C:0.21, G:0.00, T:0.54
Consensus pattern (17 bp):
CATTTCAATTCATTTCA
Found at i:57045534 original size:28 final size:28
Alignment explanation
Indices: 57045503--57045579 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 28
57045493 TTTTTGTCTT
57045503 ATTTCAATTTATTTCATTTTTCAT-TTC
1 ATTTCAATTTATTTCATTTTTCATATTC
*
57045530 AATTTAGAATTTATTTTCA--TTTCATATTC
1 -ATTT-CAATTTA-TTTCATTTTTCATATTC
57045559 ATTTCGAATTTCATTTCATTT
1 ATTTC-AATTT-ATTTCATTT
57045580 AAATTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
28 24 0.60
29 10 0.25
30 6 0.15
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.58
Consensus pattern (28 bp):
ATTTCAATTTATTTCATTTTTCATATTC
Found at i:57045559 original size:11 final size:12
Alignment explanation
Indices: 57045503--57045577 Score: 56
Period size: 12 Copynumber: 6.6 Consensus size: 12
57045493 TTTTTGTCTT
57045503 ATTTCA-ATTT-
1 ATTTCATATTTC
*
57045513 ATTTCATTTTTC
1 ATTTCATATTTC
*
57045525 ATTTCA-ATTTAGA
1 ATTTCATATTT--C
57045538 ATTT-AT-TTTC
1 ATTTCATATTTC
57045548 ATTTCATA-TTC
1 ATTTCATATTTC
57045559 ATTTCGA-ATTTC
1 ATTTC-ATATTTC
57045571 ATTTCAT
1 ATTTCAT
57045578 TTAAATTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
10 10 0.20
11 18 0.35
12 19 0.37
13 4 0.08
ACGTcount: A:0.27, C:0.13, G:0.03, T:0.57
Consensus pattern (12 bp):
ATTTCATATTTC
Found at i:57045585 original size:23 final size:21
Alignment explanation
Indices: 57045521--57045586 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 21
57045511 TTATTTCATT
*
57045521 TTTCATTTCAATTTAGAATTTAT
1 TTTCATTTC-ATTTA-AATTTAA
*
57045544 TTTCATTTCATATT-CATTTCGAA
1 TTTCATTTCAT-TTAAATTT--AA
57045567 TTTCATTTCATTTAAATTTA
1 TTTCATTTCATTTAAATTTA
57045587 TTTTTTCTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
21 5 0.14
22 4 0.11
23 27 0.75
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTCATTTCATTTAAATTTAA
Found at i:57045613 original size:23 final size:23
Alignment explanation
Indices: 57045582--57045639 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
57045572 TTTCATTTAA
57045582 ATTTATTTTTTCTCATCTCAATTT
1 ATTT-TTTTTTCTCATCTCAATTT
*
57045606 ATTTTTTTTTCTCATTTCAATTT
1 ATTTTTTTTTCTCATCTCAATTT
*
57045629 ATTCTTTTTTC
1 ATTTTTTTTTC
57045640 AAATTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 28 0.88
24 4 0.12
ACGTcount: A:0.17, C:0.16, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTTTTTTCTCATCTCAATTT
Found at i:57047038 original size:5 final size:5
Alignment explanation
Indices: 57047023--57047051 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
57047013 CTGTCCGGGC
57047023 CCAAA -CAAA CCAAA CCAAA CCAAA CCAAA
1 CCAAA CCAAA CCAAA CCAAA CCAAA CCAAA
57047052 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (5 bp):
CCAAA
Found at i:57048285 original size:11 final size:11
Alignment explanation
Indices: 57048269--57048306 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
57048259 ATTTAGATAC
57048269 TTAATTTCATT
1 TTAATTTCATT
57048280 TTAATTTCATT
1 TTAATTTCATT
* *
57048291 TTAATTCCAAT
1 TTAATTTCATT
57048302 TTAAT
1 TTAAT
57048307 CCTCATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (11 bp):
TTAATTTCATT
Found at i:57055631 original size:44 final size:44
Alignment explanation
Indices: 57055560--57055911 Score: 262
Period size: 44 Copynumber: 7.8 Consensus size: 44
57055550 TCATCATAAC
* * *
57055560 AAATCTTATCTCCCTGAAA-TTGTAGTGGAGCATATTAAAGCCAT
1 AAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTAAAGCTAT
* *
57055604 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAACTAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAT
* * *
57055648 AAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTTAAA-CTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TTAAAGCTAT
* * * *
57055692 AAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAT
* * * * * * * *
57055736 GAGTCTCATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAGATAGC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTA-T
* * * * *
57055781 GAATTTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT---A--T
** ** * *
57055830 ACAAATCTTATCTCCCCGAAGTTGCAGT-GAATAGATTGAAA-ATAAC
1 --AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCT-AT
* * *
57055876 AAATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT
57055912 GAAGATAGCT
Statistics
Matches: 254, Mismatches: 42, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
43 8 0.03
44 163 0.64
45 46 0.18
48 3 0.01
50 9 0.04
51 25 0.10
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAT
Found at i:57055754 original size:132 final size:133
Alignment explanation
Indices: 57055558--57056299 Score: 374
Period size: 140 Copynumber: 5.6 Consensus size: 133
57055548 AGTCATCATA
* * * *
57055558 ACAAATCTTATCTCCCTGAAATTGTAGTGGAGCATATTAAAGCCATAAATCTTATCTCCCTAAAG
1 ACAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCCACAAATCTCATCTCCCTAAAG
* * *
57055623 TTGCAGTGGAGTAGATT-AAAACTA-TAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTTA
66 TTGCAGTGGAGCAGATTGAAAA-TAGCAAATCTTATATCCCTGAAGTTGCAGTGGAACAGA-TTA
57055686 AA-CT
129 AAGCT
* * * * * * *
57055690 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCTACGAGTCTCATCTCCTTAAAG
1 ACAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCCACAAATCTCATCTCCCTAAAG
* * * * *
57055755 TTGTAGTGGAGCAGATTGAAGATAGCGAATTTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAA
66 TTGCAGTGGAGCAGATTGAAAATAGCAAATCTTATATCCCTGAAGTTGCAGTGGAACAGATTAAA
57055820 GCTACAAGTT
131 G---C----T
* * ** *** * * *
57055830 ACAAATCTTATCTCCCCGAAGTTGCAGT-GAATAGATTGAAAATAACAAATCTTATCCCCCTGAA
1 ACAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATT-AAAGCCACAAATCTCATCTCCCTAAA
* * * * * *
57055894 GTTGCAGTGGAGTAGATTGAAGATAGCTAATCTTAT-TTCC---ACTT-CAGTGGAACAGATTCA
65 GTTGCAGTGGAGCAGATTGAAAATAGCAAATCTTATATCCCTGAAGTTGCAGTGGAACAGATTAA
57055954 AGCT
130 AGCT
*** * *
57055958 AC--A----A-------G---TTGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCCCTGAA
1 ACAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATT-AAAGCCACAAATCTCATCTCCCTAAA
* * * * * * **
57056007 GTTGCAATGGAGTAGATTGAAGACAGCTAAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATT
65 GTTGCAGTGGAGCAGATTGAAAATAGC--AAATCTTATATCCCTGAAGTTGCAGTGGAACAGATT
*
57056072 GAAG--
128 AAAGCT
* * ** * *
57056076 ACAGTTAATCTTAT-TTCCTTAAAGTTGCAGTGGAATAGATTAAAGCTATAAGTTACAAATCTTA
1 ACA---AATCTTATCTCCCTGAAA-TTGCAGTGGAGCAGATTAAAGC-------CACAAATCTCA
* * * * ** * * *
57056140 TCTTCCTGAAGTTGCGGTGGAGTAGATTGAAGTTA-CAAATCTTGTCTTCCTGAAGTTGCAGTGG
55 TCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAATAGCAAATCTTATATCCCTGAAGTTGCAGTGG
* *
57056204 AGCAGATTAAAGTT
120 AACAGATTAAAGCT
* * * * * * *
57056218 ACAAATTTTATCTCCCT-AAAGTTGCAGTGGAGTAGATTGAAGCTACAAGTCTTATCTCCCTGAA
1 ACAAATCTTATCTCCCTGAAA-TTGCAGTGGAGCAGATTAAAGCCACAAATCTCATCTCCCTAAA
* *
57056282 GTTGTAGTGGAGTAGATT
65 GTTGCAGTGGAGCAGATT
57056300 AAAGCAACAA
Statistics
Matches: 488, Mismatches: 74, Indels: 96
0.74 0.11 0.15
Matches are distributed among these distances:
112 7 0.01
113 58 0.12
115 9 0.02
116 3 0.01
118 2 0.00
119 3 0.01
120 14 0.03
122 1 0.00
123 1 0.00
126 1 0.00
127 1 0.00
128 3 0.01
132 112 0.23
133 33 0.07
135 17 0.03
136 7 0.01
137 15 0.03
139 42 0.09
140 115 0.24
142 4 0.01
143 40 0.08
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (133 bp):
ACAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCCACAAATCTCATCTCCCTAAAG
TTGCAGTGGAGCAGATTGAAAATAGCAAATCTTATATCCCTGAAGTTGCAGTGGAACAGATTAAA
GCT
Found at i:57055756 original size:88 final size:87
Alignment explanation
Indices: 57055558--57055911 Score: 316
Period size: 88 Copynumber: 3.9 Consensus size: 87
57055548 AGTCATCATA
* * * * * * * *
57055558 ACAAATCTTATCTCCCTGAAATTGTAGTGGAGCATATT-AAAGCCATAAATCTTATCTCCCTAAA
1 ACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA--TACAAATCTTATCTCCCTGAA
*
57055622 GTTGCAGTGGAGTAGATTAAAACT
64 GTTGCAGTGGAGTAGATTAAAGCT
* * * * * *
57055646 ATAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTTAAACTACAAATCTTATCTCCTTGAAG
1 ACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TACAAATCTTATCTCCCTGAAG
57055711 TTGCAGTGGAGTAGATTAAAGCT
65 TTGCAGTGGAGTAGATTAAAGCT
* * * * * * *
57055734 ACGAGTCTCATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAGATAGCGAATTTTATTTCCCTGAA
1 ACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATA-CAAATCTTATCTCCCTGAA
**
57055799 GTTGCAGTGGAACAGATTAAAGCT
64 GTTGCAGTGGAGTAGATTAAAGCT
* ** *
57055823 ACAAGTTACAAATCTTATCTCCCCGAAGTTGCAGT-GAATAGATTGAAAATAACAAATCTTATCC
1 ACAAG-T-C---TC--ATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAAT-ACAAATCTTATCT
57055887 CCCTGAAGTTGCAGTGGAGTAGATT
57 CCCTGAAGTTGCAGTGGAGTAGATT
57055912 GAAGATAGCT
Statistics
Matches: 216, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
88 108 0.50
89 45 0.21
90 1 0.00
91 1 0.00
94 2 0.01
95 41 0.19
96 18 0.08
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (87 bp):
ACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATACAAATCTTATCTCCCTGAAGT
TGCAGTGGAGTAGATTAAAGCT
Found at i:57056056 original size:47 final size:47
Alignment explanation
Indices: 57055960--57056299 Score: 316
Period size: 44 Copynumber: 7.4 Consensus size: 47
57055950 TTCAAGCTAC
*
57055960 AAGTTGCAGTGGAGCAGATTGAA-AA--TAACAAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGTAGATTGAAGAAGCT-ACAAATCTTATCTCCCTG
*
57056005 AAGTTGCAATGGAGTAGATTGAAGACAGCTA-AAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGTAGATTGAAGA-AGCTACAAATCTTATCTCCCTG
* * * * *
57056052 AAGTTGCAATGGAGTAGATTGAAGACAG-T--TAATCTTATTTCCTTA
1 AAGTTGCAGTGGAGTAGATTGAAGA-AGCTACAAATCTTATCTCCCTG
* * * *
57056097 AAGTTGCAGTGGAATAGATTAAAGCTATAAGTTACAAATCTTATCTTCCTG
1 AAGTTGCAGTGGAGTAGATTGAAG----AAGCTACAAATCTTATCTCCCTG
* * * *
57056148 AAGTTGCGGTGGAGTAGATT---GAAGTTACAAATCTTGTCTTCCTG
1 AAGTTGCAGTGGAGTAGATTGAAGAAGCTACAAATCTTATCTCCCTG
* * * *
57056192 AAGTTGCAGTGGAGCAGATT--A-AAGTTACAAATTTTATCTCCCTA
1 AAGTTGCAGTGGAGTAGATTGAAGAAGCTACAAATCTTATCTCCCTG
*
57056236 AAGTTGCAGTGGAGTAGATT---GAAGCTACAAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGTAGATTGAAGAAGCTACAAATCTTATCTCCCTG
*
57056280 AAGTTGTAGTGGAGTAGATT
1 AAGTTGCAGTGGAGTAGATT
57056300 AAAGCAACAA
Statistics
Matches: 253, Mismatches: 29, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
44 116 0.46
45 54 0.21
46 2 0.01
47 45 0.18
48 4 0.02
49 3 0.01
51 29 0.11
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (47 bp):
AAGTTGCAGTGGAGTAGATTGAAGAAGCTACAAATCTTATCTCCCTG
Found at i:57056691 original size:22 final size:22
Alignment explanation
Indices: 57056666--57056714 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
57056656 CCTAACTTGC
*
57056666 GCCACCGCCGCTCCTCGCCTCT
1 GCCACCGCCGCTCCTAGCCTCT
*
57056688 GCCACCGTCGCTCCTAGCCTCT
1 GCCACCGCCGCTCCTAGCCTCT
57056710 GCCAC
1 GCCAC
57056715 ATTATTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.08, C:0.55, G:0.18, T:0.18
Consensus pattern (22 bp):
GCCACCGCCGCTCCTAGCCTCT
Found at i:57057866 original size:3 final size:3
Alignment explanation
Indices: 57057858--57057883 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
57057848 CTAGCCCATT
57057858 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
57057884 TACTGTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:57060503 original size:37 final size:37
Alignment explanation
Indices: 57060460--57060532 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
57060450 CATCTACCGA
*
57060460 TGTTTGGATTTTTGGGAGTTGGCATTGACCCTCCACG
1 TGTTTGGATTTTCGGGAGTTGGCATTGACCCTCCACG
57060497 TGTTTGGATTTTCGGGAGTTGGCATTGACCCTCCAC
1 TGTTTGGATTTTCGGGAGTTGGCATTGACCCTCCAC
57060533 AACCCGGCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.14, C:0.21, G:0.29, T:0.37
Consensus pattern (37 bp):
TGTTTGGATTTTCGGGAGTTGGCATTGACCCTCCACG
Found at i:57061062 original size:12 final size:12
Alignment explanation
Indices: 57061031--57061056 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57061021 TTCAACTAAT
57061031 AAAGCAAACAAA
1 AAAGCAAACAAA
57061043 AAAGCAAACAAA
1 AAAGCAAACAAA
57061055 AA
1 AA
57061057 CTCAAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAACAAA
Found at i:57070877 original size:21 final size:21
Alignment explanation
Indices: 57070853--57070892 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57070843 TTGAAACTCT
* *
57070853 TCCTTGAGTTTGTCCCAGGTC
1 TCCTTGAGTGTGTCACAGGTC
*
57070874 TCCTTTAGTGTGTCACAGG
1 TCCTTGAGTGTGTCACAGG
57070893 CCATTATCCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.25, T:0.38
Consensus pattern (21 bp):
TCCTTGAGTGTGTCACAGGTC
Found at i:57079042 original size:26 final size:27
Alignment explanation
Indices: 57078990--57079052 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
57078980 ATAAAAAACA
57078990 ACTAAAATATTATAATTTTTTTTATTT
1 ACTAAAATATTATAATTTTTTTTATTT
57079017 ACTAAAATATTATAA-TTTTTTTATTT
1 ACTAAAATATTATAATTTTTTTTATTT
57079043 A-TCAAAATAT
1 ACT-AAAATAT
57079053 ATCAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.03
26 19 0.54
27 15 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (27 bp):
ACTAAAATATTATAATTTTTTTTATTT
Found at i:57079714 original size:19 final size:19
Alignment explanation
Indices: 57079690--57079748 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
57079680 TCTAATTAAG
*
57079690 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
57079709 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
57079727 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTCATT
57079746 TAA
1 TAA
57079749 AATATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:57080849 original size:16 final size:16
Alignment explanation
Indices: 57080828--57080860 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57080818 CTGTCTGACC
57080828 TTTTTTTT--TTTCTT
1 TTTTTTTTAATTTCTT
57080842 TTTTTTTTAATTTCTT
1 TTTTTTTTAATTTCTT
57080858 TTT
1 TTT
57080861 ACGATCCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
16 9 0.53
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTTAATTTCTT
Found at i:57085861 original size:6 final size:6
Alignment explanation
Indices: 57085850--57085899 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
57085840 TGATTAATAT
57085850 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
57085898 AT
1 AT
57085900 GTGTGTGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:57090881 original size:28 final size:29
Alignment explanation
Indices: 57090850--57090910 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
57090840 AAAAATATTT
*
57090850 AAAAGTAGAAAAATATATA-ATTTATATA
1 AAAAGTAGAAAAATATATATATATATATA
* * * *
57090878 AAAATTATAAATATATATATATATATCTA
1 AAAAGTAGAAAAATATATATATATATATA
57090907 AAAA
1 AAAA
57090911 TTTAAAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAAGTAGAAAAATATATATATATATATA
Found at i:57090894 original size:19 final size:19
Alignment explanation
Indices: 57090837--57090896 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
57090827 ATATGTTTTT
*
57090837 TATAAAAATATTTAA-A-A
1 TATAAAAATATATAATATA
* *
57090854 GTAGAAAAATATATAATTTA
1 -TATAAAAATATATAATATA
57090874 TATAAAAAT-TATAAATATA
1 TATAAAAATATAT-AATATA
57090893 TATA
1 TATA
57090897 TATATATCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 16 0.47
19 17 0.50
20 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
TATAAAAATATATAATATA
Found at i:57090918 original size:29 final size:27
Alignment explanation
Indices: 57090858--57090919 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
57090848 TTAAAAGTAG
*
57090858 AAAA-ATATATAATTTATATAAAAATT
1 AAAATATATATAATATATATAAAAATT
*
57090884 ATAAATATATATATATATATCTAAAAATTT
1 A-AAATATATATA-ATATATATAAAAA-TT
57090914 AAAATA
1 AAAATA
57090920 AACAAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.03
27 3 0.10
28 7 0.23
29 16 0.53
30 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATATATATAATATATATAAAAATT
Found at i:57092328 original size:18 final size:19
Alignment explanation
Indices: 57092284--57092328 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
57092274 TTGAGAGTAA
* *
57092284 AGGGTGAAAAGTAAAAGTTT
1 AGGG-GAAAAATAAAAATTT
57092304 AGGGGAAAAATAAAAATTT
1 AGGGGAAAAATAAAAATTT
57092323 -GGGGAA
1 AGGGGAA
57092329 TAAAAGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 13 0.57
20 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.20
Consensus pattern (19 bp):
AGGGGAAAAATAAAAATTT
Found at i:57092332 original size:15 final size:16
Alignment explanation
Indices: 57092312--57092344 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
57092302 TTAGGGGAAA
57092312 AATAAAAATTTG-GGG
1 AATAAAAATTTGAGGG
*
57092327 AATAAAAGTTTGAGGG
1 AATAAAAATTTGAGGG
57092343 AA
1 AA
57092345 AGTAAATAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.24
Consensus pattern (16 bp):
AATAAAAATTTGAGGG
Found at i:57092466 original size:30 final size:31
Alignment explanation
Indices: 57092427--57092486 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
57092417 AGAGGTGAGA
*
57092427 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
57092458 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
57092487 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:57093263 original size:26 final size:26
Alignment explanation
Indices: 57093234--57093310 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
57093224 TGAATTGTTT
57093234 TTCT-TTAAGACTGATGTCGA-ATCCCC
1 TTCTATTAAGACTGATG-C-ATATCCCC
**
57093260 TTCTATTATTACTGATGCATATCCCC
1 TTCTATTAAGACTGATGCATATCCCC
** *
57093286 TTCTATTATTACTAATGCATATCCC
1 TTCTATTAAGACTGATGCATATCCC
57093311 ATCTGTTTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
25 1 0.02
26 35 0.76
27 10 0.22
ACGTcount: A:0.25, C:0.26, G:0.09, T:0.40
Consensus pattern (26 bp):
TTCTATTAAGACTGATGCATATCCCC
Found at i:57093273 original size:27 final size:26
Alignment explanation
Indices: 57093254--57093310 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
57093244 CTGATGTCGA
57093254 ATCCCCTTCTATTATTACTGATGCAT
1 ATCCCCTTCTATTATTACTGATGCAT
*
57093280 ATCCCCTTCTATTATTACTAATGCAT
1 ATCCCCTTCTATTATTACTGATGCAT
57093306 ATCCC
1 ATCCC
57093311 ATCTGTTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.25, C:0.30, G:0.05, T:0.40
Consensus pattern (26 bp):
ATCCCCTTCTATTATTACTGATGCAT
Found at i:57101190 original size:21 final size:21
Alignment explanation
Indices: 57101166--57101205 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57101156 GACCTTTTAC
*
57101166 TAGAGTAAAAAAATATATATT
1 TAGAATAAAAAAATATATATT
**
57101187 TAGAATTTAAAAATATATA
1 TAGAATAAAAAAATATATA
57101206 ATTTGTATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
TAGAATAAAAAAATATATATT
Found at i:57101218 original size:21 final size:21
Alignment explanation
Indices: 57101174--57101219 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
57101164 ACTAGAGTAA
*
57101174 AAAAATATATATTTAGAATTT
1 AAAAATATATATTTAGAATAT
*
57101195 AAAAATATATAATTT-GTATAT
1 AAAAATATAT-ATTTAGAATAT
57101216 AAAA
1 AAAA
57101220 TTCAATGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (21 bp):
AAAAATATATATTTAGAATAT
Found at i:57102007 original size:17 final size:18
Alignment explanation
Indices: 57101981--57102015 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
57101971 ATTCAATAAT
*
57101981 TAAAATATGATA-AAACA
1 TAAAAAATGATATAAACA
57101998 TAAAAAATGATATAAACA
1 TAAAAAATGATATAAACA
57102016 CCATATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (18 bp):
TAAAAAATGATATAAACA
Found at i:57102466 original size:22 final size:22
Alignment explanation
Indices: 57102438--57102479 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
57102428 AACATTGACT
57102438 AATTTTATAACAGTATATTACA
1 AATTTTATAACAGTATATTACA
57102460 AATTTTATAACAGTATATTA
1 AATTTTATAACAGTATATTA
57102480 AACCAGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (22 bp):
AATTTTATAACAGTATATTACA
Found at i:57102545 original size:40 final size:40
Alignment explanation
Indices: 57102513--57102634 Score: 192
Period size: 40 Copynumber: 3.0 Consensus size: 40
57102503 TAAGGTGTAG
57102513 TATTTATAACAGTATACTAAAACAATT-TATTAAAACAGTA
1 TATTTATAACAGTATACTAAAAC-ATTATATTAAAACAGTA
* *
57102553 TATTTATAACAATATATTAAAACATTATATTAAAACAGTA
1 TATTTATAACAGTATACTAAAACATTATATTAAAACAGTA
* *
57102593 TATTTATAACAGTATACTAAAAAAGTATATTAAAACAGTA
1 TATTTATAACAGTATACTAAAACATTATATTAAAACAGTA
57102633 TA
1 TA
57102635 ATAAACTAGT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (40 bp):
TATTTATAACAGTATACTAAAACATTATATTAAAACAGTA
Found at i:57102546 original size:13 final size:13
Alignment explanation
Indices: 57102520--57102639 Score: 98
Period size: 13 Copynumber: 9.1 Consensus size: 13
57102510 TAGTATTTAT
* *
57102520 AACAGTATACTAA
1 AACAATATATTAA
*
57102533 AACAATTTATTAA
1 AACAATATATTAA
* *
57102546 AACAGTATATTTAT
1 AACAATATA-TTAA
57102560 AACAATATATTAA
1 AACAATATATTAA
*
57102573 AACATTATATTAA
1 AACAATATATTAA
* *
57102586 AACAGTATATTTAT
1 AACAATATA-TTAA
* *
57102600 AACAGTATACTAA
1 AACAATATATTAA
57102613 AA-AAGTATATTAA
1 AACAA-TATATTAA
* *
57102626 AACAGTATAATAA
1 AACAATATATTAA
57102639 A
1 A
57102640 CTAGTTATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
12 1 0.01
13 61 0.71
14 24 0.28
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (13 bp):
AACAATATATTAA
Found at i:57102563 original size:27 final size:26
Alignment explanation
Indices: 57102520--57102639 Score: 134
Period size: 27 Copynumber: 4.5 Consensus size: 26
57102510 TAGTATTTAT
*
57102520 AACAGTATACTAAAACAATTTATTAA
1 AACAGTATACTAAAACAATATATTAA
* *
57102546 AACAGTATATTTATAACAATATATTAA
1 AACAGTATA-CTAAAACAATATATTAA
* * * *
57102573 AACATTATATTAAAACAGTATATTTAT
1 AACAGTATACTAAAACAATATA-TTAA
57102600 AACAGTATACTAAAA-AAGTATATTAA
1 AACAGTATACTAAAACAA-TATATTAA
*
57102626 AACAGTATAATAAA
1 AACAGTATACTAAA
57102640 CTAGTTATTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
26 37 0.47
27 42 0.53
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (26 bp):
AACAGTATACTAAAACAATATATTAA
Found at i:57104746 original size:31 final size:33
Alignment explanation
Indices: 57104704--57104770 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 33
57104694 TTCTAAATGA
* *
57104704 GCCTATTTTTTTACCCAAGC-T-CATATTTCGG
1 GCCTATATTTTTACCCAAACTTACATATTTCGG
57104735 GCCTATATTTTTACCCAAACTTAGCATATTTCGG
1 GCCTATATTTTTACCCAAACTTA-CATATTTCGG
57104769 GC
1 GC
57104771 GGGCCGTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 18 0.58
32 1 0.03
34 12 0.39
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (33 bp):
GCCTATATTTTTACCCAAACTTACATATTTCGG
Found at i:57107992 original size:39 final size:39
Alignment explanation
Indices: 57107944--57108072 Score: 231
Period size: 39 Copynumber: 3.3 Consensus size: 39
57107934 GGAGTTGTAA
57107944 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
57107983 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
*
57108022 GTGACTATTCATCTACATCACTTAAATGCTATAAGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
* *
57108061 ATGATTATTCAT
1 GTGACTATTCAT
57108073 GCATGTGTGT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (39 bp):
GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
Found at i:57108106 original size:16 final size:16
Alignment explanation
Indices: 57108085--57108140 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
57108075 ATGTGTGTAA
57108085 CTCTTCATCTTCAAGT
1 CTCTTCATCTTCAAGT
*
57108101 CTCTTCATATTTCTAA--
1 CTCTTCAT-CTTC-AAGT
57108117 CTCTTCATCTTCAAGT
1 CTCTTCATCTTCAAGT
*
57108133 TTCTTCAT
1 CTCTTCAT
57108141 ATTTCTAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 2 0.06
15 3 0.09
16 23 0.70
17 3 0.09
18 2 0.06
ACGTcount: A:0.20, C:0.29, G:0.04, T:0.48
Consensus pattern (16 bp):
CTCTTCATCTTCAAGT
Found at i:57108118 original size:32 final size:32
Alignment explanation
Indices: 57108082--57108156 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
57108072 TGCATGTGTG
57108082 TAACTCTTCATCTTCAAGTCTCTTCATATTTC
1 TAACTCTTCATCTTCAAGTCTCTTCATATTTC
*
57108114 TAACTCTTCATCTTCAAGTTTCTTCATATTTC
1 TAACTCTTCATCTTCAAGTCTCTTCATATTTC
57108146 TAACTCTTCAT
1 TAACTCTTCAT
57108157 AATTTATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.23, C:0.27, G:0.03, T:0.48
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAGTCTCTTCATATTTC
Found at i:57108153 original size:16 final size:16
Alignment explanation
Indices: 57108101--57108157 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
57108091 ATCTTCAAGT
57108101 CTCTTCATATTTCTAA
1 CTCTTCATATTTCTAA
*
57108117 CTCTTCAT-CTTC-AA
1 CTCTTCATATTTCTAA
*
57108131 GTTTCTTCATATTTCTAA
1 --CTCTTCATATTTCTAA
57108149 CTCTTCATA
1 CTCTTCATA
57108158 ATTTATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 2 0.06
15 3 0.09
16 23 0.70
17 3 0.09
18 2 0.06
ACGTcount: A:0.23, C:0.26, G:0.02, T:0.49
Consensus pattern (16 bp):
CTCTTCATATTTCTAA
Found at i:57115706 original size:5 final size:5
Alignment explanation
Indices: 57115696--57115721 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57115686 GTAGAGTTGA
57115696 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
57115722 TTTGAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:57121782 original size:30 final size:30
Alignment explanation
Indices: 57121734--57121805 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
57121724 TCAATAAAAT
* *
57121734 AAAAATAAAAATAAAAATACT-ATGCTAGTG
1 AAAAATAATAATAAAAATA-TAATGATAGTG
** *
57121764 AGTAATAATAATACAAATATAATGATAGTG
1 AAAAATAATAATAAAAATATAATGATAGTG
57121794 AAAAATAATAAT
1 AAAAATAATAAT
57121806 TTATAGTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.26
Consensus pattern (30 bp):
AAAAATAATAATAAAAATATAATGATAGTG
Found at i:57121851 original size:3 final size:3
Alignment explanation
Indices: 57121843--57121886 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
57121833 TATAATTCCT
57121843 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
57121887 TGTAATTGTA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:57121968 original size:19 final size:19
Alignment explanation
Indices: 57121944--57122020 Score: 100
Period size: 19 Copynumber: 3.8 Consensus size: 19
57121934 AATCTTCGAG
57121944 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
57121963 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
57121982 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
57122004 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
57122021 GATTTAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
19 30 0.59
20 3 0.06
22 8 0.16
23 10 0.20
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:57122030 original size:22 final size:23
Alignment explanation
Indices: 57121986--57122030 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
57121976 AGATATGATA
*
57121986 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
57122009 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
57122031 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:57122217 original size:15 final size:16
Alignment explanation
Indices: 57122197--57122231 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
57122187 GGCTTACTAT
*
57122197 TTTTTTTTCTTT-CGA
1 TTTTTTTTATTTACGA
57122212 TTTTTTTTATTTACGA
1 TTTTTTTTATTTACGA
57122228 TTTT
1 TTTT
57122232 AAAAAAGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.11, C:0.09, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTTTTTATTTACGA
Found at i:57122625 original size:14 final size:14
Alignment explanation
Indices: 57122594--57122634 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 14
57122584 TTATGATTTA
*
57122594 TATATTTATTACCT
1 TATATATATTACCT
57122608 TATATATATGTACCT
1 TATATATAT-TACCT
57122623 ATATATATATTA
1 -TATATATATTA
57122635 TACTTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 7 0.29
16 9 0.38
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (14 bp):
TATATATATTACCT
Found at i:57122644 original size:20 final size:20
Alignment explanation
Indices: 57122621--57122672 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
57122611 ATATATGTAC
*
57122621 CTATATATATATTATACTTT
1 CTATATATATATTATAATTT
* *
57122641 CTATACATATTTTATAATTT
1 CTATATATATATTATAATTT
57122661 CTATATATATAT
1 CTATATATATAT
57122673 AATCATTATC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (20 bp):
CTATATATATATTATAATTT
Found at i:57122740 original size:102 final size:100
Alignment explanation
Indices: 57122564--57122774 Score: 323
Period size: 102 Copynumber: 2.1 Consensus size: 100
57122554 TTTTTTAGTT
* * * *
57122564 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATGTACCTATATAT
1 TATATATATAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATGTACCTATATAT
57122629 ATATTATACTTTCTATACATATTTTATAATTTCTA
66 ATATTATACTTTCTATACATATTTTATAATTTCTA
* *
57122664 TATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
1 TATATATATAATCATTATCTTTATGATCTATATATTTATT-ACCT-TATATATATGTACCTATAT
* *
57122729 ATGTATTATACTTTCTATCCATATTTTATAATTTCTA
64 ATATATTATACTTTCTATACATATTTTATAATTTCTA
*
57122766 TATGTATAT
1 TATATATAT
57122775 TTTTCTTTAT
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 36 0.36
101 3 0.03
102 61 0.61
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.54
Consensus pattern (100 bp):
TATATATATAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATGTACCTATATAT
ATATTATACTTTCTATACATATTTTATAATTTCTA
Found at i:57127039 original size:6 final size:6
Alignment explanation
Indices: 57127028--57127066 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
57127018 AAGTGATAAA
57127028 AAAAAG AAAAAG AAAAA- AAAAAG -AAAAG -AAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
57127067 GAGAGGCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 15 0.48
6 16 0.52
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:57127045 original size:17 final size:16
Alignment explanation
Indices: 57127025--57127066 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
57127015 TGAAAGTGAT
57127025 AAAAAAAAGAAAAAGAA
1 AAAAAAAAG-AAAAGAA
57127042 AAAAAAAAGAAAAGAA
1 AAAAAAAAGAAAAGAA
*
57127058 AAGAAAAAG
1 AAAAAAAAG
57127067 GAGAGGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAGAA
Found at i:57128528 original size:132 final size:132
Alignment explanation
Indices: 57128291--57129195 Score: 1418
Period size: 132 Copynumber: 6.8 Consensus size: 132
57128281 AGTGAAAAAA
*
57128291 CAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* * * *
57128356 GATAGGAAGTAGATTGAAGATGCAGATCTTGTCTTCCCATATTGATGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
57128421 AG
131 AG
** * *
57128423 CAGATCTTGTCTTCATGTATTATCGTAAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
57128488 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
57128553 AG
131 AG
*
57128555 CAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* * *
57128620 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGACAAAGTAGATCGAAAAA
66 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
57128685 AG
131 AG
57128687 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* * *
57128752 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCTCATATTGGTGGCAAAGTAAATCGAAGAA
66 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
57128817 AG
131 AG
*
57128819 CAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* * *
57128884 GGTAGGAAGTAGATCGAAGATGCAGATCTTGACTTCCTATATTGGTGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
57128949 AG
131 AG
*
57128951 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* * * *
57129016 GGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCATATTGGTAGTGAAATAGATCGAAGAA
66 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
57129081 AG
131 AG
* * * * * * * *
57129083 CAGATATTGTCTTCATATACTGGTG-GCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
1 CAGATCTTGTCTTCATGTATTGGCGTG--AAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * **
57129147 TTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCTTATATTGGT
64 TTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGT
57129196 AGTAAAGTGG
Statistics
Matches: 716, Mismatches: 53, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 644 0.90
133 50 0.07
134 21 0.03
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (132 bp):
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
AG
Found at i:57129625 original size:19 final size:19
Alignment explanation
Indices: 57129575--57129630 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
57129565 AATCTTCGAG
57129575 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
57129594 GATATATGCAATCTTAGATAT
1 G--ATATGTAATCTTAGATAT
57129615 GATATGTAATCTTAGA
1 GATATGTAATCTTAGA
57129631 ATATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:57129859 original size:16 final size:16
Alignment explanation
Indices: 57129822--57129862 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
57129812 TAAAGGTGGC
* *
57129822 TTACTATTTTTTTTCT
1 TTACGATTTTTTTTAT
57129838 TT-CGATTTTTTTTAT
1 TTACGATTTTTTTTAT
57129853 TTACGATTTT
1 TTACGATTTT
57129863 AAAAAAGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.71
Consensus pattern (16 bp):
TTACGATTTTTTTTAT
Found at i:57130263 original size:16 final size:17
Alignment explanation
Indices: 57130244--57130288 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
57130234 TTTATTACCT
57130244 TATATATATTTAC-GTC
1 TATATATATTTACTGTC
*
57130260 TATATATATTATACTTTC
1 TATATATATT-TACTGTC
*
57130278 TATACATATTT
1 TATATATATTT
57130289 TATAATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 11 0.44
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.53
Consensus pattern (17 bp):
TATATATATTTACTGTC
Found at i:57130279 original size:18 final size:18
Alignment explanation
Indices: 57130244--57130311 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 18
57130234 TTTATTACCT
*
57130244 TATATATATT-TAC-GTC
1 TATATATATTATACTTTC
57130260 TATATATATTATACTTTC
1 TATATATATTATACTTTC
* *
57130278 TATACATATTTTATAATTTC
1 TAT--ATATATTATACTTTC
57130298 TATATATATATATA
1 TATATATAT-TATA
57130312 AAATCATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.23
17 3 0.07
18 10 0.23
19 4 0.09
20 16 0.37
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (18 bp):
TATATATATTATACTTTC
Found at i:57130302 original size:52 final size:51
Alignment explanation
Indices: 57130246--57130413 Score: 146
Period size: 52 Copynumber: 3.2 Consensus size: 51
57130236 TATTACCTTA
* *
57130246 TATATATTTACGTCTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATATATACGTATATATATATTATACTTTCTAT-CATATTTTATAATTTC
* * *
57130298 TATATATATA--TATA-AAATCATTAT-CTTTATGATCTATATATTTATTAACTTATA
1 TATATATATACGTATATATAT-ATTATACTTTCT-ATC-ATAT-TTTA-TAA-TT-TC
* * *
57130352 TATATATGTACGTATATATGTATTATACTTTCTATCCATTTTTTATAATTTC
1 TATATATATACGTATATATATATTATACTTTCTAT-CATATTTTATAATTTC
*
57130404 TATATGTATA
1 TATATATATA
57130414 TTTTTCTTTA
Statistics
Matches: 91, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
49 9 0.10
50 14 0.15
51 4 0.04
52 21 0.23
53 4 0.04
54 13 0.14
55 4 0.04
56 14 0.15
57 8 0.09
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.52
Consensus pattern (51 bp):
TATATATATACGTATATATATATTATACTTTCTATCATATTTTATAATTTC
Found at i:57130308 original size:104 final size:106
Alignment explanation
Indices: 57130213--57130414 Score: 318
Period size: 106 Copynumber: 1.9 Consensus size: 106
57130203 ATATGTAATT
* * * *
57130213 ATTATGTTTATGATTTATATATTTATTACCTTATATATAT-T-TACGTCTATATATATTATACTT
1 ATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATATATATATTATACTT
57130276 TCTATACATATTTTATAATTTCTATATATATATATAAAATC
66 TCTATACATATTTTATAATTTCTATATATATATATAAAATC
*
57130317 ATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATATATGTATTATACTT
1 ATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATATATATATTATACTT
* * *
57130382 TCTATCCATTTTTTATAATTTCTATATGTATAT
66 TCTATACATATTTTATAATTTCTATATATATAT
57130415 TTTTCTTTAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 37 0.42
105 1 0.01
106 50 0.57
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (106 bp):
ATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATATATATATTATACTT
TCTATACATATTTTATAATTTCTATATATATATATAAAATC
Found at i:57130414 original size:56 final size:54
Alignment explanation
Indices: 57130244--57130414 Score: 131
Period size: 54 Copynumber: 3.2 Consensus size: 54
57130234 TTTATTACCT
* * * *
57130244 TATA-TATATTTACGTCTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATTATATATACGTATATAT-TATTATACTTTCTATCCATTTTTTATAATTTC
* * * * * * *
57130298 TATA-TATATATA--TA-AAATCATTAT-CTTTATGATCTATATATTTATTAACTTA
1 TATATTATATATACGTATATATTATTATACTTTCT-ATCCAT-TTTTTA-TAATTTC
*
57130350 TATA-TATATGTACGTATATATGTATTATACTTTCTATCCATTTTTTATAATTTC
1 TATATTATATATACGTATATAT-TATTATACTTTCTATCCATTTTTTATAATTTC
57130404 TATATGTATAT
1 TATAT-TATAT
57130415 TTTTCTTTAT
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
49 5 0.06
50 9 0.10
51 7 0.08
52 17 0.19
54 22 0.25
55 8 0.09
56 15 0.17
57 5 0.06
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (54 bp):
TATATTATATATACGTATATATTATTATACTTTCTATCCATTTTTTATAATTTC
Found at i:57142839 original size:47 final size:46
Alignment explanation
Indices: 57142715--57142882 Score: 169
Period size: 47 Copynumber: 3.6 Consensus size: 46
57142705 CACAATTATT
* * * *
57142715 TGGACAGCA-GTAACAACATTCGGACAGCATTGATTTG-TACAAAAA
1 TGGACAGCATTTAACAACATTCGGACAACATTAATATGCTA-AAAAA
* * *
57142760 TGAACAGCATTTAAGCACCAATTTGGACAACATTAATATGCTAAAAAA
1 TGGACAGCATTTAA-CAAC-ATTCGGACAACATTAATATGCTAAAAAA
* * *
57142808 CGGACAGCATTTAACCAACATTCAGACAACATTAGTATGCTAAAAAA
1 TGGACAGCATTTAA-CAACATTCGGACAACATTAATATGCTAAAAAA
* *
57142855 TAGACAGCATCTAAACAACATTCGGACA
1 TGGACAGCAT-TTAACAACATTCGGACA
57142883 GCACCTTGTC
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
45 8 0.08
46 3 0.03
47 48 0.48
48 39 0.39
49 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (46 bp):
TGGACAGCATTTAACAACATTCGGACAACATTAATATGCTAAAAAA
Found at i:57143540 original size:43 final size:42
Alignment explanation
Indices: 57143463--57143588 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 42
57143453 GAAACACATA
* * * *
57143463 TATCACATA-CAATGCCATATCCCAGATATCGTCTTACATGT
1 TATCACATATCGATGCCATATCCCAGACATGGTCTTACACGT
* *
57143504 TATCACATATCGATGCCACTATCCTAGACAGGGTCTTACACGT
1 TATCACATATCGATGCCA-TATCCCAGACATGGTCTTACACGT
* * *
57143547 AATCTCATATCGATGCCAATGTCCCAGACATGGTCTTACACG
1 TATCACATATCGATGCC-ATATCCCAGACATGGTCTTACACG
57143589 AAATCATTCC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
41 9 0.13
42 7 0.10
43 54 0.76
44 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (42 bp):
TATCACATATCGATGCCATATCCCAGACATGGTCTTACACGT
Found at i:57145636 original size:110 final size:110
Alignment explanation
Indices: 57145512--57145938 Score: 764
Period size: 112 Copynumber: 3.8 Consensus size: 110
57145502 ACCTCACACA
* *
57145512 TATGCATATGTATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
*
57145577 AAATATACAATAGATATACATATATATACATATTCGAACTTCATT
66 AAATATACAATACATATACATATATATACATATTCGAACTTCATT
57145622 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
*
57145687 AAATATACAATAGATATACATATATATATACATATTCGAACTTCATT
66 AAATATACAATACATATAC--ATATATATACATATTCGAACTTCATT
* *
57145734 TATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTTTTAATTATAGCTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
57145799 AAATATACAATACATATACATATATCTATACATATTCGAACTTCATT
66 AAATATACAATACATATACATATA--TATACATATTCGAACTTCATT
57145846 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
1 TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
57145911 AAATATACAATACATATACATATATATA
66 AAATATACAATACATATACATATATATA
57145939 TGTGCTGATT
Statistics
Matches: 306, Mismatches: 7, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
110 91 0.30
112 215 0.70
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.40
Consensus pattern (110 bp):
TATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATC
AAATATACAATACATATACATATATATACATATTCGAACTTCATT
Found at i:57145717 original size:12 final size:12
Alignment explanation
Indices: 57145689--57145721 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
57145679 AACTCATCAA
57145689 ATATACA-ATAG
1 ATATACATATAG
*
57145700 ATATACATATAT
1 ATATACATATAG
57145712 ATATACATAT
1 ATATACATAT
57145722 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:57146447 original size:14 final size:15
Alignment explanation
Indices: 57146428--57146456 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57146418 GCACGAAATT
57146428 TTCACAC-TAATAAA
1 TTCACACATAATAAA
57146442 TTCACACATAATAAA
1 TTCACACATAATAAA
57146457 CAAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:57159051 original size:9 final size:9
Alignment explanation
Indices: 57159037--57159079 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
57159027 TCATGAATGG
57159037 AAAAGAAGA
1 AAAAGAAGA
57159046 AAAAGAAGA
1 AAAAGAAGA
*
57159055 AGAAGAAGTA
1 AAAAGAAG-A
57159065 GAAGAAGAAGA
1 -AA-AAGAAGA
57159076 AAAA
1 AAAA
57159080 AAACTAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 18 0.62
10 3 0.10
11 2 0.07
12 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (9 bp):
AAAAGAAGA
Found at i:57159054 original size:3 final size:3
Alignment explanation
Indices: 57159039--57159076 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
57159029 ATGAATGGAA
* *
57159039 AAG AAG AAA AAG AAG AAG AAG AAG TAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
57159077 AAAAAACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Done.