Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 9 of 276
Found at i:2755448 original size:21 final size:23
Alignment explanation
Indices: 2755422--2755463 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
2755412 GGATCACATT
2755422 GACT-AATGTGA-ATAATAAATA
1 GACTAAATGTGATATAATAAATA
*
2755443 GACTAAATGTGATATTATAAA
1 GACTAAATGTGATATAATAAA
2755464 CCAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 7 0.39
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (23 bp):
GACTAAATGTGATATAATAAATA
Found at i:2766665 original size:36 final size:34
Alignment explanation
Indices: 2766612--2766697 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 34
2766602 CAATTTGCAT
**
2766612 CCAAAACATACTTAATTCACATAAC-AAATCTTATG
1 CCAAAACATACCAAATTCAC--AACTAAATCTTATG
*
2766647 CCAAAATCATACCAAATTCTCAACTAAATCTTATG
1 CCAAAA-CATACCAAATTCACAACTAAATCTTATG
* *
2766682 TC-AAACTTACCAAATT
1 CCAAAACATACCAAATT
2766698 GACCATTTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 10 0.23
34 6 0.14
35 17 0.39
36 11 0.25
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (34 bp):
CCAAAACATACCAAATTCACAACTAAATCTTATG
Found at i:2767380 original size:43 final size:42
Alignment explanation
Indices: 2767328--2767432 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
2767318 CCAACATCCC
* *
2767328 AGACGTGGTCTTCCATGTAATCAAATATCGATG-CCATTGTCCA
1 AGACATGGTCTTACATGTAATCAAATA-CGATGTCCA-TGTCCA
* * * * * *
2767371 AGACATGGTCGTACACGAAATCATATACGATGTCGATGTCCC
1 AGACATGGTCTTACATGTAATCAAATACGATGTCCATGTCCA
2767413 AGACATGGTCTTACATGTAA
1 AGACATGGTCTTACATGTAA
2767433 ATCTCAAGTC
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 27 0.54
43 23 0.46
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (42 bp):
AGACATGGTCTTACATGTAATCAAATACGATGTCCATGTCCA
Found at i:2776927 original size:21 final size:20
Alignment explanation
Indices: 2776900--2776957 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
2776890 AAAATTTTTG
2776900 AGGGATTACAAAATATTCTA
1 AGGGATTACAAAATATTCTA
*
2776920 AGGGGATTCCAAAAT-TTCTA
1 A-GGGATTACAAAATATTCTA
*
2776940 AGGGAATACCAAAATATT
1 AGGGATTA-CAAAATATT
2776958 AAAGAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.16
20 13 0.41
21 14 0.44
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (20 bp):
AGGGATTACAAAATATTCTA
Found at i:2776986 original size:20 final size:20
Alignment explanation
Indices: 2776908--2776987 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
2776898 TGAGGGATTA
** *
2776908 CAAAATATTCTAAGGGGATTC
1 CAAAAT-TTCTAAGGAAATAC
*
2776929 CAAAATTTCTAAGGGAATAC
1 CAAAATTTCTAAGGAAATAC
* *
2776949 CAAAATATT-AAAGAAAATAC
1 CAAAAT-TTCTAAGGAAATAC
*
2776969 CAAAATTTCTGAGGAAATA
1 CAAAATTTCTAAGGAAATA
2776988 TCACATATTG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.04
20 39 0.80
21 8 0.16
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (20 bp):
CAAAATTTCTAAGGAAATAC
Found at i:2778435 original size:21 final size:21
Alignment explanation
Indices: 2778410--2778455 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2778400 TGTGAAGAGG
* *
2778410 GGCACACGACCGTGTGGCTGA
1 GGCACACGACCGTGTGACTAA
*
2778431 GGCACACGGCCGTGTGACTAA
1 GGCACACGACCGTGTGACTAA
2778452 GGCA
1 GGCA
2778456 TATGCCAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.28, G:0.37, T:0.13
Consensus pattern (21 bp):
GGCACACGACCGTGTGACTAA
Found at i:2779247 original size:21 final size:22
Alignment explanation
Indices: 2779223--2779270 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
2779213 AAGGAAAGGA
2779223 AAATAAAAAAATAAA-AAAAAT
1 AAATAAAAAAATAAATAAAAAT
** *
2779244 AAAT-ACCAAATAAATAAAACT
1 AAATAAAAAAATAAATAAAAAT
2779265 AAATAA
1 AAATAA
2779271 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.36
21 13 0.59
22 1 0.05
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (22 bp):
AAATAAAAAAATAAATAAAAAT
Found at i:2779256 original size:20 final size:21
Alignment explanation
Indices: 2779231--2779269 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2779221 GAAAATAAAA
2779231 AAATAAA-AAAAATAAATACC
1 AAATAAATAAAAATAAATACC
*
2779251 AAATAAATAAAACTAAATA
1 AAATAAATAAAAATAAATA
2779270 ATTATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (21 bp):
AAATAAATAAAAATAAATACC
Found at i:2781741 original size:37 final size:37
Alignment explanation
Indices: 2781682--2781790 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
2781672 AGCTCAGACG
* * *
2781682 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
2781719 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
2781756 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
2781791 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:2782058 original size:28 final size:28
Alignment explanation
Indices: 2782026--2782131 Score: 81
Period size: 28 Copynumber: 4.1 Consensus size: 28
2782016 TACCACATAT
2782026 ATTCATGTTCACATTCATCACATTGGCC
1 ATTCATGTTCACATTCATCACATTGGCC
*
2782054 ATTCA-G--C-C-TT-ATCTCATAT----
1 ATTCATGTTCACATTCATCACAT-TGGCC
*
2782073 ATGCATGTTCACATTCATCACATTGGCC
1 ATTCATGTTCACATTCATCACATTGGCC
* *
2782101 ATCCACT-TTCACATTCATCACATCGGCC
1 ATTCA-TGTTCACATTCATCACATTGGCC
2782129 ATT
1 ATT
2782132 AGGCCTTATC
Statistics
Matches: 60, Mismatches: 6, Indels: 24
0.67 0.07 0.27
Matches are distributed among these distances:
19 4 0.07
20 1 0.02
22 7 0.12
23 4 0.07
24 4 0.07
25 7 0.12
27 1 0.02
28 31 0.52
29 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.35
Consensus pattern (28 bp):
ATTCATGTTCACATTCATCACATTGGCC
Found at i:2782063 original size:47 final size:47
Alignment explanation
Indices: 2781999--2782102 Score: 163
Period size: 47 Copynumber: 2.2 Consensus size: 47
2781989 ACACGTTTCG
* * *
2781999 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTACCACATATATGCATGTTCACATTCATCA
* *
2782046 CATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTACCACATATATGCATGTTCACATTCATCA
2782093 CATTGGCCAT
1 CATTGGCCAT
2782103 CCACTTTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.35
Consensus pattern (47 bp):
CATTGGCCATTCAGCCTTACCACATATATGCATGTTCACATTCATCA
Found at i:2782159 original size:75 final size:75
Alignment explanation
Indices: 2782033--2782177 Score: 222
Period size: 75 Copynumber: 1.9 Consensus size: 75
2782023 TATATTCATG
* * * *
2782033 TTCACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCACATTG
1 TTCACATTCATCACATCGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCACATCG
2782098 GCCATCCACT
66 GCCATCCACT
2782108 TTCACATTCATCACATCGGCCATT-AGGCCTTATCACATATATACACT-TTCACATTCATCACAT
1 TTCACATTCATCACATCGGCCATTCA-GCCTTATCACATATATACA-TGTTCACATTCATCACAT
2782171 CGGCCAT
64 CGGCCAT
2782178 TAGGCCTTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 1 0.02
75 62 0.97
76 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (75 bp):
TTCACATTCATCACATCGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCACATCG
GCCATCCACT
Found at i:2782161 original size:47 final size:47
Alignment explanation
Indices: 2782104--2782333 Score: 460
Period size: 47 Copynumber: 4.9 Consensus size: 47
2782094 ATTGGCCATC
2782104 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
2782151 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
2782198 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
2782245 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
2782292 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
2782334 TCGGCCTTAT
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 183 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:2782339 original size:15 final size:15
Alignment explanation
Indices: 2782316--2782347 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2782306 TCACATCGGC
2782316 CATTAGGCCTTATCA
1 CATTAGGCCTTATCA
*
2782331 CATTCGGCCTTATCA
1 CATTAGGCCTTATCA
2782346 CA
1 CA
2782348 CATACGCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.31
Consensus pattern (15 bp):
CATTAGGCCTTATCA
Found at i:2782362 original size:62 final size:62
Alignment explanation
Indices: 2782269--2782394 Score: 182
Period size: 62 Copynumber: 2.0 Consensus size: 62
2782259 TCACATCGGC
* *
2782269 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATTAGGCCTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
* * * *
2782331 CATTCGGCCTTATCACACATACGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CATTAGGCCTTATCACACATACACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCA
2782393 CA
1 CA
2782395 CATACGCATG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 1 0.02
62 56 0.98
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (62 bp):
CATTAGGCCTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:2782362 original size:109 final size:109
Alignment explanation
Indices: 2782222--2782441 Score: 309
Period size: 109 Copynumber: 2.0 Consensus size: 109
2782212 TCACATCGGC
* * *
2782222 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CATTAGGCCTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
*
2782287 ATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCA
66 ATACACA-TGTTCACATTCATCACATCGGCCATTAGGCCTTATCA
* * * *
2782331 CATTCGGCCTTATCACACATACGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CATTAGGCCTTATCACACATACACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACA
* * *
2782395 CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
65 CATACACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCA
2782440 CA
1 CA
2782442 CATACGCATG
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
108 2 0.02
109 96 0.98
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (109 bp):
CATTAGGCCTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
ATACACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:2782382 original size:47 final size:47
Alignment explanation
Indices: 2782331--2782492 Score: 324
Period size: 47 Copynumber: 3.4 Consensus size: 47
2782321 GGCCTTATCA
2782331 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
2782378 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
2782425 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
2782472 CATTCGGCCTTATCACACATA
1 CATTCGGCCTTATCACACATA
2782493 TATATACGGG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 115 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (47 bp):
CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
Found at i:2782464 original size:156 final size:156
Alignment explanation
Indices: 2782175--2782488 Score: 436
Period size: 156 Copynumber: 2.0 Consensus size: 156
2782165 TCACATCGGC
* * *
2782175 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CATTAGGCCTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
* * *
2782240 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
66 ATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACACTTTCACATTC
2782305 ATCACATCGGCCATTAGGCCTTATCA
131 ATCACATCGGCCATTAGGCCTTATCA
* * * *
2782331 CATTCGGCCTTATCACACATACGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CATTAGGCCTTATCACACATACACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACA
* * * *
2782395 CATACGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA-TGTTCACA
65 CATACACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACACT-TTCACA
* *
2782458 TTCATCACATTGGCCATTCGGCCTTATCA
128 TTCATCACATCGGCCATTAGGCCTTATCA
2782487 CA
1 CA
2782489 CATATATATA
Statistics
Matches: 139, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
155 3 0.02
156 136 0.98
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (156 bp):
CATTAGGCCTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
ATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATCA
Found at i:2782483 original size:203 final size:205
Alignment explanation
Indices: 2782128--2782518 Score: 540
Period size: 203 Copynumber: 1.9 Consensus size: 205
2782118 TCACATCGGC
* * *
2782128 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CATTAGGCCTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
* * *
2782193 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
66 ATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACACTTTCACATTC
*
2782258 ATCACATCGGCCATTAGGCCTTAT-CACATATATACAC-TTTCACATTCATCACATCGGCCATTA
131 ATCACATCGGCCATTAGGCCTTATACACATATATACACGGTTCACATTCATCACATCGGCCATTA
2782321 GGCCTTATCA
196 GGCCTTATCA
* * * *
2782331 CATTCGGCCTTATCACACATACGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CATTAGGCCTTATCACACATACACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACA
* * * *
2782395 CATACGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA-TGTTCACA
65 CATACACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACACT-TTCACA
* * *
2782458 TTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACAT
128 TTCATCACATCGGCCATTAGGCCTTAT-ACACATATATACAC-GGTTCACATTCATCACAT
2782519 TAAATCCTAA
Statistics
Matches: 163, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
202 3 0.02
203 132 0.81
205 12 0.07
207 16 0.10
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.31
Consensus pattern (205 bp):
CATTAGGCCTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
ATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATACACATATATACACGGTTCACATTCATCACATCGGCCATTA
GGCCTTATCA
Found at i:2791693 original size:30 final size:30
Alignment explanation
Indices: 2791659--2791724 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
2791649 ATGTGGCCTT
*
2791659 CCCATGGGCCTCACACGGGCGCGTGGTTTA
1 CCCATGGGCCTCACACGGGCGAGTGGTTTA
**
2791689 CCCATTTGCCTCACACGGGCGAGTGGTTTA
1 CCCATGGGCCTCACACGGGCGAGTGGTTTA
2791719 CCCATG
1 CCCATG
2791725 TGGAAGTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.15, C:0.33, G:0.29, T:0.23
Consensus pattern (30 bp):
CCCATGGGCCTCACACGGGCGAGTGGTTTA
Found at i:2800114 original size:27 final size:27
Alignment explanation
Indices: 2800084--2800136 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
2800074 TTCTTTGACT
2800084 CTTAACTGGTAGTAGCCTGATCTTAAA
1 CTTAACTGGTAGTAGCCTGATCTTAAA
2800111 CTTAACTGGTAGTAGCCTGATCTTAA
1 CTTAACTGGTAGTAGCCTGATCTTAA
2800137 GTCTATCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
CTTAACTGGTAGTAGCCTGATCTTAAA
Found at i:2804483 original size:66 final size:67
Alignment explanation
Indices: 2804354--2804483 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 67
2804344 GGGATGTATC
*
2804354 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
2804419 AGGACA
62 AGGACA
* *
2804425 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
2804484 TTCACCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.16
68 1 0.02
71 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:2810769 original size:48 final size:48
Alignment explanation
Indices: 2810710--2810802 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
2810700 AGAATAGGGA
* * *
2810710 CTAAATTGAATAAATTGTAAAACTCGTGTTTTAGAAGTTTTTAGTGTT
1 CTAAATCGAATAAATTGTAAAACTCATGTTTTAGAAATTTTTAGTGTT
2810758 CTAAATCGAATAAATTGTAAAACTCATGTTTTAGAAATTTTTAGT
1 CTAAATCGAATAAATTGTAAAACTCATGTTTTAGAAATTTTTAGT
2810803 ATGAAATTGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (48 bp):
CTAAATCGAATAAATTGTAAAACTCATGTTTTAGAAATTTTTAGTGTT
Found at i:2812695 original size:41 final size:41
Alignment explanation
Indices: 2812638--2812718 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
2812628 TAAGAAGTTT
*
2812638 TATGAGTTTAGATTCAGGGAAATTTTACGGATTTGAATTTC
1 TATGAGTCTAGATTCAGGGAAATTTTACGGATTTGAATTTC
*
2812679 TATGAGTCTAGATTCAGGGAAATTTTACGGGTTTGAATTT
1 TATGAGTCTAGATTCAGGGAAATTTTACGGATTTGAATTT
2812719 TGAGTTTCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (41 bp):
TATGAGTCTAGATTCAGGGAAATTTTACGGATTTGAATTTC
Found at i:2819746 original size:19 final size:19
Alignment explanation
Indices: 2819721--2819844 Score: 179
Period size: 19 Copynumber: 6.8 Consensus size: 19
2819711 ATAATCTTCA
2819721 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
2819740 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2819759 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2819776 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
2819794 ATGATA--CAATCTTATAT
1 ATGATATGCAATCTTAGAT
2819811 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
2819829 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
2819845 AAAGATATGA
Statistics
Matches: 94, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
17 31 0.33
18 31 0.33
19 32 0.34
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:2819761 original size:14 final size:15
Alignment explanation
Indices: 2819742--2819832 Score: 76
Period size: 18 Copynumber: 5.5 Consensus size: 15
2819732 TCTTAGATGT
2819742 GATATG-CAATCTTA
1 GATATGACAATCTTA
2819756 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
2819773 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
2819791 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
*
2819808 TATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
2819826 GATATGA
1 GATATGA
2819833 TATACAATCT
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 6 0.09
15 2 0.03
17 27 0.42
18 28 0.44
20 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:2819791 original size:35 final size:35
Alignment explanation
Indices: 2819729--2819844 Score: 187
Period size: 35 Copynumber: 3.2 Consensus size: 35
2819719 CAATGATATG
*
2819729 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
2819765 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
2819800 CAATCTTATATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
2819837 CAATCTTA
1 CAATCTTA
2819845 AAAGATATGA
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 50 0.66
36 15 0.20
37 11 0.14
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:2825263 original size:40 final size:40
Alignment explanation
Indices: 2825207--2825286 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
2825197 ATGAGTTTAT
*
2825207 GAATCAAGATTTTTCCTCCAAGCTTTGAT-GATGTCAAGAA
1 GAATCAAGATTGTTCCTCCAAGCTTTGATGGA-GTCAAGAA
2825247 GAATCAAGATTGTTCCTCCAAGCTTTGATGGAGTCAAGAA
1 GAATCAAGATTGTTCCTCCAAGCTTTGATGGAGTCAAGAA
2825287 TTGAATACCT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (40 bp):
GAATCAAGATTGTTCCTCCAAGCTTTGATGGAGTCAAGAA
Found at i:2825656 original size:8 final size:8
Alignment explanation
Indices: 2825628--2825696 Score: 65
Period size: 8 Copynumber: 8.6 Consensus size: 8
2825618 CTTTTATTTC
2825628 AAAAAAA-
1 AAAAAAAG
2825635 AAAAGTAAAG
1 AAAA--AAAG
*
2825645 AAAAAGAG
1 AAAAAAAG
2825653 AAAAAAAG
1 AAAAAAAG
2825661 --AAAAAG
1 AAAAAAAG
2825667 AAAAAACTAG
1 AAAAAA--AG
2825677 -AAAAAAG
1 AAAAAAAG
2825684 AAAAAAAG
1 AAAAAAAG
2825692 AAAAA
1 AAAAA
2825697 TGGAGAGGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
6 6 0.12
7 6 0.12
8 26 0.50
9 8 0.15
10 6 0.12
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:2825660 original size:16 final size:16
Alignment explanation
Indices: 2825641--2825696 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
2825631 AAAAAAAAGT
2825641 AAAGAAAAAGAGAAAA
1 AAAGAAAAAGAGAAAA
2825657 AAAGAAAAAGA-AAAA
1 AAAGAAAAAGAGAAAA
*
2825672 ACTAGAAAAA-AGAAAA
1 A-AAGAAAAAGAGAAAA
2825688 AAAGAAAAA
1 AAAGAAAAA
2825697 TGGAGAGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 13 0.36
16 23 0.64
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAGAGAAAA
Found at i:2826751 original size:41 final size:41
Alignment explanation
Indices: 2826698--2827006 Score: 171
Period size: 41 Copynumber: 7.3 Consensus size: 41
2826688 ATCTTATTCT
*
2826698 CCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACCAGCCTTAATC
* ** *** * *
2826739 CCCTAAGCAGTAG-GGTAAG-AGGTTAAATTTGCAGATCTTATTC
1 CCCTAAGCAGTAGTGG--AGCAGATCGAA-GACCAG-CCTTAATC
*
2826782 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGACCAGCCTTAATC
* ** *** * *
2826824 CCCTAAGCAGTAG-GGTAAG-AGGTTAAATTTGCAGATCTTATTC
1 CCCTAAGCAGTAGTGG--AGCAGATCGAA-GACCAG-CCTTAATC
*
2826867 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGACCAGCCTTAATC
* ** *** * *
2826909 CCCTAAGCAGTAG-GGTAAG-AGGTTAAATTTGCAGATCTTATTC
1 CCCTAAGCAGTAGTGG--AGCAGATCGAA-GACCAG-CCTTAATC
* **
2826952 TCCCTAAGCAGTAGTGGAGCAGATCGAAAACTTGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGACCAGCCTTAATC
2826994 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
2827007 GGTAACAGGT
Statistics
Matches: 192, Mismatches: 55, Indels: 42
0.66 0.19 0.15
Matches are distributed among these distances:
40 6 0.03
41 67 0.35
42 30 0.16
43 29 0.15
44 54 0.28
45 6 0.03
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGACCAGCCTTAATC
Found at i:2826788 original size:85 final size:85
Alignment explanation
Indices: 2826645--2827179 Score: 834
Period size: 85 Copynumber: 6.3 Consensus size: 85
2826635 AAAATTCAGT
*
2826645 GCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
1 GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
2826710 GTGGAGCAGATCGAAGACCC
66 GTGGAGCAGATCGAAGACCC
2826730 GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
1 GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
2826795 GTGGAGCAGATCGAAGACCC
66 GTGGAGCAGATCGAAGACCC
2826815 GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
1 GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
2826880 GTGGAGCAGATCGAAGACCC
66 GTGGAGCAGATCGAAGACCC
2826900 GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
1 GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
* **
2826965 GTGGAGCAGATCGAAAACTT
66 GTGGAGCAGATCGAAGACCC
* *
2826985 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTT-TTCTCCCTAAGCAGTA
1 GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
** * *
2827044 GCAGAGCAAATCGATGACGACTC
66 GTGGAGCAGATCGA--A-GACCC
* *
2827067 GCCTTAATCACCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATT-TCCCTAAGCAGTA
1 GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
*
2827131 GTGGAGCAGATCGAAGACGATGC
66 GTGGAGCAGATCGAAGAC---CC
*
2827154 ACCTTAA-CCCCTAAGCAGTAGGGTAA
1 GCCTTAATCCCCTAAGCAGTAGGGTAA
2827180 TAGACCAAGA
Statistics
Matches: 419, Mismatches: 19, Indels: 23
0.91 0.04 0.05
Matches are distributed among these distances:
79 27 0.06
80 8 0.02
81 1 0.00
82 35 0.08
83 1 0.00
84 4 0.01
85 284 0.68
86 18 0.04
87 39 0.09
88 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (85 bp):
GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACCC
Found at i:2827471 original size:207 final size:207
Alignment explanation
Indices: 2827186--2828102 Score: 1530
Period size: 207 Copynumber: 4.4 Consensus size: 207
2827176 GTAATAGACC
2827186 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * *
2827251 TATTTTATCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
2827316 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
2827381 AGGAACAAATCG
196 AGGAACAAATCG
* *
2827393 AAGACATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * *
2827458 TATATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAAACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
2827523 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCTAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
2827588 AGGAACAAATCG
196 AGGAACAAATCG
* * * *
2827600 AAGACACAGCTGATTTGGCTTCCACGTGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATTTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
*
2827665 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATGTTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
2827730 GATCTAGCCTTCAGATGTTTATACTGAAACAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
2827795 AGGAACAAATCA
196 AGGAACAAATCG
2827807 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * * *
2827872 TGTATTGTCAGAGAAGAAATCGAAGTTTGGCGTCTCCATATTTGACGGAGGACAGACATATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* * * * *
2827937 GATCTAACCTTCAAATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
2828001 AGGAGCAAATCG
196 AGGAACAAATCG
* * * *
2828013 AAGACATAGCTGATTTAGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
2828078 TGTATTGTCAGGGAACAAATTGAAG
66 TGTATTGTCAGAGAACAAATCGAAG
2828103 AAGCAGTTTT
Statistics
Matches: 665, Mismatches: 45, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
206 126 0.19
207 539 0.81
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (207 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
AGGAACAAATCG
Found at i:2828546 original size:37 final size:36
Alignment explanation
Indices: 2828498--2828604 Score: 153
Period size: 35 Copynumber: 2.9 Consensus size: 36
2828488 ATAATCTTCA
* *
2828498 ATGATATGCAATCTTAGATGTGATATGCAACCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATAT-CAATCTTAGAT
*
2828536 ATGATTGCAATATTAGATATGATA-CAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATCAATCTTAGAT
2828571 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATGATAT-CAATCTTA
2828605 AAAGATATGA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
35 33 0.52
37 25 0.40
38 5 0.08
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (36 bp):
ATGATTGCAATCTTAGATATGATATCAATCTTAGAT
Found at i:2828551 original size:18 final size:18
Alignment explanation
Indices: 2828498--2828604 Score: 135
Period size: 18 Copynumber: 5.8 Consensus size: 18
2828488 ATAATCTTCA
2828498 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
* *
2828517 GTGATATGCAACCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
2828536 ATGATTGCAATATTAGAT
1 ATGATTGCAATCTTAGAT
*
2828554 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
2828571 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
2828589 ATGATATACAATCTTA
1 ATGAT-TGCAATCTTA
2828605 AAAGATATGA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
17 15 0.19
18 32 0.42
19 30 0.39
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:2842341 original size:24 final size:24
Alignment explanation
Indices: 2842314--2842406 Score: 125
Period size: 24 Copynumber: 3.9 Consensus size: 24
2842304 AAGGCTGTCA
2842314 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
2842338 GGAGAGGATTTAGGGGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
2842362 GGAG-AGAATTTAGGGGCTGATAAA
1 GGAGAAG-ATTTAGGAGCTGATAAG
*
2842386 GGAGAAGATTGAGGAGCTGAT
1 GGAGAAGATTTAGGAGCTGAT
2842407 CAAAGAGCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.02
24 58 0.95
25 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.41, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:2857780 original size:27 final size:27
Alignment explanation
Indices: 2857745--2858045 Score: 343
Period size: 27 Copynumber: 11.1 Consensus size: 27
2857735 AATTTAAGGT
* *
2857745 AAATAACCGTAATACCCTTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
*
2857772 AAATGACCGTAATACCCTTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
2857799 AAATGACCATAATACCTCTATAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
2857826 AAATGACCATAATACCTCTGTAAGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
*
2857853 AAATGACAGTAATACCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
2857880 AAATTATCATAATACCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* *
2857907 AAATGACCGTAATGCCCCTATAGGG-A
1 AAATGACCGTAATACCCCTGTAGGGTA
* *
2857933 AAATTGACCGTAATGCCCCTGTAGGGCA
1 AAA-TGACCGTAATACCCCTGTAGGGTA
* **
2857961 ACATGACCGTAATACCCCTACAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * * *
2857988 AAATTACCGTAATGCCCCTATAGGGTG
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
2858015 AAATGACTGTAATACCCCTCTAAGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
2858042 AAAT
1 AAAT
2858046 AAAAATTATG
Statistics
Matches: 235, Mismatches: 37, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
26 4 0.02
27 228 0.97
28 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (27 bp):
AAATGACCGTAATACCCCTGTAGGGTA
Found at i:2858219 original size:27 final size:27
Alignment explanation
Indices: 2858189--2858248 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
2858179 GGAAATACTA
* *
2858189 TACTTGTGACTATGTCACATTCACTGT
1 TACTGGTGACTATGCCACATTCACTGT
* * *
2858216 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGACTATGCCACATTCACTGT
*
2858243 TTCTGG
1 TACTGG
2858249 CAGCTATGCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (27 bp):
TACTGGTGACTATGCCACATTCACTGT
Found at i:2858429 original size:33 final size:32
Alignment explanation
Indices: 2858392--2858487 Score: 83
Period size: 33 Copynumber: 3.1 Consensus size: 32
2858382 TAATTGCATT
* * *
2858392 ACACTGTATTGATACTGCATTGGGCTTAGGCCC
1 ACACTGTA-TGATACTGAATAGGGCTAAGGCCC
* *
2858425 ACAC--TAT--TACTGTATAGGGCTAAAGCCC
1 ACACTGTATGATACTGAATAGGGCTAAGGCCC
* *
2858453 AGACTGTACTGATACTGAATAGGGCTCAGGCCC
1 ACACTGTA-TGATACTGAATAGGGCTAAGGCCC
2858486 AC
1 AC
2858488 TGTTACCGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
28 20 0.41
30 3 0.06
31 3 0.06
33 23 0.47
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (32 bp):
ACACTGTATGATACTGAATAGGGCTAAGGCCC
Found at i:2877806 original size:7 final size:7
Alignment explanation
Indices: 2877782--2877817 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
2877772 ATACCACCAT
2877782 TATGTGA
1 TATGTGA
*
2877789 TATATGA
1 TATGTGA
2877796 TATGTGA
1 TATGTGA
2877803 TATGTGA
1 TATGTGA
*
2877810 GATGTGA
1 TATGTGA
2877817 T
1 T
2877818 GATAAAGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.42
Consensus pattern (7 bp):
TATGTGA
Found at i:2883337 original size:48 final size:48
Alignment explanation
Indices: 2883279--2883375 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
2883269 TTTTTCTATA
*
2883279 TATTTATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGATCTTT
1 TATTAATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGATCTTT
*
2883327 TATTAATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGTTCTTT
1 TATTAATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGATCTTT
2883375 T
1 T
2883376 CTCCCTCTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (48 bp):
TATTAATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGATCTTT
Found at i:2891690 original size:37 final size:38
Alignment explanation
Indices: 2891649--2891730 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
2891639 GTGTGTAAGA
*
2891649 TGGATGAGCCTTTTAT-G-GTTCTATGTGGTGTGCAGGG
1 TGGATGAGCCTTTTATAGCCTT-TATGTGGTGTGCAGGG
* *
2891686 TGGATGGGCCTTTTGTAGCCTTTATGTGGTGTGCAGGG
1 TGGATGAGCCTTTTATAGCCTTTATGTGGTGTGCAGGG
2891724 TGGATGA
1 TGGATGA
2891731 AGTGGTGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
37 14 0.36
38 23 0.59
39 2 0.05
ACGTcount: A:0.13, C:0.11, G:0.39, T:0.37
Consensus pattern (38 bp):
TGGATGAGCCTTTTATAGCCTTTATGTGGTGTGCAGGG
Found at i:2897594 original size:50 final size:51
Alignment explanation
Indices: 2897496--2897602 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 51
2897486 CTCCAAAACG
* * * *
2897496 AAAATGAAAATGGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCC
1 AAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAATATGGATTTCTCA
*
2897547 AAAATGAAAAT-GAGAAATGAATTCATTTAGAAATGAATAAT-GATTTCTCA
1 AAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAAT-ATGGATTTCTCA
2897597 AAAATG
1 AAAATG
2897603 TTCATAAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 38 0.76
51 12 0.24
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.29
Consensus pattern (51 bp):
AAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAATATGGATTTCTCA
Found at i:2900106 original size:24 final size:24
Alignment explanation
Indices: 2900079--2900315 Score: 171
Period size: 24 Copynumber: 9.9 Consensus size: 24
2900069 GAAATGACTT
*
2900079 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
2900103 TGGCACTATGTGTACGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
2900127 TGGCACTGTGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
2900151 TGTCAGTATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
2900176 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
2900199 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
* *
2900223 TGGCACTATGTGTGCGGATTTTAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
2900247 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
* ** *
2900272 -GTCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
2900295 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
2900316 CCTTGCTTGA
Statistics
Matches: 165, Mismatches: 36, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
21 1 0.01
22 2 0.01
23 3 0.02
24 150 0.91
25 7 0.04
26 2 0.01
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:2900131 original size:48 final size:48
Alignment explanation
Indices: 2900079--2900315 Score: 201
Period size: 48 Copynumber: 4.9 Consensus size: 48
2900069 GAAATGACTT
* * *
2900079 TGGCACTATGTGTGCTAATTTGAATGGCACTATGTGTACGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTATA
* * * * * *
2900127 TGGCACTGTGTGTGCGGATTTGAATGTCAGTATGTATGTGAA-TTACTA
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTA-TA
* * * *
2900175 AGGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATA
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTATA
* * * * * *
2900223 TGGCACTATGTGTGCGGATTTTAATGTCAATATGTATGTGAA-TTACTA
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTA-TA
* * ** * *
2900271 AGTCACTATGTGTGCG-GGTTAACATGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTTGA-ATGGCACTATGTGTGCGAATTT
2900316 CCTTGCTTGA
Statistics
Matches: 145, Mismatches: 39, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
47 8 0.06
48 132 0.91
49 5 0.03
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (48 bp):
TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTATA
Found at i:2900249 original size:96 final size:96
Alignment explanation
Indices: 2900080--2900286 Score: 324
Period size: 96 Copynumber: 2.2 Consensus size: 96
2900070 AAATGACTTT
* * * *
2900080 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTACGAATTTGTATGGCACTGTGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGAATGGCACTATATGTACGAATTTATATGGCACTATGTGTGCGGA
*
2900145 TTTGAATGTCAGTATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
* * *
2900176 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGAATGGCACTATATGTACGAATTTATATGGCACTATGTGTGCGGA
*
2900241 TTTTAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
2900272 GTCACTATGTGTGCG
1 GGCACTATGTGTGCG
2900287 GGTTAACATG
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 101 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.37
Consensus pattern (96 bp):
GGCACTATGTGTGCGAATTTGAATGGCACTATATGTACGAATTTATATGGCACTATGTGTGCGGA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:2900310 original size:96 final size:96
Alignment explanation
Indices: 2900080--2900315 Score: 312
Period size: 96 Copynumber: 2.5 Consensus size: 96
2900070 AAATGACTTT
* * * * *
2900080 GGCACTATGTGTGCTAATTTGA-ATGGCACTATGTGTACGAATTTGTATGGCACTGTGTGTGCGG
1 GGCACTATGTGTGCGAA-TTAACATGGCACTATGTGTGCGAATTTATATGGCACTATGTGTGCGG
*
2900144 ATTTGAATGTCAGTATGTATGTGAATTACTAA
65 ATTTGAATGTCAATATGTATGTGAATTACTAA
*** * *
2900176 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTAACATGGCACTATGTGTGCGAATTTATATGGCACTATGTGTGCGGA
*
2900241 TTTTAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
* ** *
2900272 GTCACTATGTGTGCGGGTTAACATGGCACTATGGGTGCGAATTT
1 GGCACTATGTGTGCGAATTAACATGGCACTATGTGTGCGAATTT
2900316 CCTTGCTTGA
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
95 2 0.02
96 118 0.98
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (96 bp):
GGCACTATGTGTGCGAATTAACATGGCACTATGTGTGCGAATTTATATGGCACTATGTGTGCGGA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:2904412 original size:54 final size:55
Alignment explanation
Indices: 2904354--2904480 Score: 150
Period size: 54 Copynumber: 2.3 Consensus size: 55
2904344 TGTCTTAAAC
* * *
2904354 CATGTAACTCACTGCCTTAG-GTCACACGGCCGTGTCGCAGGCCGTGTGCTAGAT
1 CATGTAACTCACTGACTTAGTGTCACACGGCCGTGTCGCAAGCCGCGTGCTAGAT
* * * ** * *
2904408 CATGTAACTCTCTAACTT-GTGTCACACTGTTGTGTCGTAAGTCGCGTGCTAGAT
1 CATGTAACTCACTGACTTAGTGTCACACGGCCGTGTCGCAAGCCGCGTGCTAGAT
2904462 CATGTAACTCACTGACTTA
1 CATGTAACTCACTGACTTA
2904481 ATAAACATGG
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
53 1 0.02
54 58 0.98
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (55 bp):
CATGTAACTCACTGACTTAGTGTCACACGGCCGTGTCGCAAGCCGCGTGCTAGAT
Found at i:2914312 original size:215 final size:215
Alignment explanation
Indices: 2913941--2914373 Score: 823
Period size: 215 Copynumber: 2.0 Consensus size: 215
2913931 ATTTAAATAT
2913941 CACATAAAATATATCTCATTTACCTATTTTGTTTCTTCCATTAGAAAATAGGCATAATAATATTT
1 CACATAAAATATATCTCATTTACCTATTTTGTTTCTTCCATTAGAAAATAGGCATAATAATATTT
*
2914006 GATTTCATAACTTATTCATCATTTAATTCCATTTCTACTATTTTTAGTGATTTTTCAAATTCATG
66 GATTTCATAACTTATTCATCATTTAATTCCATTTCTACTATTTTTAGTGATTTTTCAAATTCACG
2914071 CAACTGCTACTGTCTGATTCTGTTTTGTGCTAATTTCAACTTTTTCATGATTTCCATGGAATAAC
131 CAACTGCTACTGTCTGATTCTGTTTTGTGCTAATTTCAACTTTTTCATGATTTCCATGGAATAAC
*
2914136 TAGCATTTAGGCATACATAA
196 TAGCATTTAGACATACATAA
2914156 CACATAAAATATATCTCATTTACCTATTTTGTTTCTTCCATTAGAAAATAGGCATAATAATATTT
1 CACATAAAATATATCTCATTTACCTATTTTGTTTCTTCCATTAGAAAATAGGCATAATAATATTT
2914221 GATTTCATAACTTATTCATCATTTAATTCCATTTCTACTATTTTTAGTGATTTTTCAAATTCACG
66 GATTTCATAACTTATTCATCATTTAATTCCATTTCTACTATTTTTAGTGATTTTTCAAATTCACG
*
2914286 TC-ACTGCTACTGTCTGATTCTGTTTTGTGCTAATTTCACCTTTTTCATGATTTCCATGGAATAA
131 -CAACTGCTACTGTCTGATTCTGTTTTGTGCTAATTTCAACTTTTTCATGATTTCCATGGAATAA
2914350 CTAGCATTTAGACATACATAA
195 CTAGCATTTAGACATACATAA
2914371 CAC
1 CAC
2914374 CAAACATGTC
Statistics
Matches: 214, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
215 213 1.00
216 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (215 bp):
CACATAAAATATATCTCATTTACCTATTTTGTTTCTTCCATTAGAAAATAGGCATAATAATATTT
GATTTCATAACTTATTCATCATTTAATTCCATTTCTACTATTTTTAGTGATTTTTCAAATTCACG
CAACTGCTACTGTCTGATTCTGTTTTGTGCTAATTTCAACTTTTTCATGATTTCCATGGAATAAC
TAGCATTTAGACATACATAA
Found at i:2915139 original size:108 final size:110
Alignment explanation
Indices: 2914995--2915194 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 110
2914985 ATCCTTTTGA
* * * *
2914995 AACTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCATGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
* *
2915058 -TGCCATGCCTTGGCATGGTCTTACATGTGACCTTTACCTTATAGT
65 TTGCCATACCTTAGCATGGTCTTACATGTGACCTTTACCTTATAGT
* * *
2915103 AACTTATCAATGCCATGTCATGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCATGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
2915168 TGCCATACCTTAGCATGGTCTTACATG
66 TGCCATACCTTAGCATGGTCTTACATG
2915195 GTATCCTTGA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCATGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATACCTTAGCATGGTCTTACATGTGACCTTTACCTTATAGT
Found at i:2915153 original size:55 final size:52
Alignment explanation
Indices: 2914948--2915203 Score: 204
Period size: 55 Copynumber: 4.8 Consensus size: 52
2914938 ACACGGGTAC
* * * *
2914948 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGATATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA
* *
2914997 CTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAA
* * * *
2915050 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGTGA-CCTTTACCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGT-ATCC-TTGCCTTAT-G-AA
* * *
2915105 CTTATCAATGCCATGTCATGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA
**
2915158 CCTTACCAATTGCCATACCTT-AGCATGGTCTTACATGGTATCCTTG
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACAT-GTATCCTTG
2915204 AACCCTAATG
Statistics
Matches: 168, Mismatches: 23, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
49 35 0.21
50 2 0.01
52 4 0.02
53 45 0.27
54 11 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (52 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAA
Found at i:2917779 original size:48 final size:48
Alignment explanation
Indices: 2917708--2917920 Score: 161
Period size: 48 Copynumber: 4.6 Consensus size: 48
2917698 GTTTGCATAT
* * *
2917708 CGATGACATATCCCAGATATGGTCTTATACGA-AGTCTCATATCAGTGC
1 CGATGCCATATCCCAGACATGGTCTTATACGAGA-TCACATATCAGTGC
* * *
2917756 CGATGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCA----
1 CGATGCCATATCCCAGACATGGTCTTATACGAGATCACATATCAGTGC
* * * * * * * *
2917800 --ATGTCATGTCCTAGACATGGTCTTATATGAAATCACTTAACATTGC
1 CGATGCCATATCCCAGACATGGTCTTATACGAGATCACATATCAGTGC
* * * * * * **
2917846 CAAAGCCATATCCTAGATATGTTCTTATACGGGATCACATATTGGTGC
1 CGATGCCATATCCCAGACATGGTCTTATACGAGATCACATATCAGTGC
*
2917894 CGATGCCATGTCCCAGACATGGTCTTA
1 CGATGCCATATCCCAGACATGGTCTTA
2917921 CACTAGCACA
Statistics
Matches: 125, Mismatches: 33, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
42 32 0.26
48 92 0.74
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (48 bp):
CGATGCCATATCCCAGACATGGTCTTATACGAGATCACATATCAGTGC
Found at i:2917824 original size:90 final size:90
Alignment explanation
Indices: 2917664--2917879 Score: 218
Period size: 90 Copynumber: 2.4 Consensus size: 90
2917654 CAAATAGAGA
* * * * ** * *
2917664 GCCAAAGCCATGTGCCAGACATGGTCTTGTATGGG-TTTGCATATCGATGACATATCCCAGATAT
1 GCCAAAGCCATATCCCAGACATGGTCTTATACGGGACCT-CATATCAATGACATATCCCAGACAT
* * *
2917728 GGTCTTATACGAAGTCTCATATCAGT
65 GGTCTTATACGAAATCACATAACAGT
* * * * *
2917754 GCCGATGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCAATGTCATGTCCTAGACATG
1 GCCAAAGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCAATGACATATCCCAGACATG
* * *
2917819 GTCTTATATGAAATCACTTAACATT
66 GTCTTATACGAAATCACATAACAGT
* * *
2917844 GCCAAAGCCATATCCTAGATATGTTCTTATACGGGA
1 GCCAAAGCCATATCCCAGACATGGTCTTATACGGGA
2917880 TCACATATTG
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
90 100 0.99
91 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (90 bp):
GCCAAAGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCAATGACATATCCCAGACATG
GTCTTATACGAAATCACATAACAGT
Found at i:2917996 original size:48 final size:48
Alignment explanation
Indices: 2917896--2918029 Score: 146
Period size: 48 Copynumber: 2.8 Consensus size: 48
2917886 ATTGGTGCCG
* * * *
2917896 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATACCAACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACCAACATCA
* **
2917944 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT-CTC-GTATACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAC-CAACAT-CA
* * *
2917992 ATGCCCTGTCCCAGACATGGTCTTACACGGGATCTCAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
2918030 TAACCATGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 3 0.04
48 70 0.96
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACCAACATCA
Found at i:2921137 original size:26 final size:26
Alignment explanation
Indices: 2921100--2921152 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2921090 TCTCAAAGAA
*
2921100 AAGAAATCCAGAAGAAAATGCCATTC
1 AAGAAATCCAGAAGAAAATACCATTC
*
2921126 AAGAAATTCAGAAGAAAATACCATTC
1 AAGAAATCCAGAAGAAAATACCATTC
2921152 A
1 A
2921153 GATTCGCTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (26 bp):
AAGAAATCCAGAAGAAAATACCATTC
Found at i:2927521 original size:8 final size:8
Alignment explanation
Indices: 2927508--2927559 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
2927498 GGCAAAAGCT
2927508 GAAATGCC
1 GAAATGCC
**
2927516 GAAATGTT
1 GAAATGCC
*
2927524 GAAAAGCC
1 GAAATGCC
2927532 GAAATGCC
1 GAAATGCC
* *
2927540 GAAAAGTC
1 GAAATGCC
*
2927548 GAAATGCT
1 GAAATGCC
2927556 GAAA
1 GAAA
2927560 AGTCAAAAGT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.15
Consensus pattern (8 bp):
GAAATGCC
Found at i:2927528 original size:24 final size:24
Alignment explanation
Indices: 2927501--2927559 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
2927491 ATGAAACGGC
* *
2927501 AAAAGCTGAAATGCCGAAATGTTG
1 AAAAGCTGAAATGCCGAAAAGTCG
*
2927525 AAAAGCCGAAATGCCGAAAAGTCG
1 AAAAGCTGAAATGCCGAAAAGTCG
*
2927549 AAATGCTGAAA
1 AAAAGCTGAAA
2927560 AGTCAAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (24 bp):
AAAAGCTGAAATGCCGAAAAGTCG
Found at i:2927563 original size:16 final size:16
Alignment explanation
Indices: 2927505--2927561 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
2927495 AACGGCAAAA
*
2927505 GCTGAAATGCCGAAAT
1 GCTGAAAAGCCGAAAT
*
2927521 GTTGAAAAGCCGAAAT
1 GCTGAAAAGCCGAAAT
* *
2927537 GCCGAAAAGTCGAAAT
1 GCTGAAAAGCCGAAAT
2927553 GCTGAAAAG
1 GCTGAAAAG
2927562 TCAAAAGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (16 bp):
GCTGAAAAGCCGAAAT
Found at i:2927824 original size:29 final size:29
Alignment explanation
Indices: 2927791--2927902 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 29
2927781 ATAATATGAT
2927791 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
2927820 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * * *
2927849 CTGGGCC-AGATGGGGCATTTGGATGAG-A
1 TTGGGCCTA-ATGGGCCATATGAATGTGAA
* *
2927877 TTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
2927903 ATGTAGGGGT
Statistics
Matches: 64, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
28 20 0.31
29 44 0.69
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:2927846 original size:58 final size:57
Alignment explanation
Indices: 2927783--2927895 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 57
2927773 GCATGAATAT
** *
2927783 AATATGATTTGGGCCTA-ATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATGAG-ATTGGGCCTAGTGGGCCATAAG
* * *
2927841 AATATGAACTGGGCCAGATGGGGCATTTGGATGAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATA
2927896 TGCATGTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 21 0.44
58 27 0.56
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATAAG
Found at i:2935186 original size:16 final size:16
Alignment explanation
Indices: 2935165--2935207 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
2935155 ATGAAACAGC
*
2935165 AAAAGCCGAAATGTCG
1 AAAAGCCGAAAAGTCG
*
2935181 AAAAGCCGAAAAGTTG
1 AAAAGCCGAAAAGTCG
*
2935197 AAATGCCGAAA
1 AAAAGCCGAAA
2935208 GCCAAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAAAGTCG
Found at i:2935470 original size:29 final size:29
Alignment explanation
Indices: 2935437--2935548 Score: 93
Period size: 29 Copynumber: 3.9 Consensus size: 29
2935427 ATAATATGAC
2935437 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * *
2935466 TTGGGCCTAGTGGGCAATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * * * *
2935495 CTCGGCC-AGATGGGGCATTTGGATGAG-A
1 TTGGGCCTA-ATGGGCCATATGAATGTGAA
* *
2935523 TTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
2935549 ATGTAGGGGT
Statistics
Matches: 60, Mismatches: 21, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
28 19 0.32
29 41 0.68
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:2936520 original size:87 final size:87
Alignment explanation
Indices: 2936374--2936553 Score: 342
Period size: 87 Copynumber: 2.1 Consensus size: 87
2936364 TTGTAATAAG
*
2936374 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTTATTGTAATTACGAGAAGTTGAACT
1 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
2936439 TGGGATTCTTAAATTATAGTAT
66 TGGGATTCTTAAATTATAGTAT
2936461 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
1 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
*
2936526 TGGGATTCTTAAATTATTGTAT
66 TGGGATTCTTAAATTATAGTAT
2936548 GTTTTC
1 GTTTTC
2936554 TACTTTTCCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (87 bp):
GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
TGGGATTCTTAAATTATAGTAT
Found at i:2941561 original size:51 final size:51
Alignment explanation
Indices: 2941480--2941674 Score: 291
Period size: 51 Copynumber: 3.8 Consensus size: 51
2941470 ATACATAGTT
* ** * *
2941480 GCCTTCACATAGTACCACCCTTGTAACCAAAGCTATTTTATTCTCAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
*
2941531 ACCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
* *
2941582 GCTTTCACATAGTACCACACCTGTGTCCAAAGCTATTATATTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
* * *
2941633 GCCTTCACATAGTACCACACTTATGTCTAAAGCTATTTTATT
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATT
2941675 TCTAAGGTTC
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 130 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
Found at i:2941748 original size:24 final size:24
Alignment explanation
Indices: 2941719--2941810 Score: 121
Period size: 24 Copynumber: 3.7 Consensus size: 24
2941709 CAATGCAATA
2941719 GACTTATTTCACTTAGATGCCATG
1 GACTTATTTCACTTAGATGCCATG
*
2941743 GGCTTATTTCACTTAGCACATTGCCATG
1 GACTTATTTCACTTAG---A-TGCCATG
2941771 GACTTATTTCACTTAGATGCCATG
1 GACTTATTTCACTTAGATGCCATG
* *
2941795 GTCTAATTTCACTTAG
1 GACTTATTTCACTTAG
2941811 CACAATGTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
24 36 0.60
25 1 0.02
27 1 0.02
28 22 0.37
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (24 bp):
GACTTATTTCACTTAGATGCCATG
Found at i:2941760 original size:52 final size:52
Alignment explanation
Indices: 2941699--2941817 Score: 184
Period size: 52 Copynumber: 2.3 Consensus size: 52
2941689 AGAAAATTTC
* *
2941699 TCACCTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTTATT
1 TCACTTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTAATT
* * * *
2941751 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTAATT
1 TCACTTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTAATT
2941803 TCACTTAGCACAATG
1 TCACTTAGCACAATG
2941818 TCATATCCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (52 bp):
TCACTTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTAATT
Found at i:2941776 original size:28 final size:27
Alignment explanation
Indices: 2941699--2941814 Score: 118
Period size: 24 Copynumber: 4.4 Consensus size: 27
2941689 AGAAAATTTC
* * *
2941699 TCACCTAGCACAATGCAATAGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
2941727 TCACTTAG---ATGCCATGGGCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
2941751 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
2941779 TCACTTAG---ATGCCATGGTCTAATT
1 TCACTTAGCACATGCCATGGACTTATT
2941803 TCACTTAGCACA
1 TCACTTAGCACA
2941815 ATGTCATATC
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
24 42 0.57
25 1 0.01
27 2 0.03
28 29 0.39
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:2944928 original size:28 final size:28
Alignment explanation
Indices: 2944885--2944940 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
2944875 TATCCATACC
2944885 TCTTCCGATAGCAATTCTTTTAACAAAA
1 TCTTCCGATAGCAATTCTTTTAACAAAA
* *
2944913 TCTTCCGATAGTAATTCTTTTCACAAAA
1 TCTTCCGATAGCAATTCTTTTAACAAAA
2944941 ATTTAAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (28 bp):
TCTTCCGATAGCAATTCTTTTAACAAAA
Found at i:2948186 original size:51 final size:50
Alignment explanation
Indices: 2948106--2948249 Score: 218
Period size: 51 Copynumber: 2.8 Consensus size: 50
2948096 TACACGGTGA
*
2948106 CCTTCACATAGTACCACCCTTGTAGCCAAAGCTATTTTATTCACAAAGT-G
1 CCTTCACATAGTACCACACTTGT-GCCAAAGCTATTTTATTCACAAAGTGG
* *
2948156 CCATTCACATAGTACCACACTTGTGCCCAAAGCTATTATATTAACAAAGTGG
1 CC-TTCACATAGTACCACACTTGTG-CCAAAGCTATTTTATTCACAAAGTGG
2948208 CCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 CCTTCACATAGTACCACACTTGTG-CCAAAGCTATTTTATTC
2948250 CTAAGGTTCA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
50 3 0.04
51 79 0.93
52 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (50 bp):
CCTTCACATAGTACCACACTTGTGCCAAAGCTATTTTATTCACAAAGTGG
Found at i:2948320 original size:24 final size:24
Alignment explanation
Indices: 2948285--2948356 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
2948275 ACTTAGCACA
2948285 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
* * *
2948309 ATGCCATAGACTTATTTTACATAG
1 ATGCCATGGACTTATTTCACTTAG
* *
2948333 ATGCCACGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
2948357 CACAATGTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:2953316 original size:25 final size:25
Alignment explanation
Indices: 2953284--2953341 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
2953274 CTATTTAAAT
2953284 TTTCTTTTCAAGAATTTCTCTTAAG
1 TTTCTTTTCAAGAATTTCTCTTAAG
2953309 TTTCTTTTCAAGAATTTCTCTTAAG
1 TTTCTTTTCAAGAATTTCTCTTAAG
2953334 TTTCTTTT
1 TTTCTTTT
2953342 AGAAGAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.57
Consensus pattern (25 bp):
TTTCTTTTCAAGAATTTCTCTTAAG
Found at i:2956057 original size:23 final size:23
Alignment explanation
Indices: 2956027--2956072 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2956017 ACATGCTAGA
2956027 AAGTAAGAAAAATAATGATACAT
1 AAGTAAGAAAAATAATGATACAT
2956050 AAGTAAGAAAAATAATGATACAT
1 AAGTAAGAAAAATAATGATACAT
2956073 TGGAAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.04, G:0.13, T:0.22
Consensus pattern (23 bp):
AAGTAAGAAAAATAATGATACAT
Found at i:2959980 original size:48 final size:48
Alignment explanation
Indices: 2959907--2960221 Score: 263
Period size: 48 Copynumber: 6.6 Consensus size: 48
2959897 TAAAGTACCA
* * *
2959907 ATGCCATTTCCTC-GACATGGTCTTACATGAATCCACATATCATCGCTG
1 ATGCCATGTCC-CAGACATGGTCTTACATGAAGCCACATATCATCGCCG
* * *
2959955 ATGCCATGTCCCAAACATGGCCTTACACTG--GCACACATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGAAGC-CACATATCATCGCCG
* * * *
2960003 ATTCCATGTCCTAGACATGGTCTTACATAGGAA--CATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACAT--GAAGCCACATATCATCGCCG
* * * *
2960051 ATGCCATATCCCAGACATGGTCTTACA--CAGGCACATACATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAGCCACAT--ATCATCGCCG
* * * * * **
2960099 ATGCCATGTCCAAGACTTGGTCTTACA-CAGGCACAAATATCATTACCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAGC-CACATATCATCGCCG
* *
2960147 ATGCCATGTCCCAGACATGGTCTTACACAGGAA--CATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTT--ACATGAAGCCACATATCATCGCCG
2960195 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
2960222 CGGAATCTTA
Statistics
Matches: 216, Mismatches: 35, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.00
46 7 0.03
47 3 0.01
48 193 0.89
49 4 0.02
50 7 0.03
51 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAAGCCACATATCATCGCCG
Found at i:2960084 original size:96 final size:95
Alignment explanation
Indices: 2959907--2960221 Score: 384
Period size: 96 Copynumber: 3.3 Consensus size: 95
2959897 TAAAGTACCA
* * * *
2959907 ATGCCATTTCCTCGACATGGTCTTACAT--GAATCCACATATCATCGCTGATGCCATGTCCCAAA
1 ATGCCATGTCCTAGACATGGTCTTACATAGGAA--CAAATATCATCGC-GATGCCATGTCCCAGA
* * * *
2959970 CATGGCCTTACACTGGCACACATATCATTGCCG
63 CATGGTCTTACACAGGCACATATATCATCGCCG
* * *
2960003 ATTCCATGTCCTAGACATGGTCTTACATAGGAACATATATCATCGTCGATGCCATATCCCAGACA
1 ATGCCATGTCCTAGACATGGTCTTACATAGGAACAAATATCATCG-CGATGCCATGTCCCAGACA
* *
2960068 TGGTCTTACACAGGCACATACATCATCGTCG
65 TGGTCTTACACAGGCACATATATCATCGCCG
* * * *
2960099 ATGCCATGTCCAAGACTTGGTCTTACACAGGCACAAATATCATTAC-CGATGCCATGTCCCAGAC
1 ATGCCATGTCCTAGACATGGTCTTACATAGGAACAAATATCA-T-CGCGATGCCATGTCCCAGAC
*
2960163 ATGGTCTTACACAGGAACATATATCATCGCCG
64 ATGGTCTTACACAGGCACATATATCATCGCCG
*
2960195 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCTAGACATGGTCTTACA
2960222 CGGAATCTTA
Statistics
Matches: 190, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
96 184 0.97
97 2 0.01
98 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (95 bp):
ATGCCATGTCCTAGACATGGTCTTACATAGGAACAAATATCATCGCGATGCCATGTCCCAGACAT
GGTCTTACACAGGCACATATATCATCGCCG
Found at i:2960167 original size:144 final size:144
Alignment explanation
Indices: 2959945--2960222 Score: 434
Period size: 144 Copynumber: 1.9 Consensus size: 144
2959935 GAATCCACAT
* * * *
2959945 ATCATCGCTGATGCCATGTCCCAAACATGGCCTTACACTGGCACACATATCATTGCCGATTCCAT
1 ATCATCGCTGATGCCATGTCCCAAACATGGCCTTACACAGGCACAAATATCATTACCGATGCCAT
* * *
2960010 GTCCTAGACATGGTCTTACATAGGAACATATATCATCGTCGATGCCATATCCCAGACATGGTCTT
66 GTCCCAGACATGGTCTTACACAGGAACATATATCATCGCCGATGCCATATCCCAGACATGGTCTT
2960075 ACACAGGCACATAC
131 ACACAGGCACATAC
* *
2960089 ATCATCG-TCGATGCCATGT-CCAAGACTTGGTCTTACACAGGCACAAATATCATTACCGATGCC
1 ATCATCGCT-GATGCCATGTCCCAA-ACATGGCCTTACACAGGCACAAATATCATTACCGATGCC
*
2960152 ATGTCCCAGACATGGTCTTACACAGGAACATATATCATCGCCGATGCCATGTCCCAGACATGGTC
64 ATGTCCCAGACATGGTCTTACACAGGAACATATATCATCGCCGATGCCATATCCCAGACATGGTC
2960217 TTACAC
129 TTACAC
2960223 GGAATCTTAT
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
143 5 0.04
144 117 0.96
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (144 bp):
ATCATCGCTGATGCCATGTCCCAAACATGGCCTTACACAGGCACAAATATCATTACCGATGCCAT
GTCCCAGACATGGTCTTACACAGGAACATATATCATCGCCGATGCCATATCCCAGACATGGTCTT
ACACAGGCACATAC
Found at i:2960222 original size:48 final size:48
Alignment explanation
Indices: 2959943--2960226 Score: 372
Period size: 48 Copynumber: 5.9 Consensus size: 48
2959933 ATGAATCCAC
* * * * * *
2959943 ATATCATCGCTGATGCCATGTCCCAAACATGGCCTTACACTGGCACAC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
* * * *
2959991 ATATCATTGCCGATTCCATGTCCTAGACATGGTCTTACATAGGAACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
* * *
2960039 ATATCATCGTCGATGCCATATCCCAGACATGGTCTTACACAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
* * * * * *
2960087 ACATCATCGTCGATGCCATGTCCAAGACTTGGTCTTACACAGGCACAA
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
**
2960135 ATATCATTACCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
2960183 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACAC-GGAA
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAA
2960227 TCTTATTTAA
Statistics
Matches: 204, Mismatches: 32, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
47 4 0.02
48 200 0.98
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
Found at i:2963335 original size:14 final size:15
Alignment explanation
Indices: 2963298--2963339 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
2963288 AAATATGAAC
2963298 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
2963314 TATA-ATGTGATA-G
1 TATATATGTGAAATG
2963327 TATATATGTGAAA
1 TATATATGTGAAA
2963340 GTTGAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:2963632 original size:15 final size:15
Alignment explanation
Indices: 2963612--2963660 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
2963602 AAAAAAATTG
2963612 GTGTTGCTAGTTGTA
1 GTGTTGCTAGTTGTA
* * *
2963627 GTGTTGAT-GTCG-C
1 GTGTTGCTAGTTGTA
2963640 GTGTTGCTAGTTGTA
1 GTGTTGCTAGTTGTA
2963655 GTGTTG
1 GTGTTG
2963661 ATGTCGCAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 13 0.50
ACGTcount: A:0.10, C:0.08, G:0.37, T:0.45
Consensus pattern (15 bp):
GTGTTGCTAGTTGTA
Found at i:2963652 original size:28 final size:28
Alignment explanation
Indices: 2963612--2963667 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2963602 AAAAAAATTG
2963612 GTGTTGCTAGTTGTAGTGTTGATGTCGC
1 GTGTTGCTAGTTGTAGTGTTGATGTCGC
2963640 GTGTTGCTAGTTGTAGTGTTGATGTCGC
1 GTGTTGCTAGTTGTAGTGTTGATGTCGC
2963668 AAAAATGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.11, C:0.11, G:0.36, T:0.43
Consensus pattern (28 bp):
GTGTTGCTAGTTGTAGTGTTGATGTCGC
Found at i:2966000 original size:15 final size:16
Alignment explanation
Indices: 2965980--2966012 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2965970 TATAGGGTTG
2965980 TTTTTTTAAATG-AGT
1 TTTTTTTAAATGAAGT
*
2965995 TTTTTTTATATGAAGT
1 TTTTTTTAAATGAAGT
2966011 TT
1 TT
2966013 AGTTTGATGA
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (16 bp):
TTTTTTTAAATGAAGT
Found at i:2977676 original size:42 final size:42
Alignment explanation
Indices: 2977612--2977702 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
2977602 ATATGGCTTC
* * ** *
2977612 GGCATCGTTAAGTGATTTCGTATAAGACCATGTCTGGGACAT
1 GGCATCGATAAGAGATCACGTATAAGACCATGTCTAGGACAT
2977654 GGCATCGATAAGAGATCACGTATAAGACCATGTCTAGGACAT
1 GGCATCGATAAGAGATCACGTATAAGACCATGTCTAGGACAT
*
2977696 GACATCG
1 GGCATCG
2977703 GCATCAGTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (42 bp):
GGCATCGATAAGAGATCACGTATAAGACCATGTCTAGGACAT
Found at i:2979922 original size:42 final size:42
Alignment explanation
Indices: 2979801--2979922 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 42
2979791 TACTGTACCA
* *
2979801 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
*
2979843 ATGCCAATAGCCCA-ACTATGGTCTTACATG-AAGTCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACATGTAA-TCTCATATCG
*
2979886 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
2979923 GTAACCCTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
42 33 0.47
43 37 0.53
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:2987385 original size:24 final size:24
Alignment explanation
Indices: 2987358--2987404 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2987348 ATTATTATTG
*
2987358 AAATATTCTCATCCGTTTTATCAC
1 AAATATTATCATCCGTTTTATCAC
*
2987382 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCATCCGTTTTATCA
2987405 TTTAAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (24 bp):
AAATATTATCATCCGTTTTATCAC
Found at i:2987666 original size:15 final size:15
Alignment explanation
Indices: 2987642--2987697 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
2987632 ATTTGGATTA
*
2987642 ATTTATTTAAATATT
1 ATTTAATTAAATATT
2987657 ATTTAATTAAAATAAGTT
1 ATTTAATT-AAAT-A-TT
2987675 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
2987687 ATTTAATTAAA
1 ATTTAATTAAA
2987698 ATAAATTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
12 2 0.06
13 4 0.12
14 5 0.15
15 12 0.35
16 5 0.15
17 4 0.12
18 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:2987669 original size:16 final size:16
Alignment explanation
Indices: 2987650--2987700 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
2987640 TAATTTATTT
2987650 AAATATTATTTAATTA
1 AAATATTATTTAATTA
2987666 AAATA--AGTTT--TTA
1 AAATATTA-TTTAATTA
2987679 TAAATATTATTTAATTA
1 -AAATATTATTTAATTA
2987696 AAATA
1 AAATA
2987701 AATTTCTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
13 3 0.10
14 6 0.21
15 6 0.21
16 11 0.38
17 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
AAATATTATTTAATTA
Found at i:2987720 original size:30 final size:30
Alignment explanation
Indices: 2987641--2987705 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
2987631 AATTTGGATT
2987641 AATTTATT-TAAATATTATTTAATTAAAATA
1 AATTT-TTATAAATATTATTTAATTAAAATA
*
2987671 AGTTTTTATAAATATTATTTAATTAAAATA
1 AATTTTTATAAATATTATTTAATTAAAATA
2987701 AATTT
1 AATTT
2987706 CTTTCCATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 2 0.06
30 30 0.94
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
AATTTTTATAAATATTATTTAATTAAAATA
Found at i:2987892 original size:9 final size:9
Alignment explanation
Indices: 2987878--2988175 Score: 162
Period size: 9 Copynumber: 34.0 Consensus size: 9
2987868 TACATGATAT
2987878 CATAACTTA
1 CATAACTTA
2987887 CATAACTTA
1 CATAACTTA
*
2987896 CAAAACTTA
1 CATAACTTA
2987905 CATAA--TA
1 CATAACTTA
* *
2987912 TATAAATATA
1 CATAACT-TA
* *
2987922 TATGA--TA
1 CATAACTTA
*
2987929 TCATAAATTA
1 -CATAACTTA
2987939 CATAACTTA
1 CATAACTTA
*
2987948 CAAAACTTA
1 CATAACTTA
2987957 CATAA--TA
1 CATAACTTA
*
2987964 CATAAATATA
1 CATAACT-TA
* *
2987974 TATGA--TA
1 CATAACTTA
*
2987981 TCATAAATTA
1 -CATAACTTA
2987991 CATAACTTA
1 CATAACTTA
*
2988000 CAAAACTTA
1 CATAACTTA
*
2988009 CA-AA-ATA
1 CATAACTTA
*
2988016 CATAAATATA
1 CATAACT-TA
* *
2988026 TATGA--TA
1 CATAACTTA
2988033 TCATAACTTA
1 -CATAACTTA
2988043 CATAACTTA
1 CATAACTTA
2988052 CATAA--TA
1 CATAACTTA
*
2988059 CATAA-ATA
1 CATAACTTA
* *
2988067 TATATCATATA
1 CATAAC-T-TA
2988078 -ATAACTTA
1 CATAACTTA
2988086 CATAACTTA
1 CATAACTTA
2988095 CATAACTTA
1 CATAACTTA
2988104 CATAACTTA
1 CATAACTTA
*
2988113 CATACCTTA
1 CATAACTTA
*
2988122 CATAAATT-
1 CATAACTTA
* * *
2988130 TATATCATA
1 CATAACTTA
2988139 TCATAACTTA
1 -CATAACTTA
2988149 CATAACTTA
1 CATAACTTA
*
2988158 CAAAACTTA
1 CATAACTTA
*
2988167 CTTAACTTA
1 CATAACTTA
2988176 TGTAATACAT
Statistics
Matches: 226, Mismatches: 38, Indels: 50
0.72 0.12 0.16
Matches are distributed among these distances:
7 30 0.13
8 24 0.11
9 138 0.61
10 32 0.14
11 2 0.01
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:2987932 original size:52 final size:52
Alignment explanation
Indices: 2987871--2988167 Score: 404
Period size: 52 Copynumber: 5.7 Consensus size: 52
2987861 AATTAAATAC
*
2987871 ATGATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATAT
1 ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
*
2987923 ATGATATCATAAATTACATAACTTACAAAACTTACATAATACATAAATATAT
1 ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
* *
2987975 ATGATATCATAAATTACATAACTTACAAAACTTACAAAATACATAAATATAT
1 ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
* * *
2988027 ATGATATCATAACTTACATAACTTACATAA--TACATAA-ATATATATCATAT
1 ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAAT-ATAT
* * * *
2988077 AATAACT-TACATAACTTACATAACTTACATAACTTACATACCTTACATAAATTTAT
1 -ATGA-TAT-CATAACTTACATAACTTACAAAACTTACATA--ATACATAAATATAT
*
2988133 ATCATATCATAACTTACATAACTTACAAAACTTAC
1 ATGATATCATAACTTACATAACTTACAAAACTTAC
2988168 TTAACTTATG
Statistics
Matches: 220, Mismatches: 15, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
49 6 0.03
50 10 0.05
51 4 0.02
52 153 0.70
54 34 0.15
55 4 0.02
56 3 0.01
57 6 0.03
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (52 bp):
ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
Found at i:2987998 original size:95 final size:94
Alignment explanation
Indices: 2987887--2988105 Score: 282
Period size: 95 Copynumber: 2.3 Consensus size: 94
2987877 TCATAACTTA
* * * *
2987887 CATAACTTACAAAACTTACATAA-TATATAAATATATATGATATCATAAAT-TA-CATAACTTAC
1 CATAACTTACATAACTTACATAACT-TACAAA-ATACAT-AAAT-ATAAATATATCATAACTTAC
*
2987949 AAAACTTACATAATACATAAATATATATGATAT
62 AAAACTTACATAATACATAAATATATATCATAT
* * * *
2987982 CATAAATTACATAACTTACAAAACTTACAAAATACATAAATATATATGATATCATAACTTACATA
1 CATAACTTACATAACTTACATAACTTACAAAATACATAAATATAAAT-ATATCATAACTTACAAA
2988047 ACTTACATAATACATAAATATATATCATAT
65 ACTTACATAATACATAAATATATATCATAT
*
2988077 AATAACTTACATAACTTACATAACTTACA
1 CATAACTTACATAACTTACATAACTTACA
2988106 TAACTTACAT
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
92 5 0.05
93 3 0.03
94 7 0.06
95 92 0.85
96 1 0.01
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (94 bp):
CATAACTTACATAACTTACATAACTTACAAAATACATAAATATAAATATATCATAACTTACAAAA
CTTACATAATACATAAATATATATCATAT
Found at i:2988145 original size:63 final size:61
Alignment explanation
Indices: 2988034--2988192 Score: 237
Period size: 63 Copynumber: 2.6 Consensus size: 61
2988024 TATATGATAT
2988034 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTACATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTACATAACTTA
* * *
2988095 CATAACTTACATAACTTACATACCTTACATAAATTTATATCATATCATAACTTACATAACTTA
1 CATAACTTACATAACTTACATA--ATACATAAATATATATCATATAATAACTTACATAACTTA
* * **
2988158 CAAAACTTACTTAACTTATGTAATACATAAATATA
1 CATAACTTACATAACTTACATAATACATAAATATA
2988193 CACTTGAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
61 33 0.38
63 54 0.62
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.35
Consensus pattern (61 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTACATAACTTA
Found at i:2989977 original size:12 final size:12
Alignment explanation
Indices: 2989962--2989987 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2989952 AAAATCAAGG
2989962 GATGAATCTGAT
1 GATGAATCTGAT
2989974 GATGAATCTGAT
1 GATGAATCTGAT
2989986 GA
1 GA
2989988 AGAGGATGAT
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:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:2994050 original size:43 final size:43
Alignment explanation
Indices: 2993983--2994068 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
2993973 CATTTTTTGA
* * *
2993983 GAAAAGCGCCGCTAAAAGTTATGTTCTTTAGCGGCGTTTGTAT
1 GAAAAGCGCCACTAAAAGTCATGTTCTTAAGCGGCGTTTGTAT
** *
2994026 GAAAAGCGCCACTAACGGTCATGTTCTTAAGTGGCGTTTGTAT
1 GAAAAGCGCCACTAAAAGTCATGTTCTTAAGCGGCGTTTGTAT
2994069 TAACCTTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
GAAAAGCGCCACTAAAAGTCATGTTCTTAAGCGGCGTTTGTAT
Found at i:2994172 original size:108 final size:109
Alignment explanation
Indices: 2993974--2994172 Score: 256
Period size: 108 Copynumber: 1.8 Consensus size: 109
2993964 AATTAGTCGC
*
2993974 ATTTTTTGAGAAAAGCGCCGCTAAAAGTTATGTTCTTTAGCGGCGTTTGTATGAAAAGCGCCACT
1 ATTTTTTGAGAAAAGCGCCGCTAAAAGTGATGTTCTTTAGCGGCGTTTGTATGAAAAGCGCCACT
* * ***
2994039 AACGGTCATGTTCTTAAGTGGCGTTTGTATTAACCTTTAGTGGT
66 AAAGGTCATGCTCTTAAGCAACGTTTGTATTAACCTTTAGTGGT
* ** * ** * *
2994083 ATTTTTT-TGAAAAGCGTTGCTAAAGGTGATGTTCTTTAGCGTTGTTTGTATTAAAAGCGCCGCT
1 ATTTTTTGAGAAAAGCGCCGCTAAAAGTGATGTTCTTTAGCGGCGTTTGTATGAAAAGCGCCACT
*
2994147 AAAGGTCATGCTCTTTAGCAACGTTT
66 AAAGGTCATGCTCTTAAGCAACGTTT
2994173 TTTTACATAA
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
108 68 0.91
109 7 0.09
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (109 bp):
ATTTTTTGAGAAAAGCGCCGCTAAAAGTGATGTTCTTTAGCGGCGTTTGTATGAAAAGCGCCACT
AAAGGTCATGCTCTTAAGCAACGTTTGTATTAACCTTTAGTGGT
Found at i:2994837 original size:41 final size:41
Alignment explanation
Indices: 2994808--2995069 Score: 346
Period size: 41 Copynumber: 6.4 Consensus size: 41
2994798 CATTTTACCG
* * *
2994808 AAAACGTCGCAAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
* *
2994849 AAAACGCCGCTAAAATCTAGAGCATTAGCGGCGCTTTTTGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
*
2994890 AAAACGCCGCTAAAAGCCAGAGCATTAACGGCGCTTTTTGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
2994931 -AAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTTGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGC-TTTTTGT
* * * * *
2994972 AAAACACCGCTAAAAGGCAGAGCATTAGTGGCACTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
* * * * * *
2995013 AAAAAGCCACTAAAAACCGGATCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
*
2995054 AAAACGCCACTAAAAG
1 AAAACGCCGCTAAAAG
2995070 TCATATAACC
Statistics
Matches: 194, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 32 0.16
41 133 0.69
42 29 0.15
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
Found at i:2995308 original size:23 final size:24
Alignment explanation
Indices: 2995258--2995308 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
2995248 TCTATCATTT
* **
2995258 TCCCCCTTTTTCCCCATTTCTATT
1 TCCCCCTTTTTCCCCATTCCTAAA
*
2995282 TCCCCCTTTTTCCTCA-TCCTAAA
1 TCCCCCTTTTTCCCCATTCCTAAA
2995305 TCCC
1 TCCC
2995309 TAAAGTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.12, C:0.45, G:0.00, T:0.43
Consensus pattern (24 bp):
TCCCCCTTTTTCCCCATTCCTAAA
Found at i:2995639 original size:21 final size:21
Alignment explanation
Indices: 2995615--2995675 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
2995605 GTTTAAGTGT
2995615 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGG-TTAA
* * *
2995636 GGTTTATGTGTTAGGGGTTAG
1 GGTTTAAGGGTTAGGGGTTAA
* *
2995657 GGGTTAAGGGTTAAGGGTT
1 GGTTTAAGGGTTAGGGGTT
2995676 CATGATTTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGGGTTAA
Found at i:2995667 original size:14 final size:14
Alignment explanation
Indices: 2995618--2995675 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
2995608 TAAGTGTGGT
2995618 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
* * *
2995631 TTTAAGGTTTATGTG
1 -TTAAGGGTTAGGGG
*
2995646 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
2995660 TTAAGGGTTAAGGG
1 TTAAGGGTTAGGGG
2995674 TT
1 TT
2995676 CATGATTTAG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 32 0.94
15 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:2998641 original size:101 final size:101
Alignment explanation
Indices: 2998488--2998676 Score: 342
Period size: 101 Copynumber: 1.9 Consensus size: 101
2998478 TATTATACAA
* *
2998488 ATTACTTTCTAGGATTGATTTAAATGAATAGTGTATTGACTATTATTATTATATGTCCAATACTA
1 ATTACTTTCTAGGATTAATTTAAATGAATAGTGTATTAACTATTATTATTATATGTCCAATACTA
*
2998553 TGTTAGTTTAAATGAATTATTATATGTCCAATGTTG
66 TGTTAGTTTAAATAAATTATTATATGTCCAATGTTG
*
2998589 ATTACTTTCTAGGATTAATTTAAATGAATAGTGTATTAACTATTATTATTATATGTCCAATGCTA
1 ATTACTTTCTAGGATTAATTTAAATGAATAGTGTATTAACTATTATTATTATATGTCCAATACTA
2998654 TGTTAGTTTAAATAAATTATTAT
66 TGTTAGTTTAAATAAATTATTAT
2998677 GGGGATGGGG
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (101 bp):
ATTACTTTCTAGGATTAATTTAAATGAATAGTGTATTAACTATTATTATTATATGTCCAATACTA
TGTTAGTTTAAATAAATTATTATATGTCCAATGTTG
Found at i:3002623 original size:29 final size:30
Alignment explanation
Indices: 3002566--3002623 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
3002556 CTTTTGAAAA
* * *
3002566 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACGAAATTTTAT
3002596 TATTTACAAAAAGA-GCAACGAAATTTTA
1 TATTTACAAAAAGAGGCAACGAAATTTTA
3002624 AAAATAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACGAAATTTTAT
Found at i:3018992 original size:40 final size:40
Alignment explanation
Indices: 3018850--3019075 Score: 301
Period size: 40 Copynumber: 5.6 Consensus size: 40
3018840 TACTCGAATG
*
3018850 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
*
3018891 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
3018932 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGGCT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* *
3018972 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * * *
3019012 ATATCCGGGCTAAGTCACGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
3019052 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
3019076 CTTGTGCGAG
Statistics
Matches: 169, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.58
41 69 0.41
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:3028362 original size:47 final size:46
Alignment explanation
Indices: 3028290--3028464 Score: 171
Period size: 47 Copynumber: 3.8 Consensus size: 46
3028280 GGTATAATGC
* * *
3028290 CGATGCCATGTCCTAAACATCGTCTTACACTGGCTCATCTATTAAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATTAAG
* * * *
3028336 TCAATGCCATGTCCCAGACATGGTCTTACACTGACACAT-T-TTGTAG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATT-AAG
* * *
3028382 CTGATG-CATGTCCCAGACATGTTC-TACACTAGCT-ATCGTATCAATG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-TATTAA-G
3028428 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
3028465 TCACAATATG
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.02
44 7 0.07
45 22 0.22
46 12 0.12
47 50 0.49
48 9 0.09
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATTAAG
Found at i:3028486 original size:47 final size:45
Alignment explanation
Indices: 3028343--3028505 Score: 133
Period size: 47 Copynumber: 3.6 Consensus size: 45
3028333 AAGTCAATGC
* * * *
3028343 CATGTCCCAGACATGGTCTTACACTG--ACACATTTTGTAGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGCTTCACAATATG--GCCGATG
*
3028388 CATGTCCCAGACATGTTC-TACACTAGCTATCGTATC-A-AT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACT-GCT-TC--A-CAATATGGCCGATG
3028434 CCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATATGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACT-GCT-TCACAATATGGCCGATG
*
3028482 CATGTCCTAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
3028506 AGCACACAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 23
0.75 0.07 0.18
Matches are distributed among these distances:
44 6 0.06
45 19 0.20
46 18 0.19
47 32 0.33
48 19 0.20
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGCTTCACAATATGGCCGATG
Found at i:3029718 original size:15 final size:15
Alignment explanation
Indices: 3029698--3029735 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
3029688 CACAATAGGA
3029698 ACAAGTAATAAAGTG
1 ACAAGTAATAAAGTG
3029713 ACAAGTAATAAAGTG
1 ACAAGTAATAAAGTG
3029728 ACAAGTAA
1 ACAAGTAA
3029736 ATGTCGAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.55, C:0.08, G:0.18, T:0.18
Consensus pattern (15 bp):
ACAAGTAATAAAGTG
Found at i:3031969 original size:12 final size:12
Alignment explanation
Indices: 3031952--3031976 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3031942 ATTGGTCACA
3031952 TGGATGTTTGTC
1 TGGATGTTTGTC
3031964 TGGATGTTTGTC
1 TGGATGTTTGTC
3031976 T
1 T
3031977 TGGCTGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.52
Consensus pattern (12 bp):
TGGATGTTTGTC
Found at i:3040678 original size:27 final size:27
Alignment explanation
Indices: 3040579--3040707 Score: 136
Period size: 27 Copynumber: 4.8 Consensus size: 27
3040569 TTAGTTTACC
* *
3040579 AAAATTACCAAAATA-CCCTCGATTAGC
1 AAAATTACCAAAATACCCCT-GATTTGT
* *
3040606 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
3040633 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * **
3040660 AAAATTATCGAAATACCCCTG-TAAGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
* *
3040687 AAAATTACCGAAATATCCCTG
1 AAAATTACCAAAATACCCCTG
3040708 TAGGGTAGAA
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.95
28 3 0.03
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:3040701 original size:81 final size:80
Alignment explanation
Indices: 3040606--3041614 Score: 676
Period size: 81 Copynumber: 12.4 Consensus size: 80
3040596 CTCGATTAGC
** *
3040606 AAAATTACCAAAATACCCT-T-GGTTTGTAAAATTACCAAAATACCCCTG-ATTTGTAAAATTAT
1 AAAATTACCAAAATACCCTGTAGG---GTAAAATTACCAAAATACCCCTGTA-AGGTAAAATTAC
3040668 CGAAATACCCCTGTAAGGT
62 CGAAATACCCCTGTAAGGT
* * ** *
3040687 AAAATTACCGAAATATCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGA
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTAAAATTACCGA
*
3040752 AATACCCCTGTAGGGT
65 AATACCCCTGTAAGGT
* * * * * * * * *
3040768 AGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTG
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTA-AAATTACCG
*
3040832 AAATACCCCTGTAGGGT
64 AAATACCCCTGTAAGGT
* * * * * * * * *
3040849 AGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTG
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTA-AAATTACCG
*
3040913 AAATACCCCTGTAGGGT
64 AAATACCCCTGTAAGGT
* * * * * * * * *
3040930 AGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTG
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTA-AAATTACCG
*
3040994 AAATACCCCTGTAGGGT
64 AAATACCCCTGTAAGGT
* * * * * * * * *
3041011 AGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTG
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTA-AAATTACCG
*
3041075 AAATACCCCTGTAGGGT
64 AAATACCCCTGTAAGGT
* * * * * * * * *
3041092 AGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTG
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTA-AAATTACCG
*
3041156 AAATACCCCTGTAGGGT
64 AAATACCCCTGTAAGGT
* * * * * * * * *
3041173 AGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTG
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTA-AAATTACCG
*
3041237 AAATACCCCTGTAGGGT
64 AAATACCCCTGTAAGGT
* * * * * * * * *
3041254 AGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTG
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTA-AAATTACCG
*
3041318 AAATACCCCTGTAGGGT
64 AAATACCCCTGTAAGGT
* * * * * * * * *
3041335 AGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTG
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTA-AAATTACCG
*
3041399 AAATACCCCTGTAGGGT
64 AAATACCCCTGTAAGGT
* * * * * * * * *
3041416 AGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTG
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTA-AAATTACCG
*
3041480 AAATACCCCTGTAGGGT
64 AAATACCCCTGTAAGGT
* * * * * * * * *
3041497 AGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTG
1 AAAATTACCAAAATA-CCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTA-AAATTACCG
*
3041561 AAATACCCCTGTAGGGT
64 AAATACCCCTGTAAGGT
* * * *
3041578 AGAATTACCGAGATACCCTCGTGGGGTAAAATTACCA
1 AAAATTACCAAAATACCCT-GTAGGGTAAAATTACCA
3041615 TTTTGCCCCT
Statistics
Matches: 894, Mismatches: 28, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
80 4 0.00
81 880 0.98
82 7 0.01
83 1 0.00
84 2 0.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTAAAATTACCGAA
ATACCCCTGTAAGGT
Found at i:3041613 original size:162 final size:162
Alignment explanation
Indices: 3040669--3041585 Score: 1726
Period size: 162 Copynumber: 5.7 Consensus size: 162
3040659 TAAAATTATC
* * ** * * * * *
3040669 GAAATACCCCTGTAAGGTAAAATTACCGAAATATCCCTGTAGGGTAGAATTACTGAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
* * *
3040734 GTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
3040799 TTACCGAAATACCCTTGTAGGGTAGAAATACT
131 TTACCGAAATACCCTTGTAGGGTAGAAATACT
3040831 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
3040896 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
3040961 TTACCGAAATACCCTTGTAGGGTAGAAATACT
131 TTACCGAAATACCCTTGTAGGGTAGAAATACT
3040993 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
3041058 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
3041123 TTACCGAAATACCCTTGTAGGGTAGAAATACT
131 TTACCGAAATACCCTTGTAGGGTAGAAATACT
3041155 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
3041220 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
3041285 TTACCGAAATACCCTTGTAGGGTAGAAATACT
131 TTACCGAAATACCCTTGTAGGGTAGAAATACT
3041317 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
3041382 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
3041447 TTACCGAAATACCCTTGTAGGGTAGAAATACT
131 TTACCGAAATACCCTTGTAGGGTAGAAATACT
3041479 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
3041544 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTAC
66 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTAC
3041586 CGAGATACCC
Statistics
Matches: 743, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 743 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (162 bp):
GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
TTACCGAAATACCCTTGTAGGGTAGAAATACT
Found at i:3041613 original size:243 final size:243
Alignment explanation
Indices: 3040669--3041585 Score: 1726
Period size: 243 Copynumber: 3.8 Consensus size: 243
3040659 TAAAATTATC
* * ** * * * * *
3040669 GAAATACCCCTGTAAGGTAAAATTACCGAAATATCCCTGTAGGGTAGAATTACTGAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
* * *
3040734 GTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
3040799 TTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATA
131 TTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATA
3040864 CCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACT
196 CCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACT
3040912 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
3040977 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
3041042 TTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATA
131 TTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATA
3041107 CCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACT
196 CCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACT
3041155 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
3041220 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
3041285 TTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATA
131 TTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATA
3041350 CCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACT
196 CCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACT
3041398 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
3041463 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
3041528 TTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTAC
131 TTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTAC
3041586 CGAGATACCC
Statistics
Matches: 662, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 662 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (243 bp):
GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCGAAATACCCTT
GTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
TTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATA
CCCCTATAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACT
Found at i:3042264 original size:27 final size:26
Alignment explanation
Indices: 3042220--3042271 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
3042210 CTCGCTGTAA
*
3042220 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
3042247 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
3042272 GTAGACTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:3042341 original size:26 final size:27
Alignment explanation
Indices: 3042312--3042369 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
3042302 ACATATATAA
*
3042312 ATCTGT-TCTGGTGGCCTAGCCACAAT
1 ATCTGTATCTGGTGACCTAGCCACAAT
* * *
3042338 ATCTGTATCTGGTGACTTCGTCACAAT
1 ATCTGTATCTGGTGACCTAGCCACAAT
3042365 ATCTG
1 ATCTG
3042370 GCAGCCTCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
ATCTGTATCTGGTGACCTAGCCACAAT
Found at i:3044644 original size:27 final size:27
Alignment explanation
Indices: 3044465--3044662 Score: 177
Period size: 27 Copynumber: 7.3 Consensus size: 27
3044455 TTAGTTTACC
* *
3044465 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTCT-ACTTGTA
* * *
3044492 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCTACTTGTA
***
3044519 AAATTATTGAAATACCCTCTACTTGTA
1 AAATTACCAAAATACCCTCTACTTGTA
* *
3044546 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTCT-ACTTGTA
* * *
3044573 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCTACTTGTA
***
3044600 AAATTATTGAAATACCCTCTACTTGTA
1 AAATTACCAAAATACCCTCTACTTGTA
* * *
3044627 AAATTACCAAAGTACCCT-TGATTTATA
1 AAATTACCAAAATACCCTCT-ACTTGTA
3044654 AAATTACCA
1 AAATTACCA
3044663 TTTTACCCTC
Statistics
Matches: 138, Mismatches: 29, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
26 3 0.02
27 133 0.96
28 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCTACTTGTA
Found at i:3044660 original size:81 final size:81
Alignment explanation
Indices: 3044465--3044643 Score: 349
Period size: 81 Copynumber: 2.2 Consensus size: 81
3044455 TTAGTTTACC
3044465 AAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGAA
3044530 ATACCCTCTACTTGTA
66 ATACCCTCTACTTGTA
3044546 AAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGAA
3044611 ATACCCTCTACTTGTA
66 ATACCCTCTACTTGTA
*
3044627 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
3044644 TTGATTTATA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 97 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGAA
ATACCCTCTACTTGTA
Found at i:3044669 original size:27 final size:27
Alignment explanation
Indices: 3044639--3044751 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 27
3044629 ATTACCAAAG
* *
3044639 TACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * **
3044666 TACCCTCAATTGACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
3044693 TACCCTCGATTTACAAAATTACGATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
3044720 TACCCTCTATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
3044747 TACCC
1 TACCC
3044752 CTAGGGTGTT
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:3044748 original size:54 final size:54
Alignment explanation
Indices: 3044612--3044751 Score: 154
Period size: 54 Copynumber: 2.6 Consensus size: 54
3044602 ATTATTGAAA
* ** *** * *
3044612 TACCCTCTACTTGTAAAATTACCAAAGTACCCTTGATTTATAAAATTACCATTT
1 TACCCTCTATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTT
* * * ** *
3044666 TACCCTCAATTGACAGAATTACTGTTTTACCCTCGATTTACAAAATTACGATTT
1 TACCCTCTATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTT
3044720 TACCCTCTATTTACAAAATTACCATTTTACCC
1 TACCCTCTATTTACAAAATTACCATTTTACCC
3044752 CTAGGGTGTT
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (54 bp):
TACCCTCTATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTT
Found at i:3044837 original size:42 final size:42
Alignment explanation
Indices: 3044778--3044861 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
3044768 TTGTTTTGCC
3044778 CTTGTGGGCAAGTAACTGACTTAGACTGTGTGGTTGACGGAT
1 CTTGTGGGCAAGTAACTGACTTAGACTGTGTGGTTGACGGAT
*
3044820 CTTGTGGGCAAGTAACTGACTTGGACTGTGTGGTTGACGGAT
1 CTTGTGGGCAAGTAACTGACTTAGACTGTGTGGTTGACGGAT
3044862 TTGATTGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.20, C:0.14, G:0.35, T:0.31
Consensus pattern (42 bp):
CTTGTGGGCAAGTAACTGACTTAGACTGTGTGGTTGACGGAT
Found at i:3045157 original size:27 final size:26
Alignment explanation
Indices: 3045119--3045178 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
3045109 CCACATATAT
* *
3045119 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
3045145 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
3045172 ATATCTG
1 ATATCTG
3045179 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:3046503 original size:119 final size:119
Alignment explanation
Indices: 3046228--3046578 Score: 524
Period size: 119 Copynumber: 2.9 Consensus size: 119
3046218 CGGATGATAA
* *
3046228 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
* *
3046293 CGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
66 TGCGAGTTACT-AAACCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
3046348 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
* ** * *
3046413 TGCGAATTGTTAAATCCGGGTTATGTCCCGAAGG-ATTTGTGTGAGTTACCAAAT
66 TGCGAGTTACTAAA-CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
3046467 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGCTACTAAATCTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
3046532 TGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
66 TGCGAGTTACTA-AACCGGGCTATGTCCCGAAGGCATTTGTGCGAGT
3046579 AGCTATATCC
Statistics
Matches: 204, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
119 108 0.53
120 96 0.47
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAACCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:3046585 original size:40 final size:40
Alignment explanation
Indices: 3046228--3046578 Score: 499
Period size: 40 Copynumber: 8.8 Consensus size: 40
3046218 CGGATGATAA
* *
3046228 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
3046268 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
3046308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
3046348 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * * **
3046388 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGTTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * * *
3046428 CCGGGTTATGTCCCGAAGG-ATTTGTGTGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
3046467 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
3046507 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* *
3046547 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
3046579 AGCTATATCC
Statistics
Matches: 280, Mismatches: 29, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
39 30 0.11
40 248 0.89
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:3054540 original size:40 final size:40
Alignment explanation
Indices: 3054483--3054632 Score: 203
Period size: 40 Copynumber: 3.8 Consensus size: 40
3054473 GATGATAACT
* *
3054483 GGGCTAAGTCCCAAAGGCATTTGTGCGAGCTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
3054523 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
3054563 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
* * * *
3054603 GGGCTATGCCCCGAAGGCATTCGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
3054633 ATCTATATCC
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 97 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:3056073 original size:6 final size:6
Alignment explanation
Indices: 3056042--3056222 Score: 122
Period size: 6 Copynumber: 29.3 Consensus size: 6
3056032 TTGCATTCAC
* * *
3056042 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTC
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* *
3056092 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
3056141 ATTCTG -TTACCTA ATTCTA ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
3056191 ATTCTA ATTTTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
3056223 AATGTTTCTT
Statistics
Matches: 138, Mismatches: 20, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
5 10 0.07
6 107 0.78
7 14 0.10
8 7 0.05
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Done.