Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold287
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: 1864789
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 140151 characters in sequence are not A, C, G, or T
File 4 of 7
Found at i:691769 original size:9 final size:9
Alignment explanation
Indices: 691755--691887 Score: 138
Period size: 9 Copynumber: 15.7 Consensus size: 9
691745 GATTTAGGAA
691755 TAAGTTATG
1 TAAGTTATG
691764 TAAGTTATG
1 TAAGTTATG
*
691773 TAAGTTGTG
1 TAAGTTATG
*
691782 TAAGTTGTG
1 TAAGTTATG
*
691791 -GA-TTATG
1 TAAGTTATG
* *
691798 AAACTTATG
1 TAAGTTATG
*
691807 TAAGTTGTG
1 TAAGTTATG
691816 T-A-TTATG
1 TAAGTTATG
691823 TAAGTTATG
1 TAAGTTATG
691832 TAAGTTATG
1 TAAGTTATG
*
691841 T-A-TTAAG
1 TAAGTTATG
*
691848 TAGGTTATG
1 TAAGTTATG
691857 TAAGTTATG
1 TAAGTTATG
691866 T-A-TTATG
1 TAAGTTATG
691873 TAAGTTATG
1 TAAGTTATG
691882 TAAGTT
1 TAAGTT
691888 TTTGTTTTTG
Statistics
Matches: 104, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
7 20 0.19
8 7 0.07
9 77 0.74
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:691823 original size:16 final size:17
Alignment explanation
Indices: 691802--691883 Score: 100
Period size: 16 Copynumber: 4.9 Consensus size: 17
691792 ATTATGAAAC
*
691802 TTATGTAAGTTGTGTA-
1 TTATGTAAGTTATGTAG
691818 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGT-AG
*
691836 TTATGT-A-TTAAGTAGG
1 TTATGTAAGTTATGTA-G
691852 TTATGTAAGTTATGTA-
1 TTATGTAAGTTATGTAG
691868 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
691884 AGTTTTTGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
15 1 0.02
16 42 0.72
17 3 0.05
18 12 0.21
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (17 bp):
TTATGTAAGTTATGTAG
Found at i:691827 original size:50 final size:50
Alignment explanation
Indices: 691755--691887 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 50
691745 GATTTAGGAA
* * *
691755 TAAGTTATGTAAGTTATGTAAGTTGTGTAAGTTGTGGATTATGAAACTTATG
1 TAAGTTATGT-A-TTATGTAAGTTATGTAAGTTATGGATTAAGAAACTTATG
* * * **
691807 TAAGTTGTGTATTATGTAAGTTATGTAAGTTATGTATTAAGTAGGTTATG
1 TAAGTTATGTATTATGTAAGTTATGTAAGTTATGGATTAAGAAACTTATG
691857 TAAGTTATGTATTATGTAAGTTATGTAAGTT
1 TAAGTTATGTATTATGTAAGTTATGTAAGTT
691888 TTTGTTTTTG
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 62 0.86
51 1 0.01
52 9 0.12
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (50 bp):
TAAGTTATGTATTATGTAAGTTATGTAAGTTATGGATTAAGAAACTTATG
Found at i:691884 original size:25 final size:25
Alignment explanation
Indices: 691755--691977 Score: 67
Period size: 25 Copynumber: 8.8 Consensus size: 25
691745 GATTTAGGAA
*
691755 TAAGTTATGTAAGTTATGTAAGTTGTG
1 TAAGTTATGTAAGTTATGT-A-TTATG
* * *
691782 TAAGTTGTG-GA-TTATGAAACTTATG
1 TAAGTTATGTAAGTTATG-TA-TTATG
*
691807 TAAGTTGTGT-A-TTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGT-A-TTATG
*
691832 TAAGTTATGT-A-TTAAGTAGGTTATG
1 TAAGTTATGTAAGTTATGTA--TTATG
691857 TAAGTTATGT-A-TTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGT-A-TTATG
* ** *
691882 TAAGTTTTTGT-TTTTGTGTATTATG
1 TAAG-TTATGTAAGTTATGTATTATG
* * * * *
691907 TAACTTTTTTAATTTATGTAAGTATG
1 TAAGTTATGTAAGTTATGT-ATTATG
691933 TATTA-TTATGTAAGTTAT-TATGTA-G
1 TA--AGTTATGTAAGTTATGTAT-TATG
*
691958 GATA-TTATGTAAGTTATGTA
1 TA-AGTTATGTAAGTTATGTA
691978 AGTTTTTGTT
Statistics
Matches: 160, Mismatches: 23, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
24 21 0.13
25 97 0.61
26 18 0.11
27 23 0.14
28 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.49
Consensus pattern (25 bp):
TAAGTTATGTAAGTTATGTATTATG
Found at i:691904 original size:34 final size:34
Alignment explanation
Indices: 691864--692045 Score: 98
Period size: 34 Copynumber: 5.5 Consensus size: 34
691854 ATGTAAGTTA
691864 TGTATTATGTAAGTTATGTAAGTTTTTGTTTTTG
1 TGTATTATGTAAGTTATGTAAGTTTTTGTTTTTG
* * * * *
691898 TGTATTATGTAACTTTTTTAA-TTTATG----TA
1 TGTATTATGTAAGTTATGTAAGTTTTTGTTTTTG
* * * * *
691927 AGTATGTAT-T-A-TTATGTAAGTTATT-ATGTAG
1 TGTAT-TATGTAAGTTATGTAAGTTTTTGTTTTTG
691958 -GATATTATGTAAGTTATGTAAGTTTTTGTTTTTG
1 TG-TATTATGTAAGTTATGTAAGTTTTTGTTTTTG
* * * *
691992 TGTACTATGTAACTTATTTAA-TTTATGTATGTTATG
1 TGTATTATGTAAGTTATGTAAGTTTTTGT-T-TT-TG
*
692028 TATTATTATGTAAGTTAT
1 T-GTATTATGTAAGTTAT
692046 TATGTAGGTT
Statistics
Matches: 109, Mismatches: 23, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
27 6 0.06
28 4 0.04
29 6 0.06
30 7 0.06
31 4 0.04
32 1 0.01
33 24 0.22
34 38 0.35
35 3 0.03
36 3 0.03
37 13 0.12
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (34 bp):
TGTATTATGTAAGTTATGTAAGTTTTTGTTTTTG
Found at i:691926 original size:43 final size:43
Alignment explanation
Indices: 691877--692020 Score: 137
Period size: 43 Copynumber: 3.2 Consensus size: 43
691867 ATTATGTAAG
691877 TTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTTTTTAAT
1 TTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTTTTTAAT
* * * * *
691920 TTATGTAAGTATGTATTATTATGTAAGTTATTATGTAGGA-TATTATGTAAG
1 TTATGTAAGTTTTTGTT-TT-TGT--G-TATTATGTA--ACT-TT-TTTAAT
* *
691971 TTATGTAAGTTTTTGTTTTTGTGTACTATGTAACTTATTTAAT
1 TTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTTTTTAAT
692014 TTATGTA
1 TTATGTA
692021 TGTTATGTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
43 25 0.32
44 4 0.05
45 4 0.05
46 8 0.10
47 2 0.03
48 9 0.11
49 4 0.05
50 5 0.06
51 18 0.23
ACGTcount: A:0.26, C:0.02, G:0.16, T:0.56
Consensus pattern (43 bp):
TTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTTTTTAAT
Found at i:691952 original size:12 final size:12
Alignment explanation
Indices: 691935--692074 Score: 83
Period size: 12 Copynumber: 11.8 Consensus size: 12
691925 TAAGTATGTA
691935 TTATTATGTAAG
1 TTATTATGTAAG
*
691947 TTATTATGTAGG
1 TTATTATGTAAG
*
691959 ATATTATGTAAG
1 TTATTATGTAAG
691971 ---TTATGTAAG
1 TTATTATGTAAG
* * * **
691980 TTTTTGTTTTTG
1 TTATTATGTAAG
* *
691992 TGTACTATGTAAC
1 T-TATTATGTAAG
* *
692005 TTATTTAATTTATG
1 TTA-TT-ATGTAAG
*
692019 TATGTTATGT-A-
1 T-TATTATGTAAG
692030 TTATTATGTAAG
1 TTATTATGTAAG
*
692042 TTATTATGTAGG
1 TTATTATGTAAG
692054 TTATTATGTAAG
1 TTATTATGTAAG
*
692066 TCATTATGT
1 TTATTATGT
692075 TGGTTGTGTA
Statistics
Matches: 94, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
9 9 0.10
10 7 0.07
11 2 0.02
12 59 0.63
13 9 0.10
14 7 0.07
15 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:691978 original size:94 final size:95
Alignment explanation
Indices: 691818--692066 Score: 364
Period size: 94 Copynumber: 2.7 Consensus size: 95
691808 AAGTTGTGTA
* * * * *
691818 TTATGTAAGTTATGTAAGTTATGTATTA--A-GTAGGTTATGTAAGTTATG-TATTATGTAAGTT
1 TTATTTAATTTATGTAAGTTATGTATTATTATGTAAGTTAT-TATG-TAGGATATTATGTAAGTT
*
691879 ATGTAAGTTTTTGTTTTTGTGTATTATGTAAC
64 ATGTAAGTTTTTGTTTTTGTGTACTATGTAAC
*
691911 TTTTTTAATTTATGTAAG-TATGTATTATTATGTAAGTTATTATGTAGGATATTATGTAAGTTAT
1 TTATTTAATTTATGTAAGTTATGTATTATTATGTAAGTTATTATGTAGGATATTATGTAAGTTAT
691975 GTAAGTTTTTGTTTTTGTGTACTATGTAAC
66 GTAAGTTTTTGTTTTTGTGTACTATGTAAC
* *
692005 TTATTTAATTTATGTATGTTATGTATTATTATGTAAGTTATTATGTAGGTTATTATGTAAGT
1 TTATTTAATTTATGTAAGTTATGTATTATTATGTAAGTTATTATGTAGGATATTATGTAAGT
692067 CATTATGTTG
Statistics
Matches: 141, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
92 9 0.06
93 18 0.13
94 64 0.45
95 50 0.35
ACGTcount: A:0.28, C:0.01, G:0.18, T:0.53
Consensus pattern (95 bp):
TTATTTAATTTATGTAAGTTATGTATTATTATGTAAGTTATTATGTAGGATATTATGTAAGTTAT
GTAAGTTTTTGTTTTTGTGTACTATGTAAC
Found at i:692114 original size:95 final size:95
Alignment explanation
Indices: 691828--692122 Score: 286
Period size: 94 Copynumber: 3.1 Consensus size: 95
691818 TTATGTAAGT
* * * *
691828 TATGTAAGTTATGTATTA--A-GTAGGTTATGTAAGTTATG-TATTATGTAAGTTATGTAAGTTT
1 TATGTAAGTTATGTATTATTATGTAAGTTAT-TATG-TAGGATATTATGTAAGTCATGTAAGTTT
** * * * *
691889 TTGTTTTTGTGTATTATGTAACTTTTTTAATT
64 TTGTAGTTGTGGACTATGTAACTTATTTAATG
*
691921 TATGTAAG-TATGTATTATTATGTAAGTTATTATGTAGGATATTATGTAAGTTATGTAAGTTTTT
1 TATGTAAGTTATGTATTATTATGTAAGTTATTATGTAGGATATTATGTAAGTCATGTAAGTTTTT
** * *
691985 GTTTTTGTGTACTATGTAACTTATTTAATT
66 GTAGTTGTGGACTATGTAACTTATTTAATG
* * *
692015 TATGTATGTTATGTATTATTATGTAAGTTATTATGTAGGTTATTATGTAAGTCAT-TATGTTGGT
1 TATGTAAGTTATGTATTATTATGTAAGTTATTATGTAGGATATTATGTAAGTCATGTAAGTT--T
*
692079 TGTGTAAGTTG-GGA-TATGATTAC-TATTT-ATG
64 T-TGT-AGTTGTGGACTATG-TAACTTATTTAATG
692110 TATGTAAGTTATG
1 TATGTAAGTTATG
692123 ATATGATTGC
Statistics
Matches: 177, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
92 9 0.05
93 11 0.06
94 69 0.39
95 66 0.37
96 11 0.06
97 8 0.05
98 3 0.02
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.52
Consensus pattern (95 bp):
TATGTAAGTTATGTATTATTATGTAAGTTATTATGTAGGATATTATGTAAGTCATGTAAGTTTTT
GTAGTTGTGGACTATGTAACTTATTTAATG
Found at i:692232 original size:20 final size:20
Alignment explanation
Indices: 692210--692246 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
692200 ATGTATCAAT
692210 TTTTAAAA-ATATATATAAA
1 TTTTAAAATATATATATAAA
692229 TTTTAAAATATATATATA
1 TTTTAAAATATATATATA
692247 TATAAACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAAAATATATATATAAA
Found at i:692238 original size:18 final size:18
Alignment explanation
Indices: 692210--692269 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
692200 ATGTATCAAT
692210 TTTTAAAAATATATATAAA
1 TTTT-AAAATATATATAAA
*
692229 TTTTAAAATATATATATA
1 TTTTAAAATATATATAAA
* *
692247 -TATAAACTATATATAAA
1 TTTTAAAATATATATAAA
*
692264 TATTAA
1 TTTTAA
692270 TAAGTTATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 14 0.41
18 16 0.47
19 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTTAAAATATATATAAA
Found at i:692257 original size:17 final size:17
Alignment explanation
Indices: 692215--692266 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
692205 TCAATTTTTA
*
692215 AAAATATATATAAATTTT
1 AAAATATATATAAA-TAT
*
692233 AAAATATATATATATAT
1 AAAATATATATAAATAT
*
692250 AAACTATATATAAATAT
1 AAAATATATATAAATAT
692267 TAATAAGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATATATAAATAT
Found at i:692284 original size:9 final size:9
Alignment explanation
Indices: 692270--692350 Score: 60
Period size: 9 Copynumber: 9.0 Consensus size: 9
692260 TAAATATTAA
692270 TAAGTTATG
1 TAAGTTATG
692279 TAAGTTATG
1 TAAGTTATG
* *
692288 TATTA-TAAATT
1 TA--AGT-TATG
*
692299 TAAGTTACG
1 TAAGTTATG
692308 TAAGTTATG
1 TAAGTTATG
692317 -AA-TTATG
1 TAAGTTATG
*
692324 TAAGATATG
1 TAAGTTATG
* *
692333 TAAATTACG
1 TAAGTTATG
692342 TAAGTTATG
1 TAAGTTATG
692351 AAATTTGAAC
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
7 5 0.09
8 4 0.07
9 38 0.70
10 2 0.04
11 5 0.09
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (9 bp):
TAAGTTATG
Found at i:692312 original size:29 final size:33
Alignment explanation
Indices: 692270--692352 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 33
692260 TAAATATTAA
* *
692270 TAAGTTATGTAAGTTATGTATTA-TAA-AT-T-
1 TAAGTTACGTAAGTTATGAATTAGTAAGATATG
692299 TAAGTTACGTAAGTTATGAATTATGTAAGATATG
1 TAAGTTACGTAAGTTATGAATTA-GTAAGATATG
*
692333 TAAATTACGTAAGTTATGAA
1 TAAGTTACGTAAGTTATGAA
692353 ATTTGAACTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
29 21 0.46
31 3 0.07
32 2 0.04
33 1 0.02
34 19 0.41
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.41
Consensus pattern (33 bp):
TAAGTTACGTAAGTTATGAATTAGTAAGATATG
Found at i:692344 original size:18 final size:17
Alignment explanation
Indices: 692303--692355 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
692293 TAAATTTAAG
692303 TTACGTAAGTTATG-AA
1 TTACGTAAGTTATGAAA
* *
692319 TTATGTAAGATATGTAAA
1 TTACGTAAGTTATG-AAA
692337 TTACGTAAGTTATGAAA
1 TTACGTAAGTTATGAAA
692354 TT
1 TT
692356 TGAACTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 12 0.39
17 5 0.16
18 14 0.45
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.40
Consensus pattern (17 bp):
TTACGTAAGTTATGAAA
Found at i:692413 original size:35 final size:35
Alignment explanation
Indices: 692374--692454 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
692364 AAAAAAATTT
* *
692374 AATATTTAAAAATATTCGTGATTCAAATAAAATAA
1 AATATTTAAAAAAATTCGTGATTAAAATAAAATAA
692409 AATATTTAAAAAAATTCGTGATTAAAATAAAATAA
1 AATATTTAAAAAAATTCGTGATTAAAATAAAATAA
692444 AATATTTAAAA
1 AATATTTAAAA
692455 TATAACTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (35 bp):
AATATTTAAAAAAATTCGTGATTAAAATAAAATAA
Found at i:692634 original size:18 final size:19
Alignment explanation
Indices: 692598--692635 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
692588 TTGGACCAAT
692598 TTATTTATCCATGTTAATA
1 TTATTTATCCATGTTAATA
692617 TTATTTA-CACAT-TTAATA
1 TTATTTATC-CATGTTAATA
692635 T
1 T
692636 AGGTTACAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (19 bp):
TTATTTATCCATGTTAATA
Found at i:694004 original size:42 final size:41
Alignment explanation
Indices: 693957--694094 Score: 129
Period size: 42 Copynumber: 3.3 Consensus size: 41
693947 TTTAAACAAA
* *
693957 CGCCGCTAATGTTATGGTTTTTAGTGGCGTTTTTTTTCTGAG
1 CGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTTTTTT-TAAG
* * * **
693999 CGCCGCTAACT-TTAGGGATTTTAGCGGCG-TTTTTGATAATG
1 CGCCGCTAA-TGTTAAGGTTTTTAGTGGCGTTTTTTTTTAA-G
* *
694040 CGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAG
1 CGCCGCTAAT-GTTAAGGTTTTTAGTGGCGTTT-TTTTTTAAG
694082 CGCCGCTAATGTT
1 CGCCGCTAATGTT
694095 GGAGTTTTAG
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 28 0.36
42 37 0.47
43 9 0.12
ACGTcount: A:0.17, C:0.16, G:0.27, T:0.41
Consensus pattern (41 bp):
CGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTTTTTTTAAG
Found at i:694084 original size:83 final size:82
Alignment explanation
Indices: 693957--694113 Score: 205
Period size: 83 Copynumber: 1.9 Consensus size: 82
693947 TTTAAACAAA
* * **
693957 CGCCGCTAATGTTATGGTTTTTAGTGGCGTTTTTTTTCTGAGCGCCGCTAACT-TTAGG-GATTT
1 CGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTTTTGTCAAAGCGCCGCTAA-TGTT-GGAG-TTT
694020 TAGCGGCGTTTTTGATAATG
63 TAGCGGCGTTTTTGATAATG
694040 CGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGT-AAAGCGCCGCTAATGTTGGAGTTTT
1 CGCCGCTAAT-GTTAAGGTTTTTAGTGGCGTTT-TTTGTCAAAGCGCCGCTAATGTTGGAGTTTT
694103 AGCGGCGTTTT
64 AGCGGCGTTTT
694114 GATGGAAACG
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
82 20 0.30
83 42 0.64
84 4 0.06
ACGTcount: A:0.16, C:0.15, G:0.28, T:0.41
Consensus pattern (82 bp):
CGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTTTTGTCAAAGCGCCGCTAATGTTGGAGTTTTAG
CGGCGTTTTTGATAATG
Found at i:694102 original size:42 final size:41
Alignment explanation
Indices: 693957--694113 Score: 144
Period size: 41 Copynumber: 3.8 Consensus size: 41
693947 TTTAAACAAA
* * * **
693957 CGCCGCTAATGTTATGGTTTTTAGTGGCGTTTTTTTTCTGAG
1 CGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTTTTGT-AAAG
* *
693999 CGCCGCTAACT-TTAGGGATTTTAGCGGCG-TTTTTGATAATG
1 CGCCGCTAA-TGTTAGGGTTTTTAGCGGCGTTTTTTG-TAAAG
* *
694040 CGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAG
1 CGCCGCTAAT-GTTAGGGTTTTTAGCGGCGTTT-TTTGTAAAG
694082 CGCCGCTAATGTT-GGAG-TTTTAGCGGCGTTTT
1 CGCCGCTAATGTTAGG-GTTTTTAGCGGCGTTTT
694114 GATGGAAACG
Statistics
Matches: 94, Mismatches: 13, Indels: 18
0.75 0.10 0.14
Matches are distributed among these distances:
39 1 0.01
40 2 0.02
41 42 0.45
42 42 0.45
43 7 0.07
ACGTcount: A:0.16, C:0.15, G:0.28, T:0.41
Consensus pattern (41 bp):
CGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTTTTGTAAAG
Found at i:695723 original size:11 final size:11
Alignment explanation
Indices: 695692--695734 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
695682 ATCACTTTTC
*
695692 TCCCCAAAAAT
1 TCCCCCAAAAT
695703 TCCCCTCAAAAT
1 TCCCC-CAAAAT
* *
695715 TTCCCCAAAAA
1 TCCCCCAAAAT
695726 TCCCCCAAA
1 TCCCCCAAA
695735 TCTTGAACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.19
Consensus pattern (11 bp):
TCCCCCAAAAT
Found at i:725298 original size:44 final size:44
Alignment explanation
Indices: 725168--725315 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 44
725158 AATGCCTACA
* *
725168 TCCCAAACGA-GGTCTTACATGT-AATC-CAATATCGATGCCACTG
1 TCCCAAAC-ATGGTCTTACACGTAAATCTCAA-ATCGATGCCAATG
** * * * *
725211 TCCCTGACAGGGTCTTACAC--AAA-ATCATATACGATGCCGATG
1 TCCCAAACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAATG
*
725253 TCCCAAACATGGTCTTACACGTAAATCTCAAATCAATGCCAATG
1 TCCCAAACATGGTCTTACACGTAAATCTCAAATCGATGCCAATG
* *
725297 TCCCAGACGTGGTCTTACA
1 TCCCAAACATGGTCTTACA
725316 TGATATCATA
Statistics
Matches: 82, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
41 2 0.02
42 31 0.38
43 15 0.18
44 29 0.35
45 5 0.06
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (44 bp):
TCCCAAACATGGTCTTACACGTAAATCTCAAATCGATGCCAATG
Found at i:726418 original size:13 final size:13
Alignment explanation
Indices: 726400--726426 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
726390 AACAAACGAT
726400 AAAATTTTCACAC
1 AAAATTTTCACAC
726413 AAAATTTTCACAC
1 AAAATTTTCACAC
726426 A
1 A
726427 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:728709 original size:21 final size:23
Alignment explanation
Indices: 728684--728729 Score: 78
Period size: 21 Copynumber: 2.1 Consensus size: 23
728674 NNNNNAAAAT
728684 AATTTTAAAAAAT-ATATT-TAA
1 AATTTTAAAAAATCATATTATAA
728705 AATTTTAAAAAATCATATTATAA
1 AATTTTAAAAAATCATATTATAA
728728 AA
1 AA
728730 CATTTCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.57
22 5 0.22
23 5 0.22
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AATTTTAAAAAATCATATTATAA
Found at i:728844 original size:24 final size:25
Alignment explanation
Indices: 728798--728851 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
728788 AAAATTAAAG
* **
728798 AAAAGCTTAAAAAGTAAGTAAATAA
1 AAAAGCTTAAAAAGAAAAAAAATAA
*
728823 AAAAG-TTAAAAAGAAAAAAAATGA
1 AAAAGCTTAAAAAGAAAAAAAATAA
728847 AAAAG
1 AAAAG
728852 GACAAAGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (25 bp):
AAAAGCTTAAAAAGAAAAAAAATAA
Found at i:730917 original size:41 final size:40
Alignment explanation
Indices: 730752--730937 Score: 137
Period size: 40 Copynumber: 4.6 Consensus size: 40
730742 GATTAATCGA
* * * *
730752 CTATGTTTAGCACTTAGTGTG-TGATT-TGAGATAGCTTCCG
1 CTATGTATGGCACTTAGTGTGCGGATTAT-A-ATAGCTTCGG
* ** *
730792 CTATTTATGGCACTTAGTGTGC-GATTGGGAATAGCTTTGG
1 CTATGTATGGCACTTAGTGTGCGGATT-ATAATAGCTTCGG
* * * *
730832 CTATATATGGCACTTAGTGTGCGAGACTGAT-GTAGCTTCAG
1 CTATGTATGGCACTTAGTGTGCG-GA-TTATAATAGCTTCGG
* *
730873 CTATGTAAGGCACTTAGTGTGCGGGATTATAATAACTTCGG
1 CTATGTATGGCACTTAGTGTGC-GGATTATAATAGCTTCGG
* *
730914 CTATGCGATGGCATTTAGTGTGCG
1 CTATG-TATGGCACTTAGTGTGCG
730938 AAACATTGAG
Statistics
Matches: 115, Mismatches: 22, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
40 54 0.47
41 43 0.37
42 17 0.15
43 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (40 bp):
CTATGTATGGCACTTAGTGTGCGGATTATAATAGCTTCGG
Found at i:737615 original size:41 final size:40
Alignment explanation
Indices: 737482--737668 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
737472 GATTAATCGA
* * * ** * * *
737482 CTATGTTTAGCACTTAGTGTGAGATTTGAGATAGCTCCCG
1 CTATGTATGGCACTTAGTGTGCGAGATGATATAGCTTCGG
* *
737522 CTATTTATGGCACTTAGTGTGCGATTG-GGAT-TAGCTTCGG
1 CTATGTATGGCACTTAGTGTGCGA--GATGATATAGCTTCGG
*
737562 CTATATATGGCACTTAGTGTGCGAGACTGATATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGCGAGA-TGATATAGCTTCGG
* * *
737603 CTATGTAAGGCACTTAGTGTGCGGGATTATAATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGCGAGATGAT-ATAGCTTCGG
* *
737644 CTATGCGATGGCATTTAGTGTGCGA
1 CTATG-TATGGCACTTAGTGTGCGA
737669 AACATTGAGT
Statistics
Matches: 121, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
40 56 0.46
41 49 0.40
42 15 0.12
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (40 bp):
CTATGTATGGCACTTAGTGTGCGAGATGATATAGCTTCGG
Found at i:747063 original size:16 final size:15
Alignment explanation
Indices: 747024--747066 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
747014 CCCTAAAATG
747024 ATAAAATTTTAATTT
1 ATAAAATTTTAATTT
* **
747039 AGACCATTTATAATTT
1 ATAAAATTT-TAATTT
747055 ATAAAATTTTAA
1 ATAAAATTTTAA
747067 ATTAATAGTA
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (15 bp):
ATAAAATTTTAATTT
Found at i:748620 original size:133 final size:133
Alignment explanation
Indices: 748382--748661 Score: 479
Period size: 133 Copynumber: 2.1 Consensus size: 133
748372 TTTAGGCCTA
* **
748382 TAGCGGCGCTTTTAGGCGTCGCTAAAAGTATTTGCAGTGCTTTCACAAGCGTTGCAAAAAACACC
1 TAGCGGCGCTTTTAGGCGTCGCTAAAAGTATTTGCAGTGCTTTCAAAAGCGCCGCAAAAAACACC
* *
748447 GCTATAGACAATGTCGCTAAATTTTGCGGCGTTTTCTTCACATAAACGCTGCTATAGAGCATGAC
66 GCTATAAACAATGTCGCTAAATTTTGCGACGTTTTCTTCACATAAACGCTGCTATAGAGCATGAC
748512 CTT
131 CTT
* * *
748515 TAGCGGCGCTTTTAGGTGTCGCTAAAAGTATTTGCGGTGCTTTCAAAAGCGCCGCAAAAAACGCC
1 TAGCGGCGCTTTTAGGCGTCGCTAAAAGTATTTGCAGTGCTTTCAAAAGCGCCGCAAAAAACACC
*
748580 GCTATAAATAATGTCGCTAAATTTTGCGACGTTTTCTTCACATAAACGCTGCTATAGAGCATGAC
66 GCTATAAACAATGTCGCTAAATTTTGCGACGTTTTCTTCACATAAACGCTGCTATAGAGCATGAC
748645 CTT
131 CTT
748648 TAGCGGCGCTTTTA
1 TAGCGGCGCTTTTA
748662 TCTTAAGCGC
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 138 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (133 bp):
TAGCGGCGCTTTTAGGCGTCGCTAAAAGTATTTGCAGTGCTTTCAAAAGCGCCGCAAAAAACACC
GCTATAAACAATGTCGCTAAATTTTGCGACGTTTTCTTCACATAAACGCTGCTATAGAGCATGAC
CTT
Found at i:752602 original size:175 final size:175
Alignment explanation
Indices: 752306--752668 Score: 663
Period size: 175 Copynumber: 2.1 Consensus size: 175
752296 AAGACGTCAA
* * *
752306 CTTTTTTGACATACAACATCGTAAAGCAACTGGTAGTAAATCTTGCATGAAGATGTGATAATCAT
1 CTTTCTTGACATACAACACCGTAAAGCAACTGGCAGTAAATCTTGCATGAAGATGTGATAATCAT
*
752371 GTGATTTTAAGGAATATAGTCTTCGATCTCTAAGACTCACACATTGAGATATATTTGATGCATAC
66 GTGATTTTAAGGAATATAGTCTTCGATCTCTAAGACTCACACATTGAAATATATTTGATGCATAC
752436 GCATCTGGGACCTTTATATCCTTCAACACCATGCAGAACACTTCT
131 GCATCTGGGACCTTTATATCCTTCAACACCATGCAGAACACTTCT
*
752481 CTTTCTTGACATACAACACCGTAAAGCAATTGGCAGTAAATCTTGCATGAAGATGTGATAATCAT
1 CTTTCTTGACATACAACACCGTAAAGCAACTGGCAGTAAATCTTGCATGAAGATGTGATAATCAT
*
752546 GTGATTTTAAGGAATATAGTCTTCGATCTCTAAGACTCACACATTGAAATATATTTGATGCATAT
66 GTGATTTTAAGGAATATAGTCTTCGATCTCTAAGACTCACACATTGAAATATATTTGATGCATAC
752611 GCATCTGGGACCTTTATATCCTTCAACACCATGCAGAACACTTCT
131 GCATCTGGGACCTTTATATCCTTCAACACCATGCAGAACACTTCT
752656 CTTTCTTCGACAT
1 CTTTCTT-GACAT
752669 TGCAAAAATA
Statistics
Matches: 181, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
175 176 0.97
176 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (175 bp):
CTTTCTTGACATACAACACCGTAAAGCAACTGGCAGTAAATCTTGCATGAAGATGTGATAATCAT
GTGATTTTAAGGAATATAGTCTTCGATCTCTAAGACTCACACATTGAAATATATTTGATGCATAC
GCATCTGGGACCTTTATATCCTTCAACACCATGCAGAACACTTCT
Found at i:753988 original size:44 final size:43
Alignment explanation
Indices: 753934--754051 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 43
753924 TTGTGTGTTA
* *
753934 ACATGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTT
1 ACATGTAAGACCACGTCTGGGACGTTGGCATCGATATGT-AATT
* *
753978 ACGTGTAAGACC-CTGTATGGGACAG-TGGCATCGATATGTAATT
1 ACATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTAATT
* **
754021 ACATGTAAAACCACGTCTGGGTTGTTGGCAT
1 ACATGTAAGACCACGTCTGGGACGTTGGCAT
754052 TGAATGAGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
42 1 0.02
43 26 0.43
44 33 0.54
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
ACATGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAATT
Found at i:757717 original size:9 final size:9
Alignment explanation
Indices: 757703--757781 Score: 83
Period size: 9 Copynumber: 9.0 Consensus size: 9
757693 TAAGTATAAT
757703 TAAGTTATG
1 TAAGTTATG
757712 TAAGTTATG
1 TAAGTTATG
* * *
757721 ATATGATATA
1 -TAAGTTATG
*
757731 T-ATTTATG
1 TAAGTTATG
757739 -AA-TTATG
1 TAAGTTATG
757746 TAAGTTATG
1 TAAGTTATG
757755 TAAGTTATG
1 TAAGTTATG
*
757764 TGAGTTATG
1 TAAGTTATG
757773 TAAGTTATG
1 TAAGTTATG
757782 CTAATCTGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
7 5 0.09
8 6 0.11
9 40 0.70
10 6 0.11
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:763467 original size:424 final size:410
Alignment explanation
Indices: 762693--763527 Score: 1544
Period size: 424 Copynumber: 2.0 Consensus size: 410
762683 TTACAAATAA
762693 AAAATCCATTCATCTCTTGTACATATTCCTATGTCAATTTGACCGATAAAAAAATTATAAAAATA
1 AAAATCCATTCATCTCTTGTACATATTCCTATGTCAATTTGACCGATAAAAAAATTATAAAAATA
762758 AACATGTTATTGCACATACATACTTAATAGATTGAACAATCTCTCGCATATCAAATGATTATTGA
66 AACATGTTATTGCACATACATACTTAATAGATTGAACAATCTCTCGCATATCAAATGATTATTGA
762823 ACCTAATAAGCATATAAAAGACTATGTAAGGTAACAAAGTATCCTTACCTTGAAACAGTTTAATC
131 ACCTAATAAGCATATAAAAGACTATGTAAGGTAACAAAGTATCCTTACCTTGAAACAGTTTAATC
762888 ACAATAATCTTGCAAGTTATGCAAGGCATATGCATCGCCAAATACAATGCTAATCTAATCTTCAG
196 ACAATAATCTTGCAAGTTATGCAAGGCATATGCATCGCCAAATACAATGCTAATCTAATCTTCAG
762953 CTACCTTAGAAGAATTAAACATGCACTGATTAAGTACTGTGTCCATTAATTAAAATTTCAATGCA
261 CTACCTTAGAAGAATTAAACATGCACTGATTAAGTACTGTGTCCATTAATTAAAATTTCAATGCA
763018 TTTAAATAATTAGTTCTTTAGCTATCTTACAATTGTAATGCACGAATAACTTAATCATGGTTTTA
326 TTTAAATAATTAGTTCTTTAGCTATCTTACAATTGTAATGCACGAATAACTTAATCATGGTTTTA
763083 TTTAATCAAACATTTTACCG
391 TTTAATCAAACATTTTACCG
763103 AAAATCCATTCATCTCTTGTACATATTCCTATGTCAATTTGACCGATAAAAAAATTATAAAAATA
1 AAAATCCATTCATCTCTTGTACATATTCCTATGTCAATTTGACCGATAAAAAAATTATAAAAATA
763168 AACATGTTATTGCACATACATACTTAATAGATTGAACAATCTCTCGCATATTCCTATGTCGATTC
66 AACATGTTATTGCACATACATACTTAATAGATTGAACAATCTCTCG-------C-A--T--A-TC
763233 AAATGATTAATTGAACCTAATAAGCATATAAAAGACTATGTAAGGTAACAAAGTATCCTTACCTT
118 AAATGATT-ATTGAACCTAATAAGCATATAAAAGACTATGTAAGGTAACAAAGTATCCTTACCTT
763298 GAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATGCATCGCCAAATACAATGCT
182 GAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATGCATCGCCAAATACAATGCT
763363 AATCTAATCTTCAGCTACCTTAGAAGAATTAAACATGCACTGATTAAGTACTGTGTCCATTAATT
247 AATCTAATCTTCAGCTACCTTAGAAGAATTAAACATGCACTGATTAAGTACTGTGTCCATTAATT
763428 AAAATTTCAATGCATTTAAATAATTAGTTCTTTAGCTATCTTACAATTGTAATGCACGAATAACT
312 AAAATTTCAATGCATTTAAATAATTAGTTCTTTAGCTATCTTACAATTGTAATGCACGAATAACT
763493 TAATCATGGTTTTATTTAATCAAACATTTTACCG
377 TAATCATGGTTTTATTTAATCAAACATTTTACCG
763527 A
1 A
763528 GGCCTATAAC
Statistics
Matches: 411, Mismatches: 0, Indels: 14
0.97 0.00 0.03
Matches are distributed among these distances:
410 111 0.27
417 1 0.00
418 1 0.00
420 1 0.00
422 1 0.00
423 10 0.02
424 286 0.70
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.34
Consensus pattern (410 bp):
AAAATCCATTCATCTCTTGTACATATTCCTATGTCAATTTGACCGATAAAAAAATTATAAAAATA
AACATGTTATTGCACATACATACTTAATAGATTGAACAATCTCTCGCATATCAAATGATTATTGA
ACCTAATAAGCATATAAAAGACTATGTAAGGTAACAAAGTATCCTTACCTTGAAACAGTTTAATC
ACAATAATCTTGCAAGTTATGCAAGGCATATGCATCGCCAAATACAATGCTAATCTAATCTTCAG
CTACCTTAGAAGAATTAAACATGCACTGATTAAGTACTGTGTCCATTAATTAAAATTTCAATGCA
TTTAAATAATTAGTTCTTTAGCTATCTTACAATTGTAATGCACGAATAACTTAATCATGGTTTTA
TTTAATCAAACATTTTACCG
Found at i:770900 original size:24 final size:25
Alignment explanation
Indices: 770872--770947 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
770862 CATTAGGTTA
* *
770872 CGATAC-CAGCTCTTATGAGTTTAC
1 CGATACTCAGCTCATATGAGCTTAC
770896 CGATACTCAGCTCATATGAGCTTAC
1 CGATACTCAGCTCATATGAGCTTAC
* ** *
770921 C-ATTATTCAGCTCGGAGGAGCTTAC
1 CGA-TACTCAGCTCATATGAGCTTAC
770946 CG
1 CG
770948 TTATTTTAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.16
25 36 0.84
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (25 bp):
CGATACTCAGCTCATATGAGCTTAC
Found at i:776278 original size:14 final size:14
Alignment explanation
Indices: 776259--776293 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
776249 TTATTTACAT
*
776259 AAGTTTTAACATAC
1 AAGTTTTAACACAC
*
776273 AAGTTTTATCACAC
1 AAGTTTTAACACAC
776287 AAGTTTT
1 AAGTTTT
776294 TTATATTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (14 bp):
AAGTTTTAACACAC
Found at i:777776 original size:43 final size:43
Alignment explanation
Indices: 777710--778123 Score: 544
Period size: 43 Copynumber: 9.6 Consensus size: 43
777700 GTAAAAAAAT
* * *
777710 GCCGCTAAAGAACATGATCTTTAGTGGCGCTTTACCCAGAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
* * * *
777753 GCCACTAAAGAACATGACATTTAGCGGCGCTTTACCCAAAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
777796 GCCGCTAAAGAACATGACCTTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGACC-TTTAGCGGCGCTTTACCCACAAAC
* *
777840 GCCGCTAAAGAACATGACCTTAAGCGACGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
* * * * *
777883 GCCACTAAAAAACATGACCTTAAGCGACGCTTTACCCATAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
* * *
777926 GCCGCTAAAGAACATGACCTTAAGCGACGCTTTACCCACAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
* * * * *
777969 GTCGCTAAAGAACAAGACCTTTAGCGGTGCTTTACCAAAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
* *
778012 GCCGCTAAAGAACATGACCCTTAGCGGTGCTTTACCCA-AGAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACA-AAC
* *
778055 GCCGCTAAA-AAAATGACCTTTAGCGGCGATTTACCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
* *
778097 ACCGCTAAAGAACATGATCTTTAGCGG
1 GCCGCTAAAGAACATGACCTTTAGCGG
778124 ACTTTTATCA
Statistics
Matches: 329, Mismatches: 38, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
42 36 0.11
43 252 0.77
44 41 0.12
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
Found at i:783548 original size:40 final size:40
Alignment explanation
Indices: 783482--783558 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
783472 TTAAATTCCT
* * * *
783482 GAGCATTAGCGGCTCTTTTTAGAAAACGTCGTTAAAAATA
1 GAGCATTAGCGGCGCTTTTCAGAAAACGCCGCTAAAAATA
783522 GAGCATTAGCGGCGCTTTCTCA-AAAACGCCGCTAAAA
1 GAGCATTAGCGGCGCTTT-TCAGAAAACGCCGCTAAAA
783559 CCTCAAAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTTCAGAAAACGCCGCTAAAAATA
Found at i:790056 original size:22 final size:21
Alignment explanation
Indices: 790031--790071 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
790021 ACTAAATCCT
*
790031 TTCTCTCAATTTCTCTCTAATC
1 TTCTCTCAAATTC-CTCTAATC
790053 TTCTCTCAAATTCCTCTAA
1 TTCTCTCAAATTCCTCTAA
790072 AATTCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (21 bp):
TTCTCTCAAATTCCTCTAATC
Found at i:791271 original size:7 final size:7
Alignment explanation
Indices: 791249--791283 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
791239 TTGGTATTTA
791249 TTAGTAT
1 TTAGTAT
791256 TTA-TAT
1 TTAGTAT
791262 TTAGTAT
1 TTAGTAT
791269 TTAGTAT
1 TTAGTAT
791276 TTAGTAT
1 TTAGTAT
791283 T
1 T
791284 ATGTATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (7 bp):
TTAGTAT
Found at i:791289 original size:14 final size:13
Alignment explanation
Indices: 791249--791289 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
791239 TTGGTATTTA
*
791249 TTAGTATTTATAT
1 TTAGTATTTGTAT
791262 TTAGTATTTAGTAT
1 TTAGTATTT-GTAT
791276 TTAGTATTATGTAT
1 TTAGTATT-TGTAT
791290 ATAATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 9 0.36
14 15 0.60
15 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (13 bp):
TTAGTATTTGTAT
Found at i:793350 original size:96 final size:96
Alignment explanation
Indices: 793207--793406 Score: 278
Period size: 96 Copynumber: 2.1 Consensus size: 96
793197 CTAAACCTCA
*
793207 AACCCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACACTAAACCCTAATCT-AAATTTTTT
1 AACCCTAATTTATTTGAGTTTTTACATAAAAACCCTAAACACTAAACCCTAATCTGAAATTTTTT
** *
793271 AAAATTTATAATTAATTTACTCAAGTAACCCT
66 AAAAAAT-TAATTAAATTACTCAAGTAACCCT
* * * **
793303 GAACCCTAATTTATTTGA-TTTTTTCATAAAAACCCTTAACTCTAAACCCTAATCTGATTTTTTT
1 -AACCCTAATTTATTTGAGTTTTTACATAAAAACCCTAAACACTAAACCCTAATCTGAAATTTTT
793367 TAAAAAATTAATTAAATTACTCAAGTAACCCT
65 TAAAAAATTAATTAAATTACTCAAGTAACCCT
*
793399 AACTCTAA
1 AACCCTAA
793407 ACCCTAATCT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
95 7 0.08
96 56 0.61
97 29 0.32
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (96 bp):
AACCCTAATTTATTTGAGTTTTTACATAAAAACCCTAAACACTAAACCCTAATCTGAAATTTTTT
AAAAAATTAATTAAATTACTCAAGTAACCCT
Found at i:793429 original size:96 final size:94
Alignment explanation
Indices: 793232--793430 Score: 222
Period size: 96 Copynumber: 2.1 Consensus size: 94
793222 GAGTTTTTAC
** *
793232 TTAAAAACCCTAAACACTAAACCCTAATCTAAATTTTTTAAAATTTATAATTAATTTACTCAAGT
1 TTAAAAACCCTAAACACTAAACCCTAATCTAAATTTTTTAAAAAATATAATTAAATTACTCAAGT
* * * *
793297 AACCCTGAACCCTAATTTATTTGATTTTT
66 AACCCTGAACCCTAACTAATCTAATTTTT
* * **
793326 TCATAAAAACCCTTAACTCTAAACCCTAATCTGATTTTTTTTAAAAAAT-TAATTAAATTACTCA
1 T--TAAAAACCCTAAACACTAAACCCTAATCT-AAATTTTTTAAAAAATATAATTAAATTACTCA
*
793390 AGTAACCCT-AACTCTAAACCCTAATCTAATTTTT
63 AGTAACCCTGAACCCT-AA--CTAATCTAATTTTT
793424 TTAAAAA
1 TTAAAAA
793431 AATTAATTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
94 1 0.01
95 5 0.06
96 58 0.67
97 12 0.14
98 11 0.13
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (94 bp):
TTAAAAACCCTAAACACTAAACCCTAATCTAAATTTTTTAAAAAATATAATTAAATTACTCAAGT
AACCCTGAACCCTAACTAATCTAATTTTT
Found at i:793431 original size:59 final size:60
Alignment explanation
Indices: 793333--793455 Score: 221
Period size: 59 Copynumber: 2.1 Consensus size: 60
793323 TTTTCATAAA
* *
793333 AACCCTTAACTCTAAACCCTAATCTGATTTTTTTTAAAAAATTAATTAAATTACTCAAGT
1 AACCCTTAACTCTAAACCCTAATCTAATTTTTTTAAAAAAATTAATTAAATTACTCAAGT
793393 AACCC-TAACTCTAAACCCTAATCTAATTTTTTTAAAAAAATTAATTAAATTACTCAAGT
1 AACCCTTAACTCTAAACCCTAATCTAATTTTTTTAAAAAAATTAATTAAATTACTCAAGT
793452 AACC
1 AACC
793456 TTAGACCCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 56 0.92
60 5 0.08
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (60 bp):
AACCCTTAACTCTAAACCCTAATCTAATTTTTTTAAAAAAATTAATTAAATTACTCAAGT
Found at i:793487 original size:59 final size:60
Alignment explanation
Indices: 793333--793490 Score: 200
Period size: 59 Copynumber: 2.7 Consensus size: 60
793323 TTTTCATAAA
*
793333 AACCCTTAACTCTAAACCCTAATCTGATTTTTTTT-AAAAAATTAATTAAATTACTCAAGT
1 AACCC-TAACCCTAAACCCTAATCTGATTTTTTTTAAAAAAATTAATTAAATTACTCAAGT
* *
793393 AACCCTAACTCTAAACCCTAATCT-AATTTTTTTAAAAAAATTAATTAAATTACTCAAGT
1 AACCCTAACCCTAAACCCTAATCTGATTTTTTTTAAAAAAATTAATTAAATTACTCAAGT
* **
793452 AACCTTAGACCCT-AA-TTTAAT-TGATTTTTTCTTAAAAAA
1 AACCCTA-ACCCTAAACCCTAATCTGATTTTTT-TTAAAAAA
793491 CAATAAACAC
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
57 1 0.01
58 18 0.20
59 60 0.68
60 9 0.10
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (60 bp):
AACCCTAACCCTAAACCCTAATCTGATTTTTTTTAAAAAAATTAATTAAATTACTCAAGT
Found at i:793518 original size:155 final size:156
Alignment explanation
Indices: 793237--793518 Score: 374
Period size: 155 Copynumber: 1.8 Consensus size: 156
793227 TTTACTTAAA
** *
793237 AACCCTAAACACTAAACCCTAATCTAAATTTTTTAAAATTTATAATTAATTTACTCAAGTAACCC
1 AACCCTAAACACTAAACCCTAATCTAAATTTTTTAAAAAATATAATTAAATTACTCAAGTAACCC
* ** * * * **
793302 TGAACCCTAATTTATTTGATTTTTTCATAAAAACCCTTAACTCTAAACCCTAATCTGATTTTTTT
66 TGAACCCTAATTTAATTGATTTTTTCATAAAAACAATAAACACGAAACCCTAATCCAATTTTTTT
793367 TAAAAAATTAATTAAATTACTCAAGT
131 TAAAAAATTAATTAAATTACTCAAGT
* *
793393 AACCCT-AACTCTAAACCCTAATCTAATTTTTTTAAAAAA-ATTAATTAAATTACTCAAGTAA-C
1 AACCCTAAACACTAAACCCTAATCTAAATTTTTTAAAAAATA-TAATTAAATTACTCAAGTAACC
* *
793455 CTTAGACCCTAATTTAATTGATTTTTTCTTAAAAAACAATAAACACGAAA-CCTAATCCAATTTT
65 CTGA-ACCCTAATTTAATTGATTTTTTCAT-AAAAACAATAAACACGAAACCCTAATCCAATTTT
793519 GAAAAATTTA
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
154 5 0.05
155 83 0.77
156 20 0.19
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.37
Consensus pattern (156 bp):
AACCCTAAACACTAAACCCTAATCTAAATTTTTTAAAAAATATAATTAAATTACTCAAGTAACCC
TGAACCCTAATTTAATTGATTTTTTCATAAAAACAATAAACACGAAACCCTAATCCAATTTTTTT
TAAAAAATTAATTAAATTACTCAAGT
Found at i:799461 original size:303 final size:303
Alignment explanation
Indices: 798914--799523 Score: 1220
Period size: 303 Copynumber: 2.0 Consensus size: 303
798904 TGATATGAAC
798914 TTTTAGAAGGAATTCATCAAATTGCTTCGATCTAAAATCATCCCCTTATATGATCGCCTATACGG
1 TTTTAGAAGGAATTCATCAAATTGCTTCGATCTAAAATCATCCCCTTATATGATCGCCTATACGG
798979 ATCTACTAGATATATAGACTTTAATTTCATACATTCATTCGGTACTGATCCACTTGCTATAATTC
66 ATCTACTAGATATATAGACTTTAATTTCATACATTCATTCGGTACTGATCCACTTGCTATAATTC
799044 TTTAACCATATACCATGTTTACATATGTATAAGAGGGCCTTTTTCATTTATGTTCGGTTCGGGTA
131 TTTAACCATATACCATGTTTACATATGTATAAGAGGGCCTTTTTCATTTATGTTCGGTTCGGGTA
799109 AGCCGGATGTTATACAATATTTTACTAAATAGGTATCCATGACATCTAAGTCTTGAAAAAAATAG
196 AGCCGGATGTTATACAATATTTTACTAAATAGGTATCCATGACATCTAAGTCTTGAAAAAAATAG
799174 ATAAGATTTAGCCTTAGCCCCATCGAATCTAAAAAATCTTAGT
261 ATAAGATTTAGCCTTAGCCCCATCGAATCTAAAAAATCTTAGT
799217 TTTTAGAAGGAATTCATCAAATTGCTTCGATCTAAAATCATCCCCTTATATGATCGCCTATACGG
1 TTTTAGAAGGAATTCATCAAATTGCTTCGATCTAAAATCATCCCCTTATATGATCGCCTATACGG
799282 ATCTACTAGATATATAGACTTTAATTTCATACATTCATTCGGTACTGATCCACTTGCTATAATTC
66 ATCTACTAGATATATAGACTTTAATTTCATACATTCATTCGGTACTGATCCACTTGCTATAATTC
799347 TTTAACCATATACCATGTTTACATATGTATAAGAGGGCCTTTTTCATTTATGTTCGGTTCGGGTA
131 TTTAACCATATACCATGTTTACATATGTATAAGAGGGCCTTTTTCATTTATGTTCGGTTCGGGTA
799412 AGCCGGATGTTATACAATATTTTACTAAATAGGTATCCATGACATCTAAGTCTTGAAAAAAATAG
196 AGCCGGATGTTATACAATATTTTACTAAATAGGTATCCATGACATCTAAGTCTTGAAAAAAATAG
799477 ATAAGATTTAGCCTTAGCCCCATCGAATCTAAAAAATCTTAGT
261 ATAAGATTTAGCCTTAGCCCCATCGAATCTAAAAAATCTTAGT
799520 TTTT
1 TTTT
799524 TTAACATACA
Statistics
Matches: 307, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
303 307 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (303 bp):
TTTTAGAAGGAATTCATCAAATTGCTTCGATCTAAAATCATCCCCTTATATGATCGCCTATACGG
ATCTACTAGATATATAGACTTTAATTTCATACATTCATTCGGTACTGATCCACTTGCTATAATTC
TTTAACCATATACCATGTTTACATATGTATAAGAGGGCCTTTTTCATTTATGTTCGGTTCGGGTA
AGCCGGATGTTATACAATATTTTACTAAATAGGTATCCATGACATCTAAGTCTTGAAAAAAATAG
ATAAGATTTAGCCTTAGCCCCATCGAATCTAAAAAATCTTAGT
Found at i:799733 original size:17 final size:17
Alignment explanation
Indices: 799713--799746 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
799703 TTCGTATATT
*
799713 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
799730 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
799747 GCGAGTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:800328 original size:97 final size:97
Alignment explanation
Indices: 800210--800391 Score: 355
Period size: 97 Copynumber: 1.9 Consensus size: 97
800200 GGTTTACTCA
800210 TTAGTAATATCGGATAATGATAATAATAATTATCCACATAATTTGTTTTTCGACAATTCCTTTTT
1 TTAGTAATATCGGATAATGATAATAATAATTATCCACATAATTTGTTTTTCGACAATTCCTTTTT
800275 TTGTCACAAAGTCAAAGCCCGCGTATTTATTC
66 TTGTCACAAAGTCAAAGCCCGCGTATTTATTC
*
800307 TTAGTAATATCGGATATTGATAATAATAATTATCCACATAATTTGTTTTTCGACAATTCCTTTTT
1 TTAGTAATATCGGATAATGATAATAATAATTATCCACATAATTTGTTTTTCGACAATTCCTTTTT
800372 TTGTCACAAAGTCAAAGCCC
66 TTGTCACAAAGTCAAAGCCC
800392 ATTACGCGGG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 84 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (97 bp):
TTAGTAATATCGGATAATGATAATAATAATTATCCACATAATTTGTTTTTCGACAATTCCTTTTT
TTGTCACAAAGTCAAAGCCCGCGTATTTATTC
Found at i:803055 original size:25 final size:24
Alignment explanation
Indices: 803023--803126 Score: 100
Period size: 25 Copynumber: 4.2 Consensus size: 24
803013 TTCTTCGGAA
*
803023 CTTCCCGATTAATGGCTTTCTGGAG
1 CTTCCCGA-TAATGGCTATCTGGAG
* * ** * *
803048 CTTTCCGATATTGGCTCGCTTGAA
1 CTTCCCGATAATGGCTATCTGGAG
*
803072 CTTCCCGATATATGCCTATCTGGAG
1 CTTCCCGATA-ATGGCTATCTGGAG
*
803097 CTTCCCGATTAATGGCTATCTAGAG
1 CTTCCCGA-TAATGGCTATCTGGAG
803122 CTTCC
1 CTTCC
803127 TGACATATTG
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
24 20 0.32
25 40 0.65
26 2 0.03
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (24 bp):
CTTCCCGATAATGGCTATCTGGAG
Found at i:803169 original size:24 final size:26
Alignment explanation
Indices: 803119--803176 Score: 93
Period size: 24 Copynumber: 2.3 Consensus size: 26
803109 TGGCTATCTA
803119 GAGCTTCCTGACATATTGGCTCGTAT
1 GAGCTTCCTGACATATTGGCTCGTAT
*
803145 GAGCTTCCTGA-ATA-TGGCTCTTAT
1 GAGCTTCCTGACATATTGGCTCGTAT
803169 GAGCTTCC
1 GAGCTTCC
803177 CGTTATACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 17 0.55
25 3 0.10
26 11 0.35
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
GAGCTTCCTGACATATTGGCTCGTAT
Found at i:807316 original size:265 final size:265
Alignment explanation
Indices: 806837--807318 Score: 930
Period size: 265 Copynumber: 1.8 Consensus size: 265
806827 CAATTTGAAA
806837 AAAATGTTAAAGTTTTAAAAATTTACCGTAGTTGATTTCTTGAAGAATTAGTCTTGAAATTGATA
1 AAAATGTTAAAGTTTTAAAAATTTACCGTAGTTGATTTCTTGAAGAATTAGTCTTGAAATTGATA
806902 GATTTTAAGCTTAGAATATGAAAAGGACTAGATTGTGAAGTTAATTTAGCTTATTTGTTAACTTT
66 GATTTTAAGCTTAGAATATGAAAAGGACTAGATTGTGAAGTTAATTTAGCTTATTTGTTAACTTT
806967 GTTACATTAGTGACCAAATTGAATAAATATGAAACTTTTCATGGGATTGCTGGTGTAATTTACCC
131 GTTACATTAGTGACCAAATTGAATAAATATGAAACTTTTCATGGGATTGCTGGTGTAATTTACCC
807032 TAATAAAAATATAAAAATAAATTATATAATATTAAATTTTATTTTAAAATCTTTAATTATAAAAA
196 TAATAAAAATATAAAAATAAATTATATAATATTAAATTTTATTTTAAAATCTTTAATTATAAAAA
807097 AATTC
261 AATTC
*
807102 AAAATTTTAAAGTTTTAAAAATTTACCGTAGTTGATTTCTTGAAGAATTAGTCTTGAAATTGATA
1 AAAATGTTAAAGTTTTAAAAATTTACCGTAGTTGATTTCTTGAAGAATTAGTCTTGAAATTGATA
807167 GATTTTAAGCTTAGAATATGAAAAGGACTAGATTGTGAAGTTAATTTAAGCTTATTTG-TAACTT
66 GATTTTAAGCTTAGAATATGAAAAGGACTAGATTGTGAAGTTAATTT-AGCTTATTTGTTAACTT
807231 TGTTACATTAGTGACCAAATTGAATAAATATGAAACTTTTCATGGGATTGCTGGTGTAATTTACC
130 TGTTACATTAGTGACCAAATTGAATAAATATGAAACTTTTCATGGGATTGCTGGTGTAATTTACC
*
807296 CTAATAAAAATATTAAAATAAAT
195 CTAATAAAAATATAAAAATAAAT
807319 GTTAATAAAT
Statistics
Matches: 214, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
265 204 0.95
266 10 0.05
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (265 bp):
AAAATGTTAAAGTTTTAAAAATTTACCGTAGTTGATTTCTTGAAGAATTAGTCTTGAAATTGATA
GATTTTAAGCTTAGAATATGAAAAGGACTAGATTGTGAAGTTAATTTAGCTTATTTGTTAACTTT
GTTACATTAGTGACCAAATTGAATAAATATGAAACTTTTCATGGGATTGCTGGTGTAATTTACCC
TAATAAAAATATAAAAATAAATTATATAATATTAAATTTTATTTTAAAATCTTTAATTATAAAAA
AATTC
Found at i:808538 original size:22 final size:21
Alignment explanation
Indices: 808513--808553 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
808503 GGGTATAATC
* *
808513 ATAT-TATTTTTTTCTTTTTG
1 ATATATATTTTTCTCTCTTTG
808533 ATATATATTTTTCTCTCTTTG
1 ATATATATTTTTCTCTCTTTG
808554 GAAACTCCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (21 bp):
ATATATATTTTTCTCTCTTTG
Found at i:815504 original size:17 final size:17
Alignment explanation
Indices: 815482--815515 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
815472 ATAATCATAT
*
815482 TATTTTTTTCTTTTTGA
1 TATTTTTTTCTCTTTGA
815499 TATTTTTTTCTCTTTGA
1 TATTTTTTTCTCTTTGA
815516 AAACTCCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.74
Consensus pattern (17 bp):
TATTTTTTTCTCTTTGA
Found at i:817099 original size:553 final size:553
Alignment explanation
Indices: 815338--819197 Score: 6030
Period size: 553 Copynumber: 7.0 Consensus size: 553
815328 ATGTTGGAGG
* *
815338 TCCTGTGTTCGAATCTCTATGGGAGTGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
1 TCCTGTGTTCGAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
* * * *
815403 AGGGGAGTTCAGATTCTAAGTAAGTGGTTTGTTAGTGGGTTAGTGGGGAGAACTTCGAGGGATTT
66 AGGGGAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATTT
*
815468 AGGTATAATCATATTATTTTTTTCTTTTTGATAT-T-TTTTTCTCT-T-T-GAAAACTCCCAAAA
131 GGGTATAATCATATTATTTTTTTCTTTTTGATATATATTTTTCTCTCTCTAG-AAACTCCCAAAA
* * *
815528 TTTTTTACGTTAATTTTTTTGTGTTCTGGTAAAATTCTTTTTGTTTCCTTACTTTTGAAATTCCA
195 TTTTTTACATTCATTTTTTTGTGTTCTGGCAAAATTCTTTTTGTTTCCTTACTTTTGAAATTCCA
* * * * * * * * * *
815593 TCACAATTTTGTAATTTAATTCCGGTTTTTAGTTCTCCGATGTCTTTGCGCGGTTTGGTAAGTGT
260 TCGCAATTCTGTCATTCAATTTCAGTTTTCAGTTCTTCGCTGTCCTTGCGCGGTTTGGTAAGTGT
* *
815658 AAAGGGTGTTTTCGTGTGGGTTGGGGTAATCGTTTTAATTGTTCAAATCAATGCTATTCTTTTCT
325 AAAGGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAATCAATGCTATTCTTTTCT
* * * * *
815723 TTCCGTTGTTGATTTCGAGTTTTGGTAGTAGTGAATCGGGAAGAAAGGGGCTCTCTTCTCGTGGA
390 TTCCATTGTTGATTTCGAGTTTTGGCAGCAGTGAATCGGGAAGAAAGGGGCTCTCCTCTCATGGA
* ** *
815788 ATCGTAATTGAAATTATTCGGAGTGTTGGGGTAAGTGATGAAGGTTTGAATTGGACTGTTGTCGA
455 ATCGTAATCGAAATCGTTCGGAGTGTTGGGGTAAGTGATGAAGGTTTGAATTGGACTGTTGTCGG
*
815853 TTTTGATGGTTTCGGTTTAATCATGAATTATGAT
520 TTTTGGTGGTTTCGGTTTAATCATGAATTATGAT
*
815887 TCTTGTGTTCGAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
1 TCCTGTGTTCGAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
* * *
815952 AGGGGAGTTCAAATTCTAAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATTT
66 AGGGGAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATTT
816017 GGGTATAATCATATTATTTTTTTCTTTTTGATATATATTTTTCTCTCTCTAGAAACTCCCAAAAT
131 GGGTATAATCATATTATTTTTTTCTTTTTGATATATATTTTTCTCTCTCTAGAAACTCCCAAAAT
* *
816082 TTTTTACATTTATTTTTTTGTGTTCTGGCAAAATTCTTTTTGTTTCGTTACTTTTGAAATTCCAT
196 TTTTTACATTCATTTTTTTGTGTTCTGGCAAAATTCTTTTTGTTTCCTTACTTTTGAAATTCCAT
* *
816147 CGCAATTCTATCATTCAATTTCAGTTTTCAGTTCTTTC-CTGTCCTTGCGCGGTTTGCTAAGTGT
261 CGCAATTCTGTCATTCAATTTCAGTTTTCAGTTC-TTCGCTGTCCTTGCGCGGTTTGGTAAGTGT
* *
816211 AAAAGGTGTTTTCATGTGGGTTGGGGTAACCGTTTTAACTGTT-AAATCAATGCTATTCTTTTCT
325 AAAGGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAATCAATGCTATTCTTTTCT
* * *
816275 TTCCATTGTTGATTTTGAGTTTTGGCAGCAGTGAATCGGGTAGAAAGGGGCTCTCCTATCATGGA
390 TTCCATTGTTGATTTCGAGTTTTGGCAGCAGTGAATCGGGAAGAAAGGGGCTCTCCTCTCATGGA
* * * * * *
816340 ATCGTAATCGAAATCATTCCGAGTGTCGGGGTAAGTGATGAAAGTTTGAATTGGACTATTGTCAG
455 ATCGTAATCGAAATCGTTCGGAGTGTTGGGGTAAGTGATGAAGGTTTGAATTGGACTGTTGTCGG
816405 TTTTGGTGGTTTCGGTTTAATCATGAATTATGAT
520 TTTTGGTGGTTTCGGTTTAATCATGAATTATGAT
* * ** *
816439 TCTTGTGTTCGAATCTCTACGGGAGTGAGGGTGTTAATTTTTGCTCAATTGTGTATTAGAGTTTT
1 TCCTGTGTTCGAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
816504 AGGGTG-GTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATT
66 AGGG-GAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATT
*
816568 TGGGTATAATCATATTATTTTTTTCTTTTTGATATATATTTTTCTCTCTCTAGAAACTCCTAAAA
130 TGGGTATAATCATATTATTTTTTTCTTTTTGATATATATTTTTCTCTCTCTAGAAACTCCCAAAA
* *
816633 TTTTTTACATTCA-TTTTTTGTGCTCTGGCAAAATTCTTTTTTGTTTCGTTACTTTTGAAATTCC
195 TTTTTTACATTCATTTTTTTGTGTTCTGGCAAAATTC-TTTTTGTTTCCTTACTTTTGAAATTCC
*
816697 ATCGCAATTCTGTCATTCAATTTCAGTTTTCAGTTCTTCGCTGTCCTTTCGCGGTTTGGTAAGTG
259 ATCGCAATTCTGTCATTCAATTTCAGTTTTCAGTTCTTCGCTGTCCTTGCGCGGTTTGGTAAGTG
* *
816762 TAAAGGGTTTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAATCAATGCGATTCTTTTC
324 TAAAGGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAATCAATGCTATTCTTTTC
* *
816827 TTTCCATTGTTGATTTTGAGTTTTGGCAGCAGTGAATCGGGAAGAAAGGGGCTCTCCTCTCGTGG
389 TTTCCATTGTTGATTTCGAGTTTTGGCAGCAGTGAATCGGGAAGAAAGGGGCTCTCCTCTCATGG
* * * *
816892 AATCGTAATCGAAATCGTTCGGAGTGTTGGGGTAAGTGTTGAAAGTTTGAATTAGACTATTGTCG
454 AATCGTAATCGAAATCGTTCGGAGTGTTGGGGTAAGTGATGAAGGTTTGAATTGGACTGTTGTCG
* *
816957 GTTTTGGTGGTTTTGGTTTGATCATGAATTATGAT
519 GTTTTGGTGGTTTCGGTTTAATCATGAATTATGAT
*
816992 TCCTGTGTTCAAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
1 TCCTGTGTTCGAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
** *
817057 AAAGAAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATTT
66 AGGGGAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATTT
*
817122 GGGTATAATCATATTATTTTTTTCTTTTTGATATATATTTTTCTCACTCTAGAAACTCCCAAAAT
131 GGGTATAATCATATTATTTTTTTCTTTTTGATATATATTTTTCTCTCTCTAGAAACTCCCAAAAT
817187 TTTTTACATTCATTTTTTTGTGTTCTGGCAAAATTCTTTTTGTTTCCTTACTTTTGAAATTCCAT
196 TTTTTACATTCATTTTTTTGTGTTCTGGCAAAATTCTTTTTGTTTCCTTACTTTTGAAATTCCAT
817252 CGCAATTCTGTCATTCAATTTCAGTTTTCAGTTCTTCGCTGTCCTTGCGCGGTTTGGTAAGTGTA
261 CGCAATTCTGTCATTCAATTTCAGTTTTCAGTTCTTCGCTGTCCTTGCGCGGTTTGGTAAGTGTA
* **
817317 AAAGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTACTCAAATCAATGCTATTCTTTTCTT
326 AAGGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAATCAATGCTATTCTTTTCTT
* * *
817382 TCTATTGTTGATTTCTAGTTTTGGCAGCAGTGAATCGGGAAGAAAGGGGCTCTCCTCTCCTGGAA
391 TCCATTGTTGATTTCGAGTTTTGGCAGCAGTGAATCGGGAAGAAAGGGGCTCTCCTCTCATGGAA
* * * * * *
817447 TCATAATCGAAATCTTTCGGAGTGTTGGGGTATGTGATGAAGGTTTGAATTAGACTTTTGTCGAT
456 TCGTAATCGAAATCGTTCGGAGTGTTGGGGTAAGTGATGAAGGTTTGAATTGGACTGTTGTCGGT
817512 TTTGGTGGTTTCGGTTTAATCATGAATTATGAT
521 TTTGGTGGTTTCGGTTTAATCATGAATTATGAT
* * * * * * *
817545 TCTTGTGTTCGAATCTCTACAGGAGTGAGGGTATTGATTTTTGCTCCGTTGTGTATTAGAGTTTT
1 TCCTGTGTTCGAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
817610 AGGGGAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATTT
66 AGGGGAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATTT
*
817675 GGGTATAATCATATTA-TTTTTTCTGTTTT-ATAT-T-TTTTTCTCCCTCTAGAAACTCCCAAAA
131 GGGTATAATCATATTATTTTTTTCT-TTTTGATATATATTTTTCTCTCTCTAGAAACTCCCAAAA
* * **
817736 TTTTTGACATTCATTGTTTTGTGTTCTGGCAAAATTCTTTTTGTTTATTTACTTTTGAAATTCCA
195 TTTTTTACATTCATTTTTTTGTGTTCTGGCAAAATTCTTTTTGTTTCCTTACTTTTGAAATTCCA
* * * * * *
817801 TCTCAATTTTATCATTCAATTTTAGTTTTCAGTTCTTCGATGTCCTTGCGCGGTTTGGTAAATGT
260 TCGCAATTCTGTCATTCAATTTCAGTTTTCAGTTCTTCGCTGTCCTTGCGCGGTTTGGTAAGTGT
*
817866 AAAGGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAGTCAATGCTATTCTTTTCT
325 AAAGGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAATCAATGCTATTCTTTTCT
* * *
817931 TTCCATTGTTGATTTCAAGTTTTGGCAGTAGTGAATCGGGAAGAAAGAGGCTCTCCTCTCATGGA
390 TTCCATTGTTGATTTCGAGTTTTGGCAGCAGTGAATCGGGAAGAAAGGGGCTCTCCTCTCATGGA
* * * *
817996 ATTGTAATTGAAATCGTTCGGAGTGTTGGGGTATGTGATGAAGGTTTGAATTGGACTGTTGTCAG
455 ATCGTAATCGAAATCGTTCGGAGTGTTGGGGTAAGTGATGAAGGTTTGAATTGGACTGTTGTCGG
* *
818061 TTTTTGTGGTGTCGGTTTAATCATGAATTATGAT
520 TTTTGGTGGTTTCGGTTTAATCATGAATTATGAT
* * * *
818095 TCCTCTGTTTGAATCTCTACGGGAGCGAGGGTGTTAGTTTTTGCTCCGTTGTGTGTTAGAGTTTT
1 TCCTGTGTTCGAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
* *
818160 AGGGGAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTGGGGAGCAATTCGAGGGATTT
66 AGGGGAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATTT
*
818225 GGGTATAATCATATTATTTTTTTTCTTTTTGATATATATTTTTCTCTCTCTAAAAACTCCCAAAA
131 GGGTATAATCATATTA-TTTTTTTCTTTTTGATATATATTTTTCTCTCTCTAGAAACTCCCAAAA
* * *
818290 TTTTTGACATTCATTTTTTTGTGTTCTGGGAAAATTCTTTTTGTTTCGTTACTTTTGAAATTCCA
195 TTTTTTACATTCATTTTTTTGTGTTCTGGCAAAATTCTTTTTGTTTCCTTACTTTTGAAATTCCA
* * * *
818355 TCGCAATTCTATCATTCAATTTCAGTTTTTAGTTCTTCGCTGTCCTTACGTGGTTTGGTAAGTGT
260 TCGCAATTCTGTCATTCAATTTCAGTTTTCAGTTCTTCGCTGTCCTTGCGCGGTTTGGTAAGTGT
**
818420 AAAGGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAATCAATATTATTCTTTTCT
325 AAAGGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAATCAATGCTATTCTTTTCT
*
818485 TTCCATTGTTGATTTCGAGTTTTGGCAGTAGTGAATCGGGAAGAAAGGGGCTCTCCTCTCATGGA
390 TTCCATTGTTGATTTCGAGTTTTGGCAGCAGTGAATCGGGAAGAAAGGGGCTCTCCTCTCATGGA
818550 ATCGTAATCGAAATCGTTCGGAGTGTTGGGGGTAAGTGATGAAGGTTTGAATTGGACTGTTGTCG
455 ATCGTAATCGAAATCGTTCGGAGTGTT-GGGGTAAGTGATGAAGGTTTGAATTGGACTGTTGTCG
* * *
818615 ATTTTGGTGGTTTCGGTTTAGTCATGAATAATGAT
519 GTTTTGGTGGTTTCGGTTTAATCATGAATTATGAT
**
818650 TCCTGTGTTCGAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCAATTGTGTGTTAGAGTTTT
1 TCCTGTGTTCGAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
*
818715 AGGGGAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTGGGGAGAAATTCGAGGGATTT
66 AGGGGAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATTT
* *
818780 GGGTATAATCATATTATTTTTTTCGTTTTGATAT-T-TTTTTCTCTCTCTAGAAACTCCTAAAA-
131 GGGTATAATCATATTATTTTTTTCTTTTTGATATATATTTTTCTCTCTCTAGAAACTCCCAAAAT
* *
818842 TTTTTACATTCA-TTTTTTGTGTTCTGGCAAAATTCTTTTTGTTTCCTCACTTTTGATATTCCAT
196 TTTTTACATTCATTTTTTTGTGTTCTGGCAAAATTCTTTTTGTTTCCTTACTTTTGAAATTCCAT
* ** * * *
818906 CGCAATTCTGTCATTCAA-TTCTGGTTTTCAGTTCTTTACTTTTCTTGCGCAGTTTGGTAAGTGT
261 CGCAATTCTGTCATTCAATTTC-AGTTTTCAGTTCTTCGCTGTCCTTGCGCGGTTTGGTAAGTGT
** * * *
818970 AAAGGGTGTTTTCGTGTGGGTTGTAGTAATCGTTTTAACTGCTCAAATCGATGCTATTCTTTTCT
325 AAAGGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAATCAATGCTATTCTTTTCT
* * * *
819035 TTCCATTTTTGATTTCGAGTTTTGGCAGCAGTGAA-CTGGGAAGAAAGGAGCTCTCTTATCATGG
390 TTCCATTGTTGATTTCGAGTTTTGGCAGCAGTGAATC-GGGAAGAAAGGGGCTCTCCTCTCATGG
* * * * *
819099 AATCGTAATCGAAATTGTTTGTAGTGTTAGGGTAAGTGATGAAGGTTTGAATTGGACTGTTTTCG
454 AATCGTAATCGAAATCGTTCGGAGTGTTGGGGTAAGTGATGAAGGTTTGAATTGGACTGTTGTCG
* *
819164 GTTTTGGTGGCTTCAGTTTAATCATGAATTATGA
519 GTTTTGGTGGTTTCGGTTTAATCATGAATTATGA
819198 CTGATTTTTG
Statistics
Matches: 3060, Mismatches: 230, Indels: 42
0.92 0.07 0.01
Matches are distributed among these distances:
549 225 0.07
550 730 0.24
551 50 0.02
552 540 0.18
553 975 0.32
554 335 0.11
555 205 0.07
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (553 bp):
TCCTGTGTTCGAATCTCTACGGGAGCGAGGGTGTTAATTTTTGCTCGGTTGTGTGTTAGAGTTTT
AGGGGAGTTGAGATTCTGAGTAAGTGGTTTGTTAGTGGGTTAGTTGGGAGAAATTCGAGGGATTT
GGGTATAATCATATTATTTTTTTCTTTTTGATATATATTTTTCTCTCTCTAGAAACTCCCAAAAT
TTTTTACATTCATTTTTTTGTGTTCTGGCAAAATTCTTTTTGTTTCCTTACTTTTGAAATTCCAT
CGCAATTCTGTCATTCAATTTCAGTTTTCAGTTCTTCGCTGTCCTTGCGCGGTTTGGTAAGTGTA
AAGGGTGTTTTCGTGTGGGTTGGGGTAACCGTTTTAACTGTTCAAATCAATGCTATTCTTTTCTT
TCCATTGTTGATTTCGAGTTTTGGCAGCAGTGAATCGGGAAGAAAGGGGCTCTCCTCTCATGGAA
TCGTAATCGAAATCGTTCGGAGTGTTGGGGTAAGTGATGAAGGTTTGAATTGGACTGTTGTCGGT
TTTGGTGGTTTCGGTTTAATCATGAATTATGAT
Found at i:820232 original size:20 final size:19
Alignment explanation
Indices: 820199--820245 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
820189 TCGAGAACCA
*
820199 TTTTACTTAGTAAATTATGG
1 TTTTATTTAGTAAA-TATGG
*
820219 TTTTTATTTA-TAAATCTGG
1 -TTTTATTTAGTAAATATGG
820238 TTTTATTT
1 TTTTATTT
820246 GGGAGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 4 0.17
20 4 0.17
21 8 0.33
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.60
Consensus pattern (19 bp):
TTTTATTTAGTAAATATGG
Found at i:823348 original size:42 final size:42
Alignment explanation
Indices: 823262--823468 Score: 200
Period size: 42 Copynumber: 4.9 Consensus size: 42
823252 GTTTACAAAG
* ** *
823262 AAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCATTTCGAA
1 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGAA
* *
823304 AAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTAAAA
1 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGAA
* * * * *
823346 AAAAGACGCCGCTAGAGATCTTGTTCTTTAGCGGCG-TATGGAG
1 AAAA-ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCT-TAGAA
* * * * * *
823389 AAAAACGCCGCTAAAGATCATATTTTTTAGCGACGCTTACAC
1 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGAA
* * **
823431 AAAAACGCCGCAAAAAGAAATGTTCTTTAGCGGCGCTT
1 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
823469 TCTTAAAAAA
Statistics
Matches: 133, Mismatches: 29, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
42 99 0.74
43 34 0.26
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGAA
Found at i:823371 original size:85 final size:84
Alignment explanation
Indices: 823262--823464 Score: 228
Period size: 85 Copynumber: 2.4 Consensus size: 84
823252 GTTTACAAAG
* * * * *
823262 AAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCATTTCGAAAAAAACGCCACTAAAGGTCATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCATATCGAAAAAAACGCCACTAAAGATCATAT
*
823327 TCTTTAGCGGCGCTTAAAA
66 TCTTTAGCGACGCTTAAAA
* * * * * *
823346 AAAAGACGCCGCTAGAGATCTTGTTCTTTAGCGGCGTATGGAGAAAAACGCCGCTAAAGATCATA
1 AAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCATATCGAAAAAAACGCCACTAAAGATCATA
* * *
823411 TTTTTTAGCGACGCTTACAC
65 TTCTTTAGCGACGCTTAAAA
* *
823431 AAAAACGCCGCAAAAAGA-AATGTTCTTTAGCGGC
1 AAAAACGCCGC-TAAAGATCATGTTCTTTAGCGGC
823465 GCTTTCTTAA
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
84 25 0.26
85 73 0.74
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCATATCGAAAAAAACGCCACTAAAGATCATAT
TCTTTAGCGACGCTTAAAA
Found at i:823478 original size:85 final size:83
Alignment explanation
Indices: 823262--823487 Score: 218
Period size: 85 Copynumber: 2.7 Consensus size: 83
823252 GTTTACAAAG
* * * * * *
823262 AAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCATTTCGAAAAAAACGCCACTAAAGGTCATGT
1 AAAAACGCCGC-AAAAGACATGTTCTTTAGCGGCGTTTCGAAAAAAACGCCACTAAAGATCATAT
*
823327 TCTTTAGCGGCGCTTAAAA
65 TCTTTAGCGACGCTTAAAA
* * * * * * *
823346 AAAAGACGCCGCTAGAGATCTTGTTCTTTAGCGGCGTATGGAGAAAAACGCCGCTAAAGATCATA
1 AAAA-ACGCCGCAAAAGA-CATGTTCTTTAGCGGCGTTTCGAAAAAAACGCCACTAAAGATCATA
* * *
823411 TTTTTTAGCGACGCTTACAC
64 TTCTTTAGCGACGCTTAAAA
* ** *
823431 AAAAACGCCGCAAAAAGAAATGTTCTTTAGCGGCGCTTTCTTAAAAAACACCACTAA
1 AAAAACGCCGC-AAAAGACATGTTCTTTAGCGGCG-TTTCGAAAAAAACGCCACTAA
823488 TTTGGGGATT
Statistics
Matches: 110, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
84 28 0.25
85 82 0.75
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (83 bp):
AAAAACGCCGCAAAAGACATGTTCTTTAGCGGCGTTTCGAAAAAAACGCCACTAAAGATCATATT
CTTTAGCGACGCTTAAAA
Found at i:823656 original size:17 final size:17
Alignment explanation
Indices: 823634--823668 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
823624 AATATCAATA
823634 AATAAAAGTGAATTCAT
1 AATAAAAGTGAATTCAT
823651 AATAAAAGTGAATTCAT
1 AATAAAAGTGAATTCAT
823668 A
1 A
823669 CTTTTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.29
Consensus pattern (17 bp):
AATAAAAGTGAATTCAT
Found at i:823899 original size:21 final size:21
Alignment explanation
Indices: 823875--823931 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
823865 TTCTTTTGAA
823875 CCTCTGCTTCTCTCGCTATAG
1 CCTCTGCTTCTCTCGCTATAG
*
823896 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCTCTCGCTATAG
*
823917 CCTCTGCTTCCCTCG
1 CCTCTGCTTCTCTCG
823932 TTGCCACATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.05, C:0.42, G:0.16, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTATAG
Found at i:830801 original size:9 final size:9
Alignment explanation
Indices: 830787--830843 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
830777 ACCATAAATG
830787 AGTTATGTA
1 AGTTATGTA
830796 AGTTATGT-
1 AGTTATGTA
830804 A-TTATGTA
1 AGTTATGTA
830812 AGTTATGTA
1 AGTTATGTA
*
830821 AGTTATTTA
1 AGTTATGTA
830830 AGTTATGTA
1 AGTTATGTA
830839 AGTTA
1 AGTTA
830844 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 6 0.14
8 2 0.05
9 36 0.82
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.47
Consensus pattern (9 bp):
AGTTATGTA
Found at i:833487 original size:336 final size:335
Alignment explanation
Indices: 832833--833637 Score: 901
Period size: 336 Copynumber: 2.4 Consensus size: 335
832823 AGCTTAAGAA
*
832833 ACATTTGCGGCGTTTTTCTGAAAAA-CGCCACTAAAAATTAAAGTTC-AAACCGAAACGGCGCCG
1 ACATTTGCGGCG-TTTTCT-AAAAAGCGCCACTAAAAATTAAAGTTCTAATCCGAAACGGCGCCG
* * *
832896 TTTAATTAAGCTTTAATGCACAGTTCTGGCGTTTTCTGTAAAAACGCCAGTAAAAATTAATTTGC
64 TTTTATTAAGCTTTAATGCACATTTCTGGCGTTTTCTGT-TAAACGCCAGTAAAAATTAATTTGC
* * ** * *
832961 TTAAGCTATATGGGGTCGTTTAGACAATATTTTAAGTCATTTTACGGCGTTTTGCGCAAAAACGC
128 TTAAGCTAAACGAAGCCGTTTAGACAATATTTTAAGTCATTTTACGGCGTTTTGCACAAAAACGC
* * * * *
833026 CACTATAAATTAAGAGAAACGGCGCCGTTGGATTAATTTAGAGAAAATGCTAAGTTAAAAAACTA
193 CACTAAAAATTAACAGAAACGGCACCGTTGAATTAATATAGAGAAAATGCTAAGTTAAAAAACTA
* * * *
833091 GTACAGAAACGACATCATTTAGACAAAATTTTAAGACAATTTTGTGGCGCATCCTGAACAAACAC
258 GTACAGAAACGACACCATTTAGACAAAATTTTAAGACAATTTCGCGGCGCATACTGAACAAACAC
* *
833156 TGCTATTGCTTGT
323 CGCTATAGCTTGT
* * * *
833169 ACATTTACGGCGTTTTCTAAAAAGCGCCACTAAAAGTTAAAGTTCTGATCCAAAACGGCGCCGTT
1 ACATTTGCGGCGTTTTCTAAAAAGCGCCACTAAAAATTAAAGTTCTAATCCGAAACGGCGCCGTT
* * * *
833234 TTATTAAGCTATAATGCACATTTCTGACATTTTCTGATTAAACGCTAGTAAAAATTAATTTGCTT
66 TTATTAAGCTTTAATGCACATTTCTGGCGTTTTCTG-TTAAACGCCAGTAAAAATTAATTTGCTT
* * * * *
833299 AAGCTAAACGAAGCCGTTTAGGCAATATTTTATGTCACTTTTGCGGCGTTTTGTATAAAAACGCC
130 AAGCTAAACGAAGCCGTTTAGACAATATTTTAAGTCA-TTTTACGGCGTTTTGCACAAAAACGCC
* *
833364 AC-AAAAATTAACAGAAACGGCACCGTTGAATTAATATAGAGAAAATGCTAAG-TATAATAGCGT
194 ACTAAAAATTAACAGAAACGGCACCGTTGAATTAATATAGAGAAAATGCTAAGTTA-AAAAAC-T
* * * * ** *
833427 -GTACAGAGAA-GGCGCCGTTTAG-CAAAAATTTTAAGACACTTTCGCGGCGTTTATTGAACAAA
257 AGTACAGA-AACGACACCATTTAGAC-AAAATTTTAAGACAATTTCGCGGCGCATACTGAACAAA
*
833489 CGCCGCTATAGCTTGT
320 CACCGCTATAGCTTGT
** * * * * * ** *
833505 GTACTTGCGGTG-TTTCTAGACAAGCGCCAC-AAAGAATGAAGGTTCTAATCCGAAACGATGTCG
1 ACATTTGCGGCGTTTTCTA-AAAAGCGCCACTAAA-AATTAAAGTTCTAATCCGAAACGGCGCCG
* * * *
833568 TTTTGTTAAGATTTAATGCACATTTCTGGTGTTTTCCT-TTAAAGCGCCACTAAAAATTAATTTG
64 TTTTATTAAGCTTTAATGCACATTTCTGGCGTTTT-CTGTTAAA-CGCCAGTAAAAATTAATTTG
833632 CTTAAG
127 CTTAAG
833638 TTAGACGTCG
Statistics
Matches: 391, Mismatches: 66, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
334 5 0.01
335 43 0.11
336 312 0.80
337 31 0.08
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (335 bp):
ACATTTGCGGCGTTTTCTAAAAAGCGCCACTAAAAATTAAAGTTCTAATCCGAAACGGCGCCGTT
TTATTAAGCTTTAATGCACATTTCTGGCGTTTTCTGTTAAACGCCAGTAAAAATTAATTTGCTTA
AGCTAAACGAAGCCGTTTAGACAATATTTTAAGTCATTTTACGGCGTTTTGCACAAAAACGCCAC
TAAAAATTAACAGAAACGGCACCGTTGAATTAATATAGAGAAAATGCTAAGTTAAAAAACTAGTA
CAGAAACGACACCATTTAGACAAAATTTTAAGACAATTTCGCGGCGCATACTGAACAAACACCGC
TATAGCTTGT
Found at i:835376 original size:73 final size:72
Alignment explanation
Indices: 835255--835470 Score: 236
Period size: 73 Copynumber: 2.9 Consensus size: 72
835245 ACTTACCCAT
* * * * * *
835255 AAACGTCACTAAATCCCCCGAAAGCTCCGAAAACGGCATCGTTGGGCTTACGTATTTTTGTGGCG
1 AAACGCCACTAAAT-CGCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTATTTTTGCGGCG
835320 CTTTCTAAA
65 CTTTCT-AA
* * * **
835329 AAACGCCACTAAATCGCCAAAAGCTCAAAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCAACGC
1 AAACGCCACTAAATCGCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTATTTTTGCGGCGC
*
835394 TTAACTAA
66 TT-TCTAA
* ** *
835402 AAACGCCGCTAAATCAGTGAAAAGCTCAGAAAACGGCGTCGTTGGGCTTATGT-TTCTTTGCGGC
1 AAACGCCACTAAATC-GCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTATT-TTTGCGGC
835466 GCTTT
64 GCTTT
835471 ACCGTAAACG
Statistics
Matches: 118, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
73 61 0.52
74 57 0.48
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (72 bp):
AAACGCCACTAAATCGCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTATTTTTGCGGCGC
TTTCTAA
Found at i:835708 original size:114 final size:113
Alignment explanation
Indices: 835400--835713 Score: 344
Period size: 114 Copynumber: 2.8 Consensus size: 113
835390 ACGCTTAACT
*** *
835400 AAAAACGCCGCTAAATCAGTGAAAAGCTCAGAAAACGGCGTCGTTGGGCTTATGTTTCTTTGCGG
1 AAAAACGCCGCTAAATC-CCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTTT-TTTGCGG
* * * * ** *
835465 CGCTTTACCGTAAACGCCGCTAAAGCCCTGAGCGTTAGCGGCGCTTACCC
64 CGCTTTATCGAAAACGCCGCTAAAGCCCTGAGCCTTAGCGACAATTACCA
* * * * * *
835515 AAAAACGCTGCTAAATCCCCGAAAGCTCAG-AAATGACGTCGTTGGGCTTACTTTTTTTGTGGCG
1 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTTTTTTGCGGCG
* ** * *
835579 CTTTTTTAAAAACGCCGCTAAATG-CCTGAGCCTTAGCGACAATTTCTTA
66 CTTTATCGAAAACGCCGCTAAA-GCCCTGAGCCTTAGCGACAATTAC-CA
* * *
835628 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGATTAGGTATTTTGCGGCG
1 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTTTTTTGCGGCG
*
835693 CTTTATGGAAAACGCCGCTAA
66 CTTTATCGAAAACGCCGCTAA
835714 TGCTTATTTT
Statistics
Matches: 162, Mismatches: 34, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
112 42 0.26
113 50 0.31
114 54 0.33
115 16 0.10
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (113 bp):
AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTTTTTTGCGGCG
CTTTATCGAAAACGCCGCTAAAGCCCTGAGCCTTAGCGACAATTACCA
Found at i:835716 original size:113 final size:112
Alignment explanation
Indices: 835400--835716 Score: 339
Period size: 113 Copynumber: 2.8 Consensus size: 112
835390 ACGCTTAACT
*** *
835400 AAAAACGCCGCTAAATCAGTGAAAAGCTCAGAAAACGGCGTCGTTGGGCTTATGTTTCTTTGCGG
1 AAAAACGCCGCTAAATC-CCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTTT-TTTGCGG
* * * * * ** *
835465 CGCTTTACCGTAAACGCCGCTAAAGCCCTGAGCGTTAGCGGCGCTTACCC
64 CGCTTTATCGAAAACGCCGCTAATG-CCTGAGCCTTAGCGACAATTACCA
* * * * * *
835515 AAAAACGCTGCTAAATCCCCGAAAGCTCAG-AAATGACGTCGTTGGGCTTACTTTTTTTGTGGCG
1 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTTTTTTGCGGCG
* ** * *
835579 CTTTTTTAAAAACGCCGCTAAATGCCTGAGCCTTAGCGACAATTTCTTA
66 CTTTATCGAAAACGCCGCT-AATGCCTGAGCCTTAGCGACAATTAC-CA
* * *
835628 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGATTAGGTATTTTGCGGCG
1 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTTTTTTGCGGCG
*
835693 CTTTATGGAAAACGCCGCTAATGC
66 CTTTATCGAAAACGCCGCTAATGC
835717 TTATTTTTAG
Statistics
Matches: 164, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
112 39 0.24
113 57 0.35
114 52 0.32
115 16 0.10
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (112 bp):
AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTACGTTTTTTGCGGCG
CTTTATCGAAAACGCCGCTAATGCCTGAGCCTTAGCGACAATTACCA
Found at i:837837 original size:14 final size:14
Alignment explanation
Indices: 837818--837845 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
837808 TTTGTTTGGT
837818 GGAAAATATTTTCC
1 GGAAAATATTTTCC
837832 GGAAAATATTTTCC
1 GGAAAATATTTTCC
837846 TTAATTTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
GGAAAATATTTTCC
Found at i:840678 original size:14 final size:15
Alignment explanation
Indices: 840656--840732 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
840646 CAATCAAACA
840656 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
840670 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
840685 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
840705 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
840719 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
840733 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:840697 original size:20 final size:20
Alignment explanation
Indices: 840672--840711 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
840662 AATATTTTCC
*
840672 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
840692 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
840712 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:840717 original size:34 final size:35
Alignment explanation
Indices: 840660--840726 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
840650 CAAACACCAG
*
840660 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
840695 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
840727 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:851215 original size:12 final size:12
Alignment explanation
Indices: 851198--851225 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
851188 ATCGTGCAAT
851198 TGGAGACCAAAA
1 TGGAGACCAAAA
851210 TGGAGACCAAAA
1 TGGAGACCAAAA
851222 TGGA
1 TGGA
851226 TACCCGACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.29, T:0.11
Consensus pattern (12 bp):
TGGAGACCAAAA
Found at i:867501 original size:48 final size:48
Alignment explanation
Indices: 867442--867536 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
867432 TGAAAATGAA
* *
867442 CACTAGATAGAATTTCAT-GCAAGTAATCTCATAAGTTGGTAATAAATC
1 CACTAGATAGAATTTC-TCGCAAGAAATCTCATAAGTTAGTAATAAATC
*
867490 CACTTGATAGAATTTCTCGCAAGAAATCTCATAAGTTAGTAATAAAT
1 CACTAGATAGAATTTCTCGCAAGAAATCTCATAAGTTAGTAATAAAT
867537 GAAAAGCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.02
48 42 0.98
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.32
Consensus pattern (48 bp):
CACTAGATAGAATTTCTCGCAAGAAATCTCATAAGTTAGTAATAAATC
Found at i:867966 original size:1 final size:1
Alignment explanation
Indices: 867962--868030 Score: 84
Period size: 1 Copynumber: 69.0 Consensus size: 1
867952 CTTCTTCTTC
* * * * * *
867962 TTTTTTTTTTTTTTTTTATTTTTTTTTTATCTTCTTCTTTTTTTTCTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
868027 TTTT
1 TTTT
868031 AATTTGTTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:867995 original size:37 final size:38
Alignment explanation
Indices: 867954--868027 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
867944 TTCTTTTTCT
867954 TCTTCTTCTTTTTTTT-TTTTTTTTTATTTTTTTTTTA
1 TCTTCTTCTTTTTTTTCTTTTTTTTTATTTTTTTTTTA
*
867991 TCTTCTTCTTTTTTTTCTTTTTTTTTTTTTTTTTTTT
1 TCTTCTTCTTTTTTTTCTTTTTTTTTATTTTTTTTTT
868028 TTTAATTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 16 0.46
38 19 0.54
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (38 bp):
TCTTCTTCTTTTTTTTCTTTTTTTTTATTTTTTTTTTA
Found at i:868006 original size:40 final size:41
Alignment explanation
Indices: 867947--868031 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 41
867937 TATCTTCTTC
867947 TTTT-TCTTCTTCTTCTTTTT-TTTTTTTTTTTTATTTTTT
1 TTTTATCTTCTTCTTCTTTTTCTTTTTTTTTTTTATTTTTT
* *
867986 TTTTATCTTCTTCTTTTTTTTCTTTTTTTTTTTTTTTTTTT
1 TTTTATCTTCTTCTTCTTTTTCTTTTTTTTTTTTATTTTTT
868027 TTTTA
1 TTTTA
868032 ATTTGTTTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 4 0.10
40 15 0.36
41 23 0.55
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (41 bp):
TTTTATCTTCTTCTTCTTTTTCTTTTTTTTTTTTATTTTTT
Found at i:868018 original size:52 final size:52
Alignment explanation
Indices: 867936--868040 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
867926 CATGTAGATA
* *
867936 TTATCTTCTTCTTTTTCTTCTTCTTCTTTTTTTTTTTTTTTTTATTTTTTTT
1 TTATCTTCTTCTTTTTCTTCTTCTTCTTTTTTTTTTTTTTTTTAATTTGTTT
* * *
867988 TTATCTTCTTCTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTAATTTGTTT
1 TTATCTTCTTCTTTTTCTTCTTCTTCTTTTTTTTTTTTTTTTTAATTTGTTT
868040 T
1 T
868041 CTAAATGGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.05, C:0.10, G:0.01, T:0.84
Consensus pattern (52 bp):
TTATCTTCTTCTTTTTCTTCTTCTTCTTTTTTTTTTTTTTTTTAATTTGTTT
Found at i:879008 original size:19 final size:20
Alignment explanation
Indices: 878965--879008 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
878955 AACAGGGGTC
*
878965 ACATGGTTGTGTGGCTCAAA
1 ACATGGCTGTGTGGCTCAAA
878985 ACATGGCTGTGTGGC-CAAA
1 ACATGGCTGTGTGGCTCAAA
*
879004 CCATG
1 ACATG
879009 TACCATTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (20 bp):
ACATGGCTGTGTGGCTCAAA
Found at i:881407 original size:25 final size:26
Alignment explanation
Indices: 881379--881434 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 26
881369 TTTACTTTTG
*
881379 TTTATTATAATTTAACTTAACCTTA-
1 TTTATTATAATTTAACTTAACATTAC
881404 TTTATTATAATTTAACTTAACATTAC
1 TTTATTATAATTTAACTTAACATTAC
881430 TTTAT
1 TTTAT
881435 AATTTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTATTATAATTTAACTTAACATTAC
Found at i:885700 original size:14 final size:14
Alignment explanation
Indices: 885681--885707 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
885671 TTATATTGCT
885681 ATATTTTATAGAAA
1 ATATTTTATAGAAA
885695 ATATTTTATAGAA
1 ATATTTTATAGAA
885708 GAAACTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATTTTATAGAAA
Found at i:893553 original size:50 final size:51
Alignment explanation
Indices: 893499--893625 Score: 150
Period size: 50 Copynumber: 2.5 Consensus size: 51
893489 TAAAGAGATC
*
893499 CCATGTAAGAACATGTATGGGACATGGA-ATTAGCACCGAGATAAGAGGTA
1 CCATGTAAGACCATGTATGGGACATGGACATTAGCACCGAGATAAGAGGTA
* * * * * *
893549 CCATGTAAGACCATGTTTCGGACAT-GACGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTATGGGACATGGACATTAGCACCGAGATAAGAGGTA
** *
893599 CCCCGTAAGACCATGTCTGGGACATGG
1 CCATGTAAGACCATGTATGGGACATGG
893626 CATGGGCACT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.03
50 61 0.95
51 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.20
Consensus pattern (51 bp):
CCATGTAAGACCATGTATGGGACATGGACATTAGCACCGAGATAAGAGGTA
Found at i:893634 original size:50 final size:50
Alignment explanation
Indices: 893503--893644 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 50
893493 GAGATCCCAT
* * * * *
893503 GTAAGAACATGTATGGGACATGGAATTAGCACCGAGATAAGAGGTACCAT
1 GTAAGACCATGTATGGGACATGGCATTGGCACCGAGATGAGAGGTACCAC
* * * * * *
893553 GTAAGACCATGTTTCGGACATGACGTTGGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTATGGGACATGGCATTGGCACCGAGATGAGAGGTACCAC
* * * *
893603 GTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGA
1 GTAAGACCATGTATGGGACATGGCATTGGCACCGAGATGAGA
893645 ACTCTCATGT
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.20
Consensus pattern (50 bp):
GTAAGACCATGTATGGGACATGGCATTGGCACCGAGATGAGAGGTACCAC
Found at i:893657 original size:50 final size:49
Alignment explanation
Indices: 893603--893723 Score: 136
Period size: 49 Copynumber: 2.4 Consensus size: 49
893593 GAGGTCCCCC
* * * *
893603 GTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC-TCTCAT
1 GTAAGACCATGTCTGGGACATGACATGGGCACT-ACAAGA-AACATCCCAT
* * * *
893653 GTAAGACCATATCTGGGATATGACATTGGCAGTACAAGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGACATGGGCACTACAAGAAACATCCCAT
*
893702 GTAAGGCCATGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
893724 TATTTGGCAC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 3 0.05
49 28 0.47
50 28 0.47
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGACATGGGCACTACAAGAAACATCCCAT
Found at i:902604 original size:6 final size:6
Alignment explanation
Indices: 902533--902607 Score: 96
Period size: 6 Copynumber: 12.5 Consensus size: 6
902523 AGGTTTCCAA
* * * *
902533 AAATGG AAATGA AAATGG AAATGG AAATGG AAGTGG AAATGA AAATGA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
* *
902581 AAATGA AAATGA AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAA
902608 CTTGCAATCT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:903478 original size:21 final size:21
Alignment explanation
Indices: 903452--903502 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
903442 TTAATTAATT
903452 TCAAGTGGTAAGAACCTAAGG
1 TCAAGTGGTAAGAACCTAAGG
903473 TCAAGTGGTAAGAACCTAAGG
1 TCAAGTGGTAAGAACCTAAGG
903494 TCAAGTGGT
1 TCAAGTGGT
903503 TTTAGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (21 bp):
TCAAGTGGTAAGAACCTAAGG
Found at i:904279 original size:53 final size:53
Alignment explanation
Indices: 904221--904344 Score: 150
Period size: 53 Copynumber: 2.4 Consensus size: 53
904211 AAATTGTTGA
904221 AAAAATGGGTTGAA-ATG-AAG-GCCATGAATATTCGGCTAGTGTAAAATTTCAAT
1 AAAAATGGGTT-AATATGCAAGTGCCAT--ATATTCGGCTAGTGTAAAATTTCAAT
* *
904274 AAAAAT-GGTTAATTTGCATGTTGCCATATATTCGGCTAGTGTAAAATTTCAAT
1 AAAAATGGGTTAATATGCAAG-TGCCATATATTCGGCTAGTGTAAAATTTCAAT
*
904327 AAAAAT-GGTTAATTTGCA
1 AAAAATGGGTTAATATGCA
904345 TGTTTTAGGC
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
51 2 0.03
52 6 0.09
53 52 0.80
55 5 0.08
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (53 bp):
AAAAATGGGTTAATATGCAAGTGCCATATATTCGGCTAGTGTAAAATTTCAAT
Found at i:904345 original size:53 final size:53
Alignment explanation
Indices: 904248--904348 Score: 202
Period size: 53 Copynumber: 1.9 Consensus size: 53
904238 AAGGCCATGA
904248 ATATTCGGCTAGTGTAAAATTTCAATAAAAATGGTTAATTTGCATGTTGCCAT
1 ATATTCGGCTAGTGTAAAATTTCAATAAAAATGGTTAATTTGCATGTTGCCAT
904301 ATATTCGGCTAGTGTAAAATTTCAATAAAAATGGTTAATTTGCATGTT
1 ATATTCGGCTAGTGTAAAATTTCAATAAAAATGGTTAATTTGCATGTT
904349 TTAGGCTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (53 bp):
ATATTCGGCTAGTGTAAAATTTCAATAAAAATGGTTAATTTGCATGTTGCCAT
Found at i:904733 original size:29 final size:29
Alignment explanation
Indices: 904700--904787 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
904690 TTCAGCTATT
*
904700 GATTATGAAAAGGGATGGTGACGACCATC
1 GATTATGAAAAGGGATGGTTACGACCATC
* * * **
904729 TATTAAGGAAAAGGCATGGTTTTGACCATC
1 GATT-ATGAAAAGGGATGGTTACGACCATC
* * *
904759 GAATATGAAAAGGGACGATTACGACCATC
1 GATTATGAAAAGGGATGGTTACGACCATC
904788 ATTTAGTGCA
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
29 22 0.50
30 22 0.50
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (29 bp):
GATTATGAAAAGGGATGGTTACGACCATC
Found at i:906234 original size:14 final size:14
Alignment explanation
Indices: 906215--906243 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
906205 TAATGGTTAG
906215 TTTTGTGTCATTTA
1 TTTTGTGTCATTTA
906229 TTTTGTGTCATTTA
1 TTTTGTGTCATTTA
906243 T
1 T
906244 ATGGTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.66
Consensus pattern (14 bp):
TTTTGTGTCATTTA
Found at i:907304 original size:188 final size:188
Alignment explanation
Indices: 906987--907363 Score: 754
Period size: 188 Copynumber: 2.0 Consensus size: 188
906977 TCGATTTTAT
906987 AAAAGGACTTAATCGCGTAAAATGCAAAAGTGGCTAGCTATTTGTTAAAGTGCTATATTGCTATG
1 AAAAGGACTTAATCGCGTAAAATGCAAAAGTGGCTAGCTATTTGTTAAAGTGCTATATTGCTATG
907052 TCTTTTATAATGTGGGGTCCTTATGTTGATATTTGACAATTGAAATTATGCATGGACGGTAATGG
66 TCTTTTATAATGTGGGGTCCTTATGTTGATATTTGACAATTGAAATTATGCATGGACGGTAATGG
907117 GCTTATATTATAAGTTTTATCATTAAAATCATAAAGGCTAATTTTGTAAATTAGTTAA
131 GCTTATATTATAAGTTTTATCATTAAAATCATAAAGGCTAATTTTGTAAATTAGTTAA
907175 AAAAGGACTTAATCGCGTAAAATGCAAAAGTGGCTAGCTATTTGTTAAAGTGCTATATTGCTATG
1 AAAAGGACTTAATCGCGTAAAATGCAAAAGTGGCTAGCTATTTGTTAAAGTGCTATATTGCTATG
907240 TCTTTTATAATGTGGGGTCCTTATGTTGATATTTGACAATTGAAATTATGCATGGACGGTAATGG
66 TCTTTTATAATGTGGGGTCCTTATGTTGATATTTGACAATTGAAATTATGCATGGACGGTAATGG
907305 GCTTATATTATAAGTTTTATCATTAAAATCATAAAGGCTAATTTTGTAAATTAGTTAA
131 GCTTATATTATAAGTTTTATCATTAAAATCATAAAGGCTAATTTTGTAAATTAGTTAA
907363 A
1 A
907364 TATGTTAATG
Statistics
Matches: 189, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 189 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.38
Consensus pattern (188 bp):
AAAAGGACTTAATCGCGTAAAATGCAAAAGTGGCTAGCTATTTGTTAAAGTGCTATATTGCTATG
TCTTTTATAATGTGGGGTCCTTATGTTGATATTTGACAATTGAAATTATGCATGGACGGTAATGG
GCTTATATTATAAGTTTTATCATTAAAATCATAAAGGCTAATTTTGTAAATTAGTTAA
Found at i:908386 original size:43 final size:42
Alignment explanation
Indices: 908272--908386 Score: 101
Period size: 44 Copynumber: 2.6 Consensus size: 42
908262 TGTGATTTTG
* * *
908272 TGTAAGACCACGTCTGGGACGTTGACATCGATTTGAGATTTACG
1 TGTAAGACC-CGTCTGGAACG-TGGCATCGATTTGAGATTTACA
*
908316 TGTAAGACCCTGTCTAGGATA-GTGGCATCGATATT-TGA-TTACA
1 TGTAAGACCC-GTCT-GGA-ACGTGGCATCGAT-TTGAGATTTACA
908359 TGTAAGACCTCGTCTGGAACGTAGGCAT
1 TGTAAGACC-CGTCTGGAACGT-GGCAT
908387 TGTATGAGCT
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
41 1 0.02
42 5 0.08
43 23 0.38
44 25 0.42
45 5 0.08
46 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCCGTCTGGAACGTGGCATCGATTTGAGATTTACA
Found at i:918150 original size:20 final size:20
Alignment explanation
Indices: 918127--918229 Score: 75
Period size: 20 Copynumber: 5.2 Consensus size: 20
918117 TACTTTAGTA
*
918127 CCCCTGATTGCACTTATGTG
1 CCCCTGATTGCACTTACGTG
* *
918147 CCCCTGATTGTACTT-CGGTA
1 CCCCTGATTGCACTTAC-GTG
* *
918167 TCCTTGATTGCACTTACGTG
1 CCCCTGATTGCACTTACGTG
* * *
918187 CCCCTGTTTGTACTT-CGGTA
1 CCCCTGATTGCACTTAC-GTG
* * *
918207 CCCCTAATTGTAGTTACGTG
1 CCCCTGATTGCACTTACGTG
918227 CCC
1 CCC
918230 TATTTACATT
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
19 1 0.02
20 60 0.95
21 2 0.03
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (20 bp):
CCCCTGATTGCACTTACGTG
Found at i:918175 original size:40 final size:40
Alignment explanation
Indices: 918131--918229 Score: 135
Period size: 40 Copynumber: 2.5 Consensus size: 40
918121 TTAGTACCCC
*
918131 TGATTGCACTTATGTGCCCCTGATTGTACTTCGGTATCCT
1 TGATTGCACTTACGTGCCCCTGATTGTACTTCGGTATCCT
* * *
918171 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGATTGTACTTCGGTATCCT
* * *
918211 TAATTGTAGTTACGTGCCC
1 TGATTGCACTTACGTGCCC
918230 TATTTACATT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.37
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGATTGTACTTCGGTATCCT
Found at i:922480 original size:44 final size:45
Alignment explanation
Indices: 922416--922504 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 45
922406 AATGTTTTTT
922416 CTCTGCAATTTGGGCATAGGGGGAGGCTCGGACTGGTGAATTCAG
1 CTCTGCAATTTGGGCATAGGGGGAGGCTCGGACTGGTGAATTCAG
922461 CTCTGCAA-TTGGGCATAGGGGGAGGCTCGGACTGGTGAATTCAG
1 CTCTGCAATTTGGGCATAGGGGGAGGCTCGGACTGGTGAATTCAG
922505 TGTTCTCGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 36 0.82
45 8 0.18
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.24
Consensus pattern (45 bp):
CTCTGCAATTTGGGCATAGGGGGAGGCTCGGACTGGTGAATTCAG
Found at i:927107 original size:29 final size:30
Alignment explanation
Indices: 927058--927116 Score: 111
Period size: 29 Copynumber: 2.0 Consensus size: 30
927048 ATAAATTCAT
927058 GGCAACTTGGTAATTTGCTAACTACTGCTC
1 GGCAACTTGGTAATTTGCTAACTACTGCTC
927088 GGCAACTTGG-AATTTGCTAACTACTGCTC
1 GGCAACTTGGTAATTTGCTAACTACTGCTC
927117 ATACGTACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (30 bp):
GGCAACTTGGTAATTTGCTAACTACTGCTC
Found at i:928385 original size:10 final size:10
Alignment explanation
Indices: 928370--928394 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
928360 AAATCTGTCG
928370 AAAATAAATC
1 AAAATAAATC
928380 AAAATAAATC
1 AAAATAAATC
928390 AAAAT
1 AAAAT
928395 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATC
Found at i:931823 original size:20 final size:20
Alignment explanation
Indices: 931798--931907 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
931788 ATGGGATTTT
931798 CACTTCGGTGCCTCTGTTTG
1 CACTTCGGTGCCTCTGTTTG
* * * * *
931818 CACTTCAGCGCCTTTGTATA
1 CACTTCGGTGCCTCTGTTTG
* *
931838 CACTTCGGTGTC-CTGTTCG
1 CACTTCGGTGCCTCTGTTTG
* * * *
931857 CACTACGGTGCCCCTTTTTA
1 CACTTCGGTGCCTCTGTTTG
* *
931877 CACATT-TGTGCCTCTGTCTG
1 CAC-TTCGGTGCCTCTGTTTG
931897 CACTTCGGTGC
1 CACTTCGGTGC
931908 TCCTGTGATG
Statistics
Matches: 63, Mismatches: 24, Indels: 6
0.68 0.26 0.06
Matches are distributed among these distances:
19 15 0.24
20 47 0.75
21 1 0.02
ACGTcount: A:0.11, C:0.32, G:0.21, T:0.36
Consensus pattern (20 bp):
CACTTCGGTGCCTCTGTTTG
Found at i:936239 original size:35 final size:35
Alignment explanation
Indices: 936195--936263 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
936185 AGCCAATCCC
*
936195 TCCGGAACACACCAATACTCATAAAAGCTAGTCCT
1 TCCGAAACACACCAATACTCATAAAAGCTAGTCCT
* * *
936230 TCCGAAACACACCAATGCTCATCAGAGCTAGTCC
1 TCCGAAACACACCAATACTCATAAAAGCTAGTCC
936264 AACCGAGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.35, C:0.33, G:0.13, T:0.19
Consensus pattern (35 bp):
TCCGAAACACACCAATACTCATAAAAGCTAGTCCT
Found at i:936275 original size:35 final size:35
Alignment explanation
Indices: 936200--936276 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
936190 ATCCCTCCGG
**
936200 AACACACCAATACTCATAAAAGCTAGTCCTTCCGA
1 AACACACCAATACTCATAAAAGCTAGTCCAACCGA
* * *
936235 AACACACCAATGCTCATCAGAGCTAGTCCAACCGA
1 AACACACCAATACTCATAAAAGCTAGTCCAACCGA
*
936270 GACACAC
1 AACACAC
936277 TAAACAGAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.34, G:0.12, T:0.16
Consensus pattern (35 bp):
AACACACCAATACTCATAAAAGCTAGTCCAACCGA
Found at i:954786 original size:29 final size:31
Alignment explanation
Indices: 954733--954805 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
954723 TAGGCATTTT
*
954733 AAAATTTTTGAAAATTTTAACTAAG-TCTC-
1 AAAATTTTTAAAAATTTTAACTAAGCTCTCA
*
954762 AAAATTTTTAAAAATTATT-ATTAAGCCTCTCA
1 AAAATTTTTAAAAATT-TTAACTAAG-CTCTCA
*
954794 AAAATTCTTAAA
1 AAAATTTTTAAA
954806 TTTTTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 20 0.54
30 2 0.05
31 4 0.11
32 11 0.30
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (31 bp):
AAAATTTTTAAAAATTTTAACTAAGCTCTCA
Found at i:962225 original size:39 final size:39
Alignment explanation
Indices: 962133--962231 Score: 137
Period size: 39 Copynumber: 2.6 Consensus size: 39
962123 GAAATCCTTG
* *
962133 TTATAATTATTGTAATTATAA-TTTACGATCGAATATTA
1 TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
* * *
962171 TTATAATTATTGTAATTGTAATTTTTCGTTCAAACATTA
1 TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
*
962210 TTATAATTATGGTAATTATAAT
1 TTATAATTATTGTAATTATAAT
962232 AATTATATTC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 20 0.38
39 33 0.62
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.49
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
Found at i:965613 original size:43 final size:42
Alignment explanation
Indices: 965543--965668 Score: 155
Period size: 43 Copynumber: 3.0 Consensus size: 42
965533 GAAACACATA
* *
965543 TATCACATA-CAATGCCATATCCCAGATATGGTCTTACATGT
1 TATCACATATCAATGCCATGTCCCAGATATGGTCTTACACGT
*
965584 TATCACATATCAATGCCACTGTCCCAGATAGGGTCTTACACGT
1 TATCACATATCAATGCCA-TGTCCCAGATATGGTCTTACACGT
* * ** *
965627 AATCGCATATGGATGCCAATGTCCCAGACATGGTCTTACACG
1 TATCACATATCAATGCC-ATGTCCCAGATATGGTCTTACACG
965669 AAATCACACC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 9 0.12
42 8 0.11
43 55 0.75
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
TATCACATATCAATGCCATGTCCCAGATATGGTCTTACACGT
Found at i:966758 original size:24 final size:24
Alignment explanation
Indices: 966731--966809 Score: 77
Period size: 31 Copynumber: 3.0 Consensus size: 24
966721 TTTCTTTCTC
966731 TGATATTTACTGTAAATATAAGTT
1 TGATATTTACTGTAAATATAAGTT
966755 TGATCTATTGTAGTGGCTGTAAATATAAGTT
1 TGA--TATT-TA----CTGTAAATATAAGTT
* *
966786 TGATCTTTACTGTAAATAGAAGTT
1 TGATATTTACTGTAAATATAAGTT
966810 ATTATCTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
24 17 0.37
26 4 0.09
27 2 0.04
28 2 0.04
29 3 0.07
31 18 0.39
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (24 bp):
TGATATTTACTGTAAATATAAGTT
Found at i:968440 original size:31 final size:31
Alignment explanation
Indices: 968402--968478 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
968392 AAAAAAAAAT
968402 GGGCCGGGCCCGGGCTTCTTATTTTTTCCAC
1 GGGCCGGGCCCGGGCTTCTTATTTTTTCCAC
968433 GGGCCGGGCCCGGGCTTCTTATTTTTTCCAC
1 GGGCCGGGCCCGGGCTTCTTATTTTTTCCAC
*
968464 GGGCCGGGCCTGGGC
1 GGGCCGGGCCCGGGC
968479 AAAATCTCAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.05, C:0.32, G:0.35, T:0.27
Consensus pattern (31 bp):
GGGCCGGGCCCGGGCTTCTTATTTTTTCCAC
Found at i:979309 original size:24 final size:25
Alignment explanation
Indices: 979282--979329 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
979272 ATTATTTAAA
*
979282 TTTAAATTGTTAA-TTATTATGTTG
1 TTTAAATTATTAATTTATTATGTTG
* *
979306 TTTAGATTATTAATTTTTTATGTT
1 TTTAAATTATTAATTTATTATGTT
979330 TATATACTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.62
Consensus pattern (25 bp):
TTTAAATTATTAATTTATTATGTTG
Found at i:984224 original size:27 final size:27
Alignment explanation
Indices: 984186--984521 Score: 369
Period size: 27 Copynumber: 12.5 Consensus size: 27
984176 AGACCCCAAA
* *
984186 ATAGGGTAAAATGACCGAAATATCGCT
1 ATAGGGTAAAATGACCGAAATACCCCT
**
984213 ATAGGGTAAAATGATTGAAATA-CCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
* * * *
984239 CATAGGGTAAAATGA-CTAGAACACCTCG
1 -ATAGGGTAAAATGACCGA-AATACCCCT
* * *
984267 ATATGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCT
*
984294 ATAGGGTAAAATGACCAAAATATCCCC-
1 ATAGGGTAAAATGACCGAAATA-CCCCT
*
984321 ATAGGGTAAAATAACCGAAATA-CCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
* *
984347 CATAAGGTAAAATGACCAAAATA-CCCT
1 -ATAGGGTAAAATGACCGAAATACCCCT
984374 ATAGGGTAAAATGACCGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
*
984401 ATAGGGTAAAATGATCGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCT
* * *
984428 ATAGAGTAAAATGACTGAAATATCCC-
1 ATAGGGTAAAATGACCGAAATACCCCT
* * *
984454 ATAAGGTAAAATGACTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCT
* *
984481 ATAGAGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCT
*
984508 ATAAGGTAAAATGA
1 ATAGGGTAAAATGA
984522 ATGTTATACC
Statistics
Matches: 264, Mismatches: 36, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
25 3 0.01
26 47 0.18
27 206 0.78
28 8 0.03
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCT
Found at i:984410 original size:80 final size:81
Alignment explanation
Indices: 984190--984521 Score: 383
Period size: 80 Copynumber: 4.1 Consensus size: 81
984180 CCCAAAATAG
* **
984190 GGTAAAATGACCGAAATATCGCTATAGGGTAAAATGATTGAAATA-CCCTCATAGGGTAAAATGA
1 GGTAAAATGACCGAAATATCCCTATAGGGTAAAATGACCGAAATACCCCT-ATAGGGTAAAATGA
* * *
984254 -CTAGA-ACACCTCGATAT
65 CCGAAATAC-CCTC-ATAA
* * * * *
984271 GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCAAAATATCCCC-ATAGGGTAAAATAA
1 GGTAAAATGACCGAAATATCCCTATAGGGTAAAATGACCGAAATA-CCCCTATAGGGTAAAATGA
984335 CCGAAATACCCTCATAA
65 CCGAAATACCCTCATAA
* *
984352 GGTAAAATGACCAAAATA-CCCTATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAT
1 GGTAAAATGACCGAAATATCCCTATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAC
984416 CGAAATACCC-C-TATA
66 CGAAATACCCTCATA-A
* * * * *
984431 GAGTAAAATGACTGAAATATCCC-ATAAGGTAAAATGACTGAAATACCCCCATAGAGTAAAATGA
1 G-GTAAAATGACCGAAATATCCCTATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGA
*
984495 CCGAAATACCCCCATAA
65 CCGAAATACCCTCATAA
984512 GGTAAAATGA
1 GGTAAAATGA
984522 ATGTTATACC
Statistics
Matches: 217, Mismatches: 24, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.01
79 7 0.03
80 118 0.54
81 76 0.35
82 9 0.04
83 5 0.02
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (81 bp):
GGTAAAATGACCGAAATATCCCTATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAC
CGAAATACCCTCATAA
Found at i:984979 original size:28 final size:28
Alignment explanation
Indices: 984948--985051 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
984938 ACTATTTCTG
984948 TATTGGGCTAAGGCCCACACTGATT-CTA
1 TATTGGGCTAAGGCCCACACTG-TTACTA
* *
984976 TATTGGGCTAAGGCCCACATTGTTACTG
1 TATTGGGCTAAGGCCCACACTGTTACTA
* *
985004 TTTTGGGGTAAGGCCCACACTGTTACTA
1 TATTGGGCTAAGGCCCACACTGTTACTA
985032 TATTAGGG--AAGGCCCACACT
1 TATT-GGGCTAAGGCCCACACT
985052 ATACTGTCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 14 0.21
28 50 0.75
29 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (28 bp):
TATTGGGCTAAGGCCCACACTGTTACTA
Found at i:989083 original size:36 final size:35
Alignment explanation
Indices: 989036--989124 Score: 115
Period size: 36 Copynumber: 2.5 Consensus size: 35
989026 ATTATTGTGG
*
989036 TTTATCCGACCAGTGCTAGGTGCAAAACATCGTCGA
1 TTTATCTGACCAGTGC-AGGTGCAAAACATCGTCGA
* * *
989072 TTTATCTGACCAGTGCAGGGCGCAAAACATCGTTGG
1 TTTATCTGACCAGTGCA-GGTGCAAAACATCGTCGA
*
989108 TTTATTTGACCAGTGCA
1 TTTATCTGACCAGTGCA
989125 AGGCACAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 1 0.02
36 46 0.98
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (35 bp):
TTTATCTGACCAGTGCAGGTGCAAAACATCGTCGA
Found at i:989667 original size:22 final size:22
Alignment explanation
Indices: 989642--989691 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
989632 TTTCATGGTT
**
989642 GTTTAATTTAATACGTTGGTAA
1 GTTTAATTTAATACAATGGTAA
*
989664 GTTTCATTTAATACAATGGTAA
1 GTTTAATTTAATACAATGGTAA
989686 GTTTAA
1 GTTTAA
989692 GTTCTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (22 bp):
GTTTAATTTAATACAATGGTAA
Found at i:991145 original size:38 final size:38
Alignment explanation
Indices: 991090--991169 Score: 119
Period size: 38 Copynumber: 2.1 Consensus size: 38
991080 GACTGGAGAC
*
991090 ACAC-ACGATCTATCTCCCCTG-AGGCGAATGTACAATT
1 ACACTACGATATATCTCCCCTGCA-GCGAATGTACAATT
*
991127 ACACTACGATATATCTCCCCTGCAGCGAGTGTACAATT
1 ACACTACGATATATCTCCCCTGCAGCGAATGTACAATT
991165 ACACT
1 ACACT
991170 CGAGGATGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
37 4 0.10
38 34 0.87
39 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (38 bp):
ACACTACGATATATCTCCCCTGCAGCGAATGTACAATT
Found at i:992810 original size:11 final size:11
Alignment explanation
Indices: 992789--992833 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
992779 TTTATATATG
992789 AAATT-ATAAA
1 AAATTCATAAA
*
992799 AATTTCATAAA
1 AAATTCATAAA
*
992810 AAATTCTTAAA
1 AAATTCATAAA
992821 AAA-TC-TAAA
1 AAATTCATAAA
992830 AAAT
1 AAAT
992834 ATACAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 7 0.23
10 6 0.20
11 17 0.57
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATTCATAAA
Found at i:1000018 original size:13 final size:13
Alignment explanation
Indices: 1000000--1000024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
999990 TGTCCCAACA
1000000 GGGACTGATTCTC
1 GGGACTGATTCTC
1000013 GGGACTGATTCT
1 GGGACTGATTCT
1000025 TCACGTATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (13 bp):
GGGACTGATTCTC
Found at i:1003084 original size:51 final size:49
Alignment explanation
Indices: 1002950--1003135 Score: 221
Period size: 51 Copynumber: 3.7 Consensus size: 49
1002940 GTGAAAGTGA
*
1002950 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA-G-T
* * * *
1003000 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-T
* * * * *
1003050 TCGATCACGTGTGTAGTACTATGTGCAAGCTACTACATGTATCAGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
1003100 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1003136 TGTGAACCGG
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 43 0.38
51 70 0.61
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
Found at i:1003145 original size:102 final size:101
Alignment explanation
Indices: 1002953--1003145 Score: 298
Period size: 102 Copynumber: 1.9 Consensus size: 101
1002943 AAAGTGATGG
* * *
1002953 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACATGTACCAGAATGATAGGTCACATGTGTAGTAC
*
1003018 TATGTGCAGGCTACTACGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTACGCGAACCGGATAGCTTCGA
*
1003054 TCACGTGTGTAGTACTATGTGCAAGCTACTACATGTATCAGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACATGTACCAGA-A-TGATAGGTCACATGTGTAGT
* *
1003118 ACTATGTGCAGGCTACTATGTGAACCGG
64 ACTATGTGCAGGCTACTACGCGAACCGG
1003146 TATCATTAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 39 0.47
102 40 0.48
103 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACATGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTACGCGAACCGGATAGCTTCGA
Found at i:1003384 original size:16 final size:16
Alignment explanation
Indices: 1003363--1003394 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1003353 TGATTGAAAG
*
1003363 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
1003379 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
1003395 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:1009466 original size:9 final size:9
Alignment explanation
Indices: 1009449--1009485 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
1009439 TGAATTTTCG
1009449 AATTCGAAT
1 AATTCGAAT
*
1009458 AACTCGAAT
1 AATTCGAAT
1009467 AATTCGAAT
1 AATTCGAAT
1009476 AATTCGAAT
1 AATTCGAAT
1009485 A
1 A
1009486 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:1009871 original size:17 final size:16
Alignment explanation
Indices: 1009837--1009867 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1009827 CCTATTTACT
*
1009837 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
1009853 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
1009868 TATTTTCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:1010571 original size:4 final size:4
Alignment explanation
Indices: 1010556--1010598 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
1010546 TATGATTTTC
1010556 TTAA TT-A TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1010599 AGGTCGAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 35 0.92
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:1014882 original size:33 final size:32
Alignment explanation
Indices: 1014845--1015011 Score: 102
Period size: 33 Copynumber: 5.0 Consensus size: 32
1014835 GGTATTACGT
*
1014845 TCATAGTGCCATAACCCAATTATGGTCTTATCA
1 TCATAGTGCCATAACCCAACTATGGTCTTA-CA
* *
1014878 TCATAATGCCATAGCCCAACTATGGTCTTACA
1 TCATAGTGCCATAACCCAACTATGGTCTTACA
* *** * *
1014910 T-ATAAACACTGCCATGGTCCAACCATGGTCTTACG
1 TCAT----AGTGCCATAACCCAACTATGGTCTTACA
** *
1014945 TCCATAGTGCCATAACCCAGTTATGGTTTTATCA
1 T-CATAGTGCCATAACCCAACTATGGTCTTA-CA
* * * * * *
1014979 TCAGAATTCCATATCCTAGCTATGGTCTTACA
1 TCATAGTGCCATAACCCAACTATGGTCTTACA
1015011 T
1 T
1015012 ATATACACTG
Statistics
Matches: 103, Mismatches: 24, Indels: 15
0.73 0.17 0.11
Matches are distributed among these distances:
31 2 0.02
32 6 0.06
33 67 0.65
34 2 0.02
35 24 0.23
37 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (32 bp):
TCATAGTGCCATAACCCAACTATGGTCTTACA
Found at i:1014969 original size:101 final size:100
Alignment explanation
Indices: 1014794--1015045 Score: 344
Period size: 101 Copynumber: 2.5 Consensus size: 100
1014784 GTTTCATAAT
* * * * * * *
1014794 CCAACTATGGTCTTACATAT-GCATTGTCATGGCCCTACCATGGTATTACGTTCATAGTGCCATA
1 CCAACTATGGTCTTACATATAACACTGCCATGGTCCAACCATGGTCTTACGTCCATAGTGCCATA
*
1014858 ACCCAATTATGGTCTTATCATCATAATGCCATAGC
66 ACCCAATTATGGTCTTATCATCAGAATGCCATAGC
1014893 CCAACTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACGTCCATAGTGCCAT
1 CCAACTATGGTCTTACATAT-AACACTGCCATGGTCCAACCATGGTCTTACGTCCATAGTGCCAT
* * * *
1014958 AACCCAGTTATGGTTTTATCATCAGAATTCCATATC
65 AACCCAATTATGGTCTTATCATCAGAATGCCATAGC
* *
1014994 CTAGCTATGGTCTTACATATATACACTGCCATGGTCCCAACCATGGTCTTAC
1 CCAACTATGGTCTTACATATA-ACACTGCCATGGT-CCAACCATGGTCTTAC
1015046 ATTTGAATAA
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
99 20 0.15
100 1 0.01
101 98 0.73
102 16 0.12
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (100 bp):
CCAACTATGGTCTTACATATAACACTGCCATGGTCCAACCATGGTCTTACGTCCATAGTGCCATA
ACCCAATTATGGTCTTATCATCAGAATGCCATAGC
Found at i:1024872 original size:78 final size:78
Alignment explanation
Indices: 1024743--1024899 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
1024733 TGAAAATAAC
1024743 CATGTCCACCTTGCAATCTCCCACTCCTCACGCATCATTCCTTTGCCTTCCTTCGTAGGAGTGTC
1 CATGTCCACCTTGCAATCTCCCACTCCTCACGCATCATTCCTTTGCCTTCCTTCGTAGGAGTGTC
1024808 ATGGAGTAAACCA
66 ATGGAGTAAACCA
1024821 CATGTCCACCTTGCAATCTCCCACTCCTCACGCATCATTCCTTTGCCTTCCTTCGTAGGAGTGTC
1 CATGTCCACCTTGCAATCTCCCACTCCTCACGCATCATTCCTTTGCCTTCCTTCGTAGGAGTGTC
1024886 ATGGAGTAAACCA
66 ATGGAGTAAACCA
1024899 C
1 C
1024900 GACAAGGTTA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.20, C:0.35, G:0.15, T:0.29
Consensus pattern (78 bp):
CATGTCCACCTTGCAATCTCCCACTCCTCACGCATCATTCCTTTGCCTTCCTTCGTAGGAGTGTC
ATGGAGTAAACCA
Done.