Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 155 of 250
Found at i:49962066 original size:24 final size:25
Alignment explanation
Indices: 49962034--49962082 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
49962024 ATGTATGAAA
*
49962034 TGAATGATTTT-TTGAATAATTTAG
1 TGAATGATTTTAGTGAATAATTTAG
49962058 TGAATGATTTTAAGTGAATAATTTA
1 TGAATGATTTT-AGTGAATAATTTA
49962083 AAGTAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
26 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TGAATGATTTTAGTGAATAATTTAG
Found at i:49962075 original size:14 final size:14
Alignment explanation
Indices: 49962046--49962086 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
49962036 AATGATTTTT
49962046 TGAATAATTT--AG
1 TGAATAATTTAAAG
* *
49962058 TGAATGATTTTAAG
1 TGAATAATTTAAAG
49962072 TGAATAATTTAAAG
1 TGAATAATTTAAAG
49962086 T
1 T
49962087 AAGAAAGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 9 0.38
14 15 0.62
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (14 bp):
TGAATAATTTAAAG
Found at i:49963277 original size:21 final size:21
Alignment explanation
Indices: 49963252--49963312 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
49963242 ACAATATATC
49963252 GATACATGC-AAGAAATGTATT
1 GATACAT-CTAAGAAATGTATT
* ***
49963273 GATACCTCTAAGGTGTGTATT
1 GATACATCTAAGAAATGTATT
49963294 GATACATCTAAGAAATGTA
1 GATACATCTAAGAAATGTA
49963313 CCGATACCTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (21 bp):
GATACATCTAAGAAATGTATT
Found at i:49965948 original size:28 final size:28
Alignment explanation
Indices: 49965908--49965964 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
49965898 GTCACTCATA
*
49965908 GGAATGAAGTTACCTGTTGGAATTAGTC
1 GGAATAAAGTTACCTGTTGGAATTAGTC
49965936 GGAATAAAGTTACCTGTTGGAATTAGTC
1 GGAATAAAGTTACCTGTTGGAATTAGTC
49965964 G
1 G
49965965 CTACAAGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.32
Consensus pattern (28 bp):
GGAATAAAGTTACCTGTTGGAATTAGTC
Found at i:49968386 original size:69 final size:69
Alignment explanation
Indices: 49968275--49968413 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
49968265 TTGTCTGGAA
* *
49968275 AGGATAAAACATGAAAGTTGTTTATATTGGCACTCATGAGCCTCTCCCCATTGGGTATATTCTAA
1 AGGATAAAACATGAAAGCTGTTTATATTGGCACTCATGAGCCTCTCACCATTGGGTATATTCTAA
49968340 TATC
66 TATC
*
49968344 AGGATAAAACATGAAAGCTGTTTGTATTGGCACTCATGAGCCTCTCACCATTGGGTATATTCTAA
1 AGGATAAAACATGAAAGCTGTTTATATTGGCACTCATGAGCCTCTCACCATTGGGTATATTCTAA
49968409 TATC
66 TATC
49968413 A
1 A
49968414 CCTAGCAGAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (69 bp):
AGGATAAAACATGAAAGCTGTTTATATTGGCACTCATGAGCCTCTCACCATTGGGTATATTCTAA
TATC
Found at i:49981423 original size:25 final size:25
Alignment explanation
Indices: 49981391--49981443 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
49981381 ATCTATAAAG
49981391 AACTCCACTTCTCTATCCGATAGTA
1 AACTCCACTTCTCTATCCGATAGTA
* *
49981416 AACTCCACTTCTCTATCCGGTGGTA
1 AACTCCACTTCTCTATCCGATAGTA
49981441 AAC
1 AAC
49981444 CAGGTAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.30
Consensus pattern (25 bp):
AACTCCACTTCTCTATCCGATAGTA
Found at i:49986344 original size:30 final size:31
Alignment explanation
Indices: 49986287--49986344 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
49986277 TTGGGATGGA
*
49986287 AAGGAAGTAAAAGTTTTGGGGAGAAAGTGGG
1 AAGGAAGTAAAAGTTTTAGGGAGAAAGTGGG
49986318 AAGG-AGTAAAAGTTTTTAGGGA-AAAGT
1 AAGGAAGTAAAAG-TTTTAGGGAGAAAGT
49986345 AAAAAGGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.22
Consensus pattern (31 bp):
AAGGAAGTAAAAGTTTTAGGGAGAAAGTGGG
Found at i:49987596 original size:17 final size:17
Alignment explanation
Indices: 49987570--49987603 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49987560 TTTGCACTTT
*
49987570 CCATTTATGAATCTAAA
1 CCATTCATGAATCTAAA
49987587 CCATTCATGAATCTAAA
1 CCATTCATGAATCTAAA
49987604 GAATTAAAAT
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:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (17 bp):
CCATTCATGAATCTAAA
Found at i:49997730 original size:23 final size:22
Alignment explanation
Indices: 49997702--49997766 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
49997692 ATTGAAGAAT
*
49997702 TAATATTTTATATTTATCTCAAA
1 TAATATTTTATATTTAT-TAAAA
*
49997725 TAATATATTATATTT-TTAAAA
1 TAATATTTTATATTTATTAAAA
49997746 TAA-ATTTT-TATTTATTTAAAA
1 TAATATTTTATATTTA-TTAAAA
49997767 ATAAGAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 13 0.35
22 1 0.03
23 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATATTTTATATTTATTAAAA
Found at i:49999191 original size:20 final size:20
Alignment explanation
Indices: 49999168--49999206 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49999158 AAACTTTCTT
* *
49999168 GTTTTAAGTAGTTATTTCAA
1 GTTTTAAATAATTATTTCAA
49999188 GTTTTAAATAATTATTTCA
1 GTTTTAAATAATTATTTCA
49999207 TATATCACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
GTTTTAAATAATTATTTCAA
Found at i:50003292 original size:13 final size:13
Alignment explanation
Indices: 50003274--50003316 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
50003264 AATTTTAAAT
50003274 TATTTAGTGATAA
1 TATTTAGTGATAA
*
50003287 TATTTA--GA-AT
1 TATTTAGTGATAA
50003297 TATTTAGTGATAA
1 TATTTAGTGATAA
50003310 TATTTAG
1 TATTTAG
50003317 AAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:50003297 original size:23 final size:23
Alignment explanation
Indices: 50003267--50003318 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
50003257 TAGTTTAAAT
50003267 TTTA-AATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
50003289 TTTAGAATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
50003312 TTTAGAA
1 TTTAGAA
50003319 AAAATCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (23 bp):
TTTAGAATTATTTAGTGATAATA
Found at i:50004276 original size:5 final size:6
Alignment explanation
Indices: 50004258--50004282 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50004248 TTTAAACCCC
50004258 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
50004283 CAGCATTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:50006581 original size:24 final size:24
Alignment explanation
Indices: 50006549--50006597 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
50006539 ATGTACAAAG
*
50006549 ATTGATGTTCGTAGTGGAACCCTC
1 ATTGATGTTCGTAGTAGAACCCTC
50006573 ATTGATGTTCGTAGTAGAACCCTC
1 ATTGATGTTCGTAGTAGAACCCTC
50006597 A
1 A
50006598 CTATGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (24 bp):
ATTGATGTTCGTAGTAGAACCCTC
Found at i:50009983 original size:23 final size:23
Alignment explanation
Indices: 50009957--50010008 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
50009947 TTATTTTTAA
*
50009957 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
50009980 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
50010003 ATTTAG
1 ATTTAG
50010009 TAATAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:50009984 original size:13 final size:13
Alignment explanation
Indices: 50009966--50010043 Score: 78
Period size: 13 Copynumber: 6.5 Consensus size: 13
50009956 AATTTTGAAT
50009966 TATTTAGTGATAA
1 TATTTAGTGATAA
*
50009979 TATTTA--GA-AT
1 TATTTAGTGATAA
50009989 TATTTAGTGATAA
1 TATTTAGTGATAA
*
50010002 TATTTAGTAATAA
1 TATTTAGTGATAA
50010015 TATTTAG-GAT--
1 TATTTAGTGATAA
* *
50010025 TATTTAATTATAA
1 TATTTAGTGATAA
50010038 TATTTA
1 TATTTA
50010044 AAAAAAATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
10 13 0.25
11 4 0.08
12 4 0.08
13 32 0.60
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:50010015 original size:36 final size:36
Alignment explanation
Indices: 50009966--50010043 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
50009956 AATTTTGAAT
* *
50009966 TATTTAGTGATAATATTTAGAATTATTTAGTGATAA
1 TATTTAGTAATAATATTTAGAATTATTTAATGATAA
* *
50010002 TATTTAGTAATAATATTTAGGATTATTTAATTATAA
1 TATTTAGTAATAATATTTAGAATTATTTAATGATAA
50010038 TATTTA
1 TATTTA
50010044 AAAAAAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (36 bp):
TATTTAGTAATAATATTTAGAATTATTTAATGATAA
Found at i:50010935 original size:13 final size:13
Alignment explanation
Indices: 50010898--50010941 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
50010888 GAATCTGTTT
*
50010898 TTATTGTATTTTCTT
1 TTATTGTA-TTTC-C
50010913 TTATTGTATTTCC
1 TTATTGTATTTCC
*
50010926 TTATTTTATTTCC
1 TTATTGTATTTCC
50010939 TTA
1 TTA
50010942 ATCAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 4 0.15
15 8 0.30
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (13 bp):
TTATTGTATTTCC
Found at i:50012101 original size:30 final size:30
Alignment explanation
Indices: 50012029--50012113 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
50012019 GGATGTGGAG
* * * * * *
50012029 CTTCTACAGGCGACAGTGCAGGTGATGGCA
1 CTTCTACGGGTGACGGTGCCGGTGACGACA
*
50012059 CTTCTACGGGTGACGGTGCTGGTGACGACA
1 CTTCTACGGGTGACGGTGCCGGTGACGACA
*
50012089 CTTCTA-GTGGTGATGGTGCCGGTGA
1 CTTCTACG-GGTGACGGTGCCGGTGA
50012114 TTTGATTCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 1 0.02
30 45 0.98
ACGTcount: A:0.18, C:0.21, G:0.36, T:0.25
Consensus pattern (30 bp):
CTTCTACGGGTGACGGTGCCGGTGACGACA
Found at i:50014402 original size:14 final size:13
Alignment explanation
Indices: 50014383--50014429 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
50014373 GGCCGAAAGC
50014383 CTCTTTTCTCTTTT
1 CTCTTTT-TCTTTT
*
50014397 CTCTTTTTGTTTT
1 CTCTTTTTCTTTT
* *
50014410 TTGTTTTTCTTTT
1 CTCTTTTTCTTTT
50014423 -TCTTTTT
1 CTCTTTTT
50014430 TTTAAATACA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 6 0.21
13 15 0.54
14 7 0.25
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (13 bp):
CTCTTTTTCTTTT
Found at i:50014422 original size:19 final size:20
Alignment explanation
Indices: 50014393--50014430 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50014383 CTCTTTTCTC
*
50014393 TTTTCTCTTTTTGTTTTTTG
1 TTTTCTCTTTTTCTTTTTTG
50014413 TTTT-TCTTTTTCTTTTTT
1 TTTTCTCTTTTTCTTTTTT
50014431 TTAAATACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTTCTCTTTTTCTTTTTTG
Found at i:50015130 original size:12 final size:11
Alignment explanation
Indices: 50015118--50015162 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
50015108 TACAAACTAT
50015118 TTTATTATTTA
1 TTTATTATTTA
50015129 TTTATTTATTTA
1 TTTA-TTATTTA
* *
50015141 TTTATTACTTC
1 TTTATTATTTA
50015152 TTTATT-TTTA
1 TTTATTATTTA
50015162 T
1 T
50015163 ATATACTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 3 0.10
11 15 0.52
12 11 0.38
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:50015131 original size:4 final size:4
Alignment explanation
Indices: 50015118--50015146 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
50015108 TACAAACTAT
50015118 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
50015147 ACTTCTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:50015250 original size:34 final size:32
Alignment explanation
Indices: 50015204--50015289 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 32
50015194 TTTGTTTGTG
*
50015204 TATTTTTATTTATTTATTTATTCTTGTCATTAT
1 TATTTTTTTTTATTTATTTATTCTTGTCATT-T
* *
50015237 TATTTTATTTTTATTCT-TTTGTTCTTGTTATTT
1 TATTTT-TTTTTATT-TATTTATTCTTGTCATTT
50015270 TATTATTTCTTTTA-TTATTT
1 TATT-TTT-TTTTATTTATTT
50015290 TTGGCACTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
32 1 0.02
33 16 0.36
34 27 0.60
35 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.73
Consensus pattern (32 bp):
TATTTTTTTTTATTTATTTATTCTTGTCATTT
Found at i:50015258 original size:28 final size:26
Alignment explanation
Indices: 50015220--50015273 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
50015210 TATTTATTTA
50015220 TTTATTCTTG-TCATTATTATTTTATT
1 TTTATTCTTGTTC-TTATTATTTTATT
*
50015246 TTTATTCTTTTGTTCTTGTTATTTTATT
1 TTTATTC--TTGTTCTTATTATTTTATT
50015274 ATTTCTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 7 0.29
28 15 0.62
29 2 0.08
ACGTcount: A:0.15, C:0.07, G:0.06, T:0.72
Consensus pattern (26 bp):
TTTATTCTTGTTCTTATTATTTTATT
Found at i:50018992 original size:19 final size:20
Alignment explanation
Indices: 50018956--50018995 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
50018946 CAATGCCGTA
*
50018956 TATGTAAAATATATTTGTTT
1 TATGTAAAATAGATTTGTTT
50018976 TATGTAAAA-AGATTTGTTT
1 TATGTAAAATAGATTTGTTT
50018995 T
1 T
50018996 GTAGTAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (20 bp):
TATGTAAAATAGATTTGTTT
Found at i:50020371 original size:28 final size:29
Alignment explanation
Indices: 50020326--50020381 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
50020316 TAACCAGCCA
* * *
50020326 TCAAGGCCCATCAAGGAAAGAA-TCTAAC
1 TCAAGGCCAAACAAGGAAAAAACTCTAAC
*
50020354 TCAAGGCCAAACATGGAAAAAACTCTAA
1 TCAAGGCCAAACAAGGAAAAAACTCTAA
50020382 TTCACACCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.46, C:0.23, G:0.16, T:0.14
Consensus pattern (29 bp):
TCAAGGCCAAACAAGGAAAAAACTCTAAC
Found at i:50027295 original size:43 final size:44
Alignment explanation
Indices: 50027202--50027349 Score: 154
Period size: 44 Copynumber: 3.4 Consensus size: 44
50027192 GTAGTAGAGT
* * * * * *
50027202 AAATTGAAGCCACAAGTCTTATCTCTCTGAAGTTACAGTAGAGC
1 AAATTGAAGCTACAAGTCTTTTTTCCCTGAAGTTACAGTGGAAC
* * **
50027246 AGATTGAGGCTACAAGT-TTTTTTCCCTGAAGTTGTAGTGGAAC
1 AAATTGAAGCTACAAGTCTTTTTTCCCTGAAGTTACAGTGGAAC
* * *
50027289 AAATTGAAGTTACAAATCTTTTTTCTCTGAAGTTACAGTGGAAC
1 AAATTGAAGCTACAAGTCTTTTTTCCCTGAAGTTACAGTGGAAC
* *
50027333 AGATTAAAGCTACAAGT
1 AAATTGAAGCTACAAGT
50027350 GACAAATCTT
Statistics
Matches: 82, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 32 0.39
44 50 0.61
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (44 bp):
AAATTGAAGCTACAAGTCTTTTTTCCCTGAAGTTACAGTGGAAC
Found at i:50027316 original size:87 final size:87
Alignment explanation
Indices: 50027187--50027349 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
50027177 AATCTTCCTA
** * * *
50027187 AAGTTGTAGTAGAGTAAATTGAAGCCACAAGTCTTATCTCTCTGAAGTTACAGTAGAGCAGATTG
1 AAGTTGTAGTAGAACAAATTGAAGCCACAAATCTTATCTCTCTGAAGTTACAGTAGAACAGATTA
*
50027252 AGGCTACAAGTTTTTTTCCCTG
66 AAGCTACAAGTTTTTTTCCCTG
* ** * * *
50027274 AAGTTGTAGTGGAACAAATTGAAGTTACAAATCTTTTTTCTCTGAAGTTACAGTGGAACAGATTA
1 AAGTTGTAGTAGAACAAATTGAAGCCACAAATCTTATCTCTCTGAAGTTACAGTAGAACAGATTA
50027339 AAGCTACAAGT
66 AAGCTACAAGT
50027350 GACAAATCTT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 64 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (87 bp):
AAGTTGTAGTAGAACAAATTGAAGCCACAAATCTTATCTCTCTGAAGTTACAGTAGAACAGATTA
AAGCTACAAGTTTTTTTCCCTG
Found at i:50027379 original size:51 final size:51
Alignment explanation
Indices: 50027295--50027400 Score: 124
Period size: 51 Copynumber: 2.1 Consensus size: 51
50027285 GAACAAATTG
* * * * *
50027295 AAGTTACAAATCTTTTTTCTCTGAAGTTACAGTGGAACAGATTA-AAGCTAC
1 AAGTGACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGA-TACAAGCTAC
* * *
50027346 AAGTGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATACAAGTTAC
1 AAGTGACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATACAAGCTAC
50027397 AAGT
1 AAGT
50027401 CTTATCTCCC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.04
51 44 0.96
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (51 bp):
AAGTGACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATACAAGCTAC
Found at i:50027406 original size:44 final size:44
Alignment explanation
Indices: 50027343--50027431 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
50027333 AGATTAAAGC
50027343 TACAAGTGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
1 TACAAGTGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
* * * *
50027387 TACAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGA
1 TACAAGTGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
50027431 T
1 T
50027432 TGAAACTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TACAAGTGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
Found at i:50027476 original size:42 final size:42
Alignment explanation
Indices: 50027413--50027516 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
50027403 TATCTCCCTG
*
50027413 AAGTTGCAGTGGAGTAGATTGAAACTAAATCCTATACCTCTA
1 AAGTTGCAGTAGAGTAGATTGAAACTAAATCCTATACCTCTA
* * *
50027455 AAGTTTCAGTAGAGTATATTGAAACTAAATCTTATACCTCTA
1 AAGTTGCAGTAGAGTAGATTGAAACTAAATCCTATACCTCTA
50027497 AAGTTGCAGTAG-GTCAGATT
1 AAGTTGCAGTAGAGT-AGATT
50027517 AAATCTACCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.04
42 53 0.96
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (42 bp):
AAGTTGCAGTAGAGTAGATTGAAACTAAATCCTATACCTCTA
Found at i:50031272 original size:43 final size:43
Alignment explanation
Indices: 50031202--50031308 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 43
50031192 TGTGATTTTG
* * * ** * * *
50031202 TGTAAGACCATGTCTAGGACACTGGCATCGGTATGAGATTACG
1 TGTAAGACCATATCTGGGATAGAGGCATCGATATGAGATAACA
* * *
50031245 TGTAAGACCCTATCTGGGATAGAGGCATCGATTTGTGATAACA
1 TGTAAGACCATATCTGGGATAGAGGCATCGATATGAGATAACA
*
50031288 TGTAAGACTATATCTGGGATA
1 TGTAAGACCATATCTGGGATA
50031309 TGGCATTGTA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATAGAGGCATCGATATGAGATAACA
Found at i:50033939 original size:40 final size:40
Alignment explanation
Indices: 50033889--50034020 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
50033879 TTAGTGGTGA
50033889 TTTTAGAAAAACGTCGCTATAGATCGACCATTAGTGGCGCT
1 TTTTA-AAAAACGTCGCTATAGATCGACCATTAGTGGCGCT
* * * **
50033930 TTTTAAAAAACGCCGCTATGGGTCGACCATTAGCAGCGCT
1 TTTTAAAAAACGTCGCTATAGATCGACCATTAGTGGCGCT
* * *
50033970 TTCTT-AAAAACGTAGCTATA-AGTCGACCATTAGTGGCACA
1 TT-TTAAAAAACGTCGCTATAGA-TCGACCATTAGTGGCGCT
*
50034010 TTTTGAAAAAC
1 TTTTAAAAAAC
50034021 ACCGCAAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.03
40 66 0.88
41 7 0.09
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (40 bp):
TTTTAAAAAACGTCGCTATAGATCGACCATTAGTGGCGCT
Found at i:50034348 original size:14 final size:14
Alignment explanation
Indices: 50034326--50034534 Score: 82
Period size: 14 Copynumber: 14.4 Consensus size: 14
50034316 TTAATTATCA
*
50034326 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
50034340 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
50034354 ATATGATTTAGGGT
1 TTATGGTTTAGGGT
* *
50034368 TTAAGCTTTAGGAGT
1 TTATGGTTTAGG-GT
*
50034383 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
*
50034397 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
50034412 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
* *
50034426 TTATGATTTAAGGT
1 TTATGGTTTAGGGT
** *
50034440 TTGGCCGGGGTTTAAGGT
1 TT----ATGGTTTAGGGT
* * *
50034458 TTAAGGGTTAGGGG
1 TTATGGTTTAGGGT
* *
50034472 TTAGGGGTTAAGGG-
1 TTA-TGGTTTAGGGT
* *
50034486 TTAGGGTTTTAAGGT
1 TTATGG-TTTAGGGT
* *
50034501 TTATGGTTTATGTT
1 TTATGGTTTAGGGT
*
50034515 TTATGATTTAGGGT
1 TTATGGTTTAGGGT
50034529 TTATGG
1 TTATGG
50034535 GATATGGGTT
Statistics
Matches: 146, Mismatches: 36, Indels: 26
0.70 0.17 0.12
Matches are distributed among these distances:
12 3 0.02
13 3 0.02
14 95 0.65
15 32 0.22
17 2 0.01
18 11 0.08
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:50034414 original size:15 final size:14
Alignment explanation
Indices: 50034394--50034430 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
50034384 ACTATTTTAA
50034394 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
50034408 GGGTTTAGGGATTAT
1 -GGTTTATGGATTAT
50034423 GGTTTATG
1 GGTTTATG
50034431 ATTTAAGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:50034501 original size:21 final size:20
Alignment explanation
Indices: 50034447--50034501 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
50034437 GGTTTGGCCG
50034447 GGGTTTAAGGTTTAAGGGTTA
1 GGGTTTAAGG-TTAAGGGTTA
* *
50034468 GGGGTTAGGGGTTAAGGGTTA
1 GGGTTTA-AGGTTAAGGGTTA
50034489 GGGTTTTAAGGTT
1 GGG-TTTAAGGTT
50034502 TATGGTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (20 bp):
GGGTTTAAGGTTAAGGGTTA
Found at i:50034515 original size:21 final size:21
Alignment explanation
Indices: 50034491--50034533 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
50034481 AAGGGTTAGG
* *
50034491 GTTTTAAGGTTTATGGTTTAT
1 GTTTTAAGATTTAGGGTTTAT
*
50034512 GTTTTATGATTTAGGGTTTAT
1 GTTTTAAGATTTAGGGTTTAT
50034533 G
1 G
50034534 GGATATGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.56
Consensus pattern (21 bp):
GTTTTAAGATTTAGGGTTTAT
Found at i:50035522 original size:72 final size:73
Alignment explanation
Indices: 50035418--50035567 Score: 187
Period size: 72 Copynumber: 2.1 Consensus size: 73
50035408 CAAGGTGTTT
* * *
50035418 TATTTCTCTCCCCCCACTTTCCTCTTCTTTCCCGATTTCATTTTCTTTCTCAGCCATTCTTAGCC
1 TATTTCTCTCCCCCCACTTTCCTCTTCTTTCCCAATTTCATTTTCTTTCTCAGCCATTCTCAACC
50035483 TGTTCCTC
66 TGTTCCTC
* * * * *
50035491 TATTTCTCT-CCCCC-GTTTCCCTTTTCTTTCCCAATTTCCTTTTTTTTCTCAGCCTTTCTCAAC
1 TATTTCTCTCCCCCCACTTT-CCTCTTCTTTCCCAATTTCATTTTCTTTCTCAGCCATTCTCAAC
* *
50035554 TTGTTCTTC
65 CTGTTCCTC
50035563 TATTT
1 TATTT
50035568 TTTACCCTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
71 3 0.05
72 54 0.82
73 9 0.14
ACGTcount: A:0.09, C:0.35, G:0.05, T:0.51
Consensus pattern (73 bp):
TATTTCTCTCCCCCCACTTTCCTCTTCTTTCCCAATTTCATTTTCTTTCTCAGCCATTCTCAACC
TGTTCCTC
Found at i:50039508 original size:23 final size:23
Alignment explanation
Indices: 50039406--50039509 Score: 172
Period size: 23 Copynumber: 4.5 Consensus size: 23
50039396 TGGTTGCTGC
*
50039406 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
* *
50039429 TGTTTATATGCTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
50039452 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
*
50039475 TATTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
50039498 TGTTTAAATGTT
1 TGTTTAAATGTT
50039510 CTTTATTTAG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 76 1.00
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (23 bp):
TGTTTAAATGTTGTAAATTGAAG
Found at i:50041294 original size:22 final size:22
Alignment explanation
Indices: 50041264--50041305 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50041254 AGTCGCTATA
*
50041264 AATTATAGTGACTAGTTTTTAT
1 AATTATAGTGACTAATTTTTAT
*
50041286 AATTTTAGTGACTAATTTTT
1 AATTATAGTGACTAATTTTT
50041306 TTCTCCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (22 bp):
AATTATAGTGACTAATTTTTAT
Found at i:50042213 original size:26 final size:26
Alignment explanation
Indices: 50042184--50042291 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
50042174 TGGTACAAAT
50042184 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
50042210 TGATAATGGAATAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
50042236 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
50042262 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
50042288 TGAT
1 TGAT
50042292 GGCATTTCAT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:50043805 original size:26 final size:26
Alignment explanation
Indices: 50043776--50043828 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
50043766 TTTACAGTTT
50043776 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
50043802 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
50043828 T
1 T
50043829 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:50046728 original size:21 final size:21
Alignment explanation
Indices: 50046704--50046744 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50046694 TGTCACATTT
50046704 TCAAGCT-CTTCTTCGGGTTTA
1 TCAAGCTCCTT-TTCGGGTTTA
*
50046725 TCAATCTCCTTTTCGGGTTT
1 TCAAGCTCCTTTTCGGGTTT
50046745 CAATGAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.46
Consensus pattern (21 bp):
TCAAGCTCCTTTTCGGGTTTA
Found at i:50046943 original size:96 final size:92
Alignment explanation
Indices: 50046701--50047158 Score: 377
Period size: 93 Copynumber: 4.9 Consensus size: 92
50046691 TTTTGTCACA
* * *
50046701 TTTTCAAGCTCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTT-TCAATGAAGATGATGGTCA-T
1 TTTTCAAGCTCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTCT-GATGAAGACGATAGTCACT
* * * *
50046764 TTTCGTTTAATTTTATAGTTTTCTGTCACC
65 TTT-GTTTAAGTTTATACTTTT-TGTTAAC
* * ** * * * *
50046794 TTTTAAAGCTCTTCTTTGGGTTTATCGGTCTTCTTTTCGGGTT-TCAATAAAGACGATAGTCGCT
1 TTTTCAAGCTCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTCT-GATGAAGACGATAGTCACT
**
50046858 TTCATTTAAGTTTATACTATTTTGTTAAC
65 TTTGTTTAAGTTTATACT-TTTTGTTAAC
* * *
50046887 TTTTCAAGCTTTTCTTCTTCAGGTTTACCAATCTCCTTTTCGGGTTCTGATGAAGACGATAGCCA
1 TTTTCAAGC---TCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTCTGATGAAGACGATAGTCA
* ** * * *
50046952 TTTTTGTTTAAGAATGTACCTTTCTG-TCAC
63 CTTTTGTTTAAGTTTATA-CTTTTTGTTAAC
* * * ** * * *
50046982 ATTTTCAGGCTCTTCTTCAGGTTTACCAATCTCCTTTTCAAGTACTGATGAAGACAATAGTCTCT
1 -TTTTCAAGCTCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTCTGATGAAGACGATAGTCACT
*
50047047 TTTGTTTAAGTTTATACATTTTTGTTACC
65 TTTGTTTAAGTTTATAC-TTTTTGTTAAC
** * * * *
50047076 TTTTCAAGCTCTTCTTCTTCGGGTTTATTGATCTCCTTCTCGGGTTCCGAT-AACAACGGTAGTC
1 TTTTCAAG--C-TCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTCTGATGAA-GACGATAGTC
50047140 ACTTTTGTTTAAGTTTATA
62 ACTTTTGTTTAAGTTTATA
50047159 GTTTGCTGCC
Statistics
Matches: 289, Mismatches: 62, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
92 1 0.00
93 151 0.52
94 8 0.03
95 6 0.02
96 120 0.42
97 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (92 bp):
TTTTCAAGCTCTTCTTCGGGTTTATCAATCTCCTTTTCGGGTTCTGATGAAGACGATAGTCACTT
TTGTTTAAGTTTATACTTTTTGTTAAC
Found at i:50051469 original size:115 final size:115
Alignment explanation
Indices: 50051295--50051526 Score: 437
Period size: 115 Copynumber: 2.0 Consensus size: 115
50051285 TAAATTTGCC
* * *
50051295 AATTTGGCTGCCATATGACTTGTTATGATGGAAATGAATATGCTAAGTTGGCAATTTTTTTATAG
1 AATTTGGCTGCCATATGACTTGTTAGGATGGAAATGAATATGCTAAGTTGACAAATTTTTTATAG
50051360 AAACTATTAACCGCGTAAATTATTGGACTCGGATTTTCAAATTGAAAAAG
66 AAACTATTAACCGCGTAAATTATTGGACTCGGATTTTCAAATTGAAAAAG
50051410 AATTTGGCTGCCATATGACTTGTTAGGATGGAAATGAATATGCTAAGTTGACAAATTTTTTATAG
1 AATTTGGCTGCCATATGACTTGTTAGGATGGAAATGAATATGCTAAGTTGACAAATTTTTTATAG
50051475 AAACTATTAACCGCGTAAATTATTGGACTCGGATTTTCAAATTGAAAAAG
66 AAACTATTAACCGCGTAAATTATTGGACTCGGATTTTCAAATTGAAAAAG
50051525 AA
1 AA
50051527 AGAGGATATA
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.34
Consensus pattern (115 bp):
AATTTGGCTGCCATATGACTTGTTAGGATGGAAATGAATATGCTAAGTTGACAAATTTTTTATAG
AAACTATTAACCGCGTAAATTATTGGACTCGGATTTTCAAATTGAAAAAG
Found at i:50062748 original size:31 final size:31
Alignment explanation
Indices: 50062690--50062750 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
50062680 TTAACAACTC
* *
50062690 AGTGACTTAAATAAAAACTTTTGAATAGTTT
1 AGTGACTTAAACAAAAACTTTTAAATAGTTT
*
50062721 AGTGACTTAAACGAAAA-TTTTCAAATAGTT
1 AGTGACTTAAACAAAAACTTTT-AAATAGTT
50062751 CAATGACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAACAAAAACTTTTAAATAGTTT
Found at i:50062801 original size:29 final size:29
Alignment explanation
Indices: 50062746--50062801 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
50062736 AATTTTCAAA
* * *
50062746 TAGTTCAATGACCAAATTGTAACTTTTTT
1 TAGTTCAATGACCAAAATGAAAATTTTTT
50062775 TAGTT-AAGTGACCAAAATGAAAATTTT
1 TAGTTCAA-TGACCAAAATGAAAATTTT
50062802 CCCATAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TAGTTCAATGACCAAAATGAAAATTTTTT
Found at i:50065243 original size:2 final size:2
Alignment explanation
Indices: 50065195--50065230 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
50065185 TAAAAAATGA
*
50065195 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50065231 TTAGCCCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:50066910 original size:12 final size:11
Alignment explanation
Indices: 50066851--50066910 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
50066841 TTTTTATAAA
*
50066851 AAATAAAATTT
1 AAATAAAATAT
* *
50066862 ATATAAAATCT
1 AAATAAAATAT
50066873 -AATAAAATAT
1 AAATAAAATAT
*
50066883 AAATTAAAAAATT
1 AAA-TAAAATA-T
50066896 AAATAAAATTAT
1 AAATAAAA-TAT
50066908 AAA
1 AAA
50066911 AAAGTAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
10 8 0.21
11 11 0.28
12 15 0.38
13 5 0.13
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:50067105 original size:26 final size:26
Alignment explanation
Indices: 50067076--50067146 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
50067066 GTTATACATC
50067076 ATTAATAAATAATAAAATTAT-ATCTT
1 ATTAATAAATAATAAAATTATGA-CTT
* *
50067102 ATTATTAAATAA-AAAAATATGACTT
1 ATTAATAAATAATAAAATTATGACTT
* *
50067127 ATAAATAAATACTAATAATT
1 ATTAATAAATAATAA-AATT
50067147 TTATTTAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
25 19 0.53
26 14 0.39
27 3 0.08
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (26 bp):
ATTAATAAATAATAAAATTATGACTT
Found at i:50067411 original size:18 final size:19
Alignment explanation
Indices: 50067378--50067413 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
50067368 AAAGTTAACT
*
50067378 TTTTAGTGTGTAATTTGGG
1 TTTTAGGGTGTAATTTGGG
50067397 TTTTAGGGT-TAATTTGG
1 TTTTAGGGTGTAATTTGG
50067414 TGAAAGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (19 bp):
TTTTAGGGTGTAATTTGGG
Found at i:50073152 original size:42 final size:42
Alignment explanation
Indices: 50073105--50073185 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
50073095 GAAGGGTAAA
50073105 TTTATGTTTGAATTTATACGAGCTTACTAAACACTAGTTAAG
1 TTTATGTTTGAATTTATACGAGCTTACTAAACACTAGTTAAG
50073147 TTTATGTTTGAATTTATACGAGCTTACTAAACACTAGTT
1 TTTATGTTTGAATTTATACGAGCTTACTAAACACTAGTT
50073186 GCTTACATAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (42 bp):
TTTATGTTTGAATTTATACGAGCTTACTAAACACTAGTTAAG
Found at i:50076965 original size:24 final size:24
Alignment explanation
Indices: 50076938--50076985 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
50076928 CCCTCACTAT
50076938 CAACATCGTCCCCACCCTCAGTCC
1 CAACATCGTCCCCACCCTCAGTCC
* * *
50076962 CAACATCTTCTCCACCTTCAGTCC
1 CAACATCGTCCCCACCCTCAGTCC
50076986 TAGAATTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.50, G:0.06, T:0.23
Consensus pattern (24 bp):
CAACATCGTCCCCACCCTCAGTCC
Found at i:50080156 original size:20 final size:20
Alignment explanation
Indices: 50080131--50080172 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
50080121 AGAGGAGATT
50080131 AATCTGGATCTTAGGTGAAA
1 AATCTGGATCTTAGGTGAAA
50080151 AATCTGGATCTTAGGTGAAA
1 AATCTGGATCTTAGGTGAAA
50080171 AA
1 AA
50080173 GTAAGGCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (20 bp):
AATCTGGATCTTAGGTGAAA
Found at i:50082249 original size:11 final size:11
Alignment explanation
Indices: 50082235--50082286 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
50082225 GATATTAAAT
50082235 TTAATTTAATA
1 TTAATTTAATA
50082246 TTAATCTTAATA
1 TTAAT-TTAATA
*
50082258 GT-ATTT--TA
1 TTAATTTAATA
50082266 TTAATTTAATA
1 TTAATTTAATA
*
50082277 TTAAATTAAT
1 TTAATTTAAT
50082287 TATCTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
8 3 0.09
9 4 0.12
10 2 0.06
11 18 0.53
12 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:50082258 original size:37 final size:36
Alignment explanation
Indices: 50082215--50082286 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
50082205 TAATAATATT
50082215 TTAATAGT-TTGATATTAAATTTAAT-TTAATATTAATC
1 TTAATAGTATT-ATATT-AATTTAATATTAA-ATTAATC
*
50082252 TTAATAGTATTTTATTAATTTAATATTAAATTAAT
1 TTAATAGTATTATATTAATTTAATATTAAATTAAT
50082287 TATCTTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 14 0.44
37 16 0.50
38 2 0.06
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (36 bp):
TTAATAGTATTATATTAATTTAATATTAAATTAATC
Found at i:50086780 original size:200 final size:200
Alignment explanation
Indices: 50086437--50086837 Score: 696
Period size: 200 Copynumber: 2.0 Consensus size: 200
50086427 GATGACTTGA
* * *
50086437 TTACTATTTGATGGTAGTTGGCTTTTCATGAATGAAGATGTAATGATTACCATGAGATAAAATAG
1 TTACTATTTGATGGTAGTTGGCTTTTCATAAATGAAGATGCAATGATTACCATGAGATAAAATAA
*
50086502 AATCATATAAGGAGAAAGGATATTATCCCAAAGAAATTAAGGATATCCTATGAGGATAACACACT
66 AATCATATAAGGAAAAAGGATATTATCCCAAAGAAATTAAGGATATCCTATGAGGATAACACACT
* *
50086567 TATGATAAGGTCATTGAA-AGAGCATTGATTGAGTTGTTTTAGTACTGGTATGCTATTGAGGAGA
131 TATGATAAGGTCATTGAACA-AGCATTGATTGAGTTGATTTAGTAATGGTATGCTATTGAGGAGA
50086631 GCTCGG
195 GCTCGG
*
50086637 TTACTATTTGATGGTAGTTGGCTTTTCATAAATGAAGATGCAATGATTACCATGGGATAAAATAA
1 TTACTATTTGATGGTAGTTGGCTTTTCATAAATGAAGATGCAATGATTACCATGAGATAAAATAA
*
50086702 AATCATATAAGGAAAAAGGATATTATCCCAAAGAAATTGAGGATATCCTATGAGGATAACACACT
66 AATCATATAAGGAAAAAGGATATTATCCCAAAGAAATTAAGGATATCCTATGAGGATAACACACT
* *
50086767 TATGATAAGGTCATTGAACAAGCATTGATTGAGTTGATTTAGTAATGGTATGCTGTTGGGGAGAG
131 TATGATAAGGTCATTGAACAAGCATTGATTGAGTTGATTTAGTAATGGTATGCTATTGAGGAGAG
50086832 CTCGG
196 CTCGG
50086837 T
1 T
50086838 CATGATACTA
Statistics
Matches: 190, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
200 189 0.99
201 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (200 bp):
TTACTATTTGATGGTAGTTGGCTTTTCATAAATGAAGATGCAATGATTACCATGAGATAAAATAA
AATCATATAAGGAAAAAGGATATTATCCCAAAGAAATTAAGGATATCCTATGAGGATAACACACT
TATGATAAGGTCATTGAACAAGCATTGATTGAGTTGATTTAGTAATGGTATGCTATTGAGGAGAG
CTCGG
Found at i:50090773 original size:27 final size:27
Alignment explanation
Indices: 50090721--50090782 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
50090711 GGAATACATA
* * *
50090721 ATGTATGTGTGTATATGTAATATATTT
1 ATGTATTTCTGTATATGTAATATATTC
*
50090748 ATGTATTTCTGTATATGTTAA-GTATTC
1 ATGTATTTCTGTATATG-TAATATATTC
*
50090775 ATGCATTT
1 ATGTATTT
50090783 GCCCATGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (27 bp):
ATGTATTTCTGTATATGTAATATATTC
Found at i:50091650 original size:12 final size:12
Alignment explanation
Indices: 50091613--50091658 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
50091603 TTTATCTGTG
50091613 TGTGTATATATA
1 TGTGTATATATA
** *
50091625 TGTGTGCATCTA
1 TGTGTATATATA
50091637 TGTGTATATATA
1 TGTGTATATATA
*
50091649 TGTATATATA
1 TGTGTATATA
50091659 ATTTTTGTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.48
Consensus pattern (12 bp):
TGTGTATATATA
Found at i:50093696 original size:20 final size:21
Alignment explanation
Indices: 50093673--50093717 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
50093663 TTTCTTTGTC
*
50093673 ATAATCATA-TTTAA-ATGTTT
1 ATAAT-ATATTTTAATATGTTG
50093693 ATAA-ATATTTTAATATGTTG
1 ATAATATATTTTAATATGTTG
50093713 ATAAT
1 ATAAT
50093718 TAATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 3 0.14
19 5 0.24
20 13 0.62
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (21 bp):
ATAATATATTTTAATATGTTG
Found at i:50093923 original size:31 final size:32
Alignment explanation
Indices: 50093859--50093928 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
50093849 TTATAAAATT
* ** *
50093859 GTCACTGAACTATTTGAAAGTTTTTCATTTAA
1 GTCACTAAACTATTCAAAAGTTTCTCATTTAA
50093891 GTCACTAAACTATTCAAAAGTTTCT-ATTTAA
1 GTCACTAAACTATTCAAAAGTTTCTCATTTAA
50093922 GTCACTA
1 GTCACTA
50093929 GGTTGTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 13 0.38
32 21 0.62
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (32 bp):
GTCACTAAACTATTCAAAAGTTTCTCATTTAA
Found at i:50095082 original size:22 final size:22
Alignment explanation
Indices: 50095056--50095103 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
50095046 GATTTGTGAG
* *
50095056 TATAAATGAATTTGGCTTTTTA
1 TATAAACGAATTTGCCTTTTTA
50095078 TATAAACGAATTTGCCTTTTTA
1 TATAAACGAATTTGCCTTTTTA
50095100 TATA
1 TATA
50095104 GACAAAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.48
Consensus pattern (22 bp):
TATAAACGAATTTGCCTTTTTA
Found at i:50098144 original size:43 final size:43
Alignment explanation
Indices: 50098096--50098178 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
50098086 AAAAAAGCGT
50098096 CGCTAAAGAACATGACATTTAGCGGCACTTTTATCACAAACGC
1 CGCTAAAGAACATGACATTTAGCGGCACTTTTATCACAAACGC
* * * *
50098139 CGCTAAAGAACATGGCTTTTAGCGGCGCTTTTGTCACAAA
1 CGCTAAAGAACATGACATTTAGCGGCACTTTTATCACAAA
50098179 AGCCATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (43 bp):
CGCTAAAGAACATGACATTTAGCGGCACTTTTATCACAAACGC
Found at i:50098955 original size:13 final size:14
Alignment explanation
Indices: 50098928--50098957 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
50098918 TACTAATGAC
50098928 TAATTAAACCATTA
1 TAATTAAACCATTA
50098942 TAATTAAA-CATTA
1 TAATTAAACCATTA
50098955 TAA
1 TAA
50098958 ATATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (14 bp):
TAATTAAACCATTA
Found at i:50103262 original size:40 final size:40
Alignment explanation
Indices: 50103214--50103342 Score: 170
Period size: 40 Copynumber: 3.2 Consensus size: 40
50103204 AACCTATAAC
* **
50103214 GGCATTTTTTAAAAAGTACCGCTAATGCTCGATCTATAGT
1 GGCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGT
* *
50103254 GGCATTTTTCAAAAAGCGCCGCTGATGCTCGA-CTTATAGC
1 GGCATTTTTCAAAAAGCGCCGCTAATGCTCGATC-TATAGT
**
50103294 GGTGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGT
1 GGCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGT
*
50103334 GGCGTTTTT
1 GGCATTTTT
50103343 GGTCCTAGTG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 75 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (40 bp):
GGCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGT
Found at i:50113820 original size:20 final size:19
Alignment explanation
Indices: 50113784--50113822 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
50113774 AGTGATATGA
50113784 TAAAAAAAATTAAAAATAT
1 TAAAAAAAATTAAAAATAT
50113803 TAAAATAAAA-TAATAAATAT
1 TAAAA-AAAATTAA-AAATAT
50113823 ACCATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAAAAATTAAAAATAT
Found at i:50116601 original size:10 final size:10
Alignment explanation
Indices: 50116586--50116615 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
50116576 AAAGCCTAAT
50116586 CCAAAATAAA
1 CCAAAATAAA
50116596 CCAAAATAAA
1 CCAAAATAAA
50116606 CCAAAATAAA
1 CCAAAATAAA
50116616 AATAAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.20, G:0.00, T:0.10
Consensus pattern (10 bp):
CCAAAATAAA
Found at i:50116642 original size:26 final size:26
Alignment explanation
Indices: 50116588--50116642 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
50116578 AGCCTAATCC
*
50116588 AAAATAAACCAAAATAAACCAAAATA
1 AAAATAAACCAAAATAAACCAAAACA
50116614 AAAATAAACCAACCAA-AAA-CAAAACA
1 AAAATAAACCAA--AATAAACCAAAACA
50116640 AAA
1 AAA
50116643 TTTATAAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 21 0.81
27 3 0.12
28 2 0.08
ACGTcount: A:0.75, C:0.18, G:0.00, T:0.07
Consensus pattern (26 bp):
AAAATAAACCAAAATAAACCAAAACA
Found at i:50119269 original size:14 final size:15
Alignment explanation
Indices: 50119251--50119287 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
50119241 AATTCTTTTG
*
50119251 TTTTATTATACTTTA
1 TTTTATTATACTCTA
50119266 -TTTATTATACTCTA
1 TTTTATTATACTCTA
50119280 TTTTATTA
1 TTTTATTA
50119288 ATATTATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTATTATACTCTA
Found at i:50120514 original size:15 final size:14
Alignment explanation
Indices: 50120479--50120515 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
50120469 TTTCTGTCGC
50120479 GATTTTTAGTTTTA
1 GATTTTTAGTTTTA
*
50120493 GACTTTTAGTTTTA
1 GATTTTTAGTTTTA
50120507 GGATTTTTA
1 -GATTTTTA
50120516 TTTATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (14 bp):
GATTTTTAGTTTTA
Found at i:50121313 original size:128 final size:128
Alignment explanation
Indices: 50121085--50121341 Score: 514
Period size: 128 Copynumber: 2.0 Consensus size: 128
50121075 CAAAGTGCGC
50121085 CAAAATAGATAACCTTCACGTCAATATGCCTTTCTTTTGGATCCACCACTTTTGGGGTGTGACAA
1 CAAAATAGATAACCTTCACGTCAATATGCCTTTCTTTTGGATCCACCACTTTTGGGGTGTGACAA
50121150 TAGCGTAAGTTTTTCATATTGAAATCTCGCATAAGTAAAACTAGATGATGAAATTTGAATTTT
66 TAGCGTAAGTTTTTCATATTGAAATCTCGCATAAGTAAAACTAGATGATGAAATTTGAATTTT
50121213 CAAAATAGATAACCTTCACGTCAATATGCCTTTCTTTTGGATCCACCACTTTTGGGGTGTGACAA
1 CAAAATAGATAACCTTCACGTCAATATGCCTTTCTTTTGGATCCACCACTTTTGGGGTGTGACAA
50121278 TAGCGTAAGTTTTTCATATTGAAATCTCGCATAAGTAAAACTAGATGATGAAATTTGAATTTT
66 TAGCGTAAGTTTTTCATATTGAAATCTCGCATAAGTAAAACTAGATGATGAAATTTGAATTTT
50121341 C
1 C
50121342 TTTTTGCGTT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 129 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (128 bp):
CAAAATAGATAACCTTCACGTCAATATGCCTTTCTTTTGGATCCACCACTTTTGGGGTGTGACAA
TAGCGTAAGTTTTTCATATTGAAATCTCGCATAAGTAAAACTAGATGATGAAATTTGAATTTT
Found at i:50122430 original size:8 final size:8
Alignment explanation
Indices: 50122419--50122456 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
50122409 TATTATTTTG
50122419 AAATTTAA
1 AAATTTAA
50122427 AAATTT-A
1 AAATTTAA
50122434 AAATTTAA
1 AAATTTAA
*
50122442 AATTTTATA
1 AAATTTA-A
50122451 AAATTT
1 AAATTT
50122457 TAGTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 7 0.27
8 13 0.50
9 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
AAATTTAA
Found at i:50122439 original size:15 final size:15
Alignment explanation
Indices: 50122419--50122448 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50122409 TATTATTTTG
50122419 AAATTTAAAAATTTA
1 AAATTTAAAAATTTA
*
50122434 AAATTTAAAATTTTA
1 AAATTTAAAAATTTA
50122449 TAAAATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATTTAAAAATTTA
Found at i:50124615 original size:20 final size:18
Alignment explanation
Indices: 50124578--50124616 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
50124568 TATATAACTT
*
50124578 AATTTTTATAACAATTAG
1 AATTTTTATAAAAATTAG
50124596 AATTATTTATAAGAAATTAG
1 AATT-TTTATAA-AAATTAG
50124616 A
1 A
50124617 TGAATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTTTTATAAAAATTAG
Found at i:50126971 original size:6 final size:6
Alignment explanation
Indices: 50126960--50126996 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
50126950 CAACCGAACA
*
50126960 TTCACC TTCACC TTCACC TTCACC TTCACT TTCACC T
1 TTCACC TTCACC TTCACC TTCACC TTCACC TTCACC T
50126997 GCTCCTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.16, C:0.46, G:0.00, T:0.38
Consensus pattern (6 bp):
TTCACC
Found at i:50127003 original size:18 final size:18
Alignment explanation
Indices: 50126962--50127005 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
50126952 ACCGAACATT
*
50126962 CACCTTCACCTTCACCTT
1 CACCTTCACCTTCACCTG
*
50126980 CACCTTCACTTTCACCTG
1 CACCTTCACCTTCACCTG
*
50126998 CTCCTTCA
1 CACCTTCA
50127006 AGGTAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.48, G:0.02, T:0.34
Consensus pattern (18 bp):
CACCTTCACCTTCACCTG
Found at i:50131547 original size:33 final size:33
Alignment explanation
Indices: 50131505--50131604 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 33
50131495 CAAACCTTCC
**
50131505 ACGGAAACCGCTGATTCGGAACAGCCGGCGACG
1 ACGGAAACCGCTGATTCCAAACAGCCGGCGACG
* *
50131538 ACGGAAACCGCTGGTTCCAAACCGCCGGCGACG
1 ACGGAAACCGCTGATTCCAAACAGCCGGCGACG
* * * *
50131571 ACGGAAACCGCCGACTCCAAGCAACCGGCGACG
1 ACGGAAACCGCTGATTCCAAACAGCCGGCGACG
50131604 A
1 A
50131605 AACCTTCATC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.28, C:0.35, G:0.30, T:0.07
Consensus pattern (33 bp):
ACGGAAACCGCTGATTCCAAACAGCCGGCGACG
Found at i:50131632 original size:42 final size:42
Alignment explanation
Indices: 50131569--50131743 Score: 167
Period size: 42 Copynumber: 4.2 Consensus size: 42
50131559 CCGCCGGCGA
* * *
50131569 CGACGGAAACCGCCG-ACTCCAAGCAACCGGCGACGAAACCTT
1 CGACGGAAAAC-CCGAAATCCAAACAACCGGCGACGAAACCTT
* *
50131611 C-ATCGGAAAACCCGGAATCCAAAAAACCGGCGACGAAACCTT
1 CGA-CGGAAAACCCGAAATCCAAACAACCGGCGACGAAACCTT
*
50131653 CGACGGAAACCCCGAAATCCAAACAACCGGCGACGAAACCTT
1 CGACGGAAAACCCGAAATCCAAACAACCGGCGACGAAACCTT
* ** * * *** *
50131695 TGAAAG-AAACCTCGGAATCTAAACAATTAGCGACGAAACCGT
1 CGACGGAAAACC-CGAAATCCAAACAACCGGCGACGAAACCTT
50131737 CGACGGA
1 CGACGGA
50131744 CACATCAGAA
Statistics
Matches: 108, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
41 8 0.07
42 99 0.92
43 1 0.01
ACGTcount: A:0.38, C:0.31, G:0.21, T:0.10
Consensus pattern (42 bp):
CGACGGAAAACCCGAAATCCAAACAACCGGCGACGAAACCTT
Found at i:50131711 original size:84 final size:83
Alignment explanation
Indices: 50131569--50131743 Score: 203
Period size: 84 Copynumber: 2.1 Consensus size: 83
50131559 CCGCCGGCGA
* * *
50131569 CGACGGAAACCGCCGACTCCAAGCAACCGGCGACGAAACCTTCATCGGAAAACCCGGAATCCAAA
1 CGACGGAAACCGCCGAATCCAAACAACCGGCGACGAAACCTT-ATCGAAAAACCCGGAATCCAAA
* *
50131634 AAACCGGCGACGAAACCTT
65 AAACCAGCGACGAAACCGT
*
50131653 CGACGGAAACC-CCGAAATCCAAACAACCGGCGACGAAACCTT-T-GAAAGAAACCTCGGAATCT
1 CGACGGAAACCGCCG-AATCCAAACAACCGGCGACGAAACCTTATCG-AA-AAACC-CGGAATCC
* **
50131715 AAACAATTAGCGACGAAACCGT
62 AAAAAACCAGCGACGAAACCGT
50131737 CGACGGA
1 CGACGGA
50131744 CACATCAGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
81 1 0.01
82 2 0.03
83 8 0.10
84 67 0.86
ACGTcount: A:0.38, C:0.31, G:0.21, T:0.10
Consensus pattern (83 bp):
CGACGGAAACCGCCGAATCCAAACAACCGGCGACGAAACCTTATCGAAAAACCCGGAATCCAAAA
AACCAGCGACGAAACCGT
Found at i:50132999 original size:16 final size:16
Alignment explanation
Indices: 50132968--50133004 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
50132958 ATGTGAATAA
50132968 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
50132984 TATT-TTTAAAACTTAT
1 TATTATTTAAAA-TTAT
50133000 TATTA
1 TATTA
50133005 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:50135962 original size:16 final size:17
Alignment explanation
Indices: 50135935--50135974 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
50135925 ATTTAATGTG
50135935 TAATTAATTTAAAATTC
1 TAATTAATTTAAAATTC
*
50135952 TAATTAA-TTAAAATTT
1 TAATTAATTTAAAATTC
50135968 TAATTAA
1 TAATTAA
50135975 AAATCTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTAATTTAAAATTC
Found at i:50138680 original size:14 final size:15
Alignment explanation
Indices: 50138661--50138693 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
50138651 ACACTAAAAT
50138661 TTATTTTA-AAATAA
1 TTATTTTATAAATAA
*
50138675 TTATTTTATAGATAA
1 TTATTTTATAAATAA
50138690 TTAT
1 TTAT
50138694 ATGATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATTTTATAAATAA
Found at i:50146415 original size:15 final size:15
Alignment explanation
Indices: 50146392--50146442 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
50146382 ATACCCATGG
*
50146392 TCATTAAACCTTAAA
1 TCATAAAACCTTAAA
*
50146407 TCATAAAACCCTAAA
1 TCATAAAACCTTAAA
* *
50146422 CCAT-ATACCTTAAA
1 TCATAAAACCTTAAA
*
50146436 TCTTAAA
1 TCATAAA
50146443 TATTAAACCC
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (15 bp):
TCATAAAACCTTAAA
Found at i:50146612 original size:29 final size:29
Alignment explanation
Indices: 50146566--50146665 Score: 81
Period size: 29 Copynumber: 3.6 Consensus size: 29
50146556 TATGATGTTT
* *
50146566 TTTAGGGTTTAGGGTTTTAGGGGTTATAG
1 TTTAGTGTTTAGGATTTTAGGGGTTATAG
50146595 TTTAGTGTTTAGGATTTTTA-GGGTTCA-AG
1 TTTAGTGTTTAGGA-TTTTAGGGGTT-ATAG
50146624 ----G-GTTTAGTG-TTTTAGGGGTTATAG
1 TTTAGTGTTTAG-GATTTTAGGGGTTATAG
* *
50146648 ATTAGTGTTTATGATTTT
1 TTTAGTGTTTAGGATTTT
50146666 TTTGGTTTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
23 6 0.11
24 13 0.23
25 2 0.04
28 2 0.04
29 28 0.49
30 6 0.11
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (29 bp):
TTTAGTGTTTAGGATTTTAGGGGTTATAG
Found at i:50146730 original size:41 final size:40
Alignment explanation
Indices: 50146677--50146801 Score: 196
Period size: 41 Copynumber: 3.1 Consensus size: 40
50146667 TTGGTTTAAG
*
50146677 GTTTTACAGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGC
1 GTTTTACCGAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGC
*
50146718 GTTTTACCGAAAGCGCCGCTAATGCTCTAGTTTTTAACGGC
1 GTTTTACCGAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGC
* *
50146759 GTTTTACCGAAAGCGCCGTTATTGCTCTGTTTTTAGCGGC
1 GTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAGCGGC
50146799 GTT
1 GTT
50146802 CCAAAAACGC
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 14 0.18
41 64 0.82
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.34
Consensus pattern (40 bp):
GTTTTACCGAAAGCGCCGCTAATGCTCTGTTTTTAGCGGC
Found at i:50150898 original size:26 final size:26
Alignment explanation
Indices: 50150849--50150898 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
50150839 AATTAACTTT
*
50150849 AATATTAAATTTAATCTAAAATTATA
1 AATATTAAATTAAATCTAAAATTATA
* * *
50150875 AATATTAGATTAAATTTAATATTA
1 AATATTAAATTAAATCTAAAATTA
50150899 AATCTTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
AATATTAAATTAAATCTAAAATTATA
Found at i:50151178 original size:23 final size:23
Alignment explanation
Indices: 50151152--50151195 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
50151142 CTGGCCATTG
*
50151152 GGACATTATCTTA-CCAGCCACCA
1 GGACACTATC-TACCCAGCCACCA
50151175 GGACACTATCTACCCAGCCAC
1 GGACACTATCTACCCAGCCAC
50151196 TGGCATCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.30, C:0.39, G:0.14, T:0.18
Consensus pattern (23 bp):
GGACACTATCTACCCAGCCACCA
Found at i:50152700 original size:15 final size:15
Alignment explanation
Indices: 50152676--50152705 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50152666 TATAAATGCA
*
50152676 AAATATAAAAGACAT
1 AAATACAAAAGACAT
50152691 AAATACAAAAGACAT
1 AAATACAAAAGACAT
50152706 TGTACAAGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:50153838 original size:19 final size:18
Alignment explanation
Indices: 50153814--50153860 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
50153804 TCTTATGTTG
50153814 TTTATTATTCTATTTATTA
1 TTTATTATTCTA-TTATTA
50153833 TTTATTATATTCTATTATTA
1 TTTA-T-TATTCTATTATTA
50153853 -TTATTATT
1 TTTATTATT
50153861 ATCATACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 7 0.27
20 7 0.27
21 7 0.27
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATTATTCTATTATTA
Found at i:50153843 original size:16 final size:16
Alignment explanation
Indices: 50153815--50153856 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
50153805 CTTATGTTGT
*
50153815 TTATTATTCTATT-TA
1 TTATTATTATATTCTA
50153830 TTATTTATTATATTCTA
1 TTA-TTATTATATTCTA
50153847 TTATTATTAT
1 TTATTATTAT
50153857 TATTATCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 3 0.12
16 16 0.67
17 5 0.21
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATTATATTCTA
Found at i:50158181 original size:9 final size:9
Alignment explanation
Indices: 50158167--50158196 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50158157 CGCTGTTTTT
50158167 GCATTCATC
1 GCATTCATC
50158176 GCATTCATC
1 GCATTCATC
50158185 GCATTCAT-
1 GCATTCATC
50158193 GCAT
1 GCAT
50158197 CAGCATTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.33
Consensus pattern (9 bp):
GCATTCATC
Found at i:50166313 original size:44 final size:43
Alignment explanation
Indices: 50166202--50166315 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
50166192 GATGATGAGT
* * * *
50166202 CTTAAACCCCTAAGTAGTACGGTAACAGGTTAAATTTACAGAC
1 CTTAAACCCCTAAGCAGTAAGGTAACAGGTTAAATTCAAAGAC
* * *
50166245 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTCAAAGGGC
1 CTTAAACCCCTAAGCAGTAAGGTAACAGGTTAAATTCAAA-GAC
* *
50166289 TTTAACCCCCTAAGCAGTAAGGTAACA
1 CTTAAACCCCTAAGCAGTAAGGTAACA
50166316 AGCAGAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 35 0.57
44 26 0.43
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (43 bp):
CTTAAACCCCTAAGCAGTAAGGTAACAGGTTAAATTCAAAGAC
Found at i:50166616 original size:43 final size:44
Alignment explanation
Indices: 50166509--50166621 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 44
50166499 CCACCAAGCT
* * * *
50166509 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAAATA
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAAACA
*** * *
50166553 TTATTGCCCTAAGCAATAGGGTAACAAGC-CAAATTT-TCAAACC
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTAT-AAACA
50166596 TTAAACCCCTAAGCAGTAGGGTAACA
1 TTAAACCCCTAAGCAGTAGGGTAACA
50166622 GGTTGAGTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 1 0.02
43 30 0.54
44 25 0.45
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (44 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAAACA
Found at i:50174708 original size:41 final size:41
Alignment explanation
Indices: 50174649--50174729 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
50174639 TCTCTTGTCT
50174649 ATCCCCAAATTTGACCACCATAAGGTTGTATCTAACCCAAA
1 ATCCCCAAATTTGACCACCATAAGGTTGTATCTAACCCAAA
*
50174690 ATCCCCAAATTTGCCCACCATAAGGTTGTATCTAACCCAA
1 ATCCCCAAATTTGACCACCATAAGGTTGTATCTAACCCAA
50174730 CCTAAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.25
Consensus pattern (41 bp):
ATCCCCAAATTTGACCACCATAAGGTTGTATCTAACCCAAA
Found at i:50176476 original size:19 final size:19
Alignment explanation
Indices: 50176435--50176476 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
50176425 TTAATTAATT
*
50176435 ATTTAATTTTAATTTTAAT
1 ATTTAATTTTAATTTTAAG
*
50176454 ATTTAA-TTTAGTATTTAAG
1 ATTTAATTTTAAT-TTTAAG
50176473 ATTT
1 ATTT
50176477 TTTTTCTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTTAATTTTAATTTTAAG
Found at i:50176559 original size:14 final size:14
Alignment explanation
Indices: 50176540--50176567 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50176530 TTCTTTATTC
50176540 CACATTATTGATTT
1 CACATTATTGATTT
50176554 CACATTATTGATTT
1 CACATTATTGATTT
50176568 GTGTACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
CACATTATTGATTT
Found at i:50177262 original size:16 final size:16
Alignment explanation
Indices: 50177241--50177273 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50177231 ATAATTGAAT
50177241 AAGTAAACCTTAATCA
1 AAGTAAACCTTAATCA
50177257 AAGTAAACCTTAATCA
1 AAGTAAACCTTAATCA
50177273 A
1 A
50177274 TGAACTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (16 bp):
AAGTAAACCTTAATCA
Found at i:50181621 original size:43 final size:42
Alignment explanation
Indices: 50181534--50181643 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 42
50181524 CAACTTTTGC
* *
50181534 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTG
1 TAAGACCATAGCTGGGATATGGCATCGATATGAGACTTCATG
* * * *
50181576 TAAGACTATAGCTGGGCTATTGGCATCGATATGAGATTTTATG
1 TAAGACCATAGCTGGGATA-TGGCATCGATATGAGACTTCATG
**
50181619 TAAGACCATATTTGGGATATGGCAT
1 TAAGACCATAGCTGGGATATGGCAT
50181644 TGGTACAGCA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (42 bp):
TAAGACCATAGCTGGGATATGGCATCGATATGAGACTTCATG
Found at i:50184394 original size:8 final size:8
Alignment explanation
Indices: 50184377--50184432 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
50184367 TTATTTGTTT
50184377 TATT-TTA
1 TATTATTA
*
50184384 TGTTATTA
1 TATTATTA
*
50184392 TGTTATTA
1 TATTATTA
50184400 TATTATTA
1 TATTATTA
50184408 TATTA-TA
1 TATTATTA
*
50184415 TTATAATTA
1 -TATTATTA
50184424 TTATTATTA
1 -TATTATTA
50184433 CTTAAATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
7 5 0.12
8 27 0.64
9 10 0.24
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (8 bp):
TATTATTA
Found at i:50186671 original size:39 final size:39
Alignment explanation
Indices: 50186617--50186694 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
50186607 AGAAGTTAAT
50186617 TTCGAATGATGAAATCAAGAAGGCTCTATTTGATATGGC
1 TTCGAATGATGAAATCAAGAAGGCTCTATTTGATATGGC
50186656 TTCGAATGATGAAATCAAGAAGGCTCTATTTGATATGGC
1 TTCGAATGATGAAATCAAGAAGGCTCTATTTGATATGGC
50186695 CCCGCTCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (39 bp):
TTCGAATGATGAAATCAAGAAGGCTCTATTTGATATGGC
Found at i:50190773 original size:26 final size:26
Alignment explanation
Indices: 50190744--50190797 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
50190734 TTGTGAAACG
50190744 TAGGTATGGTATCATCCATACTGAGT
1 TAGGTATGGTATCATCCATACTGAGT
*
50190770 TAGGTATGGTATTATCCATACTGAGT
1 TAGGTATGGTATCATCCATACTGAGT
50190796 TA
1 TA
50190798 AGAAACGTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (26 bp):
TAGGTATGGTATCATCCATACTGAGT
Found at i:50190809 original size:35 final size:35
Alignment explanation
Indices: 50190770--50190854 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 35
50190760 CATACTGAGT
*
50190770 TAGGTATGGTATTAT-CCATACTGAGTT-AAGAAACG
1 TAGGTATGGTATT-TCCCATACCGAGTTGAA-AAACG
* * *
50190805 TAGGTATGGCATTTCCCATACCGAGTTGTAAAATG
1 TAGGTATGGTATTTCCCATACCGAGTTGAAAAACG
50190840 TAGGTATGGTATTTC
1 TAGGTATGGTATTTC
50190855 AATGAGGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
34 1 0.02
35 41 0.95
36 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (35 bp):
TAGGTATGGTATTTCCCATACCGAGTTGAAAAACG
Found at i:50192710 original size:17 final size:17
Alignment explanation
Indices: 50192688--50192720 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50192678 AGACTATGTA
*
50192688 ATGTTAGTTTTCTTAAC
1 ATGTTAATTTTCTTAAC
50192705 ATGTTAATTTTCTTAA
1 ATGTTAATTTTCTTAA
50192721 TTACAACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (17 bp):
ATGTTAATTTTCTTAAC
Found at i:50193901 original size:22 final size:22
Alignment explanation
Indices: 50193876--50193919 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
50193866 GCCTTAAGAG
50193876 CCTACAAACGCCTCTTTGGGAT
1 CCTACAAACGCCTCTTTGGGAT
50193898 CCTACAAACGCCTCTTTGGGAT
1 CCTACAAACGCCTCTTTGGGAT
50193920 TTTTACCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (22 bp):
CCTACAAACGCCTCTTTGGGAT
Found at i:50195067 original size:16 final size:15
Alignment explanation
Indices: 50195048--50195090 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
50195038 TGCATATAAT
*
50195048 TATTTTATTGTAATTA
1 TATTTTATTGTAA-AA
50195064 TATTTATATT-TAAAA
1 TATTT-TATTGTAAAA
50195079 TATTTTATTGTA
1 TATTTTATTGTA
50195091 TTTTTATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 8 0.33
16 8 0.33
17 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (15 bp):
TATTTTATTGTAAAA
Found at i:50195224 original size:19 final size:18
Alignment explanation
Indices: 50195176--50195224 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
50195166 AAATTTTAAC
* *
50195176 ATTTTTTTTATTTGTGTG
1 ATTTTTTTTTTTTGTGTA
*
50195194 GTTTTATTTTTTTTGTGTA
1 ATTTT-TTTTTTTTGTGTA
*
50195213 ATTTTTTATTTT
1 ATTTTTTTTTTT
50195225 AATTATATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (18 bp):
ATTTTTTTTTTTTGTGTA
Found at i:50196049 original size:128 final size:128
Alignment explanation
Indices: 50195821--50196077 Score: 460
Period size: 128 Copynumber: 2.0 Consensus size: 128
50195811 AACCAGTGGG
*
50195821 CCCACTACTAAACCCATGTTTGGTTGATTGTAAAAGTTTATTATGTCTGCTTTGAAATTAGGTTT
1 CCCACTACTAAACCCATGTTTGGTTGATTGTAAAAGTTTATTATGTCTGCTTTGAAAATAGGTTT
* *
50195886 AGGGTAAATTACACCAACAGTCACAAAACTTTGGGGTAGCTGACAAAACAGTTACTTAGGTTT
66 AGGGTAAATTACACCAACAGTCACAAAACTTTGGGGTAGCTGACAAAACAGTCACCTAGGTTT
*
50195949 CCCACTACTAAATCCATGTTTGGTTGATTGTAAAAGTTTATTATGTCTGCTTTGAAAATAGGTTT
1 CCCACTACTAAACCCATGTTTGGTTGATTGTAAAAGTTTATTATGTCTGCTTTGAAAATAGGTTT
**
50196014 AGGGTAAATTACACCAACAGTCACCCAACTTTGGGGTAGCTGACAAAACAGTCACCTAGGTTT
66 AGGGTAAATTACACCAACAGTCACAAAACTTTGGGGTAGCTGACAAAACAGTCACCTAGGTTT
50196077 C
1 C
50196078 ATTTCAATCA
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (128 bp):
CCCACTACTAAACCCATGTTTGGTTGATTGTAAAAGTTTATTATGTCTGCTTTGAAAATAGGTTT
AGGGTAAATTACACCAACAGTCACAAAACTTTGGGGTAGCTGACAAAACAGTCACCTAGGTTT
Found at i:50196664 original size:6 final size:6
Alignment explanation
Indices: 50196655--50196844 Score: 193
Period size: 6 Copynumber: 30.7 Consensus size: 6
50196645 TTAGATTTCA
* **
50196655 ATTTTG ATTTTG ATTTCG ATTTTG ATTTTG ATTTTG ATTTTG ATTTCA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** * ** **
50196703 ATTTTG AAACACTCACTG ATTCTG ATTTTG ATTTTG ATTTCA ATTTCA
1 ATTTTG ----A-T-TTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
*
50196751 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTCG ATTTCT-
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT-TG
* *
50196799 ATTTCG ATTTTG ATTTTG ATTTTG ATTTCG ATTTTG ATTTTG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
50196845 AAGGTTATTT
Statistics
Matches: 156, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
6 150 0.96
7 1 0.01
8 1 0.01
10 1 0.01
11 1 0.01
12 2 0.01
ACGTcount: A:0.20, C:0.07, G:0.14, T:0.59
Consensus pattern (6 bp):
ATTTTG
Found at i:50196664 original size:18 final size:18
Alignment explanation
Indices: 50196631--50196844 Score: 169
Period size: 18 Copynumber: 11.6 Consensus size: 18
50196621 ATTTAGGGTT
** *
50196631 ATTTCGATTTAAATTTAG
1 ATTTCGATTTTGATTTTG
*
50196649 ATTTCAATTTTGATTTTG
1 ATTTCGATTTTGATTTTG
50196667 ATTTCGATTTTGATTTTG
1 ATTTCGATTTTGATTTTG
* **
50196685 ATTTTGATTTTGATTTCA
1 ATTTCGATTTTGATTTTG
* ** *
50196703 ATTTTGAAACACTCACTGATTCTG
1 ATTTCG----A-T-TTTGATTTTG
* **
50196727 ATTTTGATTTTGATTTCA
1 ATTTCGATTTTGATTTTG
*
50196745 ATTTCAATTTTGATTTTG
1 ATTTCGATTTTGATTTTG
*
50196763 ATTTTGATTTTGATTTTG
1 ATTTCGATTTTGATTTTG
* *
50196781 ATTTTGATTTCGATTTCT-
1 ATTTCGATTTTGATTT-TG
50196799 ATTTCGATTTTGATTTTG
1 ATTTCGATTTTGATTTTG
* *
50196817 ATTTTGATTTCGATTTTG
1 ATTTCGATTTTGATTTTG
*
50196835 ATTTTGATTT
1 ATTTCGATTT
50196845 AAGGTTATTT
Statistics
Matches: 159, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
17 1 0.01
18 142 0.89
19 2 0.01
20 1 0.01
22 1 0.01
23 1 0.01
24 11 0.07
ACGTcount: A:0.21, C:0.07, G:0.13, T:0.58
Consensus pattern (18 bp):
ATTTCGATTTTGATTTTG
Found at i:50196688 original size:48 final size:48
Alignment explanation
Indices: 50196631--50196838 Score: 186
Period size: 48 Copynumber: 4.2 Consensus size: 48
50196621 ATTTAGGGTT
* *
50196631 ATTTCGATTTAAATTTAGATTTCAATTTTGATTTTGATTTCGATTTTG
1 ATTTTGATTTCAATTTAGATTTCAATTTTGATTTTGATTTCGATTTTG
** * **
50196679 ATTTTGATTTTGATTTTGATTTCAATTTTGAAACACTCACTGA-TTCTGATTTTG
1 ATTTTGATTTCAATTTAGATTTCAATTTTG----A-T-TTTGATTTC-GATTTTG
** *
50196733 ATTTTGATTTCAATTTCA-ATTTTGATTTTGATTTTGATTTTGATTTTG
1 ATTTTGATTTCAATTT-AGATTTCAATTTTGATTTTGATTTCGATTTTG
* ** * * *
50196781 ATTTTGATTTCGATTTCTATTTCGATTTTGATTTTGATTTTGATTTCG
1 ATTTTGATTTCAATTTAGATTTCAATTTTGATTTTGATTTCGATTTTG
50196829 ATTTTGATTT
1 ATTTTGATTT
50196839 TGATTTAAGG
Statistics
Matches: 132, Mismatches: 18, Indels: 20
0.78 0.11 0.12
Matches are distributed among these distances:
48 89 0.67
49 3 0.02
50 1 0.01
52 1 0.01
53 4 0.03
54 34 0.26
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.58
Consensus pattern (48 bp):
ATTTTGATTTCAATTTAGATTTCAATTTTGATTTTGATTTCGATTTTG
Found at i:50199493 original size:28 final size:28
Alignment explanation
Indices: 50199461--50199522 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
50199451 TAAATGTGCT
*
50199461 ATTATACCCCTATGTATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
50199489 ATTATACCCCTATGTATGCAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
50199517 TTTATA
1 ATTATA
50199523 ACGCTAGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:50199695 original size:27 final size:27
Alignment explanation
Indices: 50199634--50199723 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
50199624 AGGAAGCGTC
50199634 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
50199662 CTAGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
50199689 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
50199718 CTGGTG
1 CTGGTG
50199724 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.42
28 24 0.45
29 7 0.13
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:50199734 original size:29 final size:28
Alignment explanation
Indices: 50199644--50199734 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
50199634 CTGGTGGCTA
* * * *
50199644 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
50199672 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
50199699 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
50199728 TGTCACA
1 TGCCACA
50199735 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 15 0.28
29 15 0.28
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:50199742 original size:55 final size:56
Alignment explanation
Indices: 50199634--50199748 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
50199624 AGGAAGCGTC
* *
50199634 CTGGTGGCTATGCCACAAATTATCTGTTCTAGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTAGTGACCCTGCCACATATATCTGTAT
* * * *
50199689 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTAGTGACCCTGCCACATATATCTGTAT
50199745 CTGG
1 CTGG
50199749 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTAGTGACCCTGCCACATATATCTGTAT
Found at i:50202108 original size:67 final size:67
Alignment explanation
Indices: 50201890--50202112 Score: 356
Period size: 67 Copynumber: 3.3 Consensus size: 67
50201880 TTAGTCATTT
* * ** * *
50201890 TTTTTTAATATGCCTATAGTGATTGTTTTTGTGTGTGACTATTTTTTAATATACATGTTGTTGAC
1 TTTTTTAATATGCATACAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGTTGTTGAC
50201955 TA
66 TA
*
50201957 TTTTTTAATATGCATACAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGATGTTGAC
1 TTTTTTAATATGCATACAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGTTGTTGAC
50202022 TA
66 TA
* *
50202024 TTTTTTAATATGTATGCAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGTTGTTGAC
1 TTTTTTAATATGCATACAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGTTGTTGAC
50202089 TA
66 TA
*
50202091 TTTTTTAATATGCATGCAGTGA
1 TTTTTTAATATGCATACAGTGA
50202113 GTATTTTTTA
Statistics
Matches: 145, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 145 1.00
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (67 bp):
TTTTTTAATATGCATACAGTGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGTTGTTGAC
TA
Found at i:50202117 original size:25 final size:26
Alignment explanation
Indices: 50202059--50202125 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
50202049 TTGGTGTGTA
* **
50202059 TGACTGTTTTTTAATATACATGTTGT
1 TGACTATTTTTTAATATACATGCAGT
*
50202085 TGACTATTTTTTAATATGCATGCAG-
1 TGACTATTTTTTAATATACATGCAGT
*
50202110 TGAGTATTTTTTAATA
1 TGACTATTTTTTAATA
50202126 ATATGCATGC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (26 bp):
TGACTATTTTTTAATATACATGCAGT
Found at i:50202204 original size:96 final size:95
Alignment explanation
Indices: 50201992--50202241 Score: 355
Period size: 96 Copynumber: 2.6 Consensus size: 95
50201982 TTGGTGTGTA
* * * *
50201992 TGACTGTTTTTTAATATACATG-ATGTTGACTA-TTTTT--TAATATGTATGCAGTGATTGTTGG
1 TGACTATTTTTTAATATGCATGCA-G-TGACTATTTTTTAATAATATGCATGCAGTAATTGTTGG
50202053 TGTGTATGACTGTTTTTTAATATACATGTTGT
64 TGTGTATGACTGTTTTTTAATATACATGTTGT
*
50202085 TGACTATTTTTTAATATGCATGCAGTGAGTATTTTTTAATAATATGCATGCAGTAATTGTTGGTG
1 TGACTATTTTTTAATATGCATGCAGTGACTATTTTTTAATAATATGCATGCAGTAATTGTTGGTG
*
50202150 TGTATGACTGGTTTTTTAATGTACATGTTGT
66 TGTATGACT-GTTTTTTAATATACATGTTGT
* * * *
50202181 TGACTATTTTTTAATATGCATGCAATGATTATTTTTTAATAATATGCATGTAGTTATTGTT
1 TGACTATTTTTTAATATGCATGCAGTGACTATTTTTTAATAATATGCATGCAGTAATTGTT
50202242 TTTAGGGGTG
Statistics
Matches: 142, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
92 5 0.04
93 26 0.18
94 1 0.01
95 33 0.23
96 77 0.54
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (95 bp):
TGACTATTTTTTAATATGCATGCAGTGACTATTTTTTAATAATATGCATGCAGTAATTGTTGGTG
TGTATGACTGTTTTTTAATATACATGTTGT
Found at i:50204166 original size:27 final size:27
Alignment explanation
Indices: 50204135--50204190 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
50204125 GCCGAAGTAA
50204135 ATTGGTACCCAGTACCTCATCGAATTT
1 ATTGGTACCCAGTACCTCATCGAATTT
50204162 ATTGGTACCCAGTACCTCATCGAATTT
1 ATTGGTACCCAGTACCTCATCGAATTT
50204189 AT
1 AT
50204191 CTTAAGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (27 bp):
ATTGGTACCCAGTACCTCATCGAATTT
Found at i:50204344 original size:17 final size:17
Alignment explanation
Indices: 50204322--50204354 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
50204312 TAATTCACTT
50204322 TTCATATACAA-TCAATA
1 TTCATAT-CAATTCAATA
50204339 TTCATATCAATTCAAT
1 TTCATATCAATTCAAT
50204355 TAATCACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (17 bp):
TTCATATCAATTCAATA
Done.