Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 220 of 230
Found at i:65200028 original size:17 final size:18
Alignment explanation
Indices: 65199987--65200025 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
65199977 TTCTCATTTT
*
65199987 TTTTAAATATTTTTTTAA
1 TTTTAAATATTTTTATAA
65200005 TTTTAAAT-TTATTTATAA
1 TTTTAAATATT-TTTATAA
65200023 TTT
1 TTT
65200026 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAATATTTTTATAA
Found at i:65200811 original size:27 final size:27
Alignment explanation
Indices: 65200781--65200840 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
65200771 ATAGGTGGTG
*
65200781 CCTATCC-AGTAGGCGCCACTGGTGACT
1 CCTATCCGA-TAGGCGCCACGGGTGACT
* * *
65200808 CCTATTCGATAGGTGCCTCGGGTGACT
1 CCTATCCGATAGGCGCCACGGGTGACT
65200835 CCTATC
1 CCTATC
65200841 AATAAAAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.17, C:0.32, G:0.25, T:0.27
Consensus pattern (27 bp):
CCTATCCGATAGGCGCCACGGGTGACT
Found at i:65201059 original size:99 final size:102
Alignment explanation
Indices: 65200877--65201128 Score: 325
Period size: 100 Copynumber: 2.5 Consensus size: 102
65200867 ATTACATTAC
* *
65200877 AAAA-AATTTACATTAATAAAAAATCACAAAACACTAAACTAAACTCTAACAATTTATATAACTT
1 AAAATAATTTACATTACTAAAAAATCACAAAACAC---A--AAACACTAACAATTTATATAACTT
* **
65200941 AATCATAAATTATTAACAAAATAACTATAAAATTATTTTTTTA
61 AATCATAAATTACTAACAAAATAACTATAAAAACA-TTTTTTA
* *
65200984 AAAA-AATTT-CATTACTAAAAAATCACAAATCACAAAACACTAACAATTTATA-AAC-TAATTA
1 AAAATAATTTACATTACTAAAAAATCACAAAACACAAAACACTAACAATTTATATAACTTAATCA
*
65201045 TAAATTACTGACAAAATAACTATAAAAACATTTTTTA
66 TAAATTACTAACAAAATAACTATAAAAACATTTTTTA
* *
65201082 AAAATATTTTACATTACTAAAAAATCACAAAACACAAAAAACTAACA
1 AAAATAATTTACATTACTAAAAAATCACAAAACACAAAACACTAACA
65201129 TAAATTACTA
Statistics
Matches: 132, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
98 11 0.08
99 35 0.27
100 37 0.28
101 17 0.13
103 1 0.01
106 22 0.17
107 9 0.07
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (102 bp):
AAAATAATTTACATTACTAAAAAATCACAAAACACAAAACACTAACAATTTATATAACTTAATCA
TAAATTACTAACAAAATAACTATAAAAACATTTTTTA
Found at i:65201152 original size:12 final size:12
Alignment explanation
Indices: 65201115--65201156 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
65201105 ATCACAAAAC
65201115 ACAAAA-AACTA
1 ACAAAATAACTA
*
65201126 ACATAAATTACTA
1 ACA-AAATAACTA
*
65201139 ACAAAATAATTA
1 ACAAAATAACTA
65201151 ACAAAA
1 ACAAAA
65201157 CAGTTTTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 3 0.12
12 16 0.62
13 7 0.27
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (12 bp):
ACAAAATAACTA
Found at i:65214040 original size:24 final size:24
Alignment explanation
Indices: 65214004--65214073 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 24
65213994 CAGCTCGAAA
65214004 GAGCTT-CTCGTTATTAGCTCTCAT
1 GAGCTTCCT-GTTATTAGCTCTCAT
* * **
65214028 GAGCTTCCTGTTATATGGTTCTTGT
1 GAGCTTCCTGTTAT-TAGCTCTCAT
* *
65214053 CAGCTTCCTGTTAATAGCTCT
1 GAGCTTCCTGTTATTAGCTCT
65214074 TTAAGGCATC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 16 0.44
25 20 0.56
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (24 bp):
GAGCTTCCTGTTATTAGCTCTCAT
Found at i:65214220 original size:25 final size:24
Alignment explanation
Indices: 65214149--65214228 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 24
65214139 TTGTTATATA
* *
65214149 GCTCTTCGGAGCTTCCCGACTAAAG
1 GCTCTTCGGAGCTTCCC-AATAATG
**
65214174 GCTCTTTTATGAGCTTCCCAATTAATG
1 GCTC--TTCGGAGCTTCCCAA-TAATG
*
65214201 GCTCTTCGGAGCTTCCCAATATTG
1 GCTCTTCGGAGCTTCCCAATAATG
65214225 GCTC
1 GCTC
65214229 GCTTGAACCT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
24 8 0.18
25 17 0.38
26 1 0.02
27 19 0.42
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.33
Consensus pattern (24 bp):
GCTCTTCGGAGCTTCCCAATAATG
Found at i:65214313 original size:25 final size:23
Alignment explanation
Indices: 65214182--65214327 Score: 89
Period size: 25 Copynumber: 6.0 Consensus size: 23
65214172 AGGCTCTTTT
65214182 ATGAGCTTCCCAATTAATGGCTCTTC
1 ATGAGCTTCCC-ATTAATGGCTC--C
* * *
65214208 -GGAGCTTCCCAATATTGGCTCGC
1 ATGAGCTTCCCATTAATGGCTC-C
* * * *
65214231 TTGAACCTTCCTATT-ATGTGCTCGT
1 ATG-AGCTTCCCATTAATG-GCTC-C
*
65214256 ATGAGCTTCCCATTAATGGCTCT
1 ATGAGCTTCCCATTAATGGCTCC
* *
65214279 ATGGAACTTCCCGTTACATGGCTCAC
1 AT-GAGCTTCCCATTA-ATGGCTC-C
65214305 ATGAGCTTCCCATTATATGGCTC
1 ATGAGCTTCCCATTA-ATGGCTC
65214328 GAGAGATAGC
Statistics
Matches: 94, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
23 4 0.04
24 36 0.38
25 52 0.55
26 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (23 bp):
ATGAGCTTCCCATTAATGGCTCC
Found at i:65214314 original size:73 final size:74
Alignment explanation
Indices: 65214181--65214320 Score: 169
Period size: 73 Copynumber: 1.9 Consensus size: 74
65214171 AAGGCTCTTT
* * * * *
65214181 TATGAGCTTCCCAATTAATGGCTCTTCGGAGCTTCCCAATATTGGCTCGCTTGAACCTTCCTATT
1 TATGAGCTTCCCAATTAATGGCTCTTCGGAACTTCCCAATAATGGCTCACATGAACCTTCCCATT
65214246 ATGTGCTCG
66 ATGTGCTCG
** *
65214255 TATGAGCTTCCC-ATTAATGGCTCTAT-GGAACTTCCCGTTACATGGCTCACATG-AGCTTCCCA
1 TATGAGCTTCCCAATTAATGGCTCT-TCGGAACTTCCCAATA-ATGGCTCACATGAACCTTCCCA
65214317 TTAT
64 TTAT
65214321 ATGGCTCGAG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
73 34 0.61
74 22 0.39
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (74 bp):
TATGAGCTTCCCAATTAATGGCTCTTCGGAACTTCCCAATAATGGCTCACATGAACCTTCCCATT
ATGTGCTCG
Found at i:65215503 original size:55 final size:55
Alignment explanation
Indices: 65215419--65215531 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
65215409 CCATGCACCT
65215419 TATTAATTCAAGTCAAATTGCTCACACGGCCTAGCATGCGGGCATGTGGCTTGGC
1 TATTAATTCAAGTCAAATTGCTCACACGGCCTAGCATGCGGGCATGTGGCTTGGC
65215474 TATTAATTCAAGTCAAATTGCTCACACGGCCTAGCATGCGGGCATGTGGCTTGGC
1 TATTAATTCAAGTCAAATTGCTCACACGGCCTAGCATGCGGGCATGTGGCTTGGC
65215529 TAT
1 TAT
65215532 GTGACCCAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (55 bp):
TATTAATTCAAGTCAAATTGCTCACACGGCCTAGCATGCGGGCATGTGGCTTGGC
Found at i:65215557 original size:55 final size:54
Alignment explanation
Indices: 65215427--65215544 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 54
65215417 CTTATTAATT
* **
65215427 CAAGTCAAATTGCTCACACGGCCTAGCATGCGGGCATGTGGCTTGGCTATTAATT
1 CAAGTC-AAGTGCTCACACGGCCTAGCATGCGGGCATGTGGCTTGGCTATTAACC
* *
65215482 CAAGTCAAATTGCTCACACGGCCTAGCATGCGGGCATGTGGCTTGGCTATGTGACC
1 CAAGTC-AAGTGCTCACACGGCCTAGCATGCGGGCATGTGGCTTGGCTAT-TAACC
65215538 CAAGTCA
1 CAAGTCA
65215545 GTGAGTTACA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 51 0.86
56 8 0.14
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (54 bp):
CAAGTCAAGTGCTCACACGGCCTAGCATGCGGGCATGTGGCTTGGCTATTAACC
Found at i:65219830 original size:26 final size:26
Alignment explanation
Indices: 65219797--65219852 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
65219787 TAGGGAGAAT
*
65219797 AAGT-AAAACTCTTGTTGAATCATAG
1 AAGTCAAAACCCTTGTTGAATCATAG
*
65219822 AAGTCAAAACCCTTGTTGAATCGTAG
1 AAGTCAAAACCCTTGTTGAATCATAG
65219848 AAGTC
1 AAGTC
65219853 TATTTCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (26 bp):
AAGTCAAAACCCTTGTTGAATCATAG
Found at i:65223534 original size:11 final size:11
Alignment explanation
Indices: 65223518--65223557 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
65223508 CTCCCACAAC
65223518 TAAAATAAAAA
1 TAAAATAAAAA
*
65223529 TAAAATAGAAA
1 TAAAATAAAAA
65223540 TAAAATAATAAA
1 TAAAATAA-AAA
*
65223552 CAAAAT
1 TAAAAT
65223558 CTTCTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:65227500 original size:3 final size:3
Alignment explanation
Indices: 65227492--65227520 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
65227482 ACGTTTTTAA
65227492 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
65227521 ATTGCTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:65229647 original size:31 final size:29
Alignment explanation
Indices: 65229609--65229703 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 29
65229599 ATTGTTTGGT
*
65229609 TCAAATTGAATATTAAAGCAAAACTCAAGTA
1 TCAAATTGAATATTAAA-CAAAA-TAAAGTA
* * *
65229640 TCAAATTGAGATAATAAA-AAATTTAAGTA
1 TCAAATTGA-ATATTAAACAAAATAAAGTA
* *
65229669 CCGAATTGAATATTAAAATCAAAATAAAGTA
1 TCAAATTGAATATT-AAA-CAAAATAAAGTA
65229700 TCAA
1 TCAA
65229704 CGGATATATT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
28 4 0.08
29 16 0.32
30 3 0.06
31 20 0.40
32 7 0.14
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.27
Consensus pattern (29 bp):
TCAAATTGAATATTAAACAAAATAAAGTA
Found at i:65233142 original size:20 final size:20
Alignment explanation
Indices: 65233100--65233143 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
65233090 CAAAACCTTG
* *
65233100 AACCCTAACACTAAATTCAA
1 AACCCGAACACTAAACTCAA
* *
65233120 AACCCGAACCCTAAACTCTA
1 AACCCGAACACTAAACTCAA
65233140 AACC
1 AACC
65233144 TCAAATTCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.16
Consensus pattern (20 bp):
AACCCGAACACTAAACTCAA
Found at i:65233219 original size:21 final size:21
Alignment explanation
Indices: 65233195--65233235 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65233185 GGGTTTTGGA
*
65233195 TTTAAAGCTCGAAGTTTAGGG
1 TTTAAAGCTCAAAGTTTAGGG
*
65233216 TTTAAGGCTCAAAGTTTAGG
1 TTTAAAGCTCAAAGTTTAGG
65233236 ATAAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (21 bp):
TTTAAAGCTCAAAGTTTAGGG
Found at i:65240547 original size:4 final size:4
Alignment explanation
Indices: 65240538--65240566 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
65240528 TGATGAACAC
65240538 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
65240567 AGATAAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:65242595 original size:50 final size:50
Alignment explanation
Indices: 65242532--65243222 Score: 519
Period size: 50 Copynumber: 13.8 Consensus size: 50
65242522 TAATTAACTA
* * **
65242532 CAATGTCGGGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * * ** *
65242582 CAATATCGGGGAAGCCAGATTCACCGTTGTAGCTTCAATCTGTTCCACTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * * *
65242632 CACA-GCCAAGGAAGCAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTG
1 CA-ATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* ** * ** *
65242682 CAATGTCGGGGAAGCAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
**** * * **
65242732 CACCACCAGGGAAGTAAGATTCACCGCTGCGGCTTCAATCTTTTTAATTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * * * *
65242782 CAATGTC-GAGAAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTG
1 CAATGTCAG-GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * **
65242832 CACT-ACTAGGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTG
1 CAATGTC-AGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * * ** *
65242882 CAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTCCAATCTGTTCCACTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
** * * * * ** *
65242932 CACCGCCAGAGAAGTAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * ** ** *
65242982 GAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * ** * *
65243032 CACCT-CCAGGGAAGTAAGATTTGCCGTTGT-GAATTCAACCTTTTTAATTG
1 CA-ATGTCAGGGAAGCAAGATTCACCGTTGTAG-CTTCAATCTTTTTAATTG
* * ** * ** * *
65243082 CAATGTCGGGGAAGCAACATTCACTATTGTAGCTTCAATCTGTTCCACTA
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * *
65243132 CACTGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
**
65243182 CAATGTCAGGGAAGCAAGATTTGCCGTTGTAGCTTCAATCT
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
65243223 GTTCCATTAC
Statistics
Matches: 471, Mismatches: 160, Indels: 20
0.72 0.25 0.03
Matches are distributed among these distances:
49 5 0.01
50 461 0.98
51 5 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
Found at i:65242678 original size:100 final size:100
Alignment explanation
Indices: 65242540--65243286 Score: 1003
Period size: 100 Copynumber: 7.5 Consensus size: 100
65242530 TACAATGTCG
* *
65242540 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATATCGGGGAAGCCAGATTCA
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
65242605 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
* * * * * *
65242640 AGGAAGCAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
*
65242705 TCGTTGTAGCTTCAATCTGTTCCACTGCACCA-CCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCA-CAGCCA
* * * * *
65242740 GGGAAGTAAGATTCACCGCTGCGGCTTCAATCTTTTTAATTGCAATGTCGAGAAAACAAGATTCG
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* *
65242805 CCGTTGTAGCTTCAATCTGTTTCACTGCACTA-CTA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCAC-AGCCA
*
65242840 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCA
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* *
65242905 CCGTTGTAGCTCCAATCTGTTCCACTGCACCGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
* * * *
65242940 GAGAAGTAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGGAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* **
65243005 CCGTTGTAGCTTCAATCTGCTCCACTGCACCTCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
** * ** * *
65243040 GGGAAGTAAGATTTGCCGTTGTGAATTCAACCTTTTTAATTGCAATGTCGGGGAAGCAACATTCA
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
** * *
65243105 CTATTGTAGCTTCAATCTGTTCCACTACACTGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
* * **
65243140 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTTG
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* * *
65243205 CCGTTGTAGCTTCAATCTGTTCCATTACACCGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
* ** * * *
65243240 GAGAAGTAAGATTTGCCATTGTGGTTTCAATCTTTTTTAATTGCAAT
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATC-TTTTTAATTGCAAT
65243287 CTCAGGGGTA
Statistics
Matches: 571, Mismatches: 72, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
99 1 0.00
100 554 0.97
101 16 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (100 bp):
GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
Found at i:65243459 original size:15 final size:15
Alignment explanation
Indices: 65243419--65243459 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
65243409 TAACTAGATG
65243419 TGTATGAATGATATT
1 TGTATGAATGATATT
*
65243434 TGCATTGAATGATATT
1 TGTA-TGAATGATATT
65243450 TGTATGAATG
1 TGTATGAATG
65243460 CAAAATGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (15 bp):
TGTATGAATGATATT
Found at i:65244205 original size:14 final size:13
Alignment explanation
Indices: 65244184--65244252 Score: 72
Period size: 14 Copynumber: 5.4 Consensus size: 13
65244174 TGGCCTCTTC
65244184 TTTTCTTTTTTC-
1 TTTTCTTTTTTCT
*
65244196 -GTTCTTCTTTTCT
1 TTTTCTT-TTTTCT
65244209 TTTTCTTTTTTCTT
1 TTTTCTTTTTTC-T
65244223 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
* *
65244236 TTTTATTTCTT-T
1 TTTTCTTTTTTCT
65244248 TTTTC
1 TTTTC
65244253 AAGTGAAGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
11 5 0.10
12 10 0.21
13 15 0.31
14 18 0.38
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:65244212 original size:25 final size:25
Alignment explanation
Indices: 65244184--65244231 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
65244174 TGGCCTCTTC
65244184 TTTTCTTTTTTCGTTCTTCTTTTCT
1 TTTTCTTTTTTCGTTCTTCTTTTCT
* *
65244209 TTTTCTTTTTTCTTTTTTCTTTT
1 TTTTCTTTTTTCGTTCTTCTTTT
65244232 TTCTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (25 bp):
TTTTCTTTTTTCGTTCTTCTTTTCT
Found at i:65244220 original size:7 final size:7
Alignment explanation
Indices: 65244179--65244239 Score: 74
Period size: 7 Copynumber: 9.0 Consensus size: 7
65244169 CACCTTGGCC
65244179 TCTTCTTT
1 TCTT-TTT
65244187 TCTTTTT
1 TCTTTTT
* *
65244194 TCGTTCT
1 TCTTTTT
65244201 TC--TTT
1 TCTTTTT
65244206 TC-TTTT
1 TCTTTTT
65244212 TCTTTTT
1 TCTTTTT
65244219 TCTTTTT
1 TCTTTTT
65244226 TCTTTTT
1 TCTTTTT
65244233 TCTTTTT
1 TCTTTTT
65244240 ATTTCTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
5 4 0.08
6 5 0.10
7 35 0.73
8 4 0.08
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (7 bp):
TCTTTTT
Found at i:65244222 original size:32 final size:31
Alignment explanation
Indices: 65244179--65244250 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 31
65244169 CACCTTGGCC
*
65244179 TCTTCTTTTCTTTTTTCGTTCTTCTTTTCTTTT
1 TCTT-TTTTCTTTTTTCGTTCTTCTTTT-TATT
* *
65244212 TCTTTTTTCTTTTTTCTTTTTTCTTTTTATT
1 TCTTTTTTCTTTTTTCGTTCTTCTTTTTATT
65244243 TCTTTTTT
1 TCTTTTTT
65244251 TCAAGTGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 11 0.31
32 21 0.58
33 4 0.11
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.81
Consensus pattern (31 bp):
TCTTTTTTCTTTTTTCGTTCTTCTTTTTATT
Found at i:65247478 original size:24 final size:25
Alignment explanation
Indices: 65247451--65247503 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
65247441 GGCCTTTTCG
*
65247451 TGAAATTTAATACAAATG-ATGCAA
1 TGAAATGTAATACAAATGCATGCAA
* * *
65247475 TGAAATGTAATGCAGATGCATGGAA
1 TGAAATGTAATACAAATGCATGCAA
65247500 TGAA
1 TGAA
65247504 TGCAAAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (25 bp):
TGAAATGTAATACAAATGCATGCAA
Found at i:65252388 original size:25 final size:23
Alignment explanation
Indices: 65252339--65252533 Score: 86
Period size: 25 Copynumber: 8.0 Consensus size: 23
65252329 CGAGCCCTAT
** *
65252339 ATAACAGGAAGCTCATGTGATCC
1 ATAACAGGAAGCTCATAAGAGCC
*
65252362 ATGTAACAGAAAGCTCATAAGAGCC
1 A--TAACAGGAAGCTCATAAGAGCC
*
65252387 ATAATCGGGAAGCTCATAAGAGCC
1 ATAA-CAGGAAGCTCATAAGAGCC
* * * *
65252411 AATTATCGGGAAGCTCCA-GAGAGTCA
1 -A-TAACAGGAAGCT-CATAAGAG-CC
*** *
65252437 ATTATTGGGAAGCTCATACGAGCC
1 A-TAACAGGAAGCTCATAAGAGCC
* *
65252461 ATAAACGGGAAGCTCATAAGAGCTAA
1 AT-AACAGGAAGCTCATAAGAGC--C
* *
65252487 ATAACGGGAAGCTCATGAGAGCC
1 ATAACAGGAAGCTCATAAGAGCC
* * *
65252510 TATTATCGGGACGCTCATAAGAGC
1 -A-TAACAGGAAGCTCATAAGAGC
65252534 TATGGTGTGT
Statistics
Matches: 137, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
23 5 0.04
24 39 0.28
25 86 0.63
26 7 0.05
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:65252425 original size:49 final size:48
Alignment explanation
Indices: 65252372--65252533 Score: 175
Period size: 50 Copynumber: 3.3 Consensus size: 48
65252362 ATGTAACAGA
*
65252372 AAGCTCATAAGAGCCATAATCGGGAAGCTCATAAGAGCCAATTATCGGG
1 AAGCTCATAAGAGCAATAATCGGGAAGCTCATAAGAGCC-ATTATCGGG
* * * * * *
65252421 AAGCTCCA-GAGAGTCAATTATTGGGAAGCTCATACGAGCCATAAACGGG
1 AAGCT-CATAAGAG-CAATAATCGGGAAGCTCATAAGAGCCATTATCGGG
*
65252470 AAGCTCATAAGAGCTAAATAA-CGGGAAGCTCATGAGAGCCTATTATCGGG
1 AAGCTCATAAGAGC--AATAATCGGGAAGCTCATAAGAGCC-ATTATCGGG
*
65252520 ACGCTCATAAGAGC
1 AAGCTCATAAGAGC
65252534 TATGGTGTGT
Statistics
Matches: 92, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
48 3 0.03
49 41 0.45
50 48 0.52
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (48 bp):
AAGCTCATAAGAGCAATAATCGGGAAGCTCATAAGAGCCATTATCGGG
Found at i:65252450 original size:74 final size:74
Alignment explanation
Indices: 65252372--65252533 Score: 227
Period size: 74 Copynumber: 2.2 Consensus size: 74
65252362 ATGTAACAGA
* * * *
65252372 AAGCTCATAAGAGCCATAATCGGGAAGCTCATAAGAGCCAATTATCGGGAAGCTCCA-GAGAGTC
1 AAGCTCATAAGAGCCATAAACGGGAAGCTCATAAGAGCCAAATAACGGGAAGCT-CATGAGAGCC
*
65252436 AATTATTGGG
65 AATTATCGGG
* * *
65252446 AAGCTCATACGAGCCATAAACGGGAAGCTCATAAGAGCTAAATAACGGGAAGCTCATGAGAGCCT
1 AAGCTCATAAGAGCCATAAACGGGAAGCTCATAAGAGCCAAATAACGGGAAGCTCATGAGAGCCA
65252511 ATTATCGGG
66 ATTATCGGG
*
65252520 ACGCTCATAAGAGC
1 AAGCTCATAAGAGC
65252534 TATGGTGTGT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 2 0.03
74 75 0.97
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (74 bp):
AAGCTCATAAGAGCCATAAACGGGAAGCTCATAAGAGCCAAATAACGGGAAGCTCATGAGAGCCA
ATTATCGGG
Found at i:65252532 original size:50 final size:48
Alignment explanation
Indices: 65252372--65252535 Score: 156
Period size: 49 Copynumber: 3.3 Consensus size: 48
65252362 ATGTAACAGA
*
65252372 AAGCTCATAAGAGC--CATAATCGGGAAGCTCATAAGAGCCAATTATCGGG
1 AAGCTCATAAGAGCTAAATAA-CGGGAAGCTCAT-AGAGCC-ATTATCGGG
* * ** * *
65252421 AAGCTCCA-GAGAG-TCAATTATTGGGAAGCTCATACGAGCCATAAACGGG
1 AAGCT-CATAAGAGCT-AAATAACGGGAAGCTCATA-GAGCCATTATCGGG
65252470 AAGCTCATAAGAGCTAAATAACGGGAAGCTCATGAGAGCCTATTATCGGG
1 AAGCTCATAAGAGCTAAATAACGGGAAGCTCAT-AGAGCC-ATTATCGGG
*
65252520 ACGCTCATAAGAGCTA
1 AAGCTCATAAGAGCTA
65252536 TGGTGTGTCC
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
48 2 0.02
49 46 0.50
50 42 0.46
51 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (48 bp):
AAGCTCATAAGAGCTAAATAACGGGAAGCTCATAGAGCCATTATCGGG
Found at i:65254712 original size:31 final size:32
Alignment explanation
Indices: 65254674--65254741 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
65254664 TTCAAAATCC
** *
65254674 AAAAAGTACA-ATGACTAAATTTGA-CTAATTA
1 AAAAAGTACAGA-GACTAAAAATGATCAAATTA
65254705 AAAAAGTACAGAGACTAAAAATGATCAAATTA
1 AAAAAGTACAGAGACTAAAAATGATCAAATTA
65254737 AAAAA
1 AAAAA
65254742 TAAAGACCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 20 0.62
32 12 0.38
ACGTcount: A:0.59, C:0.09, G:0.10, T:0.22
Consensus pattern (32 bp):
AAAAAGTACAGAGACTAAAAATGATCAAATTA
Found at i:65257105 original size:16 final size:17
Alignment explanation
Indices: 65257084--65257115 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
65257074 TGTTCATACT
65257084 AAAAAGAAAA-GAAAAC
1 AAAAAGAAAAGGAAAAC
65257100 AAAAAGAAAAGGAAAA
1 AAAAAGAAAAGGAAAA
65257116 GCCTTACTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGGAAAAC
Found at i:65257847 original size:3 final size:3
Alignment explanation
Indices: 65257829--65257913 Score: 71
Period size: 3 Copynumber: 27.7 Consensus size: 3
65257819 TAATGTGTGC
* * * *
65257829 TAT TATT TAT TTT TAT TAT TAT TAT ATAT TAT TAT TAA CAC TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * *
65257876 AAT TAT TAT TAT TAG CAT TAT TAT TAC TAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
65257914 AATACCTTTT
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
3 58 0.91
4 6 0.09
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:65257887 original size:24 final size:24
Alignment explanation
Indices: 65257845--65257914 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
65257835 TTATTTTTAT
65257845 TATTATTATATATTATTATTAACAC
1 TATTATTAT-TATTATTATTAACAC
* * *
65257870 TATTATAATTATTATTATTAGCAT
1 TATTATTATTATTATTATTAACAC
* *
65257894 TATTATTACTAATATTATTAA
1 TATTATTATTATTATTATTAA
65257915 ATACCTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 30 0.79
25 8 0.21
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (24 bp):
TATTATTATTATTATTATTAACAC
Found at i:65259728 original size:12 final size:12
Alignment explanation
Indices: 65259711--65259737 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
65259701 GTTTTATTTT
65259711 TGAATTTCTTTG
1 TGAATTTCTTTG
65259723 TGAATTTCTTTG
1 TGAATTTCTTTG
65259735 TGA
1 TGA
65259738 GGTAATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.56
Consensus pattern (12 bp):
TGAATTTCTTTG
Found at i:65269382 original size:15 final size:14
Alignment explanation
Indices: 65269352--65269387 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
65269342 GACTCTATTT
*
65269352 TAATTATATTAGGA
1 TAATTATATTAAGA
65269366 TAATTACTATTAAGA
1 TAATTA-TATTAAGA
65269381 TAATTAT
1 TAATTAT
65269388 TAAGGATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:65275857 original size:12 final size:11
Alignment explanation
Indices: 65275836--65275911 Score: 57
Period size: 12 Copynumber: 6.5 Consensus size: 11
65275826 CAACCCAATT
65275836 TTTA-TTTTTA
1 TTTATTTTTTA
65275846 TTTATTTATTTA
1 TTTATTT-TTTA
*
65275858 TTTATTTTGT-
1 TTTATTTTTTA
*
65275868 TTTGTTTCCTTTA
1 TTTATTT--TTTA
*
65275881 CTTTATTTATTA
1 -TTTATTTTTTA
65275893 CTTTATTTTATTA
1 -TTTATTTT-TTA
65275906 TTTATT
1 TTTATT
65275912 ACTTATTTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
10 10 0.19
11 4 0.08
12 30 0.57
13 3 0.06
14 6 0.11
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:65277861 original size:15 final size:15
Alignment explanation
Indices: 65277836--65277870 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
65277826 GACTCTATTT
65277836 TAATT-ATATTAGGA
1 TAATTAATATTAGGA
*
65277850 TAATTAATATTATGA
1 TAATTAATATTAGGA
65277865 TAATTA
1 TAATTA
65277871 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (15 bp):
TAATTAATATTAGGA
Found at i:65280629 original size:3 final size:3
Alignment explanation
Indices: 65280623--65280671 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
65280613 TCTCTAACTC
65280623 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65280671 T
1 T
65280672 GCTTTATACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:65281507 original size:26 final size:25
Alignment explanation
Indices: 65281468--65281549 Score: 83
Period size: 26 Copynumber: 3.0 Consensus size: 25
65281458 AACTTAACAC
*
65281468 TTTTTCTTTTTCTAATTTAGTATCTA
1 TTTTT-TTTTTCTAATTTAGTACCTA
*
65281494 TTTTTTTTTGTCTAATTTGGTACCTATGA
1 TTTTTTTTT-TCTAATTTAGTACC--T-A
65281523 TACTTTTTTTTTCTAATTTAGTACCTA
1 T--TTTTTTTTTCTAATTTAGTACCTA
65281550 AGCTTGTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
25 4 0.09
26 17 0.36
27 1 0.02
28 2 0.04
29 2 0.04
30 13 0.28
31 8 0.17
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.61
Consensus pattern (25 bp):
TTTTTTTTTTCTAATTTAGTACCTA
Found at i:65306738 original size:24 final size:24
Alignment explanation
Indices: 65306709--65306770 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
65306699 TCAAAGAAGT
*
65306709 TGATAGTAATAGTGCAAGCTATGA
1 TGATAGTAATAGTGCAAACTATGA
65306733 TGATAGTAATAGTGCAAACTATGA
1 TGATAGTAATAGTGCAAACTATGA
*
65306757 TGATAGTGATAGTG
1 TGATAGTAATAGTG
65306771 AACTTTTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (24 bp):
TGATAGTAATAGTGCAAACTATGA
Found at i:65312072 original size:26 final size:26
Alignment explanation
Indices: 65312036--65312089 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
65312026 TTCATCTCTC
65312036 CTAGGTATTTAGAAAATTAGTTAATG
1 CTAGGTATTTAGAAAATTAGTTAATG
* *
65312062 CTAGGTATTTAGAAAATTTGTTCATG
1 CTAGGTATTTAGAAAATTAGTTAATG
65312088 CT
1 CT
65312090 TGAAAATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (26 bp):
CTAGGTATTTAGAAAATTAGTTAATG
Found at i:65323105 original size:21 final size:21
Alignment explanation
Indices: 65323083--65323135 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
65323073 ATATGGTCTA
*
65323083 AAAAT-AAATAGATTTGAAAT
1 AAAATAAAATAAATTTGAAAT
*
65323103 AAAATAAAATAAATTTG-AAC
1 AAAATAAAATAAATTTGAAAT
65323123 AAAATAAAATAAA
1 AAAATAAAATAAA
65323136 GTAGGTCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (21 bp):
AAAATAAAATAAATTTGAAAT
Found at i:65323761 original size:21 final size:20
Alignment explanation
Indices: 65323731--65323770 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
65323721 ATAATAAAAA
*
65323731 TACAAAGATATAGAATATAG
1 TACAAAGATAAAGAATATAG
*
65323751 TACAAATGATAAATAATATA
1 TACAAA-GATAAAGAATATA
65323771 TGCAACTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.28
Consensus pattern (20 bp):
TACAAAGATAAAGAATATAG
Found at i:65327756 original size:12 final size:12
Alignment explanation
Indices: 65327739--65327771 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65327729 AGATAGATAA
65327739 CTCATATTTAAG
1 CTCATATTTAAG
65327751 CTCATATTTAAG
1 CTCATATTTAAG
65327763 -TCCATATTT
1 CT-CATATTT
65327772 CTAGTGACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 1 0.05
12 19 0.95
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.45
Consensus pattern (12 bp):
CTCATATTTAAG
Found at i:65330830 original size:17 final size:17
Alignment explanation
Indices: 65330764--65330926 Score: 70
Period size: 17 Copynumber: 9.4 Consensus size: 17
65330754 ATATATAAGA
65330764 AAATAATAAATAAATAAT
1 AAATAATAAATAAA-AAT
***
65330782 AACGATAATAAAGGCAAAT
1 AA--ATAATAAATAAAAAT
* *
65330801 GAAA-AAGAGATAAAAAT
1 -AAATAATAAATAAAAAT
65330818 AAATAATAAATAAAAAT
1 AAATAATAAATAAAAAT
** *
65330835 GCATAATAAATACAAAAAC
1 AAATAATAAAT--AAAAAT
* *
65330854 AAACCAATTTTAAATAAAAAGG
1 AAA-TAA---TAAATAAAAA-T
*
65330876 AAATAATAAGT--AAAT
1 AAATAATAAATAAAAAT
65330891 AAAT-A-AAAT--AAAT
1 AAATAATAAATAAAAAT
*
65330904 AAATAATACATAAAAAT
1 AAATAATAAATAAAAAT
65330921 AAATAA
1 AAATAA
65330927 CCTAGATAGG
Statistics
Matches: 108, Mismatches: 22, Indels: 31
0.67 0.14 0.19
Matches are distributed among these distances:
13 11 0.10
14 2 0.02
15 7 0.06
16 6 0.06
17 38 0.35
18 7 0.06
19 9 0.08
20 13 0.12
21 7 0.06
22 3 0.03
23 5 0.05
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (17 bp):
AAATAATAAATAAAAAT
Found at i:65332385 original size:51 final size:49
Alignment explanation
Indices: 65332304--65332767 Score: 210
Period size: 44 Copynumber: 9.9 Consensus size: 49
65332294 GGTATAGGAT
* * * *
65332304 TTGTTGCTTCAATCT-TCTCCACT-ACAATTTCAGGGAGATAAGACTTGTAAC
1 TTGTAGCTTTAATCTGT-TCCACTGACAACTTCAGGGAAATAAGA-TTGT--C
*
65332355 TTGTAGCTTCT-ATCTGTTCCACTGA-AATTTCAGGGAAATAAGA---T-
1 TTGTAGCTT-TAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
* *
65332399 TTGTAGCTTTAATCTGTTCCA-TTACAACTTCAGGGAGATAAGATTTGTGGC
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGA-TTGT--C
*
65332450 TTGTAGCTTTAATCTGTTCTACTG-CAACTTCAGGGAAATAAGA---T-
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
* * * * * * *
65332494 TTGCATCTTCAATCTG-TCCACTG-TAACTTGAAGGAGATAAGATTTGTAAC
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGA-TTGT--C
* *
65332544 TTGTAGTTTTAATCTGTTCCACT-ACAACTTCAGGGAAAAAAGA---T-
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
* * * *
65332588 TTGCTATCTTCAATTTGCTCCACTG-CAACTTCA-GGAAGATAAGA-T-TC
1 TTG-TAGCTTTAATCTGTTCCACTGACAACTTCAGGGAA-ATAAGATTGTC
** * * * * * * *
65332635 -ACTATCTTCAATCTGCTCTACTG-CAACTTCAAGGAGATATGA---T-
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
* * ** *
65332678 TTGTAGCTTCAATCTGCTCTTCTG-CAACTTCAGGGAGATAAGA---T-
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
* *
65332722 TTGCTACCTTTAATCTGTTCCACTG-CAACTTCAGGGAGATAAGATT
1 TTG-TAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATT
65332768 TGCTATCTTC
Statistics
Matches: 332, Mismatches: 49, Indels: 68
0.74 0.11 0.15
Matches are distributed among these distances:
43 24 0.07
44 96 0.29
45 95 0.29
46 4 0.01
47 4 0.01
48 1 0.00
50 12 0.04
51 93 0.28
52 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (49 bp):
TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
Found at i:65332425 original size:95 final size:95
Alignment explanation
Indices: 65332301--65332781 Score: 445
Period size: 95 Copynumber: 5.2 Consensus size: 95
65332291 ATAGGTATAG
* * *
65332301 GATTTGTTGCTTCAATCT-TCTCCACTACAATTTCAGGGAGATAAGACTTGTAACTTGTAGCTTC
1 GATTTGTAGCTTCAATCTGT-TCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTT-
*
65332365 T-ATCTGTTCCACTGAAATTTCAGGGAAATAA
64 TAATCTGTTCCACTGAAACTTCAGGGAAATAA
* * **
65332396 GATTTGTAGCTTTAATCTGTTCCATTACAACTTCAGGGAGATAAGATTTGTGGCTTGTAGCTTTA
1 GATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTA
* *
65332461 ATCTGTTCTACTGCAACTTCAGGGAAATAA
66 ATCTGTTCCACTGAAACTTCAGGGAAATAA
* * ** * * *
65332491 GATTTGCATCTTCAATCTG-TCCACTGTAACTTGAAGGAGATAAGATTTGTAACTTGTAGTTTTA
1 GATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTA
*
65332555 ATCTGTTCCACT-ACAACTTCAGGGAAAAAA
66 ATCTGTTCCACTGA-AACTTCAGGGAAATAA
* * * * * * * *
65332585 GATTTGCTATCTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGA--T-TCAC---TATCTTC
1 GATTTG-TAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTT
* * * * * *
65332644 AATCTGCTCTACTGCAACTTCAAGGAGATAT
65 AATCTGTTCCACTGAAACTTCAGGGAAATAA
* ** * *
65332675 GATTTGTAGCTTCAATCTGCTCTTCTGCAACTTCAGGGAGATAAGATTTG---C---TACCTTTA
1 GATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTA
* *
65332734 ATCTGTTCCACTGCAACTTCAGGGAGATAA
66 ATCTGTTCCACTGAAACTTCAGGGAAATAA
*
65332764 GATTTGCTATCTTCAATC
1 GATTTG-TAGCTTCAATC
65332782 CATCCCACTG
Statistics
Matches: 323, Mismatches: 53, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
89 74 0.23
90 43 0.13
91 1 0.00
93 3 0.01
94 71 0.22
95 108 0.33
96 23 0.07
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (95 bp):
GATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTA
ATCTGTTCCACTGAAACTTCAGGGAAATAA
Found at i:65332632 original size:45 final size:45
Alignment explanation
Indices: 65332361--65332802 Score: 314
Period size: 45 Copynumber: 9.6 Consensus size: 45
65332351 TAACTTGTAG
* * * * *
65332361 CTTCTATCTGTTCCACTGAAATTTCAGGGAA-ATAAGATTTG-TAG
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGCTAT
* * * * * *
65332405 CTTTAATCTGTTCCATTACAACTTCAGGGAGATAAGATTTGTGGCTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA-TT-T-GC---TAT
* * *
65332456 CTTTAATCTGTTCTACTGCAACTTCAGGGAA-ATAAGATTTGC-AT
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGCTAT
* *
65332500 CTTCAATCTG-TCCACTGTAACTTGAAGG-AGATAAGATTTGTAACTTGTAGT
1 CTTCAATCTGCTCCACTGCAACTT-CAGGAAGATAAGATTTG---C---TA-T
* * * *
65332551 -TTTAATCTGTTCCACTACAACTTCAGGGAA-AAAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGCTAT
* **
65332595 CTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTAT
* * *
65332640 CTTCAATCTGCTCTACTGCAACTTCAAGG-AGATATGATTTG-TAG
1 CTTCAATCTGCTCCACTGCAACTTC-AGGAAGATAAGATTTGCTAT
** * *
65332684 CTTCAATCTGCTCTTCTGCAACTTCAGGGAGATAAGATTTGCTAC
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTAT
* * *
65332729 CTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTAT
*
65332774 CTTCAATC--CATCCCACTGCAACTTTAGGA
1 CTTCAATCTGC-T-CCACTGCAACTTCAGGA
65332803 GTATGAGTAA
Statistics
Matches: 323, Mismatches: 46, Indels: 57
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.00
43 29 0.09
44 80 0.25
45 132 0.41
46 5 0.02
47 1 0.00
48 3 0.01
49 1 0.00
50 12 0.04
51 55 0.17
52 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTAT
Found at i:65332706 original size:89 final size:90
Alignment explanation
Indices: 65332460--65332802 Score: 302
Period size: 89 Copynumber: 3.8 Consensus size: 90
65332450 TTGTAGCTTT
* * * * *
65332460 AATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGC-ATCTTCAATCTG-TCCACTGTAACTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* * ** *
65332523 GAAGG-AGATAAGATTTGTAACTTGTAGTTTT
66 -CAGGAAGATAAGA--T-TCAC---TACCTTC
* * * * * *
65332554 AATCTGTTCCACTACAACTTCAGGGAAAAAAGATTTGCTATCTTCAATTTGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
*
65332619 CAGGAAGATAAGATTCACTATCTTC
66 CAGGAAGATAAGATTCACTACCTTC
* * * **
65332644 AATCTGCTCTACTGCAACTTCAAGGAGATATGATTTG-TAGCTTCAATCTGCTCTTCTGCAACTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* ** *
65332708 CAGGGAGATAAGATTTGCTACCTTT
66 CAGGAAGATAAGATTCACTACCTTC
* *
65332733 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATC--CATCCCACTGCAAC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGC-T-CCACTGCAAC
*
65332796 TTTAGGA
64 TTCAGGA
65332803 GTATGAGTAA
Statistics
Matches: 208, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
88 1 0.00
89 77 0.37
90 57 0.27
93 3 0.01
94 36 0.17
95 14 0.07
96 20 0.10
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (90 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
CAGGAAGATAAGATTCACTACCTTC
Found at i:65332792 original size:134 final size:133
Alignment explanation
Indices: 65332373--65332797 Score: 401
Period size: 134 Copynumber: 3.1 Consensus size: 133
65332363 TCTATCTGTT
* * * * *
65332373 CCACTGAAATTTCAGGGAAATAAGATTTGTAGCTTTAATCTGTTCCAT-TACAACTTCAGGGAGA
1 CCACTGCAACTTCAAGGAGATATGATTTGTAGCTTTAATCTGTT-CATCTACAACTTCAGGGAGA
* * *
65332437 TAAGATTTGTGGCTTGTAGCTTTAATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGC-ATC
65 TAAGA-TT-T-GC---TACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
*
65332501 TTCAAT-CTGT
124 TTCAATCCT-C
* * * *
65332511 CCACTGTAACTTGAAGGAGATAAGATTTGTAACTTGTAGTTTTAATCTGTTCCA-CTACAACTTC
1 CCACTGCAACTTCAAGGAGAT---A--TG--ATTTGTAGCTTTAATCTGTT-CATCTACAACTTC
* * * * * * * **
65332575 AGGGAAAAAAGATTTGCTATCTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACTAT
58 AGGGAGATAAGATTTGCTACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
65332640 CTTCAAT-CTGC
123 CTTCAATCCT-C
* * * * *
65332651 TCTACTGCAACTTCAAGGAGATATGATTTGTAGCTTCAATCTGCTCTTCTGCAACTTCAGGGAGA
1 -CCACTGCAACTTCAAGGAGATATGATTTGTAGCTTTAATCTGTTCATCTACAACTTCAGGGAGA
65332716 TAAGATTTGCTACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAAT
65 TAAGATTTGCTACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAAT
65332781 CCATC
130 CC-TC
65332786 CCACTGCAACTT
1 CCACTGCAACTT
65332798 TAGGAGTATG
Statistics
Matches: 235, Mismatches: 39, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
133 1 0.00
134 99 0.42
135 2 0.01
136 3 0.01
138 17 0.07
139 36 0.15
140 12 0.05
141 19 0.08
142 2 0.01
143 2 0.01
144 2 0.01
145 40 0.17
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (133 bp):
CCACTGCAACTTCAAGGAGATATGATTTGTAGCTTTAATCTGTTCATCTACAACTTCAGGGAGAT
AAGATTTGCTACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATC
CTC
Found at i:65332792 original size:179 final size:180
Alignment explanation
Indices: 65332460--65332802 Score: 433
Period size: 179 Copynumber: 1.9 Consensus size: 180
65332450 TTGTAGCTTT
* * * * *
65332460 AATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGCATCTTCAATCTGTCCACTGTAACTTGA
1 AATCTGCTCTACTGCAACTTCAAGGAAATAAGATTTGCAGCTTCAATCTGTCCACTGCAACTTCA
**
65332525 AGGAGATAAGATTTGTAACTTGTAGTTTTAATCTGTTCCACTACAACTTCAGGGAAAAAAGATTT
66 AGGAGATAAGATTTG--AC-T-TACCTTTAATCTGTTCCACTACAACTTCAGGGAAAAAAGATTT
*
65332590 GCTATCTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACTATCTTC
127 GCTATCTTCAATATGCTCCACTGCAACTTCAGGAAGATAAGATTCACTATCTTC
* * * **
65332644 AATCTGCTCTACTGCAACTTCAAGGAGATATGATTTGTAGCTTCAATCTGCTCTTCTGCAACTTC
1 AATCTGCTCTACTGCAACTTCAAGGAAATAAGATTTGCAGCTTCAATCTG-TCCACTGCAACTTC
* * * *
65332709 AGGGAGATAAGATTTG-C-TACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCT
65 AAGGAGATAAGATTTGACTTACCTTTAATCTGTTCCACTACAACTTCAGGGAAAAAAGATTTGCT
*
65332772 ATCTTCAATCCAT-C-CCACTGCAACTTTAGGA
130 ATCTTCAAT--ATGCTCCACTGCAACTTCAGGA
65332803 GTATGAGTAA
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
179 66 0.48
180 1 0.01
181 1 0.01
182 1 0.01
184 44 0.32
185 25 0.18
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (180 bp):
AATCTGCTCTACTGCAACTTCAAGGAAATAAGATTTGCAGCTTCAATCTGTCCACTGCAACTTCA
AGGAGATAAGATTTGACTTACCTTTAATCTGTTCCACTACAACTTCAGGGAAAAAAGATTTGCTA
TCTTCAATATGCTCCACTGCAACTTCAGGAAGATAAGATTCACTATCTTC
Found at i:65340116 original size:3 final size:3
Alignment explanation
Indices: 65340108--65340142 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
65340098 GAATAAATGA
*
65340108 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
65340143 GGAAGTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:65341623 original size:13 final size:13
Alignment explanation
Indices: 65341605--65341667 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
65341595 AGTTTTTTAT
65341605 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
65341618 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
65341631 TGATGTAGAAAAG
1 TGCTTTTGAAAAG
* * *
65341644 TACTTTGGAGAA-
1 TGCTTTTGAAAAG
65341656 TGCTTTTGAAAA
1 TGCTTTTGAAAA
65341668 ATTTGGTTTA
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
12 9 0.23
13 30 0.77
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:65348846 original size:6 final size:6
Alignment explanation
Indices: 65348835--65348879 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
65348825 TCAATACATA
65348835 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TAT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TAT
65348880 TACCTGATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:65349725 original size:7 final size:7
Alignment explanation
Indices: 65349713--65349740 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
65349703 ATATTATTTT
65349713 TATATAA
1 TATATAA
65349720 TATATAA
1 TATATAA
65349727 TATATAA
1 TATATAA
65349734 TATATAA
1 TATATAA
65349741 GAATTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:65351160 original size:13 final size:13
Alignment explanation
Indices: 65351142--65351168 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65351132 ACTAATTGTC
65351142 ATTATTAAATATG
1 ATTATTAAATATG
65351155 ATTATTAAATATG
1 ATTATTAAATATG
65351168 A
1 A
65351169 AAGATAAATT
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:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTATTAAATATG
Found at i:65353382 original size:13 final size:13
Alignment explanation
Indices: 65353364--65353390 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65353354 ACTAATTGTC
65353364 ATTATTAAATATG
1 ATTATTAAATATG
65353377 ATTATTAAATATG
1 ATTATTAAATATG
65353390 A
1 A
65353391 AAGATAAATT
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:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTATTAAATATG
Found at i:65355346 original size:109 final size:109
Alignment explanation
Indices: 65355149--65355349 Score: 303
Period size: 109 Copynumber: 1.8 Consensus size: 109
65355139 ACTTTGAAGA
* *
65355149 TTTAAGAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
** * *
65355214 TCTCGATTTTTCTAAATACGAAATATTACCTTTATTATTGAAAG
66 TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
* * *
65355258 TTTAAAAGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
**
65355323 TCTCGAACTTTCCAAACGTGAAATATT
66 TCTCGAACTTTCCAAACACGAAATATT
65355350 GCTTTTACGA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
109 81 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
Found at i:65355550 original size:3 final size:3
Alignment explanation
Indices: 65355533--65355586 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
65355523 AATGTAAGAG
* * * * *
65355533 AAT AAT AA- AAG AAT AAT AAT AAT TAT AAT AGT AAA AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65355580 AAT AAT A
1 AAT AAT A
65355587 GCTAAGTGGG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:65355683 original size:21 final size:21
Alignment explanation
Indices: 65355659--65355698 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
65355649 TAAAGAAAAA
* *
65355659 AATATATATATTAATAATAGT
1 AATAAATATAATAATAATAGT
*
65355680 AATAAATATAATAGTAATA
1 AATAAATATAATAATAATA
65355699 AATAGAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AATAAATATAATAATAATAGT
Found at i:65355690 original size:15 final size:15
Alignment explanation
Indices: 65355672--65355702 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
65355662 ATATATATTA
65355672 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
65355687 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
65355702 A
1 A
65355703 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:65355712 original size:25 final size:25
Alignment explanation
Indices: 65355652--65355730 Score: 63
Period size: 24 Copynumber: 3.1 Consensus size: 25
65355642 ATAGCACTAA
* *
65355652 AGAAAAAAATATATATATTAATAAT
1 AGAAAATAATATATATAGTAATAAT
*
65355677 AG-TAATAA-ATATAATAGTAATAAAT
1 AGAAAATAATATAT-ATAGTAAT-AAT
* *
65355702 AGAAAATAATAGTACATTAATAATAAT
1 AGAAAATAATA-TATA-TAGTAATAAT
65355729 AG
1 AG
65355731 TATATGTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
23 4 0.10
24 11 0.26
25 7 0.17
26 5 0.12
27 7 0.17
28 8 0.19
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (25 bp):
AGAAAATAATATATATAGTAATAAT
Found at i:65356052 original size:19 final size:17
Alignment explanation
Indices: 65356017--65356076 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
65356007 AAAAATAGTG
65356017 ATAATATAACAAGAATA
1 ATAATATAACAAGAATA
*
65356034 GTAATATAACAAGAGAATA
1 ATAATATAAC-A-AGAATA
* *
65356053 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
65356071 ATAATA
1 ATAATA
65356077 GTAATGGAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 10 0.28
18 11 0.31
19 11 0.31
20 4 0.11
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (17 bp):
ATAATATAACAAGAATA
Found at i:65356057 original size:3 final size:3
Alignment explanation
Indices: 65356049--65356121 Score: 83
Period size: 3 Copynumber: 23.3 Consensus size: 3
65356039 ATAACAAGAG
*
65356049 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT GGAGAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --A-AT AAT AAT AAT
* * *
65356097 AAT AAT AAT GAT ACT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
65356122 TAAATAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 55 0.93
4 1 0.02
5 1 0.02
6 2 0.03
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:65357051 original size:13 final size:13
Alignment explanation
Indices: 65357033--65357090 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
65357023 TCGCGAAGAG
65357033 AAAGAAAAAAATA
1 AAAGAAAAAAATA
* *
65357046 AAAG-AAAATACA
1 AAAGAAAAAAATA
65357058 AAAGAAAAAAACTA
1 AAAGAAAAAAA-TA
65357072 AATA-AAAATAAA-A
1 AA-AGAAAA-AAATA
65357085 AAAGAA
1 AAAGAA
65357091 CCAAGAACAC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 11 0.31
13 14 0.39
14 7 0.19
15 4 0.11
ACGTcount: A:0.81, C:0.03, G:0.07, T:0.09
Consensus pattern (13 bp):
AAAGAAAAAAATA
Found at i:65357067 original size:25 final size:26
Alignment explanation
Indices: 65357033--65357086 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
65357023 TCGCGAAGAG
*
65357033 AAAGAAAAAAA-TAAA-AGAAAATACA
1 AAAGAAAAAAACTAAATA-AAAATAAA
65357058 AAAGAAAAAAACTAAATAAAAATAAA
1 AAAGAAAAAAACTAAATAAAAATAAA
65357084 AAA
1 AAA
65357087 AGAACCAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 11 0.42
26 14 0.54
27 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (26 bp):
AAAGAAAAAAACTAAATAAAAATAAA
Found at i:65357068 original size:20 final size:19
Alignment explanation
Indices: 65357045--65357090 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
65357035 AGAAAAAAAT
65357045 AAAAGAAAATACAAAAGAAA
1 AAAAGAAAATA-AAAAGAAA
** *
65357065 AAAACTAAATAAAAATAAA
1 AAAAGAAAATAAAAAGAAA
65357084 AAAAGAA
1 AAAAGAA
65357091 CCAAGAACAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (19 bp):
AAAAGAAAATAAAAAGAAA
Found at i:65368121 original size:13 final size:13
Alignment explanation
Indices: 65368103--65368160 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
65368093 TCGCGAAGAG
65368103 AAAGAAAAAAATA
1 AAAGAAAAAAATA
* *
65368116 AAAG-AAAATACA
1 AAAGAAAAAAATA
65368128 AAAGAAAAAAACTA
1 AAAGAAAAAAA-TA
65368142 AATA-AAAATAAA-A
1 AA-AGAAAA-AAATA
65368155 AAAGAA
1 AAAGAA
65368161 CCAAGAACAC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 11 0.31
13 14 0.39
14 7 0.19
15 4 0.11
ACGTcount: A:0.81, C:0.03, G:0.07, T:0.09
Consensus pattern (13 bp):
AAAGAAAAAAATA
Found at i:65368137 original size:25 final size:26
Alignment explanation
Indices: 65368103--65368156 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
65368093 TCGCGAAGAG
*
65368103 AAAGAAAAAAA-TAAA-AGAAAATACA
1 AAAGAAAAAAACTAAATA-AAAATAAA
65368128 AAAGAAAAAAACTAAATAAAAATAAA
1 AAAGAAAAAAACTAAATAAAAATAAA
65368154 AAA
1 AAA
65368157 AGAACCAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 11 0.42
26 14 0.54
27 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (26 bp):
AAAGAAAAAAACTAAATAAAAATAAA
Found at i:65368138 original size:20 final size:19
Alignment explanation
Indices: 65368115--65368160 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
65368105 AGAAAAAAAT
65368115 AAAAGAAAATACAAAAGAAA
1 AAAAGAAAATA-AAAAGAAA
** *
65368135 AAAACTAAATAAAAATAAA
1 AAAAGAAAATAAAAAGAAA
65368154 AAAAGAA
1 AAAAGAA
65368161 CCAAGAACAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (19 bp):
AAAAGAAAATAAAAAGAAA
Found at i:65368484 original size:22 final size:22
Alignment explanation
Indices: 65368432--65368484 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
65368422 GGTGTCAGAC
*
65368432 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
*
65368454 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
65368476 GGTATGGGG
1 GGTATGGGG
65368485 TTTGGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.04, G:0.53, T:0.30
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Found at i:65378929 original size:38 final size:37
Alignment explanation
Indices: 65378845--65378939 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
65378835 TATACGTACT
*
65378845 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
65378883 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
65378919 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
65378940 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:65380893 original size:6 final size:6
Alignment explanation
Indices: 65380882--65380910 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
65380872 GAATACAACC
65380882 ATTTAT ATTTAT ATTTAT ATTTAT ATTTA
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTA
65380911 ATTATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTAT
Found at i:65389363 original size:14 final size:14
Alignment explanation
Indices: 65389328--65389366 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
65389318 TATCGTGTAA
*
65389328 AATAGAAATCAAAT
1 AATAGAATTCAAAT
65389342 AATAGAATTCAAAT
1 AATAGAATTCAAAT
65389356 AATAGAATTCA
1 AATAGAATTCA
65389367 TTATAGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (14 bp):
AATAGAATTCAAAT
Found at i:65389808 original size:9 final size:9
Alignment explanation
Indices: 65389794--65389821 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
65389784 GATTATCTAA
65389794 TTTTTGCTC
1 TTTTTGCTC
65389803 TTTTTGCTC
1 TTTTTGCTC
65389812 TTTTTGCTC
1 TTTTTGCTC
65389821 T
1 T
65389822 CAAATGCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.21, G:0.11, T:0.68
Consensus pattern (9 bp):
TTTTTGCTC
Found at i:65390232 original size:11 final size:11
Alignment explanation
Indices: 65390216--65390242 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
65390206 CCTGTATGCA
65390216 TAGTACAAGAT
1 TAGTACAAGAT
65390227 TAGTACAAGAT
1 TAGTACAAGAT
65390238 TAGTA
1 TAGTA
65390243 TATTTAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (11 bp):
TAGTACAAGAT
Found at i:65391612 original size:14 final size:14
Alignment explanation
Indices: 65391574--65391619 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
65391564 CGTCCAGCCC
65391574 AAAACCAAGAAA-TA
1 AAAACCAA-AAATTA
*
65391588 AATAAAC-AAAATTA
1 AA-AACCAAAAATTA
65391602 AAAACCAAAAATTA
1 AAAACCAAAAATTA
65391616 AAAA
1 AAAA
65391620 GTCCAAGTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 6 0.22
14 18 0.67
15 3 0.11
ACGTcount: A:0.74, C:0.11, G:0.02, T:0.13
Consensus pattern (14 bp):
AAAACCAAAAATTA
Found at i:65393881 original size:52 final size:51
Alignment explanation
Indices: 65393791--65393892 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 51
65393781 CTATTGCATA
* * * *
65393791 CTTTAGCTTTGCAGCAATTTTTTGTTTCAAAACGAGTGATGTAGGATAAGG
1 CTTTAGCTTTGCAGAAATTTTGTGTTTCAAAACAAGTGATGTAAGATAAGG
65393842 CTTTAGCTTTGCA-AAATGTTGTGTGTTTCAAAACAAGTGATGTAAGATAAG
1 CTTTAGCTTTGCAGAAAT-TT-TGTGTTTCAAAACAAGTGATGTAAGATAAG
65393893 TAAGGAGAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
50 3 0.07
51 15 0.33
52 27 0.60
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (51 bp):
CTTTAGCTTTGCAGAAATTTTGTGTTTCAAAACAAGTGATGTAAGATAAGG
Found at i:65397786 original size:9 final size:9
Alignment explanation
Indices: 65397774--65397808 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
65397764 ATATATATTA
65397774 AATTTTTTT
1 AATTTTTTT
65397783 AATTCTTTTT
1 AATT-TTTTT
*
65397793 AATCTTTTT
1 AATTTTTTT
65397802 AATTTTT
1 AATTTTT
65397809 AGAATCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (9 bp):
AATTTTTTT
Found at i:65400756 original size:21 final size:22
Alignment explanation
Indices: 65400727--65400773 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
65400717 CAGAAGGAGT
*
65400727 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65400749 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65400770 GAGT
1 GAGT
65400774 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:65408315 original size:23 final size:23
Alignment explanation
Indices: 65408272--65408315 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
65408262 GAAATTAAAT
* *
65408272 TGTAATTTTTATAATAGTAAAAC
1 TGTAATTTTTAAAAGAGTAAAAC
*
65408295 TGTAATTTTTAAAAGATTAAA
1 TGTAATTTTTAAAAGAGTAAA
65408316 TCAAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (23 bp):
TGTAATTTTTAAAAGAGTAAAAC
Found at i:65413846 original size:31 final size:33
Alignment explanation
Indices: 65413804--65413865 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
65413794 GTTTTGGTCC
*
65413804 TTTATTTTGTTTTACTA-TT-TAA-TTTATTTTA
1 TTTATTATGTTTTA-TACTTGTAATTTTATTTTA
65413835 TTTATTATGTTTTATACTTGTAATTTTATTT
1 TTTATTATGTTTTATACTTGTAATTTTATTT
65413866 AAATTTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 2 0.07
31 15 0.56
32 3 0.11
33 7 0.26
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (33 bp):
TTTATTATGTTTTATACTTGTAATTTTATTTTA
Found at i:65419650 original size:17 final size:17
Alignment explanation
Indices: 65419614--65419646 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65419604 AGAGTGTGTG
*
65419614 ATTTAAATATTTTAAAT
1 ATTTAAATATTATAAAT
65419631 ATTTAAAT-TTATAAAT
1 ATTTAAATATTATAAAT
65419647 TATTGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTAAATATTATAAAT
Found at i:65419866 original size:14 final size:15
Alignment explanation
Indices: 65419846--65419884 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
65419836 TTGTTTCACT
65419846 AAAAATGACTTTC-G
1 AAAAATGACTTTCTG
*
65419860 GAAAATGA-TTTCTG
1 AAAAATGACTTTCTG
65419874 AAAAATGACTT
1 AAAAATGACTT
65419885 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 4 0.19
14 15 0.71
15 2 0.10
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (15 bp):
AAAAATGACTTTCTG
Found at i:65420470 original size:16 final size:16
Alignment explanation
Indices: 65420432--65420471 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
65420422 AATATGTGAA
65420432 TAATATTATTTAAAAT
1 TAATATTATTTAAAAT
*
65420448 TATTATT-TTTAAAATT
1 TAATATTATTTAAAA-T
65420464 TAATATTA
1 TAATATTA
65420472 AAATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATTATTTAAAAT
Found at i:65421611 original size:21 final size:22
Alignment explanation
Indices: 65421568--65421612 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
65421558 CAAATGGCCA
* *
65421568 AATGCCATTTTTTTAATGGTAG
1 AATGCCATTTTTTAAATGATAG
*
65421590 AATGCCA-TTTTTAAATTATAG
1 AATGCCATTTTTTAAATGATAG
65421611 AA
1 AA
65421613 GTAGTTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (22 bp):
AATGCCATTTTTTAAATGATAG
Found at i:65427024 original size:23 final size:22
Alignment explanation
Indices: 65426998--65427049 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
65426988 ATACTGTTTA
65426998 TATTATTA-TT-ATTATTGCAT
1 TATTATTATTTAATTATTGCAT
*
65427018 TATTATTAGTTTAATTATTGTAT
1 TATTATTA-TTTAATTATTGCAT
65427041 TATTATTAT
1 TATTATTAT
65427050 GCTTACTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.29
22 3 0.11
23 17 0.61
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.62
Consensus pattern (22 bp):
TATTATTATTTAATTATTGCAT
Found at i:65434381 original size:44 final size:44
Alignment explanation
Indices: 65434316--65434410 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
65434306 AGCTACAAGT
* ** ** * *
65434316 TACAAATCTTATTTCTCTGAAGTTTCAGTGGAGTAGATTAAAGC
1 TACAAGTCTTATTTCTCTGAAGTTGAAGTGGAACAAATTAAAGA
65434360 TACAAGTCTTATTTC-CGTGAAGTTGAAGTGGAACAAATTAAAGA
1 TACAAGTCTTATTTCTC-TGAAGTTGAAGTGGAACAAATTAAAGA
65434404 TACAAGT
1 TACAAGT
65434411 TATAAATCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.33
Consensus pattern (44 bp):
TACAAGTCTTATTTCTCTGAAGTTGAAGTGGAACAAATTAAAGA
Found at i:65434449 original size:95 final size:95
Alignment explanation
Indices: 65434282--65434466 Score: 264
Period size: 95 Copynumber: 1.9 Consensus size: 95
65434272 GCACTAGACC
* * * * * *
65434282 TGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCTCTGAAGTTTCAGTGG
1 TGAAGTTGAAGTGGAACAAATTAAAGATACAAGTTACAAATCTTATTCCTCTGAAGTTGCAATGG
*
65434347 AGTAGATTAAAGCTACAAGTCTTATTTCCG
66 AGCAGATTAAAGCTACAAGTCTTATTTCCG
*
65434377 TGAAGTTGAAGTGGAACAAATTAAAGATACAAGTTATAAATCTTATCTCCT-TGAAGTTGCAATG
1 TGAAGTTGAAGTGGAACAAATTAAAGATACAAGTTACAAATCTTAT-TCCTCTGAAGTTGCAATG
* *
65434441 GAGCAGATTGAAGTTACAAGTCTTAT
65 GAGCAGATTAAAGCTACAAGTCTTAT
65434467 CTCCCTAAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 76 0.96
96 3 0.04
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (95 bp):
TGAAGTTGAAGTGGAACAAATTAAAGATACAAGTTACAAATCTTATTCCTCTGAAGTTGCAATGG
AGCAGATTAAAGCTACAAGTCTTATTTCCG
Found at i:65434465 original size:44 final size:44
Alignment explanation
Indices: 65434407--65434530 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 44
65434397 TTAAAGATAC
*
65434407 AAGTTATAAATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTG
1 AAGTTACAAATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTG
* * * * * *
65434451 AAGTTACAAGTCTTATCTCCCTAAAGTAGCAGTGGAGTAGATTG
1 AAGTTACAAATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTG
** * * *
65434495 AAACTACAATTCCTAT-ACCTCTGAAGTTGCAATGGA
1 AAGTTACAAATCTTATCTCCT-TGAAGTTGCAATGGA
65434531 TTAGAACGAG
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 2 0.03
44 61 0.97
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (44 bp):
AAGTTACAAATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTG
Found at i:65434503 original size:95 final size:95
Alignment explanation
Indices: 65434291--65434503 Score: 250
Period size: 95 Copynumber: 2.2 Consensus size: 95
65434281 CTGAAGTTGT
* * * *
65434291 AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCTCTGAAGTTTCAGTGGAGTAGATTA
1 AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTCCTCTGAAGTTGCAATGGAGCAGATTA
* * * *
65434356 AAGCTACAAGTCTTATTTCCGTGAAGTTGA
66 AAGCTACAAGTCTTATCTCCCTAAAGTAGA
* * *
65434386 AGTGGAACAAATTAAAGATACAAGTTATAAATCTTATCTCCT-TGAAGTTGCAATGGAGCAGATT
1 AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTAT-TCCTCTGAAGTTGCAATGGAGCAGATT
* * *
65434450 GAAGTTACAAGTCTTATCTCCCTAAAGTAGC
65 AAAGCTACAAGTCTTATCTCCCTAAAGTAGA
**
65434481 AGTGGAGTAGATTGAAA-CTACAA
1 AGTGGAACAGATT-AAAGCTACAA
65434504 TTCCTATACC
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
95 92 0.94
96 6 0.06
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (95 bp):
AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTCCTCTGAAGTTGCAATGGAGCAGATTA
AAGCTACAAGTCTTATCTCCCTAAAGTAGA
Found at i:65435049 original size:26 final size:26
Alignment explanation
Indices: 65435019--65435082 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
65435009 AACTTTTGAA
*
65435019 AAATTTAGTTATACCTTTAA-TTTTTT
1 AAATTTA-TTATACCTTCAATTTTTTT
* *
65435045 AAATTTAATTAAATCTTCAATTTTTTT
1 AAATTT-ATTATACCTTCAATTTTTTT
65435072 AAATTTATTAT
1 AAATTTATTAT
65435083 TGAAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (26 bp):
AAATTTATTATACCTTCAATTTTTTT
Found at i:65435151 original size:19 final size:18
Alignment explanation
Indices: 65435126--65435175 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 18
65435116 TTTTTTTTTG
**
65435126 TAAATTTTCATAAATCTC
1 TAAATTTTCATAAAAATC
65435144 TAAAATTTT-A-AAAAATC
1 T-AAATTTTCATAAAAATC
65435161 TAAATTTTCATAAAA
1 TAAATTTTCATAAAA
65435176 TCATTATCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 7 0.26
17 7 0.26
18 6 0.22
19 7 0.26
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTTTCATAAAAATC
Found at i:65435175 original size:17 final size:17
Alignment explanation
Indices: 65435126--65435177 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
65435116 TTTTTTTTTG
*
65435126 TAAATTTTCATAAATCTC
1 TAAATTTTCATAAA-ATC
*
65435144 TAAAATTTT-AAAAAATC
1 T-AAATTTTCATAAAATC
65435161 TAAATTTTCATAAAATC
1 TAAATTTTCATAAAATC
65435178 ATTATCCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 7 0.24
17 10 0.34
18 5 0.17
19 7 0.24
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTTCATAAAATC
Found at i:65436296 original size:30 final size:31
Alignment explanation
Indices: 65436262--65436345 Score: 136
Period size: 30 Copynumber: 2.8 Consensus size: 31
65436252 CCAATATCTC
65436262 GATACCCATATCTTTGACTTTCCAAAT-TTT
1 GATACCCATATCTTTGACTTTCCAAATATTT
* *
65436292 GATACCCATATCTTTGACTTT-CTATTATTT
1 GATACCCATATCTTTGACTTTCCAAATATTT
65436322 GATACCCATATCTTTGACTTTCCA
1 GATACCCATATCTTTGACTTTCCA
65436346 TAAATATGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.06
30 45 0.92
31 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.44
Consensus pattern (31 bp):
GATACCCATATCTTTGACTTTCCAAATATTT
Found at i:65436307 original size:15 final size:15
Alignment explanation
Indices: 65436262--65436338 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
65436252 CCAATATCTC
65436262 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
65436277 GACTTTCCAAAT-TTT
1 GA-TACCCATATCTTT
65436292 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
65436307 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
65436322 GATACCCATATCTTT
1 GATACCCATATCTTT
65436337 GA
1 GA
65436339 CTTTCCATAA
Statistics
Matches: 44, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 10 0.23
15 24 0.55
16 10 0.23
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:65438037 original size:5 final size:5
Alignment explanation
Indices: 65438027--65438066 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
65438017 TTATGTTTTA
65438027 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
65438067 AAACTAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:65438293 original size:22 final size:22
Alignment explanation
Indices: 65438254--65438301 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
65438244 AAACAAAAGA
65438254 AAAAGAAACAAAAGAAGA-ACAG
1 AAAAGAAACAAAAGAAGAGAC-G
*
65438276 AAAAGAAAC-AGAGAAAGAGACG
1 AAAAGAAACAAAAG-AAGAGACG
65438298 AAAA
1 AAAA
65438302 CAAGGGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 18 0.78
23 2 0.09
ACGTcount: A:0.71, C:0.08, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAAGAAACAAAAGAAGAGACG
Found at i:65438688 original size:22 final size:24
Alignment explanation
Indices: 65438660--65438703 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
65438650 TATGTCAAGA
65438660 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGATAGAAAAGTAAGTATG
65438682 AATTAAGATAGAAAAGTAAGTA
1 AATTAAGATAGAAAAGTAAGTA
65438704 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGATAGAAAAGTAAGTATG
Found at i:65440351 original size:15 final size:15
Alignment explanation
Indices: 65440331--65440362 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
65440321 TTAGGGGGTG
65440331 TTACACTATTCCTTC
1 TTACACTATTCCTTC
65440346 TTACACTATTCCTTC
1 TTACACTATTCCTTC
65440361 TT
1 TT
65440363 TCTGAGCGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (15 bp):
TTACACTATTCCTTC
Found at i:65443269 original size:2 final size:2
Alignment explanation
Indices: 65443262--65443286 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65443252 GAATTTACAA
65443262 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
65443287 ATAATGCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:65443475 original size:30 final size:31
Alignment explanation
Indices: 65443441--65443524 Score: 136
Period size: 30 Copynumber: 2.8 Consensus size: 31
65443431 CCAATATCTC
* *
65443441 GATACCCATATCTTTTACTTTCCAATT-TTT
1 GATACCCATATCTTTGACTTTCCAATTAATT
65443471 GATACCCATATCTTTGACTTTCC-ATTAATT
1 GATACCCATATCTTTGACTTTCCAATTAATT
65443501 GATACCCATATCTTTGACTTTCCA
1 GATACCCATATCTTTGACTTTCCA
65443525 TAAATATGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
29 3 0.06
30 47 0.94
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (31 bp):
GATACCCATATCTTTGACTTTCCAATTAATT
Found at i:65443517 original size:15 final size:15
Alignment explanation
Indices: 65443441--65443517 Score: 50
Period size: 15 Copynumber: 5.1 Consensus size: 15
65443431 CCAATATCTC
65443441 GATACCCATATCTTT
1 GATACCCATATCTTT
* ** *
65443456 TACTTTCCA-ATTTTT
1 GA-TACCCATATCTTT
65443471 GATACCCATATCTTT
1 GATACCCATATCTTT
** **
65443486 GACTTTCCAT-TAATT
1 GA-TACCCATATCTTT
65443501 GATACCCATATCTTT
1 GATACCCATATCTTT
65443516 GA
1 GA
65443518 CTTTCCATAA
Statistics
Matches: 42, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
14 9 0.21
15 24 0.57
16 9 0.21
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:65444728 original size:32 final size:32
Alignment explanation
Indices: 65444688--65444752 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
65444678 TCATGGAGTT
65444688 AGGCAAAATACAATGCATTAGAGTTTTAATAC
1 AGGCAAAATACAATGCATTAGAGTTTTAATAC
65444720 AGGCAAAATACAATGCATTAGAGTTTTAATAC
1 AGGCAAAATACAATGCATTAGAGTTTTAATAC
65444752 A
1 A
65444753 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (32 bp):
AGGCAAAATACAATGCATTAGAGTTTTAATAC
Found at i:65446106 original size:5 final size:5
Alignment explanation
Indices: 65446096--65446123 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
65446086 TGAAATATAC
65446096 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
65446124 ATATTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:65446718 original size:27 final size:27
Alignment explanation
Indices: 65446677--65446729 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
65446667 CTAATTATTT
*
65446677 TTACTCTGCTTTATATATATATGACTA
1 TTACTCTGCTATATATATATATGACTA
*
65446704 TTACTCTGCTATATATATATTTGACT
1 TTACTCTGCTATATATATATATGACT
65446730 CTAAAGTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (27 bp):
TTACTCTGCTATATATATATATGACTA
Found at i:65451817 original size:21 final size:21
Alignment explanation
Indices: 65451793--65451832 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
65451783 TTTTCTAAAA
*
65451793 TTAAAAGTCAAAACCATTAAG
1 TTAAAAGACAAAACCATTAAG
*
65451814 TTAAAAGACAAAATCATTA
1 TTAAAAGACAAAACCATTA
65451833 TATTGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25
Consensus pattern (21 bp):
TTAAAAGACAAAACCATTAAG
Found at i:65455783 original size:18 final size:19
Alignment explanation
Indices: 65455760--65455798 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
65455750 TAAAAAGTTG
65455760 AAATAAA-ATCTAAT-TTAA
1 AAATAAATA-CTAATATTAA
65455778 AAATAAATACTAATATTAA
1 AAATAAATACTAATATTAA
65455797 AA
1 AA
65455799 GTATATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAAATACTAATATTAA
Found at i:65455932 original size:15 final size:16
Alignment explanation
Indices: 65455901--65455933 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
65455891 AAAGAATAAA
*
65455901 TGAAACTAAAAGAAAT
1 TGAAACTAAAAAAAAT
65455917 TGAAA-TAAAAAAAAT
1 TGAAACTAAAAAAAAT
65455932 TG
1 TG
65455934 GGGTTTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.64, C:0.03, G:0.12, T:0.21
Consensus pattern (16 bp):
TGAAACTAAAAAAAAT
Found at i:65466754 original size:16 final size:15
Alignment explanation
Indices: 65466710--65466757 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
65466700 TCAGTTATGC
65466710 AATACTCAATTCATG
1 AATACTCAATTCATG
*
65466725 AATACATCATTTCAT-
1 AATAC-TCAATTCATG
65466740 ACCATACTCAATTCATG
1 A--ATACTCAATTCATG
65466757 A
1 A
65466758 GTATAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (15 bp):
AATACTCAATTCATG
Found at i:65467071 original size:37 final size:37
Alignment explanation
Indices: 65466975--65467152 Score: 223
Period size: 37 Copynumber: 4.7 Consensus size: 37
65466965 AATTCGAAGT
* *
65466975 AGTAAATTGACACCCAGTGTCTCATCGAATAAATCTGAA
1 AGTAAATTGACACCCAGTGTCTCATCGATTAAA-C-CAA
* *
65467014 GTAGTAAATTGACACACAGTGTCTCATCGGTTAAACCGAA
1 --AGTAAATTGACACCCAGTGTCTCATCGATTAAACC-AA
65467054 A-TAAATTGACACCCAGTGTCTCATCGATTAAACCAA
1 AGTAAATTGACACCCAGTGTCTCATCGATTAAACCAA
*
65467090 AGTAAATTGACACCTAGTGTCTCATCGATTAAACCAA
1 AGTAAATTGACACCCAGTGTCTCATCGATTAAACCAA
* * * *
65467127 ATTAAATTGGCACTCAGTGCCTCATC
1 AGTAAATTGACACCCAGTGTCTCATC
65467153 AACTCGAAGT
Statistics
Matches: 123, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
36 3 0.02
37 86 0.70
38 1 0.01
40 3 0.02
41 30 0.24
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (37 bp):
AGTAAATTGACACCCAGTGTCTCATCGATTAAACCAA
Found at i:65468103 original size:26 final size:27
Alignment explanation
Indices: 65468069--65468123 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
65468059 TCTTTATTCA
* *
65468069 TTTAGTTATT-TGTTTTATTATATTTAC
1 TTTAGTTATTATATTATA-TATATTTAC
65468096 TTTA-TTATTATATTATATATATTTAC
1 TTTAGTTATTATATTATATATATTTAC
65468122 TT
1 TT
65468124 AAATATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (27 bp):
TTTAGTTATTATATTATATATATTTAC
Found at i:65468130 original size:26 final size:25
Alignment explanation
Indices: 65468083--65468131 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
65468073 GTTATTTGTT
* *
65468083 TTATTATATTTACTTTATTATTATA
1 TTATTATATTTACTTAAATATTATA
65468108 TTATATATATTTACTTAAATATTA
1 TTAT-TATATTTACTTAAATATTA
65468132 AGTAACATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTATATTTACTTAAATATTATA
Found at i:65469694 original size:28 final size:27
Alignment explanation
Indices: 65469662--65469718 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
65469652 CCGTGACAAA
65469662 TGGTATCAGAGCTAGAG-TTCGAACCAAG
1 TGGTATCAGAGC-AG-GTTTCGAACCAAG
* *
65469690 TGGTATCCGAGCAGGTTTTGAACCAAG
1 TGGTATCAGAGCAGGTTTCGAACCAAG
65469717 TG
1 TG
65469719 ATATTCGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.04
27 14 0.54
28 11 0.42
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (27 bp):
TGGTATCAGAGCAGGTTTCGAACCAAG
Found at i:65475041 original size:14 final size:15
Alignment explanation
Indices: 65475017--65475050 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
65475007 AGCTGGCGGA
65475017 GTTTATAAAATAGTT
1 GTTTATAAAATAGTT
*
65475032 GTTT-TAAAATATTT
1 GTTTATAAAATAGTT
65475046 GTTTA
1 GTTTA
65475051 ACTTTACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
GTTTATAAAATAGTT
Found at i:65475778 original size:21 final size:22
Alignment explanation
Indices: 65475752--65475794 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
65475742 CATCTACCAT
*
65475752 ATCACTTCAGA-TTGTAAATAA
1 ATCACTGCAGATTTGTAAATAA
*
65475773 ATCACTGCTGATTTGTAAATAA
1 ATCACTGCAGATTTGTAAATAA
65475795 TTGCCACTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (22 bp):
ATCACTGCAGATTTGTAAATAA
Found at i:65476131 original size:27 final size:28
Alignment explanation
Indices: 65476078--65476131 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
65476068 TAGATATAGG
65476078 AAATATATATAGTTTTATAAAAATATTA
1 AAATATATATAGTTTTATAAAAATATTA
*
65476106 AAATATA-ATA-TTTTAATAAATATATT
1 AAATATATATAGTTTT-ATAAAAATATT
65476132 TATCTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 13 0.54
28 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
AAATATATATAGTTTTATAAAAATATTA
Found at i:65494603 original size:111 final size:111
Alignment explanation
Indices: 65494476--65494681 Score: 313
Period size: 111 Copynumber: 1.9 Consensus size: 111
65494466 ACATTATGAA
** * *
65494476 CAACAGAGATACTGTTTCTGTCCTCCATGTTTGCAGGCTCAGAAGAAACCTTATCGAGTTCAGGA
1 CAACAGAGATACTGTTTCCATCCTCCATGGTTGCAGGCTCAGAAGAAACCTTATCAAGTTCAGGA
*
65494541 GCAGCTTCTTCTGATCGATTTTCACTATCATCTGAAATGTTATTAG
66 GCAGATTCTTCTGATCGATTTTCACTATCATCTGAAATGTTATTAG
* * * *
65494587 CAACAGAGATATTGTTTCCATCCTCCTTGGTTGCAGGCTCGGAAGAAACGTTATCAAGTTCAGGA
1 CAACAGAGATACTGTTTCCATCCTCCATGGTTGCAGGCTCAGAAGAAACCTTATCAAGTTCAGGA
* *
65494652 GCAGATTCTTCTGATTGATTTTCGCTATCA
66 GCAGATTCTTCTGATCGATTTTCACTATCA
65494682 CGAGTTCCTT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 84 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (111 bp):
CAACAGAGATACTGTTTCCATCCTCCATGGTTGCAGGCTCAGAAGAAACCTTATCAAGTTCAGGA
GCAGATTCTTCTGATCGATTTTCACTATCATCTGAAATGTTATTAG
Found at i:65501270 original size:15 final size:14
Alignment explanation
Indices: 65501248--65501290 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
65501238 ATTTATTTCA
65501248 TATTATATTTTAAT
1 TATTATATTTTAAT
*
65501262 TATTTATATTTAAAT
1 TA-TTATATTTTAAT
*
65501277 TATTACATTTTAAT
1 TATTATATTTTAAT
65501291 CACTTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATATTTTAAT
Found at i:65503854 original size:29 final size:29
Alignment explanation
Indices: 65503822--65503882 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
65503812 ACTCGATTCA
65503822 AAAAAATTCAAATCAAATTAGAATTGATT
1 AAAAAATTCAAATCAAATTAGAATTGATT
* *
65503851 AAAAAATTCGAGTCAAATTAGAATTGATT
1 AAAAAATTCAAATCAAATTAGAATTGATT
65503880 AAA
1 AAA
65503883 TAGGACTCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.30
Consensus pattern (29 bp):
AAAAAATTCAAATCAAATTAGAATTGATT
Done.