Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 51 of 313
Found at i:16917722 original size:12 final size:12
Alignment explanation
Indices: 16917705--16917737 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
16917695 TCTTGCATAT
16917705 ATGATTAATAAC
1 ATGATTAATAAC
16917717 ATGATTAATAAC
1 ATGATTAATAAC
16917729 ATGATTAAT
1 ATGATTAAT
16917738 GGTTCTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (12 bp):
ATGATTAATAAC
Found at i:16918383 original size:16 final size:16
Alignment explanation
Indices: 16918357--16918389 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16918347 TTTTCAGGAC
16918357 TTTTTTATAATATTTTA
1 TTTTTTATAAT-TTTTA
16918374 TTTTTT-TAATTTTTA
1 TTTTTTATAATTTTTA
16918389 T
1 T
16918390 GACCTTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 4 0.25
17 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATAATTTTTA
Found at i:16922299 original size:30 final size:30
Alignment explanation
Indices: 16922265--16922325 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16922255 TCCTTAACTC
16922265 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
16922295 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
16922325 A
1 A
16922326 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:16923486 original size:27 final size:27
Alignment explanation
Indices: 16923425--16923501 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
16923415 GGCATATTCA
16923425 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
16923452 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TATTACGG
* *
16923479 TCTTTTTACC-TATTAGGGGTATT
1 TCATTTTACCATA-CAGGGGTATT
16923502 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 38 0.90
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:16923540 original size:54 final size:54
Alignment explanation
Indices: 16923490--16923618 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
16923480 CTTTTTACCT
* ** *
16923490 ATTAGGGGTATTTTAGTCATTTCATCCTACAAG-GGTGTTTTGGTAATTTTACAA
1 ATTAGGGGTATTTTAGTAATTTCA-CAAACAAGTGGTATTTTGGTAATTTTACAA
** *
16923544 ATT-GAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAA
1 ATTAG-GGGTATTTTAGTAATTTCACAAACAAGTGGTATTTTGGTAATTTTACAA
* *
16923598 ACTAGGGGTATTTTGGTAATT
1 ATTAGGGGTATTTTAGTAATT
16923619 CTACCTTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
53 6 0.10
54 56 0.89
55 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (54 bp):
ATTAGGGGTATTTTAGTAATTTCACAAACAAGTGGTATTTTGGTAATTTTACAA
Found at i:16923551 original size:27 final size:25
Alignment explanation
Indices: 16923521--16923651 Score: 109
Period size: 27 Copynumber: 4.9 Consensus size: 25
16923511 TCATCCTACA
*
16923521 AGGGTGTTTTGGTAATTTTACAAATT
1 AGGGTATTTTGGTAATTTTACAAA-T
* * *
16923547 GAGGGTATTTCGGTAATTTCACAAACC
1 -AGGGTATTTTGGTAATTTTACAAA-T
16923574 AGTGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAA-T
* **
16923601 AGGGGTATTTTGGTAATTCTACCTTAT
1 A-GGGTATTTTGGTAATTTTA-CAAAT
* *
16923628 AGGGGTATTTTAGTAATTTCACAA
1 A-GGGTATTTTGGTAATTTTACAA
16923652 TCNNNNNNNN
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.04
27 79 0.93
28 3 0.04
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (25 bp):
AGGGTATTTTGGTAATTTTACAAAT
Found at i:16944211 original size:17 final size:17
Alignment explanation
Indices: 16944189--16944222 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16944179 TATTTCTTAC
*
16944189 TATGATTGCATATATTG
1 TATGATTGAATATATTG
*
16944206 TATGATTTAATATATTG
1 TATGATTGAATATATTG
16944223 GAAAAGTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (17 bp):
TATGATTGAATATATTG
Found at i:16944813 original size:100 final size:100
Alignment explanation
Indices: 16944640--16945109 Score: 886
Period size: 100 Copynumber: 4.7 Consensus size: 100
16944630 TATTGTGAGG
16944640 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCACGTGCAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCACGTGCAGTACT
16944705 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
16944740 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCACGTGCAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCACGTGCAGTACT
16944805 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
16944840 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCACGTGCAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCACGTGCAGTACT
16944905 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
16944940 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCACGTGCAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCACGTGCAGTACT
16945005 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
* ** * * *
16945040 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCACGTGCAGTACT
16945105 AAGTG
66 AAGTG
16945110 TGTGAGACAG
Statistics
Matches: 364, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 364 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCACGTGCAGTACT
AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
Found at i:16945635 original size:15 final size:15
Alignment explanation
Indices: 16945615--16945645 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16945605 TCTCCATTTC
16945615 TTTAGTATTGGCAGG
1 TTTAGTATTGGCAGG
16945630 TTTAGTATTGGCAGG
1 TTTAGTATTGGCAGG
16945645 T
1 T
16945646 CGGCTCAGGG
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:0.19, C:0.06, G:0.32, T:0.42
Consensus pattern (15 bp):
TTTAGTATTGGCAGG
Found at i:16958852 original size:46 final size:46
Alignment explanation
Indices: 16958785--16959101 Score: 329
Period size: 46 Copynumber: 6.8 Consensus size: 46
16958775 TGTACCCCGC
* * *
16958785 CCATAAGCGAACTCGGACTCAAGTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* * **
16958831 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCTT-GGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* ** * *
16958877 ACATCTGACGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* **
16958924 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* * * * *
16958974 -C-TCA-CGAACTCGGACTCAAATCAATGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
16959017 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
16959063 CCAAAAGTGAACTCGGACTCAACTCAATGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
16959102 CCCAAATATT
Statistics
Matches: 221, Mismatches: 39, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
43 4 0.02
45 5 0.02
46 141 0.64
47 63 0.29
48 3 0.01
49 1 0.00
50 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:16958905 original size:93 final size:93
Alignment explanation
Indices: 16958792--16959055 Score: 404
Period size: 93 Copynumber: 2.8 Consensus size: 93
16958782 CGCCCATAAG
* * *
16958792 CGAACTCGGACTCAAGTCAACGAGCTCAGG-TGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAAATCAACGAGTTC-GGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
* * * * *
16958856 AATGAGCTCGGATGCTTGGTTACATCTGA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
16958885 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
16958950 ACGAGTTCGAATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
16958978 CGAACTCGGACTCAAATCAATGAGTTCGGACGTTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
16959043 ACGAGTTCGGATG
66 ACGAGTTCGGATG
16959056 TTCGCATCCA
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
92 2 0.01
93 155 0.99
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAAATCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:16961534 original size:40 final size:40
Alignment explanation
Indices: 16961479--16961576 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
16961469 CTATCTCAGT
* **
16961479 ATCGCACACTTAGTGCCACATATAGTTGAAGCTA-TTCCA
1 ATCGCACACTAAGTGCCACATATAGCCGAAGCTATTTCCA
* * *
16961518 ATTCGCACACTAAGTGCTATATATAGCCGAAGCTATTTCGA
1 A-TCGCACACTAAGTGCCACATATAGCCGAAGCTATTTCCA
* *
16961559 AACGCACACTAAATGCCA
1 ATCGCACACTAAGTGCCA
16961577 AACATAGTCG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.02
40 42 0.88
41 5 0.10
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (40 bp):
ATCGCACACTAAGTGCCACATATAGCCGAAGCTATTTCCA
Found at i:16962031 original size:28 final size:29
Alignment explanation
Indices: 16961973--16962038 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
16961963 TTTTCATTTA
* *
16961973 TTTCTCAATTTAACCCCTCAATTTACACT
1 TTTCTCAAATTAACCCCTCAATTGACACT
*
16962002 TTTCTCAAATTAATCCC-CAATTGACACT
1 TTTCTCAAATTAACCCCTCAATTGACACT
*
16962030 TTTGTCAAA
1 TTTCTCAAA
16962039 AATCACTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 18 0.55
29 15 0.45
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.39
Consensus pattern (29 bp):
TTTCTCAAATTAACCCCTCAATTGACACT
Found at i:16968161 original size:17 final size:18
Alignment explanation
Indices: 16968139--16968172 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16968129 ATTACTAAGC
16968139 AAAAATCA-CAAAAACGT
1 AAAAATCATCAAAAACGT
16968156 AAAAATCATCAAAAACG
1 AAAAATCATCAAAAACG
16968173 AAACAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.65, C:0.18, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAAATCATCAAAAACGT
Found at i:16975574 original size:93 final size:93
Alignment explanation
Indices: 16975462--16975633 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16975452 CGCCCATAAG
* *
16975462 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16975527 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
16975555 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16975620 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
16975634 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:16975630 original size:46 final size:46
Alignment explanation
Indices: 16975455--16975630 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
16975445 TGTAACCCGC
* * *
16975455 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
16975501 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
16975551 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16975594 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
16975631 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16981829 original size:9 final size:9
Alignment explanation
Indices: 16981783--16981851 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
16981773 AAGCATTAAC
16981783 AAACACATT
1 AAACACATT
*
16981792 AAAAACAAATT
1 --AAACACATT
16981803 AAACACATT
1 AAACACATT
* *
16981812 TAACTCATT
1 AAACACATT
16981821 AAACACATT
1 AAACACATT
* *
16981830 AAATACTTT
1 AAACACATT
*
16981839 AAACACATG
1 AAACACATT
16981848 AAAC
1 AAAC
16981852 TTAATTAACT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
9 39 0.83
11 8 0.17
ACGTcount: A:0.55, C:0.19, G:0.01, T:0.25
Consensus pattern (9 bp):
AAACACATT
Found at i:16987036 original size:27 final size:27
Alignment explanation
Indices: 16987006--16987183 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16986996 ATATTGAGTC
* * * *
16987006 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16987033 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16987060 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16987088 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16987115 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16987142 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16987169 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16987184 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16987145 original size:82 final size:81
Alignment explanation
Indices: 16987027--16987182 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16987017 TGCTATATAA
* *
16987027 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16987092 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16987109 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16987173 CACTTAGTGC
65 CACTTAGTGC
16987183 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16995098 original size:27 final size:27
Alignment explanation
Indices: 16995068--16995245 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
16995058 ATATTGAGCC
* *
16995068 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
16995095 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
16995122 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
16995150 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
16995177 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
16995204 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
16995231 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16995246 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:16995180 original size:55 final size:54
Alignment explanation
Indices: 16995068--16995245 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
16995058 ATATTGAGCC
* * * * *
16995068 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
16995122 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
16995177 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
16995231 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16995246 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:16997285 original size:11 final size:11
Alignment explanation
Indices: 16997262--16997300 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
16997252 CACCTGCAAG
16997262 CATTAACAAACA
1 CATTAA-AAACA
16997274 CATTAAAAACA
1 CATTAAAAACA
*
16997285 CATTAAACACA
1 CATTAAAAACA
16997296 C-TTAA
1 CATTAA
16997301 CTCATTAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 4 0.15
11 16 0.62
12 6 0.23
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (11 bp):
CATTAAAAACA
Found at i:16997294 original size:9 final size:9
Alignment explanation
Indices: 16997269--16997337 Score: 68
Period size: 9 Copynumber: 7.4 Consensus size: 9
16997259 AAGCATTAAC
16997269 AAACACATT
1 AAACACATT
16997278 AAAAACACATT
1 --AAACACATT
16997289 AAACACACTT
1 AAACACA-TT
*
16997299 -AACTCATT
1 AAACACATT
16997307 AAACACATT
1 AAACACATT
* *
16997316 AAATACTTT
1 AAACACATT
*
16997325 AAACACATG
1 AAACACATT
16997334 AAAC
1 AAAC
16997338 TTAATTAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
8 2 0.04
9 36 0.73
10 2 0.04
11 9 0.18
ACGTcount: A:0.54, C:0.22, G:0.01, T:0.23
Consensus pattern (9 bp):
AAACACATT
Found at i:16998766 original size:41 final size:41
Alignment explanation
Indices: 16998709--16998831 Score: 237
Period size: 41 Copynumber: 3.0 Consensus size: 41
16998699 ATTCATCGAC
16998709 TTATTTCATCCTTAATATACAATCAAAACATGCCAAATCAT
1 TTATTTCATCCTTAATATACAATCAAAACATGCCAAATCAT
16998750 TTATTTCATCCTTAATATACAATCAAAACATGCCAAATCAT
1 TTATTTCATCCTTAATATACAATCAAAACATGCCAAATCAT
*
16998791 TTATTTCATCCTTAATAAACAATCAAAACATGCCAAATCAT
1 TTATTTCATCCTTAATATACAATCAAAACATGCCAAATCAT
16998832 GAGCCAAAGT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.33
Consensus pattern (41 bp):
TTATTTCATCCTTAATATACAATCAAAACATGCCAAATCAT
Found at i:17001599 original size:20 final size:20
Alignment explanation
Indices: 17001574--17001611 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17001564 GACTAAACCG
17001574 AGAACTTTAG-AAATTTTTAC
1 AGAAC-TTAGAAAATTTTTAC
17001594 AGAACTTAGAAAATTTTT
1 AGAACTTAGAAAATTTTT
17001612 GCTATAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AGAACTTAGAAAATTTTTAC
Found at i:17009166 original size:68 final size:66
Alignment explanation
Indices: 17009094--17009265 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
17009084 CATCATGTGT
* * * *
17009094 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
17009157 TGTAG
62 TGTAG
** * *
17009162 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
17009227 AG
65 AG
* * * *
17009229 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
17009266 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:17009199 original size:64 final size:64
Alignment explanation
Indices: 17009118--17009301 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
17009108 AGACATTATG
* * *
17009118 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
17009182 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
17009247 AA
63 AA
* * *
17009249 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
17009302 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:17013374 original size:28 final size:28
Alignment explanation
Indices: 17013342--17013422 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
17013332 TGGGAAGTAG
17013342 TTGGGCCTAATGGGCCATATGAATG-TGA
1 TTGGGCCTAATGGGCCATATGAATGAT-A
* * * *
17013370 TTGGGCCTGATAGGCCATGTGAACGATA
1 TTGGGCCTAATGGGCCATATGAATGATA
* *
17013398 TTGGGCCTAAAGGGGCCAAATGAAT
1 TTGGGCCT-AATGGGCCATATGAAT
17013423 AAGTGTGGAT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
28 30 0.73
29 11 0.27
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGATA
Found at i:17013751 original size:27 final size:27
Alignment explanation
Indices: 17013722--17014409 Score: 526
Period size: 27 Copynumber: 25.6 Consensus size: 27
17013712 TAATAAAGAG
*
17013722 AAATTACCGAAATACCCCTGATTTGTG
1 AAATTACCGAAATACCCCTGATTTGTA
* *
17013749 AAATTACCGAAATACCCCTGATTTCTG
1 AAATTACCGAAATACCCCTGATTTGTA
*
17013776 AAATTACCGAAACA-CCCTCGATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
17013803 AAATTACCGAAGTACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* *
17013830 AAATTACCAAAATA-CCCTCGA-TTGTG
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
17013856 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
** * *
17013883 AAATTACTAAAATACCCCCGATTTGTG
1 AAATTACCGAAATACCCCTGATTTGTA
* *
17013910 AAATTA-CTAAA-ACACCTTCGATTTGTA
1 AAATTACCGAAATAC-CCCT-GATTTGTA
*
17013937 AAATTACCGAAACA-CCCTCGATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* * * *
17013964 AAATTACTGAAACA-CCCTCAAATTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
17013991 AAATTACCTAAATA-CCCTCGATTTGTG
1 AAATTACCGAAATACCCCT-GATTTGTA
* ** * *
17014018 AAATTATCGAAGCACCCTTGATTTCTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * * * *
17014045 AAATTGCCAAAATAACTC-GATTTTTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17014071 AAATTACCGACACA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
17014098 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
17014125 AAATTACCGAAATA-CCATCATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17014151 AAATTATCGAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17014178 AAATTATCGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17014205 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * *
17014232 AAATTACCAAAAAACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17014259 AAATTACTGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17014286 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * *
17014313 AAATTACCAAAAAACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17014340 AAATTACTGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17014367 AAATTATCGAAATACCCTTG-TACTGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
**
17014394 AAATTACTAAAATACC
1 AAATTACCGAAATACC
17014410 ATTGTAGTGT
Statistics
Matches: 535, Mismatches: 108, Indels: 36
0.79 0.16 0.05
Matches are distributed among these distances:
25 4 0.01
26 74 0.14
27 441 0.82
28 15 0.03
29 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCCTGATTTGTA
Found at i:17014385 original size:81 final size:80
Alignment explanation
Indices: 17013722--17014409 Score: 688
Period size: 81 Copynumber: 8.5 Consensus size: 80
17013712 TAATAAAGAG
* * * * *
17013722 AAATTACCGAAATACCC-CTGATTTGTGAAATTACCGAAATACCC-CTGATTTCTGAAATTACCG
1 AAATTACCGAAATACCCTC-GA-TTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTACTG
17013785 AAACACCCTCGATTTGTA
63 AAACACCCTCGATTTGTA
* * *
17013803 AAATTACCGAAGTACCCCCGATTTGTAAAATTACCAAAATACCCTCGA-TTGTGAAATTACTGAA
1 AAATTACCGAAATACCCTCGA-TTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAA
* *
17013867 ATACCCTCAATTTGTA
65 ACACCCTCGATTTGTA
** * * * * * *
17013883 AAATTACTAAAATACCCCCGATTTGTGAAATTACTAAAACACCTTCGATTTGTAAAATTACCGAA
1 AAATTACCGAAATACCCTCGA-TTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAA
17013948 ACACCCTCGATTTGTA
65 ACACCCTCGATTTGTA
* * * * *
17013964 AAATTACTGAAACACCCTCAAATTGTAAAATTACCTAAATACCCTCGATTTGTGAAATTA-TCGA
1 AAATTACCGAAATACCCTC-GATTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACT-GA
* * *
17014028 AGCACCCTTGATTTCTA
64 AACACCCTCGATTTGTA
* * * * * * * *
17014045 AAATTGCCAAAATA-ACTCGATTTTTAAAATTACCGACACACCCTCAATTTGTAAAATTACTGAA
1 AAATTACCGAAATACCCTCGA-TTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAA
* *
17014109 ATACCCTCAATTTGTA
65 ACACCCTCGATTTGTA
* * * **
17014125 AAATTACCGAAATACCATC-ATTTGTAAAATTATCGAAATACCCTTAATTTGTAAAATTA-TCGA
1 AAATTACCGAAATACCCTCGA-TTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACT-GA
*
17014188 AACACCCCCGATTTGTA
64 AACACCCTCGATTTGTA
* * * * *
17014205 AAATTATCGAAATACCCTTGTAGTGTAAAATTACCAAAAAACCCCCGATTTGTAAAATTACTGAA
1 AAATTACCGAAATACCCTCG-ATTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAA
*
17014270 ACACCCCCGATTTGTA
65 ACACCCTCGATTTGTA
* * * * *
17014286 AAATTATCGAAATACCCTTGTAGTGTAAAATTACCAAAAAACCCCCGATTTGTAAAATTACTGAA
1 AAATTACCGAAATACCCTCG-ATTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAA
*
17014351 ACACCCCCGATTTGTA
65 ACACCCTCGATTTGTA
* * * *
17014367 AAATTATCGAAATACCCTTGTACTGTAAAATTACTAAAATACC
1 AAATTACCGAAATACCCTCG-ATTGTAAAATTACCAAAATACC
17014410 ATTGTAGTGT
Statistics
Matches: 521, Mismatches: 74, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.00
80 197 0.38
81 317 0.61
82 5 0.01
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (80 bp):
AAATTACCGAAATACCCTCGATTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAA
CACCCTCGATTTGTA
Found at i:17014394 original size:54 final size:54
Alignment explanation
Indices: 17013722--17014401 Score: 635
Period size: 54 Copynumber: 12.6 Consensus size: 54
17013712 TAATAAAGAG
* * * * *
17013722 AAATTACCGAAATACCC-CTGATTTGTGAAATTACCGAAATACCC-CTGATTTCTG
1 AAATTACCGAAATACCCTC-GATTTGTAAAATTACTGAAACACCCTC-GATTTGTA
* * ** *
17013776 AAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAGTACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* * * *
17013830 AAATTACCAAAATACCCTCGA-TTGTGAAATTACTGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
** * * * *
17013883 AAATTACTAAAATACCCCCGATTTGTGAAATTACTAAAACACCTTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* * *
17013937 AAATTACCGAAACACCCTCGATTTGTAAAATTACTGAAACACCCTCAAATTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* * * * *
17013991 AAATTACCTAAATACCCTCGATTTGTGAAATTA-TCGAAGCACCCTTGATTTCTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAACACCCTCGATTTGTA
* * * * * * *
17014045 AAATTGCCAAAATA-ACTCGATTTTTAAAATTACCGACACACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* * * * *
17014098 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCATC-ATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* ** *
17014151 AAATTATCGAAATACCCTTAATTTGTAAAATTA-TCGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAACACCCTCGATTTGTA
* * * ** * *
17014205 AAATTATCGAAATACCCTTG-TAGTGTAAAATTACCAAAAAACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACTGAAACACCCTCGATTTGTA
* * * * * *
17014259 AAATTACTGAAACACCCCCGATTTGTAAAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAACACCCTCGAT-TTGTA
* * * *
17014313 AAATTACCAAAAAACCCCCGATTTGTAAAATTACTGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* * *
17014367 AAATTATCGAAATACCCTTG-TACTGTAAAATTACT
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACT
17014402 AAAATACCAT
Statistics
Matches: 518, Mismatches: 92, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
53 135 0.26
54 378 0.73
55 5 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
Found at i:17014435 original size:27 final size:27
Alignment explanation
Indices: 17014363--17014436 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
17014353 ACCCCCGATT
*
17014363 TGTAAAATTATCGAAATACCCTTGTAC
1 TGTAAAATTATCGAAATACCATTGTAC
* *
17014390 TGTAAAATTA-CTAAAATACCATTGTAG
1 TGTAAAATTATC-GAAATACCATTGTAC
* *
17014417 TGTAAAATGATCGACATACC
1 TGTAAAATTATCGAAATACC
17014437 CCTATAGGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 37 0.95
28 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCATTGTAC
Found at i:17016321 original size:13 final size:13
Alignment explanation
Indices: 17016303--17016336 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
17016293 GGTCACATGC
17016303 CCGTGTGGACAGG
1 CCGTGTGGACAGG
17016316 CCGTGTGGACAGG
1 CCGTGTGGACAGG
*
17016329 CTGTGTGG
1 CCGTGTGG
17016337 TGACACGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (13 bp):
CCGTGTGGACAGG
Found at i:17017829 original size:43 final size:42
Alignment explanation
Indices: 17017760--17017876 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
17017750 CACACAGTAC
* *
17017760 CGTACCAATGCCATATCCCAGATATGGTCTTACATGTAA-TCT
1 CGTATCAATGCCATATCCCAGATATGGTCTTACACG-AAGTCT
* * *
17017802 CGTATCAATGCCAATAGCCCAGCTATGGTTTTACACGAAGTCT
1 CGTATCAATGCC-ATATCCCAGATATGGTCTTACACGAAGTCT
* * *
17017845 CATATCGATGCCATATCCCAAATATGGTCTTA
1 CGTATCAATGCCATATCCCAGATATGGTCTTA
17017877 AACATAATCT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
CGTATCAATGCCATATCCCAGATATGGTCTTACACGAAGTCT
Found at i:17023522 original size:12 final size:13
Alignment explanation
Indices: 17023494--17023526 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17023484 TTATTTCTTT
17023494 TTCTCCATCTACC
1 TTCTCCATCTACC
*
17023507 TTCTCC-TCTTCC
1 TTCTCCATCTACC
17023519 TTCTCCAT
1 TTCTCCAT
17023527 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:17024625 original size:28 final size:28
Alignment explanation
Indices: 17024593--17024657 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
17024583 ATTTACTAGA
*
17024593 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
17024621 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
17024649 ATACCCCTA
1 ATACCCCTA
17024658 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:17024821 original size:27 final size:27
Alignment explanation
Indices: 17024763--17024852 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
17024753 AGGAAGCGTC
17024763 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
17024791 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
17024818 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
17024847 CTGGTG
1 CTGGTG
17024853 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:17024871 original size:55 final size:56
Alignment explanation
Indices: 17024763--17024877 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
17024753 AGGAAGCGTC
* *
17024763 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
17024818 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
17024874 CTGG
1 CTGG
17024878 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:17027366 original size:19 final size:19
Alignment explanation
Indices: 17027342--17027380 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17027332 NNNNNNNTTT
* *
17027342 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
17027361 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
17027380 T
1 T
17027381 ATGATGAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:17029556 original size:27 final size:25
Alignment explanation
Indices: 17029526--17029587 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
17029516 GAATGGATTT
*
17029526 TATATATATATAATTCATCTTAAGG
1 TATATATATATAACTCATCTTAAGG
17029551 TATATATATATAACTCATCTTAAGG
1 TATATATATATAACTCATCTTAAGG
*
17029576 TATATATTTATA
1 TATATATATATA
17029588 TAGGTAAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (25 bp):
TATATATATATAACTCATCTTAAGG
Found at i:17035789 original size:17 final size:18
Alignment explanation
Indices: 17035762--17035797 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17035752 AATCAAATTT
17035762 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
17035780 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
17035797 A
1 A
17035798 AATAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:17044225 original size:25 final size:25
Alignment explanation
Indices: 17044192--17044261 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
17044182 CTCTCTAAAT
* *
17044192 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
17044217 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
17044242 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
17044262 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:17050109 original size:30 final size:30
Alignment explanation
Indices: 17050075--17050171 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
17050065 AGCTCACTCC
17050075 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
17050105 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
17050135 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
17050165 TAGCTCA
1 TAGCTCA
17050172 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:17051915 original size:12 final size:12
Alignment explanation
Indices: 17051898--17051941 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
17051888 ATACAAGTCA
17051898 AAAAAAAATTCG
1 AAAAAAAATTCG
17051910 AAAAAAAATTC-
1 AAAAAAAATTCG
*
17051921 AAAAAAATTTCG
1 AAAAAAAATTCG
17051933 AAAAGAAAA
1 AAAA-AAAA
17051942 AAAATCTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.36
12 15 0.54
13 3 0.11
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:17052336 original size:154 final size:153
Alignment explanation
Indices: 17052047--17052353 Score: 605
Period size: 154 Copynumber: 2.0 Consensus size: 153
17052037 AATCTCATCC
17052047 ACGCCACACTTTTTTTTACCCAATTTCCTTTTTCTTTTAGCCAACCCGTAACCCCTCATATGTTA
1 ACGCCACACTTTTTTTTACCCAATTTCCTTTTTCTTTTAGCCAACCCGTAACCCCTCATATGTTA
17052112 TCCTTTGTAAAACCATTTGAAACTGACCCACAATACTAGAGATCAAGTCATACTAAGTTTGTTAC
66 TCCTTTGTAAAACCATTTGAAACTGACCCACAATACTAGAGATCAAGTCATACTAAGTTTGTTAC
17052177 AAGGTTATAAGAGGAGAAAGGAG
131 AAGGTTATAAGAGGAGAAAGGAG
17052200 ACGCCACACTTTTTTTTTACCCAATTTCCTTTTTCTTTTAGCCAACCCGTAACCCCTCATATGTT
1 ACGCCACAC-TTTTTTTTACCCAATTTCCTTTTTCTTTTAGCCAACCCGTAACCCCTCATATGTT
17052265 ATCCTTTGTAAAACCATTTGAAACTGACCCACAATACTAGAGATCAAGTCATACTAAGTTTGTTA
65 ATCCTTTGTAAAACCATTTGAAACTGACCCACAATACTAGAGATCAAGTCATACTAAGTTTGTTA
17052330 CAAGGTTATAAGAGGAGAAAGGAG
130 CAAGGTTATAAGAGGAGAAAGGAG
17052354 CGGAAAAAGG
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
153 9 0.06
154 144 0.94
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (153 bp):
ACGCCACACTTTTTTTTACCCAATTTCCTTTTTCTTTTAGCCAACCCGTAACCCCTCATATGTTA
TCCTTTGTAAAACCATTTGAAACTGACCCACAATACTAGAGATCAAGTCATACTAAGTTTGTTAC
AAGGTTATAAGAGGAGAAAGGAG
Found at i:17054660 original size:30 final size:30
Alignment explanation
Indices: 17054626--17054722 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
17054616 AGCTCACTCC
17054626 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
17054656 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
17054686 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
17054716 TAGCTCA
1 TAGCTCA
17054723 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:17060802 original size:25 final size:25
Alignment explanation
Indices: 17060774--17060843 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
17060764 CTCTTTTAAT
* * *
17060774 AACTGGAGCAAAGTCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
17060799 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
17060824 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
17060844 GAACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:17060902 original size:10 final size:10
Alignment explanation
Indices: 17060889--17060927 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
17060879 ATATATGAAT
17060889 ATATCATGGC
1 ATATCATGGC
*
17060899 ATATCATGTGT
1 ATATCATG-GC
17060910 ATATCATGGC
1 ATATCATGGC
17060920 ATATCATG
1 ATATCATG
17060928 TATAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:17060914 original size:21 final size:21
Alignment explanation
Indices: 17060888--17060928 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
17060878 CATATATGAA
17060888 TATATCATGGCATATCATGTG
1 TATATCATGGCATATCATGTG
17060909 TATATCATGGCATATCATGT
1 TATATCATGGCATATCATGT
17060929 ATAAAACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (21 bp):
TATATCATGGCATATCATGTG
Found at i:17066066 original size:32 final size:32
Alignment explanation
Indices: 17066024--17066249 Score: 194
Period size: 32 Copynumber: 7.0 Consensus size: 32
17066014 AAATGGTACA
* *
17066024 ACTTGAAAAGGTTATGTAAACTTTGTGTGTAT
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAT
*
17066056 ACTTGGAAAGGTTAGGTATAC-TT-TGTGTAT
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAT
** * *
17066086 ACCATATGAAAAGGAAAGGTACACTTTGTGTGTAC
1 A-C-T-TGAAAAGGTTAGGTATACTTTGTGTGTAT
*
17066121 ACTTGGAAAGGTTAGGTATAC-TT-TGTGTAT
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAT
** *
17066151 ACCATATGAAAAGGAAAGGTATACTTTGTGTGTAC
1 A-C-T-TGAAAAGGTTAGGTATACTTTGTGTGTAT
*
17066186 ACTTGGAAAGGTTAGGTATAC-TT-TGTGTAT
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAT
* **
17066216 ACCATATGAAAAAGAAAGGTATACTTTGTGTGTA
1 A-C-T-TGAAAAGGTTAGGTATACTTTGTGTGTA
17066250 CCACTTGGAA
Statistics
Matches: 154, Mismatches: 25, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
30 22 0.14
31 9 0.06
32 50 0.32
33 45 0.29
34 8 0.05
35 20 0.13
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.35
Consensus pattern (32 bp):
ACTTGAAAAGGTTAGGTATACTTTGTGTGTAT
Found at i:17066076 original size:65 final size:65
Alignment explanation
Indices: 17066039--17066262 Score: 394
Period size: 65 Copynumber: 3.4 Consensus size: 65
17066029 AAAAGGTTAT
*
17066039 GTAAACTTTGTGTGTATACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAG
1 GTAAACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAG
*
17066104 GTACACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAG
1 GTAAACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAG
* *
17066169 GTATACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAG
1 GTAAACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAG
*
17066234 GTATACTTTGTGTGTACCACTTGGAAAGG
1 GTAAACTTTGTGTGTA-CACTTGGAAAGG
17066263 AATGTACACC
Statistics
Matches: 154, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
65 142 0.92
66 12 0.08
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (65 bp):
GTAAACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAG
Found at i:17066106 original size:33 final size:33
Alignment explanation
Indices: 17066069--17066252 Score: 223
Period size: 33 Copynumber: 5.6 Consensus size: 33
17066059 TGGAAAGGTT
17066069 AGGTATACTTTGTGTATACCATATGAAAAGGAA
1 AGGTATACTTTGTGTATACCATATGAAAAGGAA
* * * **
17066102 AGGTACACTTTGTGTGTA-CACT-TGGAAAGGTT
1 AGGTATACTTTGTGTATACCA-TATGAAAAGGAA
17066134 AGGTATACTTTGTGTATACCATATGAAAAGGAA
1 AGGTATACTTTGTGTATACCATATGAAAAGGAA
* * **
17066167 AGGTATACTTTGTGTGTA-CACT-TGGAAAGGTT
1 AGGTATACTTTGTGTATACCA-TATGAAAAGGAA
*
17066199 AGGTATACTTTGTGTATACCATATGAAAAAGAA
1 AGGTATACTTTGTGTATACCATATGAAAAGGAA
*
17066232 AGGTATACTTTGTGTGTACCA
1 AGGTATACTTTGTGTATACCA
17066253 CTTGGAAAGG
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
32 53 0.42
33 72 0.58
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (33 bp):
AGGTATACTTTGTGTATACCATATGAAAAGGAA
Found at i:17066292 original size:130 final size:130
Alignment explanation
Indices: 17066043--17066300 Score: 367
Period size: 130 Copynumber: 2.0 Consensus size: 130
17066033 GGTTATGTAA
* *
17066043 ACTTTGTGTGTATACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAC
1 ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGGTAC
* * * *** * *
17066108 ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAT
66 ACTTTGTGTGTACACTTGGAAAGGTAAGGTACACCTCAAGTAGACAATATGAAAAGGAAAGGTAT
*
17066173 ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGGTAT
1 ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGGTAC
* *
17066238 ACTTTGTGTGTACCACTTGGAAAGG-AATGTACACCTCAAGTGGACAAT-TGGAAAAGGAAAGGT
66 ACTTTGTGTGTA-CACTTGGAAAGGTAAGGTACACCTCAAGTAGACAATAT-GAAAAGGAAAGGT
17066301 CCATCAGAAA
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
129 1 0.01
130 100 0.88
131 12 0.11
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (130 bp):
ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAAGGTAC
ACTTTGTGTGTACACTTGGAAAGGTAAGGTACACCTCAAGTAGACAATATGAAAAGGAAAGGTAT
Found at i:17071158 original size:42 final size:42
Alignment explanation
Indices: 17071037--17071158 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
17071027 TACCGTACCA
* *
17071037 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCTCATATCG
* * *
17071079 ATGCCAATAGCCCAGTTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGTAA-TCTCATATCG
**
17071122 ATGCCATATCCTAGATATAATCTTACACGTAATCTCA
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCTCA
17071159 ATAACCCTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGTAATCTCATATCG
Found at i:17072758 original size:38 final size:38
Alignment explanation
Indices: 17072697--17072769 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
17072687 AAACTTGTTC
** * * *
17072697 TTACATGATGTGGAAATTTTGAAAATTAAAATATAAAA
1 TTACATGATGCAGAAAATATGAAAATGAAAATATAAAA
17072735 TTACATGATGCAGAAAATATGAAAATGAAAATATA
1 TTACATGATGCAGAAAATATGAAAATGAAAATATA
17072770 TCAAATTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.52, C:0.04, G:0.14, T:0.30
Consensus pattern (38 bp):
TTACATGATGCAGAAAATATGAAAATGAAAATATAAAA
Found at i:17078319 original size:24 final size:23
Alignment explanation
Indices: 17078286--17078343 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
17078276 AGTTGAAAAG
17078286 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
17078310 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
17078332 TATATATAATAA
1 TATA-ATAATAA
17078344 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:17078847 original size:37 final size:37
Alignment explanation
Indices: 17078791--17078891 Score: 166
Period size: 37 Copynumber: 2.7 Consensus size: 37
17078781 CCGAGCTCTA
* *
17078791 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
17078828 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
17078865 AAGACCCGATGACTACGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
17078892 NNNNNNNNNN
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:17087556 original size:31 final size:31
Alignment explanation
Indices: 17087518--17087580 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
17087508 CTTTTCATAC
17087518 TTCATATTTCATAACACTAGGCCAAAGCCTT
1 TTCATATTTCATAACACTAGGCCAAAGCCTT
** * *
17087549 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTAGGCCAAAGCCTT
17087580 T
1 T
17087581 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTAGGCCAAAGCCTT
Found at i:17087849 original size:47 final size:47
Alignment explanation
Indices: 17087795--17087887 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
17087785 TAGCCTCTTT
17087795 TAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTA
1 TAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTA
* *
17087842 TAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCT
1 TAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCT
17087888 TTTGCACTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (47 bp):
TAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTA
Found at i:17087891 original size:24 final size:24
Alignment explanation
Indices: 17087786--17087890 Score: 167
Period size: 24 Copynumber: 4.4 Consensus size: 24
17087776 CTGGAGGCCT
*
17087786 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
17087811 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
17087835 AGCCC-TATAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
17087858 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
17087882 AGCCCTTTT
1 AGCCCTTTT
17087891 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 22 0.29
24 49 0.65
25 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:17087965 original size:20 final size:20
Alignment explanation
Indices: 17087940--17088006 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
17087930 TTATGAATAC
17087940 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
17087960 ATCATGTACATAGCATACAT
1 ATCATGTGCATATCATACAT
*
17087980 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17088000 ACCATGT
1 ATCATGT
17088007 TTACTAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17091743 original size:46 final size:46
Alignment explanation
Indices: 17091597--17091910 Score: 212
Period size: 46 Copynumber: 6.7 Consensus size: 46
17091587 ATTGTGTGCT
** **
17091597 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATGAGAGCC
* *
17091643 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTAAGATGAGAGCC
* *
17091691 AGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATG-AGAGCC
* * * * * *
17091737 AATGTAAGACATGTTTGGGACATGCATTGG-CTACAAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-TAAGATGAGAGCC
* * * * * **
17091781 AGTGTAAGGCCATGCCTGGGACATGGCTTCGGCATGGATATG-TGAGAGTT
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGGCCT---TAAGATGAGAGCC
* * *
17091831 AGTGTAAGACCATGTCTGGGACATGGCAT-TGACTT-A-ATGGATGAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTAAGAT-GA-GAGCC
*
17091878 AGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
17091911 ATTATACCCT
Statistics
Matches: 211, Mismatches: 40, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
44 8 0.04
45 16 0.08
46 65 0.31
47 61 0.29
48 28 0.13
49 6 0.03
50 27 0.13
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATGAGAGCC
Found at i:17091844 original size:50 final size:48
Alignment explanation
Indices: 17091597--17091912 Score: 177
Period size: 47 Copynumber: 6.7 Consensus size: 48
17091587 ATTGTGTGCT
* * *
17091597 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TAT-GA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCTTCGG---CATGAATGGATGAGTC
* * *
17091643 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAA--GATGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCTTCGGCATGAATGGATGAG-TC
* * * * *
17091690 TAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTTGAGAT-G-TAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCTTCGG-CATGA-ATGGATGAGTC
* * * *
17091737 AATGTAAGA-CATGTTTGGGACAT-GCATT-GGC-T-ACA-AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGC-TTCGGCATGA-ATGGATGAGTC
* * *
17091781 AGTGTAAGGCCATGCCTGGGACATGGCTTCGGCATGGATATGTGA-GAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCTTCGGCAT-GA-ATG-GATGAGTC
* *
17091831 AGTGTAAGACCATGTCTGGGACATGGCATT-GAC-TTAATGGATGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGC-TTCGGCATGAATGGATGAGTC
* *
17091878 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCTTCGGCAT
17091913 TATACCCTGT
Statistics
Matches: 215, Mismatches: 31, Indels: 46
0.74 0.11 0.16
Matches are distributed among these distances:
43 3 0.01
44 11 0.05
45 20 0.09
46 52 0.24
47 69 0.32
48 22 0.10
49 4 0.02
50 30 0.14
51 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCTTCGGCATGAATGGATGAGTC
Found at i:17103253 original size:12 final size:12
Alignment explanation
Indices: 17103246--17103277 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17103236 GTGGAGGATA
17103246 TCAAGGAGGGTT
1 TCAAGGAGGGTT
*
17103258 TTAAGGAGGGTT
1 TCAAGGAGGGTT
17103270 TCAAGGAG
1 TCAAGGAG
17103278 TTGGAGAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.41, T:0.25
Consensus pattern (12 bp):
TCAAGGAGGGTT
Found at i:17104948 original size:27 final size:26
Alignment explanation
Indices: 17104870--17104953 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
17104860 TTGGAGGAAG
* * * *
17104870 TACTGTACAGGTGGCTCTGCCATAAT
1 TACTGTACTGGTGGCTTTGCCACATT
*
17104896 TACTGTTACTGGTGGGTTTGCCACATT
1 TACTG-TACTGGTGGCTTTGCCACATT
*
17104923 TACTGATACTGGTGGCTTTGCCACATA
1 TACTG-TACTGGTGGCTTTGCCACATT
17104950 TACT
1 TACT
17104954 ATTACTGACA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 5 0.10
27 44 0.90
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (26 bp):
TACTGTACTGGTGGCTTTGCCACATT
Found at i:17107299 original size:27 final size:29
Alignment explanation
Indices: 17107242--17107299 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
17107232 CAATAAACGT
*
17107242 TGTTGAATTTGAATGTGTATGATTTTATA
1 TGTTGAATTTGAATGTGTATGAATTTATA
*
17107271 TGTTGAATTT-AAT-TGTATGAATTTCTA
1 TGTTGAATTTGAATGTGTATGAATTTATA
17107298 TG
1 TG
17107300 GTTATAGCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 14 0.52
28 3 0.11
29 10 0.37
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.52
Consensus pattern (29 bp):
TGTTGAATTTGAATGTGTATGAATTTATA
Found at i:17107424 original size:39 final size:42
Alignment explanation
Indices: 17107381--17107504 Score: 116
Period size: 41 Copynumber: 3.0 Consensus size: 42
17107371 ATAAGATCAA
*
17107381 CTTTG-TAACAGTG-AT-ATATCAGGCTTATTGCCTAGTAGG
1 CTTTGATAACAGTGTATGATATCAGGCTTATTGCCTAGCAGG
** *
17107420 CTTTGATGCCGGTGTATGATATCAGGCTTATTGCCTAGCAGG
1 CTTTGATAACAGTGTATGATATCAGGCTTATTGCCTAGCAGG
* * * *
17107462 CTTT-AT-GCTGGTGTATTGA-ATCAGGTTTATTACCTAGCAGG
1 CTTTGATAAC-AGTGTA-TGATATCAGGCTTATTGCCTAGCAGG
17107503 CT
1 CT
17107505 CTATGCCAGT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
39 5 0.07
40 6 0.08
41 32 0.44
42 30 0.41
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (42 bp):
CTTTGATAACAGTGTATGATATCAGGCTTATTGCCTAGCAGG
Found at i:17107443 original size:42 final size:42
Alignment explanation
Indices: 17107396--17107516 Score: 165
Period size: 41 Copynumber: 2.9 Consensus size: 42
17107386 TAACAGTGAT
*
17107396 ATATCAGGCTTATTGCCTAGTAGGCTTTGATGCCGGTGTA-TG
1 ATATCAGGCTTATTGCCTAGCAGGCTTT-ATGCCGGTGTATTG
*
17107438 ATATCAGGCTTATTGCCTAGCAGGCTTTATGCTGGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTG
* * * *
17107480 A-ATCAGGTTTATTACCTAGCAGGCTCTATGCCAGTGT
1 ATATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGT
17107517 TTTATACAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
41 41 0.58
42 30 0.42
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTG
Found at i:17110724 original size:30 final size:30
Alignment explanation
Indices: 17110690--17110790 Score: 80
Period size: 30 Copynumber: 3.2 Consensus size: 30
17110680 GACCTGAATG
17110690 CATGTTTTACTGTTACTATTTACTGCATGC
1 CATGTTTTACTGTTACTATTTACTGCATGC
* * * *
17110720 CATGTTATTATTATCTGA-TAAGGTTGACCTGAATG-
1 CATGTT-TTACTGT-T-ACT-A--TTTA-CTGCATGC
*
17110755 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTTACTGTTACTATTTACTGCATGC
17110785 CATGTT
1 CATGTT
17110791 ATTATTATCT
Statistics
Matches: 53, Mismatches: 9, Indels: 18
0.66 0.11 0.22
Matches are distributed among these distances:
29 6 0.11
30 15 0.28
31 5 0.09
32 4 0.08
33 4 0.08
34 4 0.08
35 9 0.17
36 6 0.11
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (30 bp):
CATGTTTTACTGTTACTATTTACTGCATGC
Found at i:17110754 original size:65 final size:65
Alignment explanation
Indices: 17110673--17110800 Score: 247
Period size: 65 Copynumber: 2.0 Consensus size: 65
17110663 CCCCTAAGGT
*
17110673 TAAGGTTGACCTGAATGCATGTTTTACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
17110738 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCT
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCT
17110801 AATGCATGGG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:17123717 original size:329 final size:329
Alignment explanation
Indices: 17123119--17123776 Score: 1316
Period size: 329 Copynumber: 2.0 Consensus size: 329
17123109 CCATGTGTCA
17123119 CACACGGGCACTAGACACGCCCATGTGAACCAGCTTTGCCAAAAATAGGTCCTATACTGACTTTT
1 CACACGGGCACTAGACACGCCCATGTGAACCAGCTTTGCCAAAAATAGGTCCTATACTGACTTTT
17123184 TCACACGGCCAATAGGCGCGCCTTTGTACTATGGCCGTGTGATACTTAGCTAGCTACTGACTTTA
66 TCACACGGCCAATAGGCGCGCCTTTGTACTATGGCCGTGTGATACTTAGCTAGCTACTGACTTTA
17123249 GCCCACGGCCATATGACACGCCCATGTGTCAATACCGTGTGGTTCTTAGGAGAATACTACTTTTC
131 GCCCACGGCCATATGACACGCCCATGTGTCAATACCGTGTGGTTCTTAGGAGAATACTACTTTTC
17123314 TTACACGGCCACAAGGCACGCTCGTGTCCCCTGACCGTGTGGCACCAAGAAGGCTTGGTTTAAGC
196 TTACACGGCCACAAGGCACGCTCGTGTCCCCTGACCGTGTGGCACCAAGAAGGCTTGGTTTAAGC
17123379 CAAATTTGCCACCACTTTTTGGGTCCAATCCTACAAGCAATAATATACAACATTCATACCAAAAT
261 CAAATTTGCCACCACTTTTTGGGTCCAATCCTACAAGCAATAATATACAACATTCATACCAAAAT
17123444 TTCC
326 TTCC
17123448 CACACGGGCACTAGACACGCCCATGTGAACCAGCTTTGCCAAAAATAGGTCCTATACTGACTTTT
1 CACACGGGCACTAGACACGCCCATGTGAACCAGCTTTGCCAAAAATAGGTCCTATACTGACTTTT
17123513 TCACACGGCCAATAGGCGCGCCTTTGTACTATGGCCGTGTGATACTTAGCTAGCTACTGACTTTA
66 TCACACGGCCAATAGGCGCGCCTTTGTACTATGGCCGTGTGATACTTAGCTAGCTACTGACTTTA
17123578 GCCCACGGCCATATGACACGCCCATGTGTCAATACCGTGTGGTTCTTAGGAGAATACTACTTTTC
131 GCCCACGGCCATATGACACGCCCATGTGTCAATACCGTGTGGTTCTTAGGAGAATACTACTTTTC
17123643 TTACACGGCCACAAGGCACGCTCGTGTCCCCTGACCGTGTGGCACCAAGAAGGCTTGGTTTAAGC
196 TTACACGGCCACAAGGCACGCTCGTGTCCCCTGACCGTGTGGCACCAAGAAGGCTTGGTTTAAGC
17123708 CAAATTTGCCACCACTTTTTGGGTCCAATCCTACAAGCAATAATATACAACATTCATACCAAAAT
261 CAAATTTGCCACCACTTTTTGGGTCCAATCCTACAAGCAATAATATACAACATTCATACCAAAAT
17123773 TTCC
326 TTCC
17123777 AACCAATTCC
Statistics
Matches: 329, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
329 329 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (329 bp):
CACACGGGCACTAGACACGCCCATGTGAACCAGCTTTGCCAAAAATAGGTCCTATACTGACTTTT
TCACACGGCCAATAGGCGCGCCTTTGTACTATGGCCGTGTGATACTTAGCTAGCTACTGACTTTA
GCCCACGGCCATATGACACGCCCATGTGTCAATACCGTGTGGTTCTTAGGAGAATACTACTTTTC
TTACACGGCCACAAGGCACGCTCGTGTCCCCTGACCGTGTGGCACCAAGAAGGCTTGGTTTAAGC
CAAATTTGCCACCACTTTTTGGGTCCAATCCTACAAGCAATAATATACAACATTCATACCAAAAT
TTCC
Found at i:17129338 original size:38 final size:38
Alignment explanation
Indices: 17129264--17129503 Score: 186
Period size: 38 Copynumber: 6.2 Consensus size: 38
17129254 TAAAATAAAT
* *
17129264 TGTGCT-GAGATTGTATCCGGGCTTAAAGACCCGCAGGCTA
1 TGTGCTGGA-ATTATATCCGGG-TTAAA-TCCCGCAGGCTA
* * * *
17129304 TATGCTAGAATTATATACGGGTTAAATCCCGCAGGCTT
1 TGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTA
* * *
17129342 TGTGCTGGTAA-TATATCCGGGTTAAATCCTGCAAGCTT
1 TGTGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTA
* *
17129380 TGTGCTGGTAA-TATATCCGGGTTAAATCTCGCAAGCT-
1 TGTGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTA
* *
17129417 TCGTGCTGGTATTATATCCGGGTTAAATCCCACAGGCCTA
1 T-GTGCTGGAATTATATCCGGGTTAAATCCCGCAGG-CTA
* * * * *
17129457 -GTGCTAGTATTATATCTGAGTTTAAAGTCCCGTAGGCT-
1 TGTGCTGGAATTATATCCG-GGTTAAA-TCCCGCAGGCTA
17129495 TCGTGCTGG
1 T-GTGCTGG
17129504 TGTTATGTTT
Statistics
Matches: 168, Mismatches: 22, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
37 2 0.01
38 119 0.71
39 17 0.10
40 28 0.17
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (38 bp):
TGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTA
Found at i:17129461 original size:76 final size:76
Alignment explanation
Indices: 17129306--17129509 Score: 230
Period size: 76 Copynumber: 2.7 Consensus size: 76
17129296 GCAGGCTATA
* * *
17129306 TGCTAG-AATTATATACGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATATATCCGGGTTAAATC
1 TGCTAGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
** * *
17129370 CTGCAAGCTTTG
65 CCACAAGCCTAG
* * *
17129382 TGCTGGTAATATATCCGGGTTAAATCTCGCAAGCTTCGTGCTGGTATTATATCCGGGTTAAATCC
1 TGCTAGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCC
*
17129447 CACAGGCCTAG
66 CACAAGCCTAG
* * * * *
17129458 TGCTAGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTAT
1 TGCTAGTAATATATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTAT
17129510 GTTTGGGTTT
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
76 76 0.72
77 8 0.08
78 22 0.21
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (76 bp):
TGCTAGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCC
CACAAGCCTAG
Found at i:17131564 original size:28 final size:28
Alignment explanation
Indices: 17131503--17131567 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
17131493 ATTTACTAGA
* *
17131503 ATACCACTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
17131531 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
17131559 ATACCCCTA
1 ATACCCCTA
17131568 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:17131731 original size:27 final size:28
Alignment explanation
Indices: 17131673--17131762 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
17131663 AGGAAGCGTC
*
17131673 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
17131701 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
17131728 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
17131757 CTGGTG
1 CTGGTG
17131763 ACTATGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:17131781 original size:55 final size:56
Alignment explanation
Indices: 17131673--17131788 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
17131663 AGGAAGCGTC
* * * *
17131673 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCATGCCACATATATCTGTAT
* * *
17131728 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTATGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCATGCCACATATATCTGTAT
17131784 CTGGT
1 CTGGT
17131789 AGCCATGCTA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCATGCCACATATATCTGTAT
Found at i:17131801 original size:27 final size:28
Alignment explanation
Indices: 17131750--17131809 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
17131740 CCACAAAATA
*
17131750 TCTGTATCTGGTGACTATGTCACAT-TT
1 TCTGTATCTGGTGACCATGTCACATATT
17131777 TCTGTATCTGGT-AGCCATG-CTACATATT
1 TCTGTATCTGGTGA-CCATGTC-ACATATT
17131805 TCTGT
1 TCTGT
17131810 GGCGTGTAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.07
27 20 0.69
28 7 0.24
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.43
Consensus pattern (28 bp):
TCTGTATCTGGTGACCATGTCACATATT
Found at i:17132250 original size:19 final size:19
Alignment explanation
Indices: 17132226--17132264 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17132216 TTTTAATTAT
* *
17132226 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
17132245 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
17132264 T
1 T
17132265 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:17136894 original size:79 final size:81
Alignment explanation
Indices: 17136731--17136914 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
17136721 TGAATGATGT
*
17136731 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
17136795 GTGCGAGATACTAATT
66 GTGCGAGATACTAATA
* * * * **
17136811 CCGGGCTAAG-CCCCAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
17136873 TGTGCGAGTTACT-ATAA
65 TGTGCGAGATACTAAT-A
**
17136890 CCGGGCTGTGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17136915 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 30 0.34
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATA
Found at i:17136921 original size:40 final size:40
Alignment explanation
Indices: 17136730--17136914 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
17136720 TTGAATGATG
* * * *
17136730 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
17136770 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17136810 TCCGGGCTAAG-CCCCAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17136849 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
**
17136890 -CCGGGCTGTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17136915 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17136936 original size:79 final size:79
Alignment explanation
Indices: 17136783--17136937 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
17136773 GGACTAAGAT
* **
17136783 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCCAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCCAAGGCATTTGAACGAGTTACTAA
17136848 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* ** *
17136862 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTGTGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCCAAGGCATTTGAACGAGTTA-C
*
17136925 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
17136938 ATTCCGAGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCCAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:17139241 original size:64 final size:66
Alignment explanation
Indices: 17139081--17139244 Score: 183
Period size: 68 Copynumber: 2.5 Consensus size: 66
17139071 ATACATATAG
* * *
17139081 TATGTAGCTAGGTCACATGTATAGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCACATGTGTAGTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-AGACAT
17139146 TA
65 TA
* * * * **
17139148 TGATGTAGCTAGGTCGCATGGGT-GATACTATGTGTACACCATGTAG-ACAAGAGAGCTAC-GGG
1 T-ATGTAGCTAGGTCACATGTGTAG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTACAGAC
17139210 A-TA
63 ATTA
17139213 TATGTAGCTAGGTCACATGTGTAGTACTAAGT
1 TATGTAGCTAGGTCACATGTGTAGTACTAAGT
17139245 TCAGGCTACT
Statistics
Matches: 81, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
64 26 0.32
65 4 0.05
66 2 0.02
67 2 0.02
68 46 0.57
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (66 bp):
TATGTAGCTAGGTCACATGTGTAGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAGACATT
A
Found at i:17139346 original size:50 final size:49
Alignment explanation
Indices: 17139223--17139418 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 49
17139213 TATGTAGCTA
* * * ** *
17139223 GGTCACATGTGTAGTACTAAGTTCAGGCTACTATGCATACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* ** *
17139273 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATAGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
17139323 AGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
17139373 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
17139419 GTTTGGCTAC
Statistics
Matches: 122, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 40 0.33
50 45 0.37
51 37 0.30
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:17143491 original size:28 final size:28
Alignment explanation
Indices: 17143459--17143539 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
17143449 TGGGAAGTAG
17143459 TTGGGCCTAATGGGCCATATGAATG-TGA
1 TTGGGCCTAATGGGCCATATGAATGAT-A
* * * *
17143487 TTGGGCCTGATAGGCCATGTGAACGATA
1 TTGGGCCTAATGGGCCATATGAATGATA
* *
17143515 TTGGGCCTAAAGGGGCCAAATGAAT
1 TTGGGCCT-AATGGGCCATATGAAT
17143540 AAGTGTGGAT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
28 30 0.73
29 11 0.27
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGATA
Found at i:17143868 original size:27 final size:27
Alignment explanation
Indices: 17143839--17144526 Score: 526
Period size: 27 Copynumber: 25.6 Consensus size: 27
17143829 TAATAAAGAG
*
17143839 AAATTACCGAAATACCCCTGATTTGTG
1 AAATTACCGAAATACCCCTGATTTGTA
* *
17143866 AAATTACCGAAATACCCCTGATTTCTG
1 AAATTACCGAAATACCCCTGATTTGTA
*
17143893 AAATTACCGAAACA-CCCTCGATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
17143920 AAATTACCGAAGTACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* *
17143947 AAATTACCAAAATA-CCCTCGA-TTGTG
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
17143973 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
** * *
17144000 AAATTACTAAAATACCCCCGATTTGTG
1 AAATTACCGAAATACCCCTGATTTGTA
* *
17144027 AAATTA-CTAAA-ACACCTTCGATTTGTA
1 AAATTACCGAAATAC-CCCT-GATTTGTA
*
17144054 AAATTACCGAAACA-CCCTCGATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* * * *
17144081 AAATTACTGAAACA-CCCTCAAATTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
17144108 AAATTACCTAAATA-CCCTCGATTTGTG
1 AAATTACCGAAATACCCCT-GATTTGTA
* ** * *
17144135 AAATTATCGAAGCACCCTTGATTTCTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * * * *
17144162 AAATTGCCAAAATAACTC-GATTTTTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17144188 AAATTACCGACACA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
17144215 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCT-GATTTGTA
* *
17144242 AAATTACCGAAATA-CCATCATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17144268 AAATTATCGAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17144295 AAATTATCGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17144322 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * *
17144349 AAATTACCAAAAAACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17144376 AAATTACTGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17144403 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
* * *
17144430 AAATTACCAAAAAACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17144457 AAATTACTGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
* * *
17144484 AAATTATCGAAATACCCTTG-TACTGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
**
17144511 AAATTACTAAAATACC
1 AAATTACCGAAATACC
17144527 ATTGTAGTGT
Statistics
Matches: 535, Mismatches: 108, Indels: 36
0.79 0.16 0.05
Matches are distributed among these distances:
25 4 0.01
26 74 0.14
27 441 0.82
28 15 0.03
29 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCCTGATTTGTA
Found at i:17144502 original size:81 final size:80
Alignment explanation
Indices: 17143839--17144526 Score: 688
Period size: 81 Copynumber: 8.5 Consensus size: 80
17143829 TAATAAAGAG
* * * * *
17143839 AAATTACCGAAATACCC-CTGATTTGTGAAATTACCGAAATACCC-CTGATTTCTGAAATTACCG
1 AAATTACCGAAATACCCTC-GA-TTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTACTG
17143902 AAACACCCTCGATTTGTA
63 AAACACCCTCGATTTGTA
* * *
17143920 AAATTACCGAAGTACCCCCGATTTGTAAAATTACCAAAATACCCTCGA-TTGTGAAATTACTGAA
1 AAATTACCGAAATACCCTCGA-TTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAA
* *
17143984 ATACCCTCAATTTGTA
65 ACACCCTCGATTTGTA
** * * * * * *
17144000 AAATTACTAAAATACCCCCGATTTGTGAAATTACTAAAACACCTTCGATTTGTAAAATTACCGAA
1 AAATTACCGAAATACCCTCGA-TTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAA
17144065 ACACCCTCGATTTGTA
65 ACACCCTCGATTTGTA
* * * * *
17144081 AAATTACTGAAACACCCTCAAATTGTAAAATTACCTAAATACCCTCGATTTGTGAAATTA-TCGA
1 AAATTACCGAAATACCCTC-GATTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACT-GA
* * *
17144145 AGCACCCTTGATTTCTA
64 AACACCCTCGATTTGTA
* * * * * * * *
17144162 AAATTGCCAAAATA-ACTCGATTTTTAAAATTACCGACACACCCTCAATTTGTAAAATTACTGAA
1 AAATTACCGAAATACCCTCGA-TTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAA
* *
17144226 ATACCCTCAATTTGTA
65 ACACCCTCGATTTGTA
* * * **
17144242 AAATTACCGAAATACCATC-ATTTGTAAAATTATCGAAATACCCTTAATTTGTAAAATTA-TCGA
1 AAATTACCGAAATACCCTCGA-TTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACT-GA
*
17144305 AACACCCCCGATTTGTA
64 AACACCCTCGATTTGTA
* * * * *
17144322 AAATTATCGAAATACCCTTGTAGTGTAAAATTACCAAAAAACCCCCGATTTGTAAAATTACTGAA
1 AAATTACCGAAATACCCTCG-ATTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAA
*
17144387 ACACCCCCGATTTGTA
65 ACACCCTCGATTTGTA
* * * * *
17144403 AAATTATCGAAATACCCTTGTAGTGTAAAATTACCAAAAAACCCCCGATTTGTAAAATTACTGAA
1 AAATTACCGAAATACCCTCG-ATTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAA
*
17144468 ACACCCCCGATTTGTA
65 ACACCCTCGATTTGTA
* * * *
17144484 AAATTATCGAAATACCCTTGTACTGTAAAATTACTAAAATACC
1 AAATTACCGAAATACCCTCG-ATTGTAAAATTACCAAAATACC
17144527 ATTGTAGTGT
Statistics
Matches: 521, Mismatches: 74, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.00
80 197 0.38
81 317 0.61
82 5 0.01
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (80 bp):
AAATTACCGAAATACCCTCGATTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAA
CACCCTCGATTTGTA
Found at i:17144511 original size:54 final size:54
Alignment explanation
Indices: 17143839--17144518 Score: 635
Period size: 54 Copynumber: 12.6 Consensus size: 54
17143829 TAATAAAGAG
* * * * *
17143839 AAATTACCGAAATACCC-CTGATTTGTGAAATTACCGAAATACCC-CTGATTTCTG
1 AAATTACCGAAATACCCTC-GATTTGTAAAATTACTGAAACACCCTC-GATTTGTA
* * ** *
17143893 AAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAGTACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* * * *
17143947 AAATTACCAAAATACCCTCGA-TTGTGAAATTACTGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
** * * * *
17144000 AAATTACTAAAATACCCCCGATTTGTGAAATTACTAAAACACCTTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* * *
17144054 AAATTACCGAAACACCCTCGATTTGTAAAATTACTGAAACACCCTCAAATTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* * * * *
17144108 AAATTACCTAAATACCCTCGATTTGTGAAATTA-TCGAAGCACCCTTGATTTCTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAACACCCTCGATTTGTA
* * * * * * *
17144162 AAATTGCCAAAATA-ACTCGATTTTTAAAATTACCGACACACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* * * * *
17144215 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCATC-ATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* ** *
17144268 AAATTATCGAAATACCCTTAATTTGTAAAATTA-TCGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAACACCCTCGATTTGTA
* * * ** * *
17144322 AAATTATCGAAATACCCTTG-TAGTGTAAAATTACCAAAAAACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACTGAAACACCCTCGATTTGTA
* * * * * *
17144376 AAATTACTGAAACACCCCCGATTTGTAAAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAACACCCTCGAT-TTGTA
* * * *
17144430 AAATTACCAAAAAACCCCCGATTTGTAAAATTACTGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
* * *
17144484 AAATTATCGAAATACCCTTG-TACTGTAAAATTACT
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACT
17144519 AAAATACCAT
Statistics
Matches: 518, Mismatches: 92, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
53 135 0.26
54 378 0.73
55 5 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
Found at i:17144552 original size:27 final size:27
Alignment explanation
Indices: 17144480--17144553 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
17144470 ACCCCCGATT
*
17144480 TGTAAAATTATCGAAATACCCTTGTAC
1 TGTAAAATTATCGAAATACCATTGTAC
* *
17144507 TGTAAAATTA-CTAAAATACCATTGTAG
1 TGTAAAATTATC-GAAATACCATTGTAC
* *
17144534 TGTAAAATGATCGACATACC
1 TGTAAAATTATCGAAATACC
17144554 CCTATAGGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 37 0.95
28 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCATTGTAC
Found at i:17146438 original size:13 final size:13
Alignment explanation
Indices: 17146420--17146453 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
17146410 GGTCACATGC
17146420 CCGTGTGGACAGG
1 CCGTGTGGACAGG
17146433 CCGTGTGGACAGG
1 CCGTGTGGACAGG
*
17146446 CTGTGTGG
1 CCGTGTGG
17146454 TGACACGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (13 bp):
CCGTGTGGACAGG
Found at i:17147946 original size:43 final size:42
Alignment explanation
Indices: 17147877--17147993 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
17147867 CACACAGTAC
* *
17147877 CGTACCAATGCCATATCCCAGATATGGTCTTACATGTAA-TCT
1 CGTATCAATGCCATATCCCAGATATGGTCTTACACG-AAGTCT
* * *
17147919 CGTATCAATGCCAATAGCCCAGCTATGGTTTTACACGAAGTCT
1 CGTATCAATGCC-ATATCCCAGATATGGTCTTACACGAAGTCT
* * *
17147962 CATATCGATGCCATATCCCAAATATGGTCTTA
1 CGTATCAATGCCATATCCCAGATATGGTCTTA
17147994 AACATAATCT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
CGTATCAATGCCATATCCCAGATATGGTCTTACACGAAGTCT
Found at i:17153640 original size:12 final size:13
Alignment explanation
Indices: 17153612--17153644 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17153602 TTATTTCTTT
17153612 TTCTCCATCTACC
1 TTCTCCATCTACC
*
17153625 TTCTCC-TCTTCC
1 TTCTCCATCTACC
17153637 TTCTCCAT
1 TTCTCCAT
17153645 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:17154744 original size:28 final size:28
Alignment explanation
Indices: 17154712--17154773 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
17154702 ATTTACTAGA
*
17154712 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
17154740 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
17154768 ATACCC
1 ATACCC
17154774 TCTAGGGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:17154940 original size:27 final size:28
Alignment explanation
Indices: 17154893--17154972 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 28
17154883 CTGGTGGTTA
* * *
17154893 TGCCGCAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
**
17154921 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
17154948 TGCCACAAAATATCTGTATCTGGTG
1 TGCCACAAAATATCTGT-TCTGGTG
17154973 ACTCTGTCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 23 0.53
28 13 0.30
29 7 0.16
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGGCAC
Found at i:17154983 original size:29 final size:28
Alignment explanation
Indices: 17154893--17154983 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
17154883 CTGGTGGTTA
* * * *
17154893 TGCCGCAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
17154921 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
17154948 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
17154977 TGTCACA
1 TGCCACA
17154984 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 23 0.45
28 13 0.25
29 15 0.29
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:17157652 original size:27 final size:25
Alignment explanation
Indices: 17157622--17157683 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
17157612 GAATGGATTT
*
17157622 TATATATATATAATTCATCTTAAGG
1 TATATATATATAACTCATCTTAAGG
17157647 TATATATATATAACTCATCTTAAGG
1 TATATATATATAACTCATCTTAAGG
*
17157672 TATATATTTATA
1 TATATATATATA
17157684 TAGGTAAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (25 bp):
TATATATATATAACTCATCTTAAGG
Found at i:17158365 original size:89 final size:89
Alignment explanation
Indices: 17158213--17158393 Score: 335
Period size: 89 Copynumber: 2.0 Consensus size: 89
17158203 CTGGCCTCCT
*
17158213 ATGTGGTAAAGTTGATGGCTTCAACTTTGCTAAATATGGCTTTGGGCAAATCTACAAACCCACCA
1 ATGTGGTAAAGTTGATGGCTTCAACTTTGCTAAATATGGCTTGGGGCAAATCTACAAACCCACCA
*
17158278 TTTATAGAGGGATTTAATTGCAAA
66 ATTATAGAGGGATTTAATTGCAAA
*
17158302 ATGTGGTAAAGTTGATGGCTTCAACTTTGCTAAATATGGCTTGGGGCAAATCTACAAAGCCACCA
1 ATGTGGTAAAGTTGATGGCTTCAACTTTGCTAAATATGGCTTGGGGCAAATCTACAAACCCACCA
17158367 ATTATAGAGGGATTTAATTGCAAA
66 ATTATAGAGGGATTTAATTGCAAA
17158391 ATG
1 ATG
17158394 AACAAGTCTT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (89 bp):
ATGTGGTAAAGTTGATGGCTTCAACTTTGCTAAATATGGCTTGGGGCAAATCTACAAACCCACCA
ATTATAGAGGGATTTAATTGCAAA
Found at i:17161286 original size:6 final size:6
Alignment explanation
Indices: 17161268--17161355 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
17161258 AAGAAACATT
* * *
17161268 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
17161317 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
17161356 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:17161318 original size:31 final size:31
Alignment explanation
Indices: 17161277--17161355 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
17161267 TATCAGAACT
* *
17161277 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
17161308 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
17161339 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
17161356 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:17161899 original size:27 final size:27
Alignment explanation
Indices: 17161869--17162039 Score: 177
Period size: 27 Copynumber: 6.3 Consensus size: 27
17161859 GGGGTAAAAT
* *
17161869 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
17161896 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
17161923 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
17161950 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
17161977 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
**
17162004 AAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
17162031 GGTAATTTT
1 GGTAATTTT
17162040 GTAAATCGAG
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
26 3 0.02
27 118 0.94
28 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:17161928 original size:54 final size:54
Alignment explanation
Indices: 17161870--17162039 Score: 216
Period size: 54 Copynumber: 3.1 Consensus size: 54
17161860 GGGTAAAATG
* * * * *
17161870 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCATACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * * *
17161924 GTAATTCTACCTTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
** *
17161978 GT-ATTTCTACCCTACAAGGGTATTTCAATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTT-TACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
17162032 GTAATTTT
1 GTAATTTT
17162040 GTAAATCGAG
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 3 0.03
54 91 0.93
55 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
Found at i:17161999 original size:81 final size:80
Alignment explanation
Indices: 17161873--17162039 Score: 217
Period size: 81 Copynumber: 2.1 Consensus size: 80
17161863 TAAAATGGTA
* * * *
17161873 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCATACAGGGGTATTTCAGTAATTCTACCTTA
1 ATTTTACCCCACAAGGGTATCTCAGTAATTCTACCATACAAGGGTATTTCAATAATTCTACCCTA
*
17161938 CAGGGGTATTTCGGT
66 CAAGGGTATTTCGGT
* * * * * *
17161953 ATTTCTACCCTACAAGGGTATTTTAGTATTTCTACCCTACAAGGGTATTTCAATATTTCTACCCT
1 ATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCATACAAGGGTATTTCAATAATTCTACCCT
17162018 ACAAGGGTATTTCGGT
65 ACAAGGGTATTTCGGT
17162034 AATTTT
1 -ATTTT
17162040 GTAAATCGAG
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
80 4 0.05
81 66 0.89
82 4 0.05
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATCTCAGTAATTCTACCATACAAGGGTATTTCAATAATTCTACCCTA
CAAGGGTATTTCGGT
Found at i:17162051 original size:27 final size:27
Alignment explanation
Indices: 17162021--17162308 Score: 178
Period size: 27 Copynumber: 10.7 Consensus size: 27
17162011 CTACCCTACA
**
17162021 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*** * *
17162048 AGGGTAAAACGGTAATTCTGCAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
*
17162074 AGGGGTACTTT-GGTAATTTTACAAGTCG
1 A-GGGTA-TTTCGGTAATTTTACAAATCG
** **
17162102 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
17162129 AGGGTATTTTAGTAATTTCACAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
17162155 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCGGTAATTTTACAAATCG
* * *
17162182 AGGGGTATTTTGATAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTACAAATCG
* *
17162209 AGGGGTATTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTACAAATCG
* * * *
17162236 AGGGGTATTTTGGCAATTTTATAAA-CAA
1 A-GGGTATTTCGGTAATTTTACAAATC-G
** *
17162264 AGGGTATTTTAGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTACAAATCG
*
17162290 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTCGGTAATTT
17162309 GGTAAACTAA
Statistics
Matches: 221, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.03
27 212 0.96
28 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:17162315 original size:27 final size:27
Alignment explanation
Indices: 17162058--17162308 Score: 272
Period size: 27 Copynumber: 9.3 Consensus size: 27
17162048 AGGGTAAAAC
* * * *
17162058 GGTAATTCTGCAAATCAGGGGTACTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
** *
17162085 GGTAATTTTACAAGTC-GAGGGTATTTC
1 GGTAATTTTACAAACCAG-GGGTATTTT
** ***
17162112 AATAATTTTACAGGTC-GAGGGTATTTT
1 GGTAATTTTACAAACCAG-GGGTATTTT
* * *
17162139 AGTAATTTCACAAATCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
17162166 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
17162193 GATAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
17162220 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* * * *
17162247 GGCAATTTTATAAACAAAGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
17162274 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
17162301 GGTAATTT
1 GGTAATTT
17162309 GGTAAACTAA
Statistics
Matches: 192, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 190 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAACCAGGGGTATTTT
Found at i:17164640 original size:17 final size:18
Alignment explanation
Indices: 17164613--17164648 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17164603 AATCAAATTT
17164613 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
17164631 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
17164648 A
1 A
17164649 AATAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:17173076 original size:25 final size:25
Alignment explanation
Indices: 17173043--17173112 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
17173033 CTCTCTAAAT
* *
17173043 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
17173068 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
17173093 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
17173113 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:17176847 original size:8 final size:8
Alignment explanation
Indices: 17176836--17176869 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
17176826 GACTCAATTT
17176836 ATCAAATC
1 ATCAAATC
17176844 ATCAAATC
1 ATCAAATC
17176852 ATCAAATC
1 ATCAAATC
*
17176860 ATCATATC
1 ATCAAATC
17176868 AT
1 AT
17176870 GTCGTTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (8 bp):
ATCAAATC
Found at i:17178944 original size:28 final size:28
Alignment explanation
Indices: 17178913--17178971 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
17178903 CACACGGGCA
17178913 TGTCCCTCACACAGCCATGACACGCCCG
1 TGTCCCTCACACAGCCATGACACGCCCG
17178941 TGTCCCTCACACAGCCATGACACGCCCG
1 TGTCCCTCACACAGCCATGACACGCCCG
17178969 TGT
1 TGT
17178972 TTTAACCTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.44, G:0.19, T:0.17
Consensus pattern (28 bp):
TGTCCCTCACACAGCCATGACACGCCCG
Found at i:17179762 original size:16 final size:17
Alignment explanation
Indices: 17179736--17179767 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17179726 AAATAAGAAA
17179736 TAATAATTATAATAATT
1 TAATAATTATAATAATT
17179753 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
17179768 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:17179880 original size:12 final size:12
Alignment explanation
Indices: 17179863--17179896 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
17179853 AGGGAATGAA
17179863 AGAAAGAAAAAG
1 AGAAAGAAAAAG
17179875 AGAAAGAAAAAG
1 AGAAAGAAAAAG
*
17179887 A-AAGGAAAAA
1 AGAAAGAAAAA
17179897 TAGGGTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:17181683 original size:20 final size:20
Alignment explanation
Indices: 17181658--17181702 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17181648 GCCCCACGGC
*
17181658 CATGTCCCAGGGCACACAGG
1 CATGTCCCAGGCCACACAGG
* *
17181678 CATGTCCTAGGCCACACGGG
1 CATGTCCCAGGCCACACAGG
17181698 CATGT
1 CATGT
17181703 GCCCCTATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (20 bp):
CATGTCCCAGGCCACACAGG
Found at i:17184518 original size:40 final size:40
Alignment explanation
Indices: 17184452--17184756 Score: 454
Period size: 40 Copynumber: 7.7 Consensus size: 40
17184442 GGATATAACC
* * * * * *
17184452 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCCAG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
17184491 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
17184531 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
17184571 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
17184611 ACTCGCACAAATGCCTTCGGGACTTAGTCCGAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
17184651 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
17184691 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
17184731 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
17184757 ACCCCGTTAG
Statistics
Matches: 248, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 7 0.03
40 239 0.96
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:17190594 original size:25 final size:26
Alignment explanation
Indices: 17190554--17190605 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
17190544 ATGTTATAAT
17190554 AATAAAAGAATAAAGAAAACA-AAAGA
1 AATAAAAGAATAAAGAAAA-AGAAAGA
*
17190580 AATAAAA-CATAAAGAAAAAGAAAGA
1 AATAAAAGAATAAAGAAAAAGAAAGA
17190605 A
1 A
17190606 GAAAGGGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 1 0.04
25 16 0.67
26 7 0.29
ACGTcount: A:0.77, C:0.04, G:0.12, T:0.08
Consensus pattern (26 bp):
AATAAAAGAATAAAGAAAAAGAAAGA
Found at i:17196441 original size:26 final size:27
Alignment explanation
Indices: 17196412--17196471 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
17196402 CCACATATAT
* *
17196412 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGACACA
* *
17196438 ATATCTGTATCTGGTGACTTCGACACA
1 ATATCTGTATCTGGTGACCTAGACACA
17196465 ATATCTG
1 ATATCTG
17196472 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGACACA
Found at i:17209670 original size:15 final size:15
Alignment explanation
Indices: 17209650--17209688 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
17209640 AATCCCTAAC
*
17209650 ATAATAATAATTCAA
1 ATAATAATAATACAA
*
17209665 ATAATAATAATACTA
1 ATAATAATAATACAA
17209680 ATAATAATA
1 ATAATAATA
17209689 TTAATTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATAATAATACAA
Found at i:17220605 original size:55 final size:55
Alignment explanation
Indices: 17220489--17220610 Score: 122
Period size: 55 Copynumber: 2.2 Consensus size: 55
17220479 CTGCCAAAGC
* * * * *
17220489 AACACGGGCGTGCGACATGCCTGTGTGGAAGACCCGTGGTTGAAACTGAGAAACT
1 AACACGGGCGTGAGACATGCCCGTGTGCAAGACCCGTGATTGAAACTGACAAACT
* * * *
17220544 AGCACGGGCGTGAGACATGCCCGTGT-CCAGCACCCGTGATTG-AACATGTCAAATT
1 AACACGGGCGTGAGACATGCCCGTGTGCAAG-ACCCGTGATTGAAAC-TGACAAACT
*
17220599 AACACGGTCGTG
1 AACACGGGCGTG
17220611 CAACACGGCC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
54 5 0.09
55 49 0.91
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.19
Consensus pattern (55 bp):
AACACGGGCGTGAGACATGCCCGTGTGCAAGACCCGTGATTGAAACTGACAAACT
Found at i:17228183 original size:48 final size:48
Alignment explanation
Indices: 17228121--17228812 Score: 1122
Period size: 48 Copynumber: 14.5 Consensus size: 48
17228111 TATATATGTG
*
17228121 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
17228169 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
17228215 TGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
17228263 CGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
17228311 CGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
17228359 CGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
17228407 TGTGGTAAAACCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
17228455 TGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
17228503 TGCGGTAAAGCCGAAAGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
17228551 TGAGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
17228599 CGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
17228647 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
17228693 TGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
17228741 TGTGGTAAATCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
17228789 TATGGTAAAGCTGAATGGCTAGTG
1 TGTGGTAAAGCCGAATGGCTAGTG
17228813 ATTCGGCTAG
Statistics
Matches: 611, Mismatches: 29, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
46 89 0.15
48 522 0.85
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:17231230 original size:30 final size:30
Alignment explanation
Indices: 17231195--17231260 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
17231185 GGGCATACCA
*
17231195 TGTGTCACACACAGCCTAGACACATTCTCG
1 TGTGTCACACACAGCCTAGACACATGCTCG
17231225 TGTGTCACACACAGCCTAGACACATGCTCG
1 TGTGTCACACACAGCCTAGACACATGCTCG
17231255 TGTGTC
1 TGTGTC
17231261 TAGTCGTGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (30 bp):
TGTGTCACACACAGCCTAGACACATGCTCG
Found at i:17232086 original size:49 final size:47
Alignment explanation
Indices: 17232029--17232193 Score: 165
Period size: 49 Copynumber: 3.5 Consensus size: 47
17232019 GTCGATGATG
* *
17232029 TGTCCCAGATAGGTCTTACACTGGCTCTCATTTATCTGTGCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTAGCTCTCATTTATCTG-GCCGATG-CA
* * * *
17232078 TGTCCCAGACAGGTCTTACACTAGCT-T-GTATATCCCGAGGCCAATGCA
1 TGTCCCAGACAGGTCTTACACTAGCTCTCATTTAT--C-TGGCCGATGCA
* * * *
17232126 TGTCCCAGACATGTCTTACACTAGCACTCA-TGATGTGGCCGATGCA
1 TGTCCCAGACAGGTCTTACACTAGCTCTCATTTATCTGGCCGATGCA
*
17232172 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACAGGTCTTACACT
17232194 GGCTTACATA
Statistics
Matches: 97, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
46 31 0.32
47 4 0.04
48 27 0.28
49 34 0.35
50 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
TGTCCCAGACAGGTCTTACACTAGCTCTCATTTATCTGGCCGATGCA
Found at i:17232729 original size:85 final size:85
Alignment explanation
Indices: 17232631--17232794 Score: 319
Period size: 85 Copynumber: 1.9 Consensus size: 85
17232621 AATAGTCCAT
*
17232631 TTTAGGTGTTTTTCATGAACACCAATTCACAAAAGTTTTTTATCTAACAGCTAGGATTCATTTTC
1 TTTAGGTGTTTTTCATGAACACCAATTCACAAAAGTTGTTTATCTAACAGCTAGGATTCATTTTC
17232696 TTCCATAAAAACTCAAAAAA
66 TTCCATAAAAACTCAAAAAA
17232716 TTTAGGTGTTTTTCATGAACACCAATTCACAAAAGTTGTTTATCTAACAGCTAGGATTCATTTTC
1 TTTAGGTGTTTTTCATGAACACCAATTCACAAAAGTTGTTTATCTAACAGCTAGGATTCATTTTC
17232781 TTCCATAAAAACTC
66 TTCCATAAAAACTC
17232795 TGCAAATGTT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.37
Consensus pattern (85 bp):
TTTAGGTGTTTTTCATGAACACCAATTCACAAAAGTTGTTTATCTAACAGCTAGGATTCATTTTC
TTCCATAAAAACTCAAAAAA
Found at i:17233079 original size:115 final size:115
Alignment explanation
Indices: 17232877--17233107 Score: 453
Period size: 115 Copynumber: 2.0 Consensus size: 115
17232867 GCTAGATTAA
17232877 ACTTTAGGGGTTCCAAAAACACAAAAATTATCAAGTAAGGCTATCTAAATCACTTACTTTCAAAG
1 ACTTTAGGGGTTCCAAAAACACAAAAATTATCAAGTAAGGCTATCTAAATCACTTACTTTCAAAG
17232942 ATGGAGAGTGACTGAAAATTTTAAGCTTCCAAAACCCTCAATTTTCTGGT
66 ATGGAGAGTGACTGAAAATTTTAAGCTTCCAAAACCCTCAATTTTCTGGT
17232992 ACTTTAGGGGTTCCAAAAACACAAAAATTATCAAGTAAGGCTATCTAAATCACTTACTTTCAAAG
1 ACTTTAGGGGTTCCAAAAACACAAAAATTATCAAGTAAGGCTATCTAAATCACTTACTTTCAAAG
*
17233057 ATGGAGAGTGACTGAAAATTTTAAGCTTCCAAAACCCTCAGTTTTCTGGT
66 ATGGAGAGTGACTGAAAATTTTAAGCTTCCAAAACCCTCAATTTTCTGGT
17233107 A
1 A
17233108 TTCTCAATGG
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (115 bp):
ACTTTAGGGGTTCCAAAAACACAAAAATTATCAAGTAAGGCTATCTAAATCACTTACTTTCAAAG
ATGGAGAGTGACTGAAAATTTTAAGCTTCCAAAACCCTCAATTTTCTGGT
Done.