Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 95 of 320
Found at i:30448436 original size:18 final size:18
Alignment explanation
Indices: 30448415--30448460 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
30448405 ACAAGTCTAA
30448415 TATCCAGTAACAGTCAAT
1 TATCCAGTAACAGTCAAT
* *
30448433 TATCCGGTAACAGTTAAT
1 TATCCAGTAACAGTCAAT
*
30448451 TATTCAGTAA
1 TATCCAGTAA
30448461 TAATCAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TATCCAGTAACAGTCAAT
Found at i:30450348 original size:16 final size:16
Alignment explanation
Indices: 30450301--30450352 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
30450291 TTGTTCCCTG
* *
30450301 TTTCGTTTCA-TTCTG
1 TTTCTTTTCATTTCTT
*
30450316 TTTCTTTTCTATCTCTT
1 TTTCTTTTC-ATTTCTT
*
30450333 TTTTTTTTCATTTCTT
1 TTTCTTTTCATTTCTT
30450349 TTTC
1 TTTC
30450353 ATTTGTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 8 0.28
16 10 0.34
17 11 0.38
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (16 bp):
TTTCTTTTCATTTCTT
Found at i:30451908 original size:11 final size:11
Alignment explanation
Indices: 30451892--30451932 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
30451882 TTTAAGTAAA
*
30451892 TATTATTTTAT
1 TATTATATTAT
30451903 TATTATATTAT
1 TATTATATTAT
*
30451914 TGTTATATTA-
1 TATTATATTAT
30451924 TATTA-ATTA
1 TATTATATTA
30451933 AATAAAGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 4 0.15
10 4 0.15
11 19 0.70
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TATTATATTAT
Found at i:30451910 original size:16 final size:16
Alignment explanation
Indices: 30451891--30451928 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
30451881 ATTTAAGTAA
30451891 ATATTATT-TTATTATT
1 ATATTATTGTTA-TATT
30451907 ATATTATTGTTATATT
1 ATATTATTGTTATATT
30451923 ATATTA
1 ATATTA
30451929 ATTAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
ATATTATTGTTATATT
Found at i:30451956 original size:13 final size:14
Alignment explanation
Indices: 30451932--30451960 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30451922 TATATTAATT
30451932 AAATAAAGTAAATA
1 AAATAAAGTAAATA
30451946 AAATAAA-TAAATA
1 AAATAAAGTAAATA
30451959 AA
1 AA
30451961 TCAATCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAAGTAAATA
Found at i:30452096 original size:16 final size:16
Alignment explanation
Indices: 30452070--30452108 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
30452060 TTAAGAAATA
*
30452070 ATAATTATTATGTTAAT
1 ATAA-TATTATATTAAT
30452087 ATAATATTATATTAAT
1 ATAATATTATATTAAT
30452103 ATAATA
1 ATAATA
30452109 AACAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
ATAATATTATATTAAT
Found at i:30452125 original size:15 final size:15
Alignment explanation
Indices: 30452105--30452161 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
30452095 ATATTAATAT
30452105 AATAAACAA-AAAGTA
1 AATAAA-AAGAAAGTA
30452120 AATAAAAAGAAAGTA
1 AATAAAAAGAAAGTA
* *
30452135 AAAAAAAATAAAG-A
1 AATAAAAAGAAAGTA
* *
30452149 TAGAAAAAGAAAG
1 AATAAAAAGAAAG
30452162 AGTATTGGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
14 13 0.36
15 23 0.64
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (15 bp):
AATAAAAAGAAAGTA
Found at i:30453489 original size:25 final size:25
Alignment explanation
Indices: 30453461--30453532 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
30453451 GCGCTTTCTA
* *
30453461 ATTATTAGCACGTCGGTGCTCTCTG
1 ATTATTAGCACATCAGTGCTCTCTG
*
30453486 ATTATTAGCACATTAGTGCTCTCTG
1 ATTATTAGCACATCAGTGCTCTCTG
* *
30453511 --TA-TAGCACTTTAGTGCTCTCTG
1 ATTATTAGCACATCAGTGCTCTCTG
30453533 TTTAATAGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 19 0.44
23 2 0.05
25 22 0.51
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (25 bp):
ATTATTAGCACATCAGTGCTCTCTG
Found at i:30453523 original size:22 final size:23
Alignment explanation
Indices: 30453476--30453533 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
30453466 TAGCACGTCG
30453476 GTGCTCTCTGATTATTAGCACATTA
1 GTGCTCTCTG--TATTAGCACATTA
*
30453501 GTGCTCTCTGTA-TAGCACTTTA
1 GTGCTCTCTGTATTAGCACATTA
30453523 GTGCTCTCTGT
1 GTGCTCTCTGT
30453534 TTAATAGTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 20 0.62
23 2 0.06
25 10 0.31
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.41
Consensus pattern (23 bp):
GTGCTCTCTGTATTAGCACATTA
Found at i:30453550 original size:10 final size:10
Alignment explanation
Indices: 30453535--30453560 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30453525 GCTCTCTGTT
30453535 TAATAGTGCA
1 TAATAGTGCA
30453545 TAATAGTGCA
1 TAATAGTGCA
30453555 TAATAG
1 TAATAG
30453561 CTTTGGCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (10 bp):
TAATAGTGCA
Found at i:30454809 original size:7 final size:7
Alignment explanation
Indices: 30454794--30454839 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
30454784 AGAAAATGAT
*
30454794 GAAATTG
1 GAAAGTG
30454801 GAAAGTG
1 GAAAGTG
*
30454808 GAAAGTA
1 GAAAGTG
30454815 GAAAGTG
1 GAAAGTG
30454822 GAAAGTG
1 GAAAGTG
30454829 GAAAGTG
1 GAAAGTG
30454836 GAAA
1 GAAA
30454840 AAATAATGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.37, T:0.15
Consensus pattern (7 bp):
GAAAGTG
Found at i:30468743 original size:10 final size:10
Alignment explanation
Indices: 30468728--30468758 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30468718 GAGATGGAAT
30468728 TCAAATCGAA
1 TCAAATCGAA
*
30468738 TCAAATTGAA
1 TCAAATCGAA
30468748 TCAAATCGAA
1 TCAAATCGAA
30468758 T
1 T
30468759 ATATTTGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (10 bp):
TCAAATCGAA
Found at i:30471799 original size:96 final size:96
Alignment explanation
Indices: 30471532--30472021 Score: 666
Period size: 96 Copynumber: 5.2 Consensus size: 96
30471522 GTTAAATTAA
30471532 AAATTAAT-TAATA-TA-AGAGTACAACAACATAAATTAAAC-AAAAAAAGTATGTTAAACTACA
1 AAATTAATATAATAGTACA-AGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACA
* *
30471593 TTTTAAATTTCAAAGTTAGTTAATTGAAGCCT
65 GTTTAAATTTTAAAGTTAGTTAATTGAAGCCT
* * *
30471625 AAATTAATATAATAGTACAA-T-----AGCATAAATTAAACAAAAAAAAAGTCTGTTAAGCTACA
1 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAAC-AAAAAAAAGTATGTTAAACTACA
30471684 GTTTAAATTTTAAAGTTAGTTAATTGAAGCCT
65 GTTTAAATTTTAAAGTTAGTTAATTGAAGCCT
* *
30471716 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAAATATAG
1 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAG
*
30471781 TTTAAATTTTAAAATTAGTTAATTGAAGCCT
66 TTTAAATTTTAAAGTTAGTTAATTGAAGCCT
* *
30471812 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAAATATAG
1 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAG
30471877 TTTAAATTTTAAAGTTAGTTAATTGAAGCCT
66 TTTAAATTTTAAAGTTAGTTAATTGAAGCCT
* * * ** * * *
30471908 AAATTAATATAATAGTATAA-TAGC-ATAA-ATTAAGCAAA-AAAAGAAAAGTCTGCTAAACCAC
1 AAATTAATATAATAGTACAAGTA-CAACAACATAAATTAAACAAAA-AAAAGTATGTTAAACTAC
* *
30471969 AGTTTAAACTTTAAAGTTAGTTAATTGAAGCAT
64 AGTTTAAATTTTAAAGTTAGTTAATTGAAGCCT
30472002 AAATTAATATAATAGTACAA
1 AAATTAATATAATAGTACAA
30472022 CAGCATAAAT
Statistics
Matches: 359, Mismatches: 25, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
89 13 0.04
91 70 0.19
92 1 0.00
93 12 0.03
94 76 0.21
95 8 0.02
96 166 0.46
97 13 0.04
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (96 bp):
AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACAG
TTTAAATTTTAAAGTTAGTTAATTGAAGCCT
Found at i:30472374 original size:17 final size:17
Alignment explanation
Indices: 30472352--30472403 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
30472342 TTTTCTCTAT
*
30472352 TAATATTGCATTATTAC
1 TAATATTACATTATTAC
*
30472369 TAATATTATATTATTAC
1 TAATATTACATTATTAC
30472386 TAATATTACATTATTAC
1 TAATATTACATTATTAC
30472403 T
1 T
30472404 TTGGGAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:30481044 original size:19 final size:18
Alignment explanation
Indices: 30480998--30481045 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 18
30480988 AAAAATTATT
30480998 AAAAATTCTAAAAAATAGA
1 AAAAATT-TAAAAAATAGA
30481017 AAAATATTTAAAAGAATA-A
1 AAAA-ATTTAAAA-AATAGA
30481036 AATAAATTTA
1 AA-AAATTTA
30481046 TTCAACGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAAATTTAAAAAATAGA
Found at i:30481294 original size:26 final size:26
Alignment explanation
Indices: 30481247--30481304 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
30481237 AAATTATATA
* *
30481247 AAATTTTAAAAATACATAAAAATGCT
1 AAATTTTAAAAAGACATAAAAATGAT
* *
30481273 AAATTTTAAAAAGA-ATCTAAAATTAT
1 AAATTTTAAAAAGACAT-AAAAATGAT
30481299 AAATTT
1 AAATTT
30481305 AGTTATATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (26 bp):
AAATTTTAAAAAGACATAAAAATGAT
Found at i:30481377 original size:14 final size:14
Alignment explanation
Indices: 30481355--30481393 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
30481345 TTTTTGTAAC
30481355 TTAATTCAAATAAA
1 TTAATTCAAATAAA
* * *
30481369 TTTATTCAATTTAA
1 TTAATTCAAATAAA
30481383 TTAATTCAAAT
1 TTAATTCAAAT
30481394 TCCCTTTCAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAATTCAAATAAA
Found at i:30493722 original size:22 final size:23
Alignment explanation
Indices: 30493688--30493746 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
30493678 TGATCCTGTA
30493688 AGTATTTCT-AAA-ACT-TAGAT
1 AGTATTTCTGAAACACTATAGAT
30493708 AGTATATTCTGAAAACACTATAGAT
1 AGTAT-TTCTG-AAACACTATAGAT
30493733 AGTACTTTCTGAAA
1 AGTA-TTTCTGAAA
30493747 TCGTACTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 5 0.15
21 4 0.12
23 3 0.09
24 6 0.18
25 14 0.42
26 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (23 bp):
AGTATTTCTGAAACACTATAGAT
Found at i:30495139 original size:33 final size:31
Alignment explanation
Indices: 30495102--30495169 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
30495092 CAGATGTTAT
30495102 CACTGGAATGTTATTAATTTTTGATGTACCTTA
1 CACTGG-AT-TTATTAATTTTTGATGTACCTTA
* *
30495135 CACT-GCTTTCTTAATTTTTGATGTACCTTA
1 CACTGGATTTATTAATTTTTGATGTACCTTA
30495165 CACTG
1 CACTG
30495170 CTTTCATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 26 0.81
31 1 0.03
32 1 0.03
33 4 0.12
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.46
Consensus pattern (31 bp):
CACTGGATTTATTAATTTTTGATGTACCTTA
Found at i:30495149 original size:30 final size:30
Alignment explanation
Indices: 30495115--30495174 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30495105 TGGAATGTTA
30495115 TTAATTTTTGATGTACCTTACACTGCTTTC
1 TTAATTTTTGATGTACCTTACACTGCTTTC
30495145 TTAATTTTTGATGTACCTTACACTGCTTTC
1 TTAATTTTTGATGTACCTTACACTGCTTTC
30495175 ATAGACATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (30 bp):
TTAATTTTTGATGTACCTTACACTGCTTTC
Found at i:30498513 original size:47 final size:46
Alignment explanation
Indices: 30498401--30498668 Score: 195
Period size: 47 Copynumber: 5.7 Consensus size: 46
30498391 ATTTGTGTGT
* ** * *** *
30498401 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACCTTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATC-AACTCGAGACGA
* * *
30498447 GAGCCAGTGTAATACCATGTCTGGGACATGGTATCAACATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAAC-TCGAGACGA
** **
30498495 GAGTTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATC-AACTCGAGACG-A
* ** *
30498542 -AGCCAGTGTAAGACATGTCTGGGACAT-ACATCGGCTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAACT-CGAGACGA
* ** * *
30498587 TAGTTAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGA-TA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAACTCGAGACGA
*
30498633 TGAGCCAGTGTAAGGCCATGTCTGGGACATGGCATC
1 -GAGCCAGTGTAA-GACATGTCTGGGACATGGCATC
30498669 GACACCTTAC
Statistics
Matches: 177, Mismatches: 34, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
45 4 0.02
46 70 0.40
47 78 0.44
48 25 0.14
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAACTCGAGACGA
Found at i:30498621 original size:94 final size:93
Alignment explanation
Indices: 30498405--30498668 Score: 266
Period size: 94 Copynumber: 2.8 Consensus size: 93
30498395 GTGTGTGAGC
* *** *
30498405 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACCTTATG-AGAGCCAGTGTAATACCATGTCT
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCCAGTGTAAGA-CATGTCT
** *
30498469 GGGACATGGTATCAACATTGAGACGAGAGT
64 GGGACATGACATCAACATCGAGACGAGAGT
*
30498499 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTCTGG
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTGG
** * *
30498564 GACAT-ACATCGGC-TACGAGATGATAGT
66 GACATGACATCAACAT-CGAGACGAGAGT
** * * * *
30498591 TAGTGTAAGACCATGTCTGGGACATGGCATC-AACTTGAGATATGAGCCAGTGTAAGGCCATGTC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCCAGTGTAA-GACATGTC
*
30498655 TGGGACATGGCATC
63 TGGGACATGACATC
30498669 GACACCTTAC
Statistics
Matches: 143, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
91 1 0.01
92 23 0.16
93 46 0.32
94 68 0.48
95 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (93 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTGG
GACATGACATCAACATCGAGACGAGAGT
Found at i:30498658 original size:140 final size:141
Alignment explanation
Indices: 30498406--30498669 Score: 363
Period size: 140 Copynumber: 1.9 Consensus size: 141
30498396 TGTGTGAGCT
* ** *
30498406 AGTGTAAGACATGTCTGGGACATGCATCGGCCACCTTATGAGAGCCAGTGTAATACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATACATCGGCCACCAGATGAGAGCCAGTGTAAGACCATGTCTGG
* **
30498471 GACATGGTATCAACATTGAGACGAGAGTTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATCAACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
30498535 AGACGTAAGCC
131 AGACGTAAGCC
* * * **
30498546 AGTGTAAGACATGTCTGGGACATACATCGGCTACGAGATGATAGTTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATACATCGGCCACCAGATGAGAGCCAGTGTAAGACCATGTCTGG
* *
30498611 GACATGGCATCAAC-TTGAGA-TATGAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCG
66 GACATGGCATCAACATTGAGACGA-GAGCCAGTGTAA-GACATGTCTGGGACATGGCATCG
30498670 ACACCTTACC
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
138 1 0.01
139 16 0.15
140 84 0.79
141 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCCACCAGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
AGACGTAAGCC
Found at i:30500425 original size:46 final size:46
Alignment explanation
Indices: 30500358--30500452 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
30500348 GTACACAGAG
30500358 TTTGTTCGTGTGAATCCGAACACTCCACCTCCCCCACCTCCTCCTA
1 TTTGTTCGTGTGAATCCGAACACTCCACCTCCCCCACCTCCTCCTA
30500404 TTTGTTCGTGTGAATCCGAACACTCCACCTCCCCCACCTCCTCCTA
1 TTTGTTCGTGTGAATCCGAACACTCCACCTCCCCCACCTCCTCCTA
30500450 TTT
1 TTT
30500453 CTCAGTATAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.17, C:0.42, G:0.11, T:0.31
Consensus pattern (46 bp):
TTTGTTCGTGTGAATCCGAACACTCCACCTCCCCCACCTCCTCCTA
Found at i:30517735 original size:21 final size:23
Alignment explanation
Indices: 30517711--30517758 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
30517701 ATTTTATACA
*
30517711 ATTTTTATTA-TTAAATA-ATAT
1 ATTTTTATAATTTAAATATATAT
*
30517732 ATTTTTATAATTTTAATATATAT
1 ATTTTTATAATTTAAATATATAT
30517755 ATTT
1 ATTT
30517759 GTGATGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 6 0.26
23 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTTATAATTTAAATATATAT
Found at i:30517960 original size:45 final size:45
Alignment explanation
Indices: 30517911--30518001 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
30517901 CAAATTTGAA
30517911 ACTATATAAGAAAGTAAATAAAAAAATATTTACACTAAATTAATG
1 ACTATATAAGAAAGTAAATAAAAAAATATTTACACTAAATTAATG
30517956 ACTATATAAGAAAGTAAATAAAAAAATATTTACACTAAATTAATG
1 ACTATATAAGAAAGTAAATAAAAAAATATTTACACTAAATTAATG
30518001 A
1 A
30518002 TCACATTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (45 bp):
ACTATATAAGAAAGTAAATAAAAAAATATTTACACTAAATTAATG
Found at i:30521565 original size:15 final size:14
Alignment explanation
Indices: 30521536--30521604 Score: 59
Period size: 15 Copynumber: 4.7 Consensus size: 14
30521526 ACTGGTTTGT
*
30521536 TTTTTTTTA-TTTC
1 TTTTTATTATTTTC
30521549 TTTTTATTATTTATC
1 TTTTTATTATTT-TC
*
30521564 TTTTTTATTATTTTG
1 -TTTTTATTATTTTC
*
30521579 TCTTTTATTATTGTTA
1 T-TTTTATTATT-TTC
*
30521595 TTTATATTAT
1 TTTTTATTAT
30521605 CGCATTCATT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
13 8 0.17
14 3 0.06
15 21 0.45
16 15 0.32
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTTTATTATTTTC
Found at i:30521570 original size:16 final size:15
Alignment explanation
Indices: 30521535--30521590 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
30521525 AACTGGTTTG
*
30521535 TTTTTTTTTA-TTTC
1 TTTTTTATTATTTTC
30521549 -TTTTTATTATTTATC
1 TTTTTTATTATTT-TC
*
30521564 TTTTTTATTATTTTG
1 TTTTTTATTATTTTC
*
30521579 TCTTTTATTATT
1 TTTTTTATTATT
30521591 GTTATTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 8 0.22
14 2 0.06
15 14 0.39
16 12 0.33
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTTTATTATTTTC
Found at i:30522510 original size:20 final size:23
Alignment explanation
Indices: 30522481--30522521 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
30522471 AATTTACGAT
30522481 TCTTTCGTTGC-AT-TTCATCTA
1 TCTTTCGTTGCGATCTTCATCTA
30522502 TCTTT-GTTGCGATCTTCATC
1 TCTTTCGTTGCGATCTTCATC
30522522 ATTTTGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.51
Consensus pattern (23 bp):
TCTTTCGTTGCGATCTTCATCTA
Found at i:30525007 original size:12 final size:11
Alignment explanation
Indices: 30524992--30525035 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
30524982 ATTGGTCATT
30524992 GAGGGATTGTAG
1 GAGGGATTG-AG
30525004 GAGGGAGTTGAG
1 GAGGGA-TTGAG
*
30525016 GAGAGATATGAG
1 GAGGGAT-TGAG
30525028 GAGGGATT
1 GAGGGATT
30525036 TTAAGAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 23 0.82
13 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (11 bp):
GAGGGATTGAG
Found at i:30526429 original size:27 final size:27
Alignment explanation
Indices: 30526367--30526431 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
30526357 ACCTTTTTGC
* *
30526367 GATAAAATAAAGATTTTGCCCTTATAT
1 GATAAAATGACGATTTTGCCCTTATAT
* *
30526394 GATAAAATGACGATTTTTCCCTTATGT
1 GATAAAATGACGATTTTGCCCTTATAT
30526421 GATAAAATGAC
1 GATAAAATGAC
30526432 CGAAATGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (27 bp):
GATAAAATGACGATTTTGCCCTTATAT
Found at i:30526442 original size:27 final size:27
Alignment explanation
Indices: 30526385--30526522 Score: 93
Period size: 27 Copynumber: 5.1 Consensus size: 27
30526375 AAAGATTTTG
* ** *
30526385 CCCTTATATGATAAAATGA-CGATTTTT
1 CCCTTATGTGATAAAATGACCGA-AATA
*
30526412 CCCTTATGTGATAAAATGACCGAAATG
1 CCCTTATGTGATAAAATGACCGAAATA
* * *
30526439 CCCTCATAG-GGTAAAATGATCGAAATA
1 CCCTTAT-GTGATAAAATGACCGAAATA
* * * *
30526466 CCCCTATATGGTAGAATGACCGAAATA
1 CCCTTATGTGATAAAATGACCGAAATA
* * *
30526493 CCCCTATAG-GATAAAATGACTGTAATA
1 CCCTTAT-GTGATAAAATGACCGAAATA
30526520 CCC
1 CCC
30526523 CGGTAAGGTA
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
27 85 0.96
28 4 0.04
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACCGAAATA
Found at i:30526523 original size:27 final size:26
Alignment explanation
Indices: 30526423--30526539 Score: 121
Period size: 27 Copynumber: 4.3 Consensus size: 26
30526413 CCTTATGTGA
*
30526423 TAAAATGACCGAAAT-GCCCTCATAGGG
1 TAAAATGACCGAAATACCCCT-ATA-GG
*
30526450 TAAAATGATCGAAATACCCCTATATGG
1 TAAAATGACCGAAATACCCCTATA-GG
*
30526477 TAGAATGACCGAAATACCCCTATAGG
1 TAAAATGACCGAAATACCCCTATAGG
* *
30526503 ATAAAATGACTGTAATACCCCGGTA-AGG
1 -TAAAATGACCGAAATACCCC--TATAGG
30526531 TAAAATGAC
1 TAAAATGAC
30526540 AAATTTGTTC
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.03
27 67 0.86
28 7 0.09
29 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (26 bp):
TAAAATGACCGAAATACCCCTATAGG
Found at i:30526538 original size:54 final size:54
Alignment explanation
Indices: 30526423--30526539 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
30526413 CCTTATGTGA
* * * *
30526423 TAAAATGACCGAAATGCCCTCATAGGGTAAAATGATCGAAATACCCCTATATGG
1 TAAAATGACCGAAATCCCCTCATAGGATAAAATGATCGAAATACCCCGATAAGG
* * *
30526477 TAGAATGACCGAAATACCCCT-ATAGGATAAAATGA-CTGTAATACCCCGGTAAGG
1 TAAAATGACCGAAAT-CCCCTCATAGGATAAAATGATC-GAAATACCCCGATAAGG
30526531 TAAAATGAC
1 TAAAATGAC
30526540 AAATTTGTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.02
54 48 0.91
55 4 0.08
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (54 bp):
TAAAATGACCGAAATCCCCTCATAGGATAAAATGATCGAAATACCCCGATAAGG
Found at i:30526617 original size:23 final size:23
Alignment explanation
Indices: 30526574--30526619 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
30526564 CTGTATTTGA
30526574 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
30526597 GCAT-CCATGTATGATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
30526620 ACATTATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
23 11 0.52
24 4 0.19
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:30537483 original size:40 final size:40
Alignment explanation
Indices: 30537383--30537634 Score: 314
Period size: 40 Copynumber: 6.3 Consensus size: 40
30537373 GCTCCTCGTT
* * * * *
30537383 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGAATTT-GTATCTCGCA
* ** *
30537423 C-AATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTT-GTATCTCGCA
* *
30537462 CGAATGCCTTCGGGACTTAACCCGG-TTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTT-GTATCTCGCA
* *
30537502 CAAAGGCCTTCGGGACTTAACCCGGAATTTGTATCTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGAATTTGTATCTCGCA
*
30537542 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTTGTATCTCGCA
*
30537582 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTTGTATCTCGCA
30537622 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30537635 ATCTTAGTCC
Statistics
Matches: 193, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 34 0.18
40 156 0.81
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTTGTATCTCGCA
Found at i:30537647 original size:80 final size:80
Alignment explanation
Indices: 30537383--30537687 Score: 302
Period size: 80 Copynumber: 3.8 Consensus size: 80
30537373 GCTCCTCGTT
* * * * * *
30537383 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCG
1 CAAATGCCTTC-GGACTTAACCCGGAATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCG
** *
30537446 G-ATTTAACAACTCGCA
65 GAATTT-GTATCTCGCA
* * *
30537462 CGAATGCCTTCGGGACTTAACCCGG-TTTTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAACCCGGAATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCG
*
30537526 GAATTTGTATCTCGTA
65 GAATTTGTATCTCGCA
* *
30537542 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGGGCTTAACCCG
1 CAAATGCCTTC-GGACTTAACCCGGAATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCG
30537606 GAATTTGTATCTCGCA
65 GAATTTGTATCTCGCA
** * * * *
30537622 CAAATGCCTTCGGATCTTAGTCCGG-ATATATTCA-CTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGA-CTTAACCCGGAATTTAGT-ATC-TCGCACAAATGCCTTCGGGACTTAACC
30537684 CGGA
63 CGGA
30537688 CAGCATTCAA
Statistics
Matches: 194, Mismatches: 25, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
79 41 0.21
80 137 0.71
81 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAACCCGGAATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTTGTATCTCGCA
Found at i:30537671 original size:120 final size:120
Alignment explanation
Indices: 30537421--30537687 Score: 294
Period size: 120 Copynumber: 2.2 Consensus size: 120
30537411 TAGTAACTCA
* * *
30537421 CACAATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCC
1 CACAAAGCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACCC
* * *
30537485 GGTTTTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTTGTATCTCG
66 GGATTTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTTGCATCTAG
* * ** * *
30537540 TACAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGGGCTTAACC
1 CACAAA-GCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACC
* **
30537604 CGGAATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATT-CA-CTTAG
65 CGG-ATTTAGTATCTCGCACAAAGGCCTTCGGGA-CTTAACCCGGA-AT-TTGCATC-TAG
*
30537661 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAAAGCCTTCGGGACTTAACCCGGA
30537688 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
119 7 0.06
120 97 0.79
121 17 0.14
122 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (120 bp):
CACAAAGCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACCC
GGATTTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTTGCATCTAG
Found at i:30537696 original size:41 final size:41
Alignment explanation
Indices: 30537619--30537696 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
30537609 TTTGTATCTC
* * *
30537619 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
30537660 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
30537697 AATAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:30545420 original size:39 final size:38
Alignment explanation
Indices: 30545377--30545576 Score: 223
Period size: 39 Copynumber: 5.3 Consensus size: 38
30545367 TCCTCGTTCA
* * *
30545377 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTA-TAACTCGCAC
*
30545416 AATGCCTTCGGGACATAACCCGGATTTAAAACTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTATAACTCGCAC
*
30545454 GAATGCCTTCGGGACTTAACCC-G-TTTAT-ACTCGCAC
1 -AATGCCTTCGGGACATAACCCGGATTTATAACTCGCAC
* *
30545490 AATGCCTTCGGGAC-TTACCCGGATTTAGTATCTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTA-TAACTCGCAC
* * *
30545528 AA-GCCTTCGGG-CTTAACCCGGAATTTGTATCTCGCAC
1 AATGCCTTCGGGACATAACCCGG-ATTTATAACTCGCAC
30545565 AAATGCCTTCGG
1 -AATGCCTTCGG
30545577 ATCTTAGTCC
Statistics
Matches: 142, Mismatches: 10, Indels: 18
0.84 0.06 0.11
Matches are distributed among these distances:
34 5 0.04
35 15 0.11
36 13 0.09
37 31 0.22
38 24 0.17
39 54 0.38
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (38 bp):
AATGCCTTCGGGACATAACCCGGATTTATAACTCGCAC
Found at i:30545525 original size:74 final size:75
Alignment explanation
Indices: 30545377--30545576 Score: 230
Period size: 74 Copynumber: 2.6 Consensus size: 75
30545367 TCCTCGTTCA
* * * *
30545377 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTA-T-ACTCGCACAATGCCTTCGGGACATAACCCGGATT
30545442 TAAAACTCGCAC
64 TAAAACTCGCAC
*
30545454 GAATGCCTTCGGGACTTAACCC-G-TTTATACTCGCACAATGCCTTCGGGAC-TTACCCGGATTT
1 -AATGCCTTCGGGACTTAACCCGGATTTATACTCGCACAATGCCTTCGGGACATAACCCGGATTT
* *
30545516 AGTATCTCGCAC
65 A-AAACTCGCAC
*
30545528 AA-GCCTTCGGG-CTTAACCCGGAATTTGTATCTCGCACAAATGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGG-ATTTATA-CTCGCAC-AATGCCTTCGG
30545577 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
71 8 0.07
72 10 0.09
73 14 0.13
74 34 0.31
75 8 0.07
76 15 0.14
77 1 0.01
78 19 0.17
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (75 bp):
AATGCCTTCGGGACTTAACCCGGATTTATACTCGCACAATGCCTTCGGGACATAACCCGGATTTA
AAACTCGCAC
Found at i:30545638 original size:41 final size:41
Alignment explanation
Indices: 30545561--30545638 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
30545551 TTTGTATCTC
* * *
30545561 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
30545602 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
30545639 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:30548070 original size:49 final size:49
Alignment explanation
Indices: 30547998--30548189 Score: 208
Period size: 50 Copynumber: 3.9 Consensus size: 49
30547988 CGAAGCTATC
* * *
30547998 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTT
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTT
* * *
30548047 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTT
** * * *
30548097 TAATACACGTAGTAGCCTGCACTTATTACTACACACGTGATC-ACAGTTT
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG-TT
* *
30548146 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 T--GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
30548190 TCACAATAGA
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 38 0.32
50 39 0.33
51 38 0.32
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (49 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTT
Found at i:30548127 original size:50 final size:49
Alignment explanation
Indices: 30548007--30548189 Score: 181
Period size: 51 Copynumber: 3.7 Consensus size: 49
30547997 CTGGTACGCA
* * * **
30548007 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
30548056 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* * *** * *
30548106 TAGTAGCCTGCACTTATTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
*
30548157 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
30548190 TCACAATAGA
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 29 0.26
50 39 0.35
51 40 0.36
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:30548180 original size:101 final size:99
Alignment explanation
Indices: 30548007--30548193 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 99
30547997 CTGGTACGCA
* *
30548007 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTTTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTTTGGTACACATAGTAGCCTGCACTTA
30548072 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGTGACCTCACCATCTAATACACG
* * * *
30548106 TAGTAGCCTGCACTTATTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG-TTT--GGTACACATAGTAGCCTGCAC
*
30548170 TTAGTACTACACATGTGACCTCAC
63 TTAGTACTACACACGTGACCTCAC
30548194 AATAGATCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 32 0.41
101 42 0.54
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTTTGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTCACCATCTAATACACG
Found at i:30551591 original size:43 final size:43
Alignment explanation
Indices: 30551536--30551715 Score: 145
Period size: 43 Copynumber: 4.2 Consensus size: 43
30551526 GACATAGGAT
* * *
30551536 TCGATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATATGATTTCATGTAAGACCACGTCTGGGACATTGGCA
* * * * * **
30551579 TCGACT-TATGTTTTACGTGTAAGGCCATGTCTGGTACA-TCACA
1 TCGA-TATATGATTT-CATGTAAGACCACGTCTGGGACATTGGCA
* *
30551622 TCG-TATCTGATTTCATGTAAGACTC-CGTCTGGGACAGTGGCA
1 TCGATATATGATTTCATGTAAGAC-CACGTCTGGGACATTGGCA
* * * *
30551664 TCGATGTTTGATTACATGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATATGATTTCATGTAAGACCACGTCTGGGACATTGGCA
*
30551707 TTG-TATATG
1 TCGATATATG
30551716 TCCTATGAGC
Statistics
Matches: 108, Mismatches: 22, Indels: 15
0.74 0.15 0.10
Matches are distributed among these distances:
41 18 0.17
42 18 0.17
43 51 0.47
44 21 0.19
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
TCGATATATGATTTCATGTAAGACCACGTCTGGGACATTGGCA
Found at i:30568105 original size:9 final size:9
Alignment explanation
Indices: 30568058--30568116 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
30568048 ATTCATTAAC
30568058 AAACACATT
1 AAACACATT
*
30568067 AAAACAAATT
1 -AAACACATT
* *
30568077 AAGCACTTT
1 AAACACATT
* *
30568086 AAGCACGTT
1 AAACACATT
30568095 AAACACATT
1 AAACACATT
30568104 AAACACATT
1 AAACACATT
30568113 AAAC
1 AAAC
30568117 TTAATTAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
9 34 0.81
10 8 0.19
ACGTcount: A:0.53, C:0.20, G:0.05, T:0.22
Consensus pattern (9 bp):
AAACACATT
Found at i:30569943 original size:40 final size:40
Alignment explanation
Indices: 30569884--30570105 Score: 295
Period size: 40 Copynumber: 5.6 Consensus size: 40
30569874 ATTCGGATTG
* * *
30569884 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
30569924 ATATCTGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
30569964 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
30570004 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGATACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
30570044 ATAACCGAGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
30570084 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
30570106 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 15 0.09
40 150 0.91
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:30578042 original size:40 final size:40
Alignment explanation
Indices: 30577980--30578200 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
30577970 ATTTGGATTG
* *
30577980 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
30578020 ATATCCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
30578060 ATAACCGGGCCAAGTCCCGAA-GCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
30578099 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACC
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
30578139 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
30578179 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
30578201 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 53 0.32
40 112 0.68
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:30578112 original size:79 final size:80
Alignment explanation
Indices: 30577980--30578206 Score: 334
Period size: 79 Copynumber: 2.9 Consensus size: 80
30577970 ATTTGGATTG
*
30577980 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
30578045 CTTGTGCGAGTTACT
66 CTTGTGCGAGTTACC
* * *
30578060 ATAACCGGGCCAAGTCCCGAA-GCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
30578124 ATTGTGCGAGTTACC
66 CTTGTGCGAGTTACC
* ** *
30578139 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAACCCCGAAGGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGGC
30578202 ACTTG
65 ACTTG
30578207 GTTTGGGAAT
Statistics
Matches: 131, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
79 94 0.72
80 37 0.28
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
CTTGTGCGAGTTACC
Found at i:30579590 original size:34 final size:34
Alignment explanation
Indices: 30579545--30579643 Score: 117
Period size: 37 Copynumber: 2.8 Consensus size: 34
30579535 GGGTGTTACA
* *
30579545 TTATTCCAGAAACTAAATTAACTAAGATAAGCAT
1 TTATTCTAGAAACTAAATTAACTAAAATAAGCAT
* *
30579579 TTATTCTAGAAACTCAATTAATAACTAAAATAAGTAT
1 TTATTCTAGAAACT-AA--ATTAACTAAAATAAGCAT
* *
30579616 TTATTCTAGCAACTCAATTAACTAAAAT
1 TTATTCTAGAAACTAAATTAACTAAAAT
30579644 GAGTTTAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
34 24 0.44
35 2 0.04
36 1 0.02
37 28 0.51
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (34 bp):
TTATTCTAGAAACTAAATTAACTAAAATAAGCAT
Found at i:30579618 original size:37 final size:37
Alignment explanation
Indices: 30579563--30579636 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
30579553 GAAACTAAAT
*
30579563 TAACTAAGATAAGCATTTATTCTAGAAACTCAATTAA
1 TAACTAAAATAAGCATTTATTCTAGAAACTCAATTAA
* *
30579600 TAACTAAAATAAGTATTTATTCTAGCAACTCAATTAA
1 TAACTAAAATAAGCATTTATTCTAGAAACTCAATTAA
30579637 CTAAAATGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.34
Consensus pattern (37 bp):
TAACTAAAATAAGCATTTATTCTAGAAACTCAATTAA
Found at i:30584139 original size:46 final size:46
Alignment explanation
Indices: 30584086--30584261 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
30584076 TATTTGGGCA
* *
30584086 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
30584132 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* *
30584179 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
30584225 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30584262 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 6 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:30584235 original size:93 final size:93
Alignment explanation
Indices: 30584082--30584253 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
30584072 GGGATATTTG
* * *
30584082 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
*
30584147 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
** *
30584175 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
30584240 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
30584254 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:30587198 original size:15 final size:15
Alignment explanation
Indices: 30587178--30587246 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
30587168 GTATCTTGGG
30587178 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
30587193 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* * *
30587208 TTTTTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
30587223 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
30587238 TTTCTTTAT
1 TTTCTTTAT
30587247 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.12, C:0.16, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:30587238 original size:30 final size:30
Alignment explanation
Indices: 30587169--30587256 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
30587159 CATAGTATCG
* * * *
30587169 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
30587199 TAT-TCTGGATTTTTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
30587229 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
30587257 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:30589695 original size:46 final size:46
Alignment explanation
Indices: 30589639--30589814 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
30589629 TATTTGGGCA
* *
30589639 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
30589685 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* *
30589732 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
30589778 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30589815 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:30589788 original size:93 final size:93
Alignment explanation
Indices: 30589635--30589806 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
30589625 GGGATATTTG
* * * *
30589635 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
*
30589700 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
** *
30589728 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
30589793 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
30589807 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:30592539 original size:40 final size:40
Alignment explanation
Indices: 30592456--30592636 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
30592446 ACCCAAGTAT
* ** * * *
30592456 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * * *
30592494 CTTCGGGTCTTAGCCCGGATATGGTCGCCAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
30592534 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * * * *
30592574 CTTC-GGATTTGAGTCCGGATATAATCACTTAGCACAAAAGC
1 CTTCGGGACTT-AGCCCGGATATAGTCGC-TAGCACAAATGC
30592615 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30592637 CATTCGAATA
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 11 0.09
39 18 0.15
40 58 0.50
41 25 0.21
42 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:30595585 original size:9 final size:9
Alignment explanation
Indices: 30595571--30595595 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30595561 TATATACCAA
30595571 AACCAAATC
1 AACCAAATC
30595580 AACCAAATC
1 AACCAAATC
30595589 AACCAAA
1 AACCAAA
30595596 ACCACAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (9 bp):
AACCAAATC
Found at i:30596887 original size:43 final size:42
Alignment explanation
Indices: 30596840--30596973 Score: 139
Period size: 43 Copynumber: 3.1 Consensus size: 42
30596830 AATGCCAACG
*
30596840 TCCCAGACATGGTCTTACATGAAATCACATGTCGATGCCGCTA
1 TCCCAGACATGGTCTTACATGAAATCACAT-TCGATGCCGATA
* *
30596883 TCCCAGACAGGGTCTT-CGA-GAAATCACAATTACGATGCCGATG
1 TCCCAGACATGGTCTTAC-ATGAAATCAC-ATT-CGATGCCGATA
* * *
30596926 TTCCAGACATGGTCTTAC-TCGAAATCACATATCGATGCCAATG
1 TCCCAGACATGGTCTTACAT-GAAATCACAT-TCGATGCCGATA
30596969 TCCCA
1 TCCCA
30596974 AATGTGGTCT
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
42 10 0.13
43 57 0.74
44 10 0.13
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGAAATCACATTCGATGCCGATA
Found at i:30597897 original size:18 final size:19
Alignment explanation
Indices: 30597876--30597914 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
30597866 TTGTTTAATT
*
30597876 TTATTATAACA-TTTATTA
1 TTATAATAACATTTTATTA
*
30597894 TTATAATAATATTTTATTA
1 TTATAATAACATTTTATTA
30597913 TT
1 TT
30597915 TATCTACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATAATAACATTTTATTA
Found at i:30603923 original size:43 final size:42
Alignment explanation
Indices: 30603875--30604019 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
30603865 CAATGACAAC
30603875 GTCCCAGACATGGTCTTACATGAAATCACATGTCGATGCCGCT
1 GTCCCAGACATGGTCTTACATGAAATCACAT-TCGATGCCGCT
* * *
30603918 GTCCCAGACAGGGTCTTTCA-GAAATCACAATTACGATGCCGAT
1 GTCCCAGACATGGTCTTACATGAAATCAC-ATT-CGATGCCGCT
* * *
30603961 GTCCCAAACATGGTCTTAC-TCGAAATCACATATCAATGCCAAC-
1 GTCCCAGACATGGTCTTACAT-GAAATCACAT-TCGATGCC-GCT
*
30604004 GTCCCAGACGTGGTCT
1 GTCCCAGACATGGTCT
30604020 GACACAAGAA
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
42 9 0.11
43 67 0.79
44 9 0.11
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATGAAATCACATTCGATGCCGCT
Found at i:30607174 original size:27 final size:26
Alignment explanation
Indices: 30607139--30607250 Score: 89
Period size: 27 Copynumber: 4.2 Consensus size: 26
30607129 GGCATGGCTG
*
30607139 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGACAAAGCCA
* *
30607165 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAAAGCCA
* * **
30607193 CCAGAATAGATATATGTGGCGGAGCCA
1 CCAGAACAGATA-ATGTGACAAAGCCA
* * * *
30607220 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAAAGCCA
30607247 CCAG
1 CCAG
30607251 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.69
28 16 0.23
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAAAGCCA
Found at i:30607204 original size:54 final size:54
Alignment explanation
Indices: 30607139--30607250 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
30607129 GGCATGGCTG
*
30607139 CCAGAACAGATA-ATGTGACAAAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * ** * * *
30607193 CCAGAATAGATATATGTGGCGGAGCCACTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCCA
30607247 CCAG
1 CCAG
30607251 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 34 0.69
55 15 0.31
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:30607388 original size:28 final size:28
Alignment explanation
Indices: 30607356--30607420 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
30607346 AAAGTACCCC
30607356 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCCATACA
30607384 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCCATACA
*
30607412 TAGGCGTAT
1 TAGGGGTAT
30607421 TCAAGTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAACAGTAATTTTCCATACA
Found at i:30614050 original size:15 final size:15
Alignment explanation
Indices: 30614022--30614052 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30614012 CAATCTTTAT
30614022 AAAATTTTGTTTTTG
1 AAAATTTTGTTTTTG
30614037 AAAATCTTTGTTTTTG
1 AAAAT-TTTGTTTTTG
30614053 TAAACCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (15 bp):
AAAATTTTGTTTTTG
Found at i:30615058 original size:27 final size:26
Alignment explanation
Indices: 30615023--30615134 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
30615013 AGCATGGCTG
* *
30615023 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
30615049 CCAGATACAGATAATCATGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
30615077 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
30615104 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
30615131 CCAG
1 CCAG
30615135 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:30615083 original size:54 final size:54
Alignment explanation
Indices: 30615023--30615134 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
30615013 AGCATGGCTG
*
30615023 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCATGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCATGGCAGAGCCA
* ** *
30615077 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCATGGCAGAGCCA
30615131 CCAG
1 CCAG
30615135 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCATGGCAGAGCCA
Found at i:30615236 original size:28 final size:28
Alignment explanation
Indices: 30615204--30615268 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
30615194 AAAGAACCCC
** *
30615204 TAGGGGTATAACAGTAATTTTCCATAGA
1 TAGGGGTATAACAACAATTTTCCATACA
30615232 TAGGGGTATAACAACAATTTTCCATACA
1 TAGGGGTATAACAACAATTTTCCATACA
*
30615260 TAGGCGTAT
1 TAGGGGTAT
30615269 TCAAGTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (28 bp):
TAGGGGTATAACAACAATTTTCCATACA
Found at i:30615278 original size:28 final size:29
Alignment explanation
Indices: 30615204--30615279 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
30615194 AAAGAACCCC
* *
30615204 TAGGGGTATAAC-AGTAATTTTCCATAGA
1 TAGGCGTATAACAAGTAATTTTCCATACA
* *
30615232 TAGGGGTATAACAA-CAATTTTCCATACA
1 TAGGCGTATAACAAGTAATTTTCCATACA
*
30615260 TAGGCGTAT-TCAAGTAATTT
1 TAGGCGTATAACAAGTAATTT
30615280 AACTATTCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.07
28 37 0.90
29 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (29 bp):
TAGGCGTATAACAAGTAATTTTCCATACA
Found at i:30616311 original size:16 final size:16
Alignment explanation
Indices: 30616286--30616318 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30616276 GCTAAAGAAA
30616286 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
30616302 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
30616318 A
1 A
30616319 GAATTCGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:30622205 original size:20 final size:20
Alignment explanation
Indices: 30622180--30622217 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
30622170 AAAGTTAAAA
30622180 TTTAAAATTTTACCCATGAG
1 TTTAAAATTTTACCCATGAG
30622200 TTTAAAATTTTACCCATG
1 TTTAAAATTTTACCCATG
30622218 TTGGATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (20 bp):
TTTAAAATTTTACCCATGAG
Found at i:30624407 original size:27 final size:26
Alignment explanation
Indices: 30624364--30624476 Score: 84
Period size: 27 Copynumber: 4.2 Consensus size: 26
30624354 GAGTCAGTCA
* *
30624364 TTTACACTCAAGGGTATTTTTG-TAAT
1 TTTACACTCAAGAGTA-TTTCGATAAT
30624390 TTTACACTACAAGAGTATTTCGATAAT
1 TTTACACT-CAAGAGTATTTCGATAAT
* ** * * *
30624417 TTTACAAATCCGGGGTGTTTCGGTAAT
1 TTTAC-ACTCAAGAGTATTTCGATAAT
* * *
30624444 TTTACAAATCGAGGGTATTTCGATAAT
1 TTTAC-ACTCAAGAGTATTTCGATAAT
30624471 TTTACA
1 TTTACA
30624477 AATTGAGGGT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 13 0.18
27 57 0.79
28 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (26 bp):
TTTACACTCAAGAGTATTTCGATAAT
Found at i:30624475 original size:81 final size:79
Alignment explanation
Indices: 30624386--30624627 Score: 237
Period size: 81 Copynumber: 3.1 Consensus size: 79
30624376 GGTATTTTTG
30624386 TAATTTTACACTACAAGAGTATTTCGATAATTTTACAAATCCGGGGTGTTTCGGTAATTTTACAA
1 TAATTTTACAC-A-AAGAGTATTTCGATAATTTTACAAATCCGGGGTGTTTCGGTAATTTTACAA
*
30624451 ATCGAGGGTATTTCGA
64 ATCGAGGGTATTTCAA
* * * * * *
30624467 TAATTTTACA-AATTGAGGGTGTTTCGGTAATTTTAAAAAT-TGAGGGTGTTTCGATAATTTTAC
1 TAATTTTACACAA---AGAGTATTTCGATAATTTTACAAATCCG-GGGTGTTTCGGTAATTTTAC
* *
30624530 AAATCAAGGGTGTTTCAA
62 AAATCGAGGGTATTTCAA
** * * *
30624548 TAA-TTT-CACAAATCG-A--TCGATAATTTCACAAATCGGGGGTATTTCGGTAATTTTACAAAT
1 TAATTTTACACAAAGAGTATTTCGATAATTTTACAAATCCGGGGTGTTTCGGTAATTTTACAAAT
* *
30624608 CGAGGGTATTTTAG
66 CGAGGGTATTTCAA
30624622 TAATTT
1 TAATTT
30624628 CTCTTTATTA
Statistics
Matches: 132, Mismatches: 22, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
74 49 0.37
75 3 0.02
77 2 0.02
78 1 0.01
79 3 0.02
80 6 0.05
81 68 0.52
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (79 bp):
TAATTTTACACAAAGAGTATTTCGATAATTTTACAAATCCGGGGTGTTTCGGTAATTTTACAAAT
CGAGGGTATTTCAA
Found at i:30624477 original size:27 final size:27
Alignment explanation
Indices: 30624404--30624618 Score: 230
Period size: 27 Copynumber: 8.2 Consensus size: 27
30624394 CACTACAAGA
30624404 GTATTTCGATAATTTTACAAATCCG-GG
1 GTATTTCGATAATTTTACAAAT-CGAGG
* *
30624431 GTGTTTCGGTAATTTTACAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
*
30624458 GTATTTCGATAATTTTACAAATTGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* * * *
30624485 GTGTTTCGGTAATTTTAAAAATTGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* *
30624512 GTGTTTCGATAATTTTACAAATCAAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* * *
30624539 GTGTTTCAATAATTTCACAAATC----
1 GTATTTCGATAATTTTACAAATCGAGG
* *
30624562 G-A--TCGATAATTTCACAAATCGGGG
1 GTATTTCGATAATTTTACAAATCGAGG
*
30624586 GTATTTCGGTAATTTTACAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
30624613 GTATTT
1 GTATTT
30624619 TAGTAATTTC
Statistics
Matches: 161, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
20 17 0.11
23 1 0.01
24 1 0.01
25 1 0.01
26 2 0.01
27 139 0.86
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GTATTTCGATAATTTTACAAATCGAGG
Found at i:30624599 original size:47 final size:47
Alignment explanation
Indices: 30624517--30624610 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
30624507 TGAGGGTGTT
* *
30624517 TCGATAATTTTACAAATCAAGGGTGTTTCAATAATTTCACAAATCGA
1 TCGATAATTTCACAAATCAAGGGTATTTCAATAATTTCACAAATCGA
** ** *
30624564 TCGATAATTTCACAAATCGGGGGTATTTCGGTAATTTTACAAATCGA
1 TCGATAATTTCACAAATCAAGGGTATTTCAATAATTTCACAAATCGA
30624611 GGGTATTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (47 bp):
TCGATAATTTCACAAATCAAGGGTATTTCAATAATTTCACAAATCGA
Found at i:30624624 original size:27 final size:27
Alignment explanation
Indices: 30624568--30624628 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
30624558 AATCGATCGA
* *
30624568 TAATTTCACAAATCGGGGGTATTTCGG
1 TAATTTCACAAATCGAGGGTATTTCAG
* *
30624595 TAATTTTACAAATCGAGGGTATTTTAG
1 TAATTTCACAAATCGAGGGTATTTCAG
30624622 TAATTTC
1 TAATTTC
30624629 TCTTTATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTTCACAAATCGAGGGTATTTCAG
Found at i:30631008 original size:17 final size:18
Alignment explanation
Indices: 30630986--30631019 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30630976 TAAAGCATAC
*
30630986 AGAAAGA-CAGAATCGTG
1 AGAAAGATCAAAATCGTG
30631003 AGAAAGATCAAAATCGT
1 AGAAAGATCAAAATCGT
30631020 TTTAGGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.12, G:0.24, T:0.15
Consensus pattern (18 bp):
AGAAAGATCAAAATCGTG
Found at i:30634906 original size:127 final size:127
Alignment explanation
Indices: 30634680--30634930 Score: 484
Period size: 127 Copynumber: 2.0 Consensus size: 127
30634670 AATCATGGCA
30634680 GAGAGGAAGCTACTTGGGAGCCAGAAGTGGCGATGCGTCAACAATATCCTCATTTGTTTGATTCA
1 GAGAGGAAGCTACTTGGGAGCCAGAAGTGGCGATGCGTCAACAATATCCTCATTTGTTTGATTCA
* *
30634745 GGTAAAATTTTGAGGATGAACTTTCTTTAAGGAGGGTAGAGTTGTAACGCCCCAATTTTTGG
66 GGTAAAATTTTGAGGACGAACTTTCTTTAAGGAGGGTAGAGTTGTAACACCCCAATTTTTGG
30634807 GAGAGGAAGCTACTTGGGAGCCAGAAGTGGCGATGCGTCAACAATATCCTCATTTGTTTGATTCA
1 GAGAGGAAGCTACTTGGGAGCCAGAAGTGGCGATGCGTCAACAATATCCTCATTTGTTTGATTCA
30634872 GGTAAAATTTTGAGGACGAACTTTCTTTAAGGAGGGTAGAGTTGTAACACCCCAATTTT
66 GGTAAAATTTTGAGGACGAACTTTCTTTAAGGAGGGTAGAGTTGTAACACCCCAATTTT
30634931 CGGGTTTTCT
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 122 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (127 bp):
GAGAGGAAGCTACTTGGGAGCCAGAAGTGGCGATGCGTCAACAATATCCTCATTTGTTTGATTCA
GGTAAAATTTTGAGGACGAACTTTCTTTAAGGAGGGTAGAGTTGTAACACCCCAATTTTTGG
Found at i:30636469 original size:27 final size:26
Alignment explanation
Indices: 30636425--30636475 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
30636415 CTCGCTGCAA
*
30636425 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
30636452 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
30636476 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:30639567 original size:12 final size:13
Alignment explanation
Indices: 30639544--30639569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30639534 GTGTCACATT
30639544 AAAAAACTTTTTC
1 AAAAAACTTTTTC
30639557 AAAAAACTTTTTC
1 AAAAAACTTTTTC
30639570 TTATTAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAAACTTTTTC
Found at i:30640970 original size:27 final size:27
Alignment explanation
Indices: 30640932--30641018 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
30640922 CAAACCAGTC
* *
30640932 ATTTTACCCTACAGGGGTATTTCGGTA
1 ATTTTACACTACAGGGGTATTTCGATA
*
30640959 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAGGGGTATTTCGATA
* *
30640986 ATTTTACA-AATCGGGGGTATTTCGATA
1 ATTTTACACTA-CAGGGGTATTTCGATA
30641013 ATTTTA
1 ATTTTA
30641019 TAAATCGGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.02
27 52 0.98
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAGGGGTATTTCGATA
Found at i:30641023 original size:27 final size:27
Alignment explanation
Indices: 30640945--30641054 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
30640935 TTACCCTACA
* * *
30640945 GGGGTATTTCGGTAATTTTAC-ACTACA
1 GGGGTATTTCGATAATTTTACAAAT-CG
*
30640972 AGGGTATTTCGATAATTTTACAAATCG
1 GGGGTATTTCGATAATTTTACAAATCG
*
30640999 GGGGTATTTCGATAATTTTATAAATCG
1 GGGGTATTTCGATAATTTTACAAATCG
* * *
30641026 GGGGTGTTT-TAGTAATTTTACAAACCG
1 GGGGTATTTCGA-TAATTTTACAAATCG
30641053 GG
1 GG
30641055 TACATTTCAG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 68 0.96
28 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (27 bp):
GGGGTATTTCGATAATTTTACAAATCG
Found at i:30641314 original size:17 final size:18
Alignment explanation
Indices: 30641292--30641331 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
30641282 TCCGTATGGG
30641292 GCCCACAAG-CCCATTGA
1 GCCCACAAGACCCATTGA
* *
30641309 GCCCACACGACCCATTTA
1 GCCCACAAGACCCATTGA
30641327 GCCCA
1 GCCCA
30641332 ACGAGGCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.28, C:0.45, G:0.15, T:0.12
Consensus pattern (18 bp):
GCCCACAAGACCCATTGA
Found at i:30641324 original size:18 final size:18
Alignment explanation
Indices: 30641292--30641335 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
30641282 TCCGTATGGG
*
30641292 GCCCACAAG-CCCATTGA
1 GCCCACACGACCCATTGA
*
30641309 GCCCACACGACCCATTTA
1 GCCCACACGACCCATTGA
30641327 GCCCA-ACGA
1 GCCCACACGA
30641336 GGCCCAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.30, C:0.43, G:0.16, T:0.11
Consensus pattern (18 bp):
GCCCACACGACCCATTGA
Found at i:30644746 original size:12 final size:12
Alignment explanation
Indices: 30644729--30644755 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30644719 TTTTCAACTA
30644729 AATGAATAAAAG
1 AATGAATAAAAG
30644741 AATGAATAAAAG
1 AATGAATAAAAG
30644753 AAT
1 AAT
30644756 AAAGGGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.19
Consensus pattern (12 bp):
AATGAATAAAAG
Found at i:30645338 original size:38 final size:38
Alignment explanation
Indices: 30645287--30645429 Score: 164
Period size: 39 Copynumber: 3.7 Consensus size: 38
30645277 AATGATGAAG
* *
30645287 TATATCCAGACTTAAGGTCCAG-AGGCTATGTGTTGGAA
1 TATATCCGGACTTAAGGTCC-GCAGGCTATGTGCTGGAA
30645325 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
* * *
30645363 TTATAACCGGACTTATGGTCCGCAGGCTACGTGCTGGAAA
1 -TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGG-AA
* * *
30645403 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAGGT-CCGCAGGCT
30645430 TCGAGCTGGT
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
37 1 0.01
38 38 0.42
39 50 0.55
40 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (38 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
Found at i:30645438 original size:78 final size:77
Alignment explanation
Indices: 30645295--30645445 Score: 173
Period size: 78 Copynumber: 1.9 Consensus size: 77
30645285 AGTATATCCA
* * * *
30645295 GACTTAAGGTCCAGAGGCTATGTGTTGGAATATATCCGGACTTAAGGTCCGCAGGCTATGTGCTG
1 GACTTAAGGTCCAGAGGCTACGTGCTGGAATATATCCGGACTTAAAGTCCGCAGGCTATGAGCTG
30645360 GAATTATAACCG
66 GAATTATAACCG
* * *
30645372 GACTTATGGTCC-GCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGGCT-TCGA
1 GACTTAAGGTCCAG-AGGCTACGTGCTGG-AATATATCCGGACTTAAAGT-CCGCAGGCTAT-GA
*
30645434 GCTGGTATTATA
62 GCTGGAATTATA
30645446 CTGGGTTTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
76 1 0.02
77 29 0.47
78 32 0.52
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (77 bp):
GACTTAAGGTCCAGAGGCTACGTGCTGGAATATATCCGGACTTAAAGTCCGCAGGCTATGAGCTG
GAATTATAACCG
Found at i:30647975 original size:46 final size:46
Alignment explanation
Indices: 30647908--30648079 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
30647898 AACCCGCCCC
* *
30647908 TAAGTGAACTCGGAGTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
30647954 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
30648002 TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
30648047 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
30648080 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 57 0.56
47 26 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:30648021 original size:93 final size:93
Alignment explanation
Indices: 30647913--30648083 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
30647903 GCCCCTAAGT
* * *
30647913 GAACTCGGAGTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
30647978 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
30648006 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
30648071 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30648084 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:30648536 original size:30 final size:30
Alignment explanation
Indices: 30648502--30648561 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30648492 ATTTAATACG
30648502 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
30648532 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
30648562 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:30670622 original size:40 final size:40
Alignment explanation
Indices: 30670522--30670773 Score: 323
Period size: 40 Copynumber: 6.3 Consensus size: 40
30670512 GCTCCTCGTT
* * * * *
30670522 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGAATTT-GTATCTCGCA
* ** *
30670562 C-AATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTT-GTATCTCGCA
* *
30670601 CGAATGCCTTCGGGACTTAACCCGG-TTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTT-GTATCTCGCA
*
30670641 CAAAGGCCTTCGGGACTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTTGTATCTCGCA
*
30670681 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTTGTATCTCGCA
*
30670721 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTTGTATCTCGCA
30670761 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30670774 ATCTTAGTCC
Statistics
Matches: 195, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 34 0.17
40 158 0.81
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTTGTATCTCGCA
Found at i:30670786 original size:80 final size:80
Alignment explanation
Indices: 30670522--30670826 Score: 311
Period size: 80 Copynumber: 3.8 Consensus size: 80
30670512 GCTCCTCGTT
* * * * * *
30670522 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCG
1 CAAATGCCTTC-GGACTTAACCCGGAATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCG
** *
30670585 G-ATTTAACAACTCGCA
65 GAATTT-GTATCTCGCA
* * *
30670601 CGAATGCCTTCGGGACTTAACCCGG-TTTTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAACCCGGAATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCG
30670665 GAATTTGTATCTCGCA
65 GAATTTGTATCTCGCA
* *
30670681 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGGGCTTAACCCG
1 CAAATGCCTTC-GGACTTAACCCGGAATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCG
30670745 GAATTTGTATCTCGCA
65 GAATTTGTATCTCGCA
** * * * *
30670761 CAAATGCCTTCGGATCTTAGTCCGG-ATATATTCA-CTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGA-CTTAACCCGGAATTTAGT-ATC-TCGCACAAATGCCTTCGGGACTTAACC
30670823 CGGA
63 CGGA
30670827 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
79 41 0.21
80 139 0.71
81 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAACCCGGAATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTTGTATCTCGCA
Found at i:30670810 original size:120 final size:120
Alignment explanation
Indices: 30670560--30670826 Score: 303
Period size: 120 Copynumber: 2.2 Consensus size: 120
30670550 TAGTAACTCA
* * *
30670560 CACAATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCC
1 CACAAAGCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACCC
* * *
30670624 GGTTTTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTTGTATCTCG
66 GGATTTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTTGCATCTAG
* ** * *
30670679 CACAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGGGCTTAACC
1 CACAAA-GCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACC
* **
30670743 CGGAATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATT-CA-CTTAG
65 CGG-ATTTAGTATCTCGCACAAAGGCCTTCGGGA-CTTAACCCGGA-AT-TTGCATC-TAG
*
30670800 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAAAGCCTTCGGGACTTAACCCGGA
30670827 CAGCATTCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
119 8 0.06
120 97 0.78
121 18 0.14
122 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (120 bp):
CACAAAGCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACCC
GGATTTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTTGCATCTAG
Found at i:30670835 original size:41 final size:41
Alignment explanation
Indices: 30670758--30670835 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
30670748 TTTGTATCTC
* * *
30670758 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
30670799 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
30670836 AATAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:30672490 original size:44 final size:44
Alignment explanation
Indices: 30672367--30672901 Score: 331
Period size: 44 Copynumber: 11.9 Consensus size: 44
30672357 GAAGTTATAG
* * ** *
30672367 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTA-CAA
* ** * *
30672412 ATCGTATCTCTTTAAAGTTACAGTAGATGT-GATTAAAGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGA-GTAGATTAAAGCTACAA
* * * * * * * *
30672456 ACCTCATGTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTATAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
* * * * * *
30672500 ATCTTATCTCCCTAAAGCTACAGTGGAGTAGA-TATAAGATAGAAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTA-AAGCTA-CAA
** * *
30672545 ATCTTATCTATCTAAAGTTGCAGTAGAGTAGATTAAAGCTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
* ** * * * * *
30672589 ACCTTATCTCTTTGAAGTTGCAATAGAGTAGGTTGAAGTTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
* * *
30672633 ATTTTATCTCCCTGAAGTTGCAGTGGAGTAGATCT--AGTATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGAT-TAAAG-CTA-CAA
*
30672678 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
* * * * * * * **
30672722 GTCTCATCTCCTTGAAGTTGCAGTGGAGCAGACTGAATATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTA-CAA
* * ** * *
30672767 ATCTCATCTCCTTGAAGTTGCAACAGAGCAAATTAAAGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
* * *
30672811 GATAGCAAATTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACTA
1 -AT--C-----TTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
* * * * *
30672863 ATCTTATCTCCCTGAAATTGTAATGGAGCAGATTAAAGC
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGC
30672902 GAACTAATCC
Statistics
Matches: 379, Mismatches: 92, Indels: 39
0.74 0.18 0.08
Matches are distributed among these distances:
43 5 0.01
44 197 0.52
45 135 0.36
46 6 0.02
47 1 0.00
49 1 0.00
51 2 0.01
52 32 0.08
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
Found at i:30672591 original size:133 final size:133
Alignment explanation
Indices: 30672348--30672758 Score: 531
Period size: 133 Copynumber: 3.1 Consensus size: 133
30672338 ACTTGTAGTG
* *
30672348 GAGCAGACTGAAGTTATAGATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATAGCAAA
1 GAGCAGATTGAAGTTATAGATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCTAAGATAGCAAA
* * * * *
30672413 TCGTATCTCTTTAAAGTTACAGTAGATGT-GATTAAAGCTACAAACCTCATGTCTCTGAAGTTGC
66 TCTTATCTCTCTAAAGTTGCAGTAGA-GTAGATTAAAGCTATAAACCTCATCTCTCTGAAGTTGC
30672477 AGTA
130 AGTA
* * * * *
30672481 GAGCAGATTAAAGTTATAGATCTTATCTCCCTAAAGCTACAGTGGAGTAGATATAAGATAGAAAA
1 GAGCAGATTGAAGTTATAGATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCTAAGATAGCAAA
* * *
30672546 TCTTATCTATCTAAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCTTTGAAGTTGCA
66 TCTTATCTCTCTAAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTCATCTCTCTGAAGTTGCA
*
30672611 ATA
131 GTA
* * * * *
30672614 GAGTAGGTTGAAGTTATAAATTTTATCTCCCTGAAGTTGCAGTGGAGTAGATCT-AGTATAGCAA
1 GAGCAGATTGAAGTTATAGATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCTAAG-ATAGCAA
* * **
30672678 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAGTCTCATCTC-CTTGAAGTTG
65 ATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTCATCTCTC-TGAAGTTG
*
30672742 CAGTG
129 CAGTA
*
30672747 GAGCAGACTGAA
1 GAGCAGATTGAA
30672759 TATAGCAAAT
Statistics
Matches: 237, Mismatches: 38, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
132 4 0.02
133 233 0.98
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (133 bp):
GAGCAGATTGAAGTTATAGATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCTAAGATAGCAAA
TCTTATCTCTCTAAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTCATCTCTCTGAAGTTGCA
GTA
Found at i:30672699 original size:89 final size:89
Alignment explanation
Indices: 30672362--30672901 Score: 297
Period size: 89 Copynumber: 6.0 Consensus size: 89
30672352 AGACTGAAGT
* * * * * * * *
30672362 TATAGATCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-TCGAAGATAGCAAATCGTATCTCTTTA
1 TATAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAATATAGCAAATCTTATCTCCTTG
* *
30672426 AAGTTACAGTAGATGT-GATTAAAGC
65 AAGTTGCAATAGA-GTAGATTAAAGC
* * * * * * * *
30672451 TACAAACCTCATGTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTATAG---ATCTTATCTCCCT
1 TATAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA--TATAGCAAATCTTATCTCCTT
* * * * * *
30672513 AAAGCTACAGTGGAGTAGA-TATAAGA
64 GAAGTTGCAATAGAGTAGATTA-AAGC
* * ** * * * * * ** * * *
30672539 TAGAAAATCTTATCTATCTAAAGTTGCAGTAGAGTAGATTAAAGCTA-TAAACCTTATCTCTTTG
1 TA-TAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTTATCTCCTTG
* * *
30672603 AAGTTGCAATAGAGTAGGTTGAAGT
65 AAGTTGCAATAGAGTAGATTAAAGC
* * * * *
30672628 TATAAATTTTATCTCCCTGAAGTTGCAGTGGAGTAGATCT-AGTATAGCAAATCTTATCTCCCTG
1 TATAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAATATAGCAAATCTTATCTCCTTG
*
30672692 AAGTTGCAGTAGAGTAGATTAAAGC
65 AAGTTGCAATAGAGTAGATTAAAGC
* * *
30672717 TATAAGTCTCATCTCCTTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTCATCTCCTTGA
1 TATAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTTATCTCCTTGA
* * *
30672782 AGTTGCAACAGAGCAAATTAAAGC
66 AGTTGCAATAGAGTAGATTAAAGC
* * * * ** *
30672806 TACAAGATAGCAAATTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA-CTAATCTTAT
1 T-----AT---AAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTTAT
* * * * *
30672870 CTCCCTGAAATTGTAATGGAGCAGATTAAAGC
58 CTCCTTGAAGTTGCAATAGAGTAGATTAAAGC
30672902 GAACTAATCC
Statistics
Matches: 347, Mismatches: 83, Indels: 35
0.75 0.18 0.08
Matches are distributed among these distances:
87 6 0.02
88 63 0.18
89 201 0.58
90 2 0.01
91 4 0.01
94 2 0.01
96 34 0.10
97 35 0.10
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (89 bp):
TATAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTTATCTCCTTGA
AGTTGCAATAGAGTAGATTAAAGC
Found at i:30672796 original size:45 final size:45
Alignment explanation
Indices: 30672638--30672788 Score: 153
Period size: 45 Copynumber: 3.4 Consensus size: 45
30672628 TATAAATTTT
* * * * *
30672638 ATCTCCCTGAAGTTGCAGTGGAGTAGATCT-AGTATAGCAAATCTT
1 ATCTCCTTGAAGTTGCAGTAGAGCAGA-CTAAATATAGCAAATCTC
* * * ** * *
30672683 ATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTA-TAAGTCTC
1 ATCTCCTTGAAGTTGCAGTAGAGCAGACTAAATATAGCAAATCTC
* *
30672727 ATCTCCTTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTC
1 ATCTCCTTGAAGTTGCAGTAGAGCAGACTAAATATAGCAAATCTC
30672772 ATCTCCTTGAAGTTGCA
1 ATCTCCTTGAAGTTGCA
30672789 ACAGAGCAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
44 35 0.40
45 52 0.60
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (45 bp):
ATCTCCTTGAAGTTGCAGTAGAGCAGACTAAATATAGCAAATCTC
Found at i:30672925 original size:141 final size:141
Alignment explanation
Indices: 30672671--30672930 Score: 337
Period size: 141 Copynumber: 1.8 Consensus size: 141
30672661 TAGATCTAGT
*
30672671 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAGTCTCATCTCCTTG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAGTCTCATCTCCCTG
* * * * * *
30672736 AAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTCATCTCCTTGAAGTTGCAACAGAGCAAATT
66 AAATTGCAATGGAGCAGACTAAAGAGAACAAATCTCATCTCCTTGAAGTTGCAACAGAGCAAATT
30672801 AAAGCTACAAG
131 AAAGCTACAAG
* * * *
30672812 ATAGCAAATTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACTAA-TCTTATCTCCCT
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTA-TAAGTCTCATCTCCCT
* * * *
30672876 GAAATTGTAATGGAGCAGATTAAAGCGAACTAATC-CAAT-TCCTCTGAAGTTGCAA
65 GAAATTGCAATGGAGCAGACTAAAGAGAACAAATCTC-ATCTCCT-TGAAGTTGCAA
30672931 TAGGCCGGAT
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
140 5 0.05
141 93 0.92
142 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (141 bp):
ATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAGTCTCATCTCCCTG
AAATTGCAATGGAGCAGACTAAAGAGAACAAATCTCATCTCCTTGAAGTTGCAACAGAGCAAATT
AAAGCTACAAG
Found at i:30674374 original size:48 final size:47
Alignment explanation
Indices: 30674285--30674737 Score: 238
Period size: 47 Copynumber: 9.7 Consensus size: 47
30674275 TGTGAGCTAG
*
30674285 TGTAAGACATGTCTGGGACAT-GCATCGGCCACATT---ATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGGCATCGG---CATTGAGACGAGAGCCAA
* * * *
30674331 TGTAAGACCATGTATGGGATATGGCATCGGCATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCCAA
* *
30674379 TGTAAGACATGTCTGGGACAT-GCATCGGCCTCT-AGACGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGGCATCGGCAT-TGAGACG-AGAGCCAA
* * *
30674425 TGTAAGACTATGTCCGGGGCATGGCATCGACATTGAGACGAGAG-CAA
1 TGTAAGAC-ATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCCAA
* * * * * * *
30674472 GTGTAAGACATGTCTAGGG-CAT-GCATTGGCCTCGAGA-TATATGCTAG
1 -TGTAAGACATGTCT-GGGACATGGCATCGGCATTGAGACGAGA-GCCAA
* * * * * *
30674519 TGTAAGACCATGTTTGGGACATCGCATTGGCATTAAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCCAA
* * * * * *
30674567 TGTAAGACATGTTTAGGACAT-GCATCGGCCTCGAGATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACG-AGAGCCAA
* * * * * * * *
30674613 TGTAAAACATGTCTGGGACAT-GCACCGTGTA-CGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGGCATCG-GCATTGAGACGAGAGCCAA
* * * ** * *
30674659 TGTAAGACCGTGTCTGGAACATGTCATCAAC-TTGAGA-TATGAGCCAG
1 TGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGACGA-GAGCCAA
*
30674706 TGTAAGATCGTGTCTGGGACATGGCATCGGCA
1 TGTAAGA-CATGTCTGGGACATGGCATCGGCA
30674738 CCTTACCCAT
Statistics
Matches: 320, Mismatches: 60, Indels: 52
0.74 0.14 0.12
Matches are distributed among these distances:
45 7 0.02
46 115 0.36
47 121 0.38
48 75 0.23
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCCAA
Found at i:30674427 original size:46 final size:45
Alignment explanation
Indices: 30674283--30674636 Score: 263
Period size: 46 Copynumber: 7.6 Consensus size: 45
30674273 TTTGTGAGCT
*
30674283 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-G-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC--TA-GACGAAGCC
* * * * *
30674329 AATGTAAGACCATGTATGGGATATGGCATCGGCAT-TGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCT-AGACGA-AGCC
30674377 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGACG-AAGCC
* * * * *
30674423 AGTGTAAGACTATGTCCGGGGCATGGCATCGACAT-TGAGACGAGAGCA
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCT-AGACGA-AGCC
* * * *
30674471 AGTGTAAGACATGTCTAGGG-CATGCATTGGCCTCGAGA-TATATGCT
1 AGTGTAAGACATGTCT-GGGACATGCATCGGCCTCTAGACGA-A-GCC
* * * *
30674517 AGTGTAAGACCATGTTTGGGACATCGCATTGGCAT-TAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCT-AGACGA-AGCC
* * * *
30674565 AGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGACG-AAGCC
*
30674611 AGTGTAAAACATGTCTGGGACATGCA
1 AGTGTAAGACATGTCTGGGACATGCA
30674637 CCGTGTACGA
Statistics
Matches: 248, Mismatches: 38, Indels: 44
0.75 0.12 0.13
Matches are distributed among these distances:
45 5 0.02
46 99 0.40
47 70 0.28
48 72 0.29
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGACGAAGCC
Found at i:30674449 original size:94 final size:94
Alignment explanation
Indices: 30674278--30674737 Score: 468
Period size: 94 Copynumber: 4.9 Consensus size: 94
30674268 ATTTTTTTGT
* * *
30674278 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCCAATGTAAGACCA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCCAGTGTAAGACCA
* *
30674341 TGTATGGGATATGGCATCGGCATTGAGACGA
64 TGTCTGGGACATGGCATCGGCATTGAGACGA
* * *
30674372 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTAGACGTAAGCCAGTGTAAGACTATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACCATG
* * *
30674437 TCCGGGGCATGGCATCGACATTGAGACGA
66 TCTGGGACATGGCATCGGCATTGAGACGA
* * * * *
30674466 GAGCAAGTGTAAGACATGTCTAGGG-CATGCATTGGCCTCGAGATATATGCTAGTGTAAGACCAT
1 GAGCTAGTGTAAGACATGTCT-GGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACCAT
* * * *
30674530 GTTTGGGACATCGCATTGGCATTAAGACGA
65 GTCTGGGACATGGCATCGGCATTGAGACGA
* * *
30674560 GAGCTAGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAA-AACATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACCATG
* * * *
30674624 TCTGGGACAT-GCACCGTGTA-CGAGATGA
66 TCTGGGACATGGCATCG-GCATTGAGACGA
* * * ** * * * *
30674652 TAG-TCAGTGTAAGACCGTGTCTGGAACATGTCATC-AACTTGAGATATGAGCCAGTGTAAGATC
1 GAGCT-AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCGAGATGTAAGCCAGTGTAAGACC
*
30674715 GTGTCTGGGACATGGCATCGGCA
63 ATGTCTGGGACATGGCATCGGCA
30674738 CCTTACCCAT
Statistics
Matches: 302, Mismatches: 54, Indels: 20
0.80 0.14 0.05
Matches are distributed among these distances:
91 1 0.00
92 20 0.07
93 48 0.16
94 223 0.74
95 10 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCATTGAGACGA
Found at i:30675739 original size:30 final size:28
Alignment explanation
Indices: 30675685--30675740 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
30675675 ACACGGGCTA
*
30675685 GGACACGGGCATGTCATGGCCGTGTGAG
1 GGACACGGGCATGACATGGCCGTGTGAG
*
30675713 GGACACGGGCCATTGACATGGGCGTGTG
1 GGACACGGG-CA-TGACATGGCCGTGTG
30675741 TCTGGCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 2 0.08
30 13 0.54
ACGTcount: A:0.18, C:0.21, G:0.43, T:0.18
Consensus pattern (28 bp):
GGACACGGGCATGACATGGCCGTGTGAG
Found at i:30678464 original size:33 final size:36
Alignment explanation
Indices: 30678422--30678487 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 36
30678412 AACATTTTTT
30678422 AAAAATAAAA-AAAATCATTTTT-A-TAATAATGTC
1 AAAAATAAAACAAAATCATTTTTAACTAATAATGTC
* * *
30678455 AAAATTAAAACACAATTATTTTTAACTAATAAT
1 AAAAATAAAACAAAATCATTTTTAACTAATAAT
30678488 TATAATTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 9 0.33
34 10 0.37
35 1 0.04
36 7 0.26
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (36 bp):
AAAAATAAAACAAAATCATTTTTAACTAATAATGTC
Found at i:30679436 original size:15 final size:16
Alignment explanation
Indices: 30679411--30679440 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30679401 AGATTTAGTT
30679411 ATTATATTTTAATTTA
1 ATTATATTTTAATTTA
30679427 ATTA-ATTTTAATTT
1 ATTATATTTTAATTT
30679441 CTGTTATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTATATTTTAATTTA
Found at i:30682741 original size:86 final size:85
Alignment explanation
Indices: 30682601--30682805 Score: 220
Period size: 86 Copynumber: 2.4 Consensus size: 85
30682591 ATTTCCCTAG
* * * *
30682601 GTTTATCTAATGATGCACTAT-TTGTGCCAATATGATTGTTTCAATTTATCTGATGATGCACT-T
1 GTTTATCTGATGATGCACTATGTT-TGCCAGTATGATTGCTTCAATTAATCTGATGATGCACTAT
30682664 -TGCGTGCCAGTATGAAAT-CTTTA
65 GTGCGT--CAGTATG-AATGC-TTA
* * * * *
30682687 GTTTATTTGATGATGCACTATGTTTGCTAGTATGGTTGCTTCAGTTAATTTGATGATGCACTATG
1 GTTTATCTGATGATGCACTATGTTTGCCAGTATGATTGCTTCAATTAATCTGATGATGCACTATG
* *
30682752 TGCGTCAGTATGATTGCTTC
66 TGCGTCAGTATGAATGCTTA
*
30682772 GATTTATCTGATGATGCACTATGTGTGCCAGTAT
1 G-TTTATCTGATGATGCACTATGTTTGCCAGTAT
30682806 ATTTCCTTCG
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
85 5 0.05
86 87 0.87
87 3 0.03
88 5 0.05
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (85 bp):
GTTTATCTGATGATGCACTATGTTTGCCAGTATGATTGCTTCAATTAATCTGATGATGCACTATG
TGCGTCAGTATGAATGCTTA
Found at i:30682815 original size:43 final size:44
Alignment explanation
Indices: 30682580--30682831 Score: 198
Period size: 43 Copynumber: 5.9 Consensus size: 44
30682570 TAAGCACCTT
* * * * *
30682580 TGTGCCAGTAT-ATTTCCCTAGGTTTATCTAATGATGCACTATT
1 TGTGCCAGTATGATTTCCTTCGATTTATCTGATGATGCACTATG
* * *
30682623 TGTGCCAATATGATTGT--TTCAATTTATCTGATGATGCACTTTG
1 TGTGCCAGTATGATT-TCCTTCGATTTATCTGATGATGCACTATG
* ** * * *
30682666 CGTGCCAGTATGAAATCTTTAG-TTTATTTGATGATGCACTATG
1 TGTGCCAGTATGATTTCCTTCGATTTATCTGATGATGCACTATG
* * * * * *
30682709 TTTGCTAGTATG-GTTGCTTC-AGTTAATTTGATGATGCACTATG
1 TGTGCCAGTATGATTTCCTTCGA-TTTATCTGATGATGCACTATG
* * *
30682752 TGCGTCAGTATGA-TTGCTTCGATTTATCTGATGATGCACTATG
1 TGTGCCAGTATGATTTCCTTCGATTTATCTGATGATGCACTATG
*
30682795 TGTGCCAGTAT-ATTTCCTTCGGTTTAT-TCGATGATGC
1 TGTGCCAGTATGATTTCCTTCGATTTATCT-GATGATGC
30682832 GTTGTGTTGC
Statistics
Matches: 164, Mismatches: 35, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
42 6 0.04
43 151 0.92
44 6 0.04
45 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (44 bp):
TGTGCCAGTATGATTTCCTTCGATTTATCTGATGATGCACTATG
Found at i:30691855 original size:46 final size:46
Alignment explanation
Indices: 30691630--30691857 Score: 289
Period size: 46 Copynumber: 5.0 Consensus size: 46
30691620 TTATCTTTGA
* * * *
30691630 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
30691676 CATGTTGCCATGGAATCTTTCAACCATGGTCTTA-TCCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATGT
* * *
30691722 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
30691768 CACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
30691814 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACGCATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
30691858 TTCAGAGAGC
Statistics
Matches: 160, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
45 5 0.03
46 154 0.96
47 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:30701823 original size:44 final size:45
Alignment explanation
Indices: 30701746--30701850 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 45
30701736 CTCTAAGAAC
*
30701746 TCGCACACTTAGTG-CATAAATAATTAACTGAAGCTATAAT-GATA
1 TCGCACACTTAGTGCCATAAATAATTAACCGAAGCTAT-ATCGATA
* * *
30701790 TCGCACACTTAGTGCCAT-CAT-ATTAAACCGAAGCTATCTCGGTA
1 TCGCACACTTAGTGCCATAAATAATT-AACCGAAGCTATATCGATA
*
30701834 TCGCACAATTAGTGCCA
1 TCGCACACTTAGTGCCA
30701851 CTTATAGCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
43 4 0.08
44 46 0.87
45 3 0.06
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (45 bp):
TCGCACACTTAGTGCCATAAATAATTAACCGAAGCTATATCGATA
Found at i:30701920 original size:40 final size:41
Alignment explanation
Indices: 30701817--30701926 Score: 109
Period size: 40 Copynumber: 2.7 Consensus size: 41
30701807 TCATATTAAA
** *
30701817 CCGAAGCTATCTCGGTATCGCACAATTAGTGCCACTTATAG
1 CCGAAGCTATCTCGAAATCGCACAATAAGTGCCACTTATAG
* * * * *
30701858 CTGAAGCTAT-TCCAATTCGCACACTAAGTG-CTCTATATAG
1 CCGAAGCTATCTCGAAATCGCACAATAAGTGCCACT-TATAG
*
30701898 CCGAAGCTATCTCGAAAT-GCACATTAAGT
1 CCGAAGCTATCTCGAAATCGCACAATAAGT
30701927 ACCAAATATA
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
39 3 0.05
40 38 0.69
41 14 0.25
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (41 bp):
CCGAAGCTATCTCGAAATCGCACAATAAGTGCCACTTATAG
Found at i:30708555 original size:43 final size:43
Alignment explanation
Indices: 30708466--30708583 Score: 155
Period size: 43 Copynumber: 2.7 Consensus size: 43
30708456 GAGATATGTG
* * *
30708466 GCATCCGAGCTCGTGGAGAGGTCCAAGTTCATTATGGATGCAA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATACAA
*
30708509 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATACGA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATACAA
* * * * *
30708552 GCATTCAAGGTCATTGAGAGGTCTGAGTTCAT
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCAT
30708584 AATAGATGTG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATACAA
Found at i:30708644 original size:51 final size:51
Alignment explanation
Indices: 30708553--30708652 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 51
30708543 TGGATACGAG
*
30708553 CATTCAAGGTCATTGAGAGGTCTGAGTTCATAATAGATGTGGTT-CATGTAA
1 CATTCAAGCTCATTGAGAGGTCTGAGTTCATAATAGATGT-GTTACATGTAA
* * *
30708604 CATTCGAGCTCATTGAGAGGT-TCGGGTTCATTAT-GCATGTGTTACATGT
1 CATTCAAGCTCATTGAGAGGTCT-GAGTTCATAATAG-ATGTGTTACATGT
30708653 TATGTGGTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
50 5 0.12
51 37 0.88
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (51 bp):
CATTCAAGCTCATTGAGAGGTCTGAGTTCATAATAGATGTGTTACATGTAA
Found at i:30726153 original size:43 final size:44
Alignment explanation
Indices: 30726059--30726154 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 44
30726049 TGCACACATA
* *
30726059 ATGCATCATAGGGAAAGCCGAAGCAATTATACTAACATACGAGG
1 ATGCATCATCGGGAAAGCCGAAGCAATTATACTAAAATACGAGG
* *
30726103 -TGTATCATCGGGTAA-CTCGAAGCAATTATACTAAAATACG-GG
1 ATGCATCATCGGGAAAGC-CGAAGCAATTATACTAAAATACGAGG
30726145 ATGCATCATC
1 ATGCATCATC
30726155 AGACGAACCA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.07
43 42 0.93
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (44 bp):
ATGCATCATCGGGAAAGCCGAAGCAATTATACTAAAATACGAGG
Found at i:30726169 original size:43 final size:43
Alignment explanation
Indices: 30726079--30726177 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 43
30726069 GGGAAAGCCG
* * * *
30726079 AAGCAATTATACTAACATACGAGGTGTATCATCGGGTAACTCG
1 AAGCAATTATACTAAAATACGAGGTGCATCATCGCGTAACTCA
30726122 AAGCAATTATACTAAAATACG-GGATGCATCATCAGACG-AAC-CA
1 AAGCAATTATACTAAAATACGAGG-TGCATCATC-G-CGTAACTCA
*
30726165 AAGCAAATATACT
1 AAGCAATTATACT
30726178 GGCACACATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
42 2 0.04
43 41 0.85
44 4 0.08
45 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.22
Consensus pattern (43 bp):
AAGCAATTATACTAAAATACGAGGTGCATCATCGCGTAACTCA
Found at i:30726264 original size:42 final size:43
Alignment explanation
Indices: 30726217--30726317 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
30726207 AATCATGTTG
*
30726217 GCACATAAGTGCATCATT-GGATGTAAC-GAAGCAAA-TATACTA
1 GCACATAAGTGCATCATTCGGATAT-ACTGAAG-AAATTATACTA
*
30726259 TCACATAAGTGCATC-TTCGGATATACTGAAGAAATTATACTA
1 GCACATAAGTGCATCATTCGGATATACTGAAGAAATTATACTA
*
30726301 GCACATAAGTCCATCAT
1 GCACATAAGTGCATCAT
30726318 CAACTAAACT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
41 7 0.14
42 43 0.84
43 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (43 bp):
GCACATAAGTGCATCATTCGGATATACTGAAGAAATTATACTA
Found at i:30726329 original size:42 final size:42
Alignment explanation
Indices: 30726187--30726331 Score: 102
Period size: 42 Copynumber: 3.5 Consensus size: 42
30726177 TGGCACACAT
** * *
30726187 ATCATCGAATAAA-TCGAAGC-AATCATGTTGGCACATAAGTGC
1 ATCATCGAATAAACT-GAAGCAAAT-ATACTAGCACATAAGTCC
* * * * *
30726229 ATCATTGGATGTAAC-GAAGCAAATATACTATCACATAAGTGC
1 ATCATCGAAT-AAACTGAAGCAAATATACTAGCACATAAGTCC
* * *
30726271 ATCTTCGGATATACTGAAG-AAATTATACTAGCACATAAGTCC
1 ATCATCGAATAAACTGAAGCAAA-TATACTAGCACATAAGTCC
30726313 ATCATC-AACTAAACTGAAG
1 ATCATCGAA-TAAACTGAAG
30726332 TATAACTTGT
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
41 6 0.07
42 70 0.86
43 5 0.06
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (42 bp):
ATCATCGAATAAACTGAAGCAAATATACTAGCACATAAGTCC
Found at i:30738561 original size:132 final size:128
Alignment explanation
Indices: 30738307--30738653 Score: 381
Period size: 132 Copynumber: 2.6 Consensus size: 128
30738297 TATTCATTTA
* * * * * *
30738307 AAAATTCTTTAAAACGAAGGCGAGGTTTGATATTTGGCAATTCGAGGAATCGTGCCCTAACGTGT
1 AAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGA--AATCGTGCCCTAATGTGC
* * *
30738372 TGGGTTGCAATTTCCCGTTTGCTCAAAATGATCGAATATCCCTTCAAAATTTTGTTCATGTCTTT
64 TGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATCTCGTTCATGT-TTT
30738437 T
128 T
*
30738438 AGAAATCCTTTAAAACGAAGACGATGTTCGATATTTGACAATTCGCTAAATCGTGCCCTAATGTG
1 A-AAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCG--AAATCGTGCCCTAATGTG
* * * * *
30738503 CTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAATGTCCCTTTAGAATCTCGTTCATGTTTT
63 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATCTCGTTCATGTTTT
30738568 CT
128 -T
* * ** ** *
30738570 AAAAACTCTTTAAAATGAAGGTAATACTCGATGTTTGACAATTCGAGAATCGTGCCCT-ATCGTG
1 AAAATC-CTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGA-AATCGTGCCCTAAT-GTG
* *
30738634 CTAGGTTGCGATTTCCCGTT
63 CTGGGTTGCAATTTCCCGTT
30738654 CGTTCAATGA
Statistics
Matches: 183, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
130 3 0.02
131 39 0.21
132 140 0.77
134 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (128 bp):
AAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGAAATCGTGCCCTAATGTGCTG
GGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATCTCGTTCATGTTTTT
Found at i:30744350 original size:27 final size:26
Alignment explanation
Indices: 30744319--30744496 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
30744309 TAAATTGTAC
30744319 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
30744346 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
30744372 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
30744400 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
30744428 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
30744455 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
30744482 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30744497 GACTCGATAT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.79
28 26 0.20
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Done.