Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 88 of 352
Found at i:27728622 original size:33 final size:33
Alignment explanation
Indices: 27728585--27728662 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
27728575 TGGCCCTGTC
* * *
27728585 ATGGTCTTACACTCGTAG-TGTCATAACCCAGTT
1 ATGGTCTTACACTC-AAGATGCCATAACCCAGCT
*
27728618 ATGGTCTTATC-TTCAAGATGCCATAACCCAGCT
1 ATGGTCTTA-CACTCAAGATGCCATAACCCAGCT
27728651 ATGGTCTTACAC
1 ATGGTCTTACAC
27728663 ATATATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
32 3 0.08
33 33 0.89
34 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACTCAAGATGCCATAACCCAGCT
Found at i:27729527 original size:19 final size:19
Alignment explanation
Indices: 27729505--27729541 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
27729495 AAATATCAAG
27729505 AAAAGAGCAAGAATTGAAA
1 AAAAGAGCAAGAATTGAAA
27729524 AAAAGAGCAAGAATTGAA
1 AAAAGAGCAAGAATTGAA
27729542 CTCACATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.22, T:0.11
Consensus pattern (19 bp):
AAAAGAGCAAGAATTGAAA
Found at i:27738959 original size:14 final size:14
Alignment explanation
Indices: 27738940--27738976 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
27738930 AGCAGTTCCC
27738940 TGCCTCCTCCTCTG
1 TGCCTCCTCCTCTG
27738954 TGCCTCCT-CT-TG
1 TGCCTCCTCCTCTG
27738966 T-CCTCCTCCTC
1 TGCCTCCTCCTC
27738977 CAGGGTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.29
12 5 0.24
13 2 0.10
14 8 0.38
ACGTcount: A:0.00, C:0.51, G:0.11, T:0.38
Consensus pattern (14 bp):
TGCCTCCTCCTCTG
Found at i:27741648 original size:39 final size:39
Alignment explanation
Indices: 27741594--27741874 Score: 445
Period size: 39 Copynumber: 7.2 Consensus size: 39
27741584 GAAATGTGTA
27741594 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
27741633 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
27741672 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
27741711 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
27741750 TGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
27741789 TGGAAATATATCCGGGCTAAAGACCTGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
27741828 TGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
27741867 TGGTAATA
1 TGGAAATA
27741875 AAATTTTGGG
Statistics
Matches: 227, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 227 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:27745503 original size:21 final size:21
Alignment explanation
Indices: 27745465--27745562 Score: 97
Period size: 21 Copynumber: 4.7 Consensus size: 21
27745455 GTTCCTGCAC
** *
27745465 CACACGGGATTGTACCGCTAT
1 CACACGGGCGTGTGCCGCTAT
* *
27745486 CATACGGGCGTATGCCGCTAT
1 CACACGGGCGTGTGCCGCTAT
* *
27745507 CACATGGGCGTGTGCCACTAT
1 CACACGGGCGTGTGCCGCTAT
* *
27745528 CACACGGCCGTGTGCCTCTAT
1 CACACGGGCGTGTGCCGCTAT
* *
27745549 CACATGGTCGTGTG
1 CACACGGGCGTGTG
27745563 TTACCGTTCA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.18, C:0.30, G:0.28, T:0.24
Consensus pattern (21 bp):
CACACGGGCGTGTGCCGCTAT
Found at i:27745549 original size:42 final size:42
Alignment explanation
Indices: 27745482--27745562 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
27745472 GATTGTACCG
* *
27745482 CTATCATACGGGCGTATGCCGCTATCACATGGGCGTGTGCCA
1 CTATCACACGGCCGTATGCCGCTATCACATGGGCGTGTGCCA
* * *
27745524 CTATCACACGGCCGTGTGCCTCTATCACATGGTCGTGTG
1 CTATCACACGGCCGTATGCCGCTATCACATGGGCGTGTG
27745563 TTACCGTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.26
Consensus pattern (42 bp):
CTATCACACGGCCGTATGCCGCTATCACATGGGCGTGTGCCA
Found at i:27759040 original size:17 final size:17
Alignment explanation
Indices: 27759018--27759052 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
27759008 TATATTCGGT
27759018 TATATGATTAGCATATG
1 TATATGATTAGCATATG
*
27759035 TATATGATTAGCTTATG
1 TATATGATTAGCATATG
27759052 T
1 T
27759053 GTTTATGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (17 bp):
TATATGATTAGCATATG
Found at i:27766436 original size:18 final size:18
Alignment explanation
Indices: 27766407--27766456 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
27766397 TTCAAAATAT
27766407 AAAGACAAAATAAACATAA
1 AAAGA-AAAATAAACATAA
27766426 AAAGAAAAATAAACATAA
1 AAAGAAAAATAAACATAA
* *
27766444 AAATAAACATAAA
1 AAAGAAAAATAAA
27766457 GACAAATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (18 bp):
AAAGAAAAATAAACATAA
Found at i:27766443 original size:6 final size:6
Alignment explanation
Indices: 27766413--27766456 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
27766403 ATATAAAGAC
* * * *
27766413 AAAATA AACATA AAAAGA AAAATA AACATA AAAATA AACATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
27766457 GACAAATGGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:27771059 original size:33 final size:33
Alignment explanation
Indices: 27771022--27771096 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
27771012 AATGGTACAC
27771022 TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
1 TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
*
27771055 TTGAAAAGGTTATGTACACTTTGTGTGTACAAT
1 TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
27771088 TTGAAAAGG
1 TTGAAAAGG
27771097 CTATTGTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (33 bp):
TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
Found at i:27772020 original size:13 final size:13
Alignment explanation
Indices: 27772002--27772027 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27771992 GGCTCTTTCC
27772002 TTCCTTCGCTTTG
1 TTCCTTCGCTTTG
27772015 TTCCTTCGCTTTG
1 TTCCTTCGCTTTG
27772028 CTCTTTTGCT
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:0.00, C:0.31, G:0.15, T:0.54
Consensus pattern (13 bp):
TTCCTTCGCTTTG
Found at i:27777374 original size:47 final size:47
Alignment explanation
Indices: 27777323--27777784 Score: 800
Period size: 47 Copynumber: 9.7 Consensus size: 47
27777313 TTAGGATTCT
* * *
27777323 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
27777370 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
27777417 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
27777464 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
27777511 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
27777560 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
27777609 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
27777656 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
27777703 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
27777750 ACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
27777785 TCCCGAAGGG
Statistics
Matches: 402, Mismatches: 10, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 307 0.76
49 94 0.23
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:27777666 original size:239 final size:237
Alignment explanation
Indices: 27777344--27777784 Score: 828
Period size: 239 Copynumber: 1.9 Consensus size: 237
27777334 GTGAACATGC
27777344 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
27777409 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAA
* *
27777474 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
131 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATA-A-A
27777539 TGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTAT
194 TGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTAT
*
27777583 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
27777648 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAA
27777713 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATAAATG
131 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATAAATG
27777778 TGATAAG
196 TGATAAG
27777785 TCCCGAAGGG
Statistics
Matches: 198, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
237 10 0.05
238 1 0.01
239 187 0.94
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (237 bp):
ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAA
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATAAATG
TGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTAT
Found at i:27777959 original size:37 final size:37
Alignment explanation
Indices: 27777903--27777981 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27777893 CCGAACTCTA
* * *
27777903 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
27777940 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
27777977 AAGAC
1 AAGAC
27777982 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:27795903 original size:33 final size:34
Alignment explanation
Indices: 27795830--27795927 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 34
27795820 AGTTTACTGC
* *
27795830 TATGTACACCTTGTGTGTAAAACTTGAAAA-GGA
1 TATGTACACCTTGAGTGTACAACTTGAAAAGGGA
* * *
27795863 TACGTACACTTTGAGTGTACCACTTGAAAAGGGA
1 TATGTACACCTTGAGTGTACAACTTGAAAAGGGA
* * *
27795897 -ATGTACACCTCGAGTGTACGACTGGAAAAGG
1 TATGTACACCTTGAGTGTACAACTTGAAAAGG
27795928 TTACGTCCGT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 51 0.94
34 3 0.06
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (34 bp):
TATGTACACCTTGAGTGTACAACTTGAAAAGGGA
Found at i:27797631 original size:21 final size:21
Alignment explanation
Indices: 27797606--27797646 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27797596 CGGCAATTTC
27797606 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
27797627 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
27797647 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:27803445 original size:21 final size:21
Alignment explanation
Indices: 27803420--27803460 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27803410 CGACAATTTC
27803420 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
27803441 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
27803461 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:27809735 original size:46 final size:47
Alignment explanation
Indices: 27809548--27809744 Score: 158
Period size: 46 Copynumber: 4.2 Consensus size: 47
27809538 ATGCCGAGGC
* * *
27809548 CATGTCCCAAACATGGTCGTACACT-AGCTTACA-CGTC-AAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGA-CTTACATC-TCGAGGTCGATG
* * * * *
27809594 CGATGTCCCAGAAATGTTCTTACACTGACTTTAACATATCTGTGCT-GATG
1 C-ATGTCCCAGACATGGTCTTACACTGAC-TT-ACATCTC-GAGGTCGATG
* * *
27809644 CCATGTCCCATACATGGTCTTACACTGAC--ACATCTTGTA-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGACTTACATCTCG-AGGTCGATG
*
27809690 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGACTTACATCTCGAGGTCGATG
27809736 CATGTCCCA
1 CATGTCCCA
27809745 ATACACTAGC
Statistics
Matches: 118, Mismatches: 20, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
44 12 0.10
45 15 0.13
46 32 0.27
47 21 0.18
48 3 0.03
49 5 0.04
50 28 0.24
51 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGACTTACATCTCGAGGTCGATG
Found at i:27830774 original size:73 final size:75
Alignment explanation
Indices: 27830657--27830798 Score: 171
Period size: 73 Copynumber: 1.9 Consensus size: 75
27830647 TTTTGAGCAG
* * * * * *
27830657 ATATTATTTCATTCGTAATTATACTATGTAAATAATTACACTTAGACCCTTTTGTTCTTTGGA-C
1 ATATTATTTCATTCATAATCATACCATGCAAATAATTACACTTAGACCATTTCGTTCTTTGGATC
27830721 TTTCTCCCAA
66 TTTCTCCCAA
* ** **
27830731 ATATTA-TTCATTCATGATCATACCATGCAAATAATTATTCTTAGATTATTTCGTTCTTTGGATC
1 ATATTATTTCATTCATAATCATACCATGCAAATAATTACACTTAGACCATTTCGTTCTTTGGATC
27830795 TTTC
66 TTTC
27830799 CTTCGCCTCT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
73 45 0.80
74 11 0.20
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (75 bp):
ATATTATTTCATTCATAATCATACCATGCAAATAATTACACTTAGACCATTTCGTTCTTTGGATC
TTTCTCCCAA
Found at i:27831644 original size:181 final size:181
Alignment explanation
Indices: 27831340--27831702 Score: 690
Period size: 181 Copynumber: 2.0 Consensus size: 181
27831330 GAAAAGTATG
*
27831340 AATGTGTGTAGACTACAAAGATTTGAATCAAGCTAGCCCGAAAGATAATTTCACATTGCCTCATA
1 AATGTGTGTAGACTACAAAGATTTGAATCAAGCTAGCCCAAAAGATAATTTCACATTGCCTCATA
27831405 TAGACACCCTAGTGGACAGCACAGTGGATTACTCATTGTTCTCCTTCATGGATGGCTTTTCAAGA
66 TAGACACCCTAGTGGACAGCACAGTGGATTACTCATTGTTCTCCTTCATGGATGGCTTTTCAAGA
*
27831470 TACAATCAGATAAATATGCATCTTGAAGACATAGAGAGGACCACATTTGTA
131 TACAATCAGATAAATATGCATCTTGAAGACATAGAGAGGACCACATCTGTA
*
27831521 AATGTGTGTAGACTACAAAGATTTGAATCAAGCTAGCCCAAAAGATAATTTCCCATTGCCTCATA
1 AATGTGTGTAGACTACAAAGATTTGAATCAAGCTAGCCCAAAAGATAATTTCACATTGCCTCATA
*
27831586 TAGACACCCTAGTGGACAGCACAGTGGATTACTCATTGTTCTCTTTCATGGATGGCTTTTCAAGA
66 TAGACACCCTAGTGGACAGCACAGTGGATTACTCATTGTTCTCCTTCATGGATGGCTTTTCAAGA
27831651 TACAATCAGATAAATATGCATCTTGAAGACATAGAGAGGACCACATCTGTA
131 TACAATCAGATAAATATGCATCTTGAAGACATAGAGAGGACCACATCTGTA
27831702 A
1 A
27831703 CCATATGGGG
Statistics
Matches: 178, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
181 178 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (181 bp):
AATGTGTGTAGACTACAAAGATTTGAATCAAGCTAGCCCAAAAGATAATTTCACATTGCCTCATA
TAGACACCCTAGTGGACAGCACAGTGGATTACTCATTGTTCTCCTTCATGGATGGCTTTTCAAGA
TACAATCAGATAAATATGCATCTTGAAGACATAGAGAGGACCACATCTGTA
Found at i:27835722 original size:44 final size:44
Alignment explanation
Indices: 27835656--27836043 Score: 203
Period size: 44 Copynumber: 8.5 Consensus size: 44
27835646 TGGCGAATCG
* *
27835656 TATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCCATAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGTCT
**
27835700 TATCTCCCTGAAGTTGTGGTAGAACAGATTGAAGCCACAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGTCT
* * * ** *
27835744 TATCTCCCTGAAGTTGCAG-CGAAGCAGACTAAAGAAAGTGAA-TCT
1 TATCTCCCTGAAGTTGCAGTAGAA-CAGATTGAAGCCA--CAAGTCT
* * * *
27835789 TATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATCATGGCGAATCT
1 TATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGC--C--A-CA-----AGTCT
* * * * *
27835843 TATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGCCCCAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGTCT
* * * * * * * * **
27835887 TATCTCCC-AAGAGTTACAATGGAGCAAACTAAAGATAGCAAGTCT
1 TATCTCCCTGA-AGTTGCAGTAGAACAGATTGAAGCCA-CAAGTCT
* ** **
27835932 TATCTACCT-AATGTTGCAGTAGAGTAGATTGAAGATAGC-AGATCT
1 TATCTCCCTGAA-GTTGCAGTAGAACAGATTGAAGCCA-CAAG-TCT
* * * * *
27835977 TATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAACCATAA-TCCT
1 TATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGT-CT
*
27836021 TATCTCTCTGAAGTTGCAGTAGA
1 TATCTCCCTGAAGTTGCAGTAGA
27836044 GCAAGATAAA
Statistics
Matches: 269, Mismatches: 53, Indels: 44
0.73 0.14 0.12
Matches are distributed among these distances:
43 5 0.02
44 121 0.45
45 96 0.36
46 7 0.03
48 2 0.01
49 3 0.01
52 1 0.00
53 1 0.00
54 33 0.12
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGTCT
Found at i:27835961 original size:143 final size:143
Alignment explanation
Indices: 27835697--27835954 Score: 306
Period size: 143 Copynumber: 1.8 Consensus size: 143
27835687 AAGCCATAAG
*** * *
27835697 TCTTATCTCCCTGAAGTTGTGGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCAGAAGTTACA
* * * * * *
27835762 GCGAAGCAGACTAAAGAAAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
66 ACGAAGCAAACTAAAGAAAGTCAATCTTATCTACCTGAAGTTGCAGTAGAACAGATTAAAGCTAC
27835827 AAATCATGGCGAA
131 AAATCATGGCGAA
* * * *
27835840 TCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGCCCCAAGTCTTATCTCCCA-AGAGTTAC
1 TCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCAGA-AGTTAC
* * *
27835904 AATGGAGCAAACTAAAGATAG-CAAGTCTTATCTACCT-AATGTTGCAGTAGA
65 AACGAAGCAAACTAAAGAAAGTCAA-TCTTATCTACCTGAA-GTTGCAGTAGA
27835955 GTAGATTGAA
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
142 5 0.05
143 89 0.95
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (143 bp):
TCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCAGAAGTTACA
ACGAAGCAAACTAAAGAAAGTCAATCTTATCTACCTGAAGTTGCAGTAGAACAGATTAAAGCTAC
AAATCATGGCGAA
Found at i:27836046 original size:44 final size:45
Alignment explanation
Indices: 27835975--27836140 Score: 174
Period size: 45 Copynumber: 3.7 Consensus size: 45
27835965 GATAGCAGAT
* * *
27835975 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAA-CCATAATC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATACACAAAC
* * * **
27836019 CTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAAATACACAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGC-AGATTGAAATACACAAAC
* *
27836065 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAATTAC-CAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAA-TACACAAAC
* * * *
27836110 CTTATCTCCTTTAAGTTCTAGTGGAGTAGAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
27836141 CGAACCTGCA
Statistics
Matches: 99, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
44 24 0.24
45 43 0.43
46 32 0.32
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATACACAAAC
Found at i:27836078 original size:46 final size:46
Alignment explanation
Indices: 27835975--27836135 Score: 157
Period size: 46 Copynumber: 3.6 Consensus size: 46
27835965 GATAGCAGAT
** * * *
27835975 CTTATCTCCCTGAAGTTGTAGTGGAGC-AGATTGAAA-CCATAATC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
* * *
27836019 CTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAAATACACAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
* * * * *
27836065 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAATTAC-CAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
* * *
27836110 CTTATCTCCTTTAAGTTCTAGTGGAG
1 CTTATCTCCCTGAAGTTGTAGTGGAG
27836136 TAGATCGAAC
Statistics
Matches: 96, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
44 24 0.25
45 34 0.35
46 38 0.40
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (46 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
Found at i:27836126 original size:45 final size:44
Alignment explanation
Indices: 27835929--27836135 Score: 168
Period size: 45 Copynumber: 4.6 Consensus size: 44
27835919 AGATAGCAAG
* * * * * * *
27835929 TCTTATCTACCT-AATGTTGCAGTAGAGTAGATTGAAGATAGCAGA
1 TCTTATCTCCCTGAA-GTTGTAGTGGAGCAGGTTGAA-ATACCAAA
*
27835974 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTG-AA-ACCATAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAATACCA-AA
* * * * **
27836017 TCCTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAAATACACAAA
1 T-CTTATCTCCCTGAAGTTGTAGTGGAGC-AGGTTGAAATAC-CAAA
*
27836064 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAATTACCAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAA-TACCAAA
* * *
27836109 TCTTATCTCCTTTAAGTTCTAGTGGAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAG
27836136 TAGATCGAAC
Statistics
Matches: 132, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 25 0.19
45 64 0.48
46 31 0.23
47 4 0.03
48 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAATACCAAA
Found at i:27847023 original size:42 final size:42
Alignment explanation
Indices: 27846854--27847024 Score: 152
Period size: 42 Copynumber: 4.0 Consensus size: 42
27846844 CATAGGATTT
* * * *
27846854 TCATATGTGATTTCGTGTAAGACCACATTTGGGACGTTGGCA
1 TCATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * *
27846896 T--TGATTTGAAATTTACGTGTAAGACCATGTCTGGGACATCGACA
1 TCAT-ATTTG--A-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
* *
27846940 TCGTATTTGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCATATTTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* *
27846982 TCATATTTGATTACATGTAAGATCACGTCTGGGACGTTGGCA
1 TCATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
27847024 T
1 T
27847025 TGTATTAGTG
Statistics
Matches: 102, Mismatches: 17, Indels: 20
0.73 0.12 0.14
Matches are distributed among these distances:
40 1 0.01
41 5 0.05
42 61 0.60
43 3 0.03
44 26 0.25
45 5 0.05
46 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TCATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:27852124 original size:40 final size:40
Alignment explanation
Indices: 27852060--27852207 Score: 206
Period size: 40 Copynumber: 3.7 Consensus size: 40
27852050 AGTCAATGCC
* * * * *
27852060 TCGCACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
*
27852100 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
*
27852140 TCGCACACTAAGTGTCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
* * *
27852180 TCCCACACTAAGTGCCACAAATAGCCGA
1 TCGCACACTAAGTGCCATATATAGCCGA
27852208 TTTGTCATCG
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
Found at i:27858912 original size:17 final size:17
Alignment explanation
Indices: 27858884--27858917 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27858874 AATCGATTGG
27858884 TTGATACTCACTTATCTC
1 TTGATACTCACTT-TCTC
27858902 TTGAT-CTCACTTTCTC
1 TTGATACTCACTTTCTC
27858918 AACCAGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (17 bp):
TTGATACTCACTTTCTC
Found at i:27865296 original size:21 final size:21
Alignment explanation
Indices: 27865270--27865314 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27865260 AACATCAAAG
* *
27865270 ATGTTCATACTAATAATTAAA
1 ATGTTCACACTAAGAATTAAA
*
27865291 ATGTTCACACTAAGCATTAAA
1 ATGTTCACACTAAGAATTAAA
27865312 ATG
1 ATG
27865315 ATGTTGATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (21 bp):
ATGTTCACACTAAGAATTAAA
Found at i:27867781 original size:62 final size:62
Alignment explanation
Indices: 27867684--27867811 Score: 256
Period size: 62 Copynumber: 2.1 Consensus size: 62
27867674 TCTAAGCTTT
27867684 TTAAAAGTAAAGAAGCGTCAATCTGGATATAAAGAAAGAGATAAACAATCAATATCGGGTTA
1 TTAAAAGTAAAGAAGCGTCAATCTGGATATAAAGAAAGAGATAAACAATCAATATCGGGTTA
27867746 TTAAAAGTAAAGAAGCGTCAATCTGGATATAAAGAAAGAGATAAACAATCAATATCGGGTTA
1 TTAAAAGTAAAGAAGCGTCAATCTGGATATAAAGAAAGAGATAAACAATCAATATCGGGTTA
27867808 TTAA
1 TTAA
27867812 TGCAAATTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.23
Consensus pattern (62 bp):
TTAAAAGTAAAGAAGCGTCAATCTGGATATAAAGAAAGAGATAAACAATCAATATCGGGTTA
Found at i:27868908 original size:14 final size:12
Alignment explanation
Indices: 27868875--27868902 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27868865 ATATAAGTAT
27868875 TTTAATATTTCC
1 TTTAATATTTCC
27868887 TTTAATATTTCC
1 TTTAATATTTCC
27868899 TTTA
1 TTTA
27868903 TAATATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATATTTCC
Found at i:27884259 original size:42 final size:43
Alignment explanation
Indices: 27884181--27884323 Score: 139
Period size: 43 Copynumber: 3.4 Consensus size: 43
27884171 TACCTGAGTG
* * **
27884181 GTCTGGGACGTTGGCATCGAT-T-TGAGAACGTGTAAGACCAT
1 GTCTAGGACATTGGCATCGATATATGATTACGTGTAAGACCAT
** *
27884222 GTCTAGGACATTGGCATC-ATATATGATTTTGTGTAAGACCCT
1 GTCTAGGACATTGGCATCGATATATGATTACGTGTAAGACCAT
* * * * *
27884264 GTCTAGGACAGTGGCATCGATATTTTATTACATGTAAGACCTT
1 GTCTAGGACATTGGCATCGATATATGATTACGTGTAAGACCAT
* *
27884307 CTCTAGGACGTTGGCAT
1 GTCTAGGACATTGGCAT
27884324 TGTACGAGCT
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
40 2 0.02
41 17 0.21
42 31 0.38
43 32 0.39
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
GTCTAGGACATTGGCATCGATATATGATTACGTGTAAGACCAT
Found at i:27891590 original size:15 final size:15
Alignment explanation
Indices: 27891570--27891599 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27891560 ATTCACACCT
27891570 AGTTATCACATGTTA
1 AGTTATCACATGTTA
27891585 AGTTATCACATGTTA
1 AGTTATCACATGTTA
27891600 GTCATTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
AGTTATCACATGTTA
Found at i:27891878 original size:24 final size:24
Alignment explanation
Indices: 27891846--27891904 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
27891836 TAAGCTGATG
*
27891846 AACAATAAGCTCTATTGAGCTAAA
1 AACAATAAGCTCTATTGACCTAAA
*
27891870 AACAGTAAGCTCTATTGACCT--A
1 AACAATAAGCTCTATTGACCTAAA
27891892 AACAATAAGCTCT
1 AACAATAAGCTCT
27891905 TTCAAGCTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 13 0.41
24 19 0.59
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.25
Consensus pattern (24 bp):
AACAATAAGCTCTATTGACCTAAA
Found at i:27899361 original size:22 final size:22
Alignment explanation
Indices: 27899334--27899416 Score: 89
Period size: 22 Copynumber: 3.7 Consensus size: 22
27899324 CCTGAGCTGA
*
27899334 TGAACAGTAAGCTCTATTAAGC
1 TGAACAGTAAGCTCTATTGAGC
27899356 TGAACAGTAAGCTCT-TTCGAGC
1 TGAACAGTAAGCTCTATT-GAGC
* *
27899378 TGAA-ATTGTAAGCTCCAATGAGC
1 TGAACA--GTAAGCTCTATTGAGC
27899401 TGAAACAGTAAGCTCT
1 TG-AACAGTAAGCTCT
27899417 TACGAGCTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.06
22 22 0.43
23 22 0.43
24 3 0.06
25 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:27899392 original size:23 final size:23
Alignment explanation
Indices: 27899312--27899425 Score: 90
Period size: 23 Copynumber: 4.9 Consensus size: 23
27899302 GAGTCATGGT
* *
27899312 CAGTAAGCTCCTCCTGAGCTGATGAA
1 CAGTAAGCTCTTTC-GAGCTGA--AA
*
27899338 CAGTAAGCTCTATT-AAGCTG-AA
1 CAGTAAGCTCT-TTCGAGCTGAAA
27899360 CAGTAAGCTCTTTCGAGCTGAAA
1 CAGTAAGCTCTTTCGAGCTGAAA
** **
27899383 TTGTAAGCTCCAAT-GAGCTGAAA
1 CAGTAAGCT-CTTTCGAGCTGAAA
*
27899406 CAGTAAGCTCTTACGAGCTG
1 CAGTAAGCTCTTTCGAGCTG
27899426 TGGTGAGTCC
Statistics
Matches: 70, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
21 2 0.03
22 19 0.27
23 31 0.44
24 2 0.03
25 5 0.07
26 10 0.14
27 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (23 bp):
CAGTAAGCTCTTTCGAGCTGAAA
Found at i:27905647 original size:43 final size:43
Alignment explanation
Indices: 27905592--27905748 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 43
27905582 TACTGAGATG
* *
27905592 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATT
1 TGATTACATGTAAGACCATGTCTGGGACATTAGCATCGTTATT
* *
27905634 ATGATTACGTGTAAGACCATGTTTGGGACATTAGCATCGTTATT
1 -TGATTACATGTAAGACCATGTCTGGGACATTAGCATCGTTATT
* * * * * * *
27905678 TGATTTCATGTAAGACCCTATCTAGGA-ATAATGGCATCGATATG
1 TGATTACATGTAAGACCATGTCTGGGACAT--TAGCATCGTTATT
* * *
27905722 TGATAACATATAAGACCATATCTGGGA
1 TGATTACATGTAAGACCATGTCTGGGA
27905749 TATGGCATTG
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.02
43 55 0.59
44 36 0.39
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTAGCATCGTTATT
Found at i:27905978 original size:28 final size:28
Alignment explanation
Indices: 27905946--27906002 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
27905936 TATGTATAAG
27905946 TATGTTTCATGCCAAAATGTGTTTATTT
1 TATGTTTCATGCCAAAATGTGTTTATTT
*
27905974 TATGTTTCATTCCAAAATGTGTTTATTT
1 TATGTTTCATGCCAAAATGTGTTTATTT
27906002 T
1 T
27906003 TCTGTAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.53
Consensus pattern (28 bp):
TATGTTTCATGCCAAAATGTGTTTATTT
Found at i:27913794 original size:24 final size:23
Alignment explanation
Indices: 27913767--27913811 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
27913757 ATGTTGCCCT
27913767 GCTTC-AACTCAACAAACTCTTTAC
1 GCTTCTAA-TCAACAAA-TCTTTAC
*
27913791 GCTTCTGATCAACAAATCTTT
1 GCTTCTAATCAACAAATCTTT
27913812 CACTGATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 13 0.68
25 1 0.05
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (23 bp):
GCTTCTAATCAACAAATCTTTAC
Found at i:27920860 original size:42 final size:44
Alignment explanation
Indices: 27920803--27920904 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
27920793 CCACTATCCT
* ** *
27920803 AGACAGGGTCTTACACG-AAATCA-AA-TACAATGTCAATGTCCC
1 AGACATGGTCTTACACGTAAATCATAAGT-CAATACCAACGTCCC
* *
27920845 AGACATGGCCTTACACGTAAATCATAAGTCGATACCAACGTCCC
1 AGACATGGTCTTACACGTAAATCATAAGTCAATACCAACGTCCC
27920889 AGACATGGTCTTACAC
1 AGACATGGTCTTACAC
27920905 AAAAACACAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 15 0.30
43 6 0.12
44 28 0.56
45 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (44 bp):
AGACATGGTCTTACACGTAAATCATAAGTCAATACCAACGTCCC
Found at i:27927416 original size:13 final size:13
Alignment explanation
Indices: 27927398--27927422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27927388 GCCTAGACTT
27927398 TCTCACACGGTCA
1 TCTCACACGGTCA
27927411 TCTCACACGGTC
1 TCTCACACGGTC
27927423 GTGTCCCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.16, T:0.24
Consensus pattern (13 bp):
TCTCACACGGTCA
Found at i:27931258 original size:43 final size:44
Alignment explanation
Indices: 27931209--27931367 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 44
27931199 GGTTATTGAG
* *
27931209 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
27931253 -TGTGATTAC-TAGTAAGACCATGTCTGGGACATTGGGATCGT-T
1 ATGTGATTACAT-GTAAGACCATATCTGGGACATTGGCATCGTAT
* * * * * *
27931295 ATATGATTTCGTGTAAGACCCTACCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
27931338 ATGTGGTAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATATCTGGGA
27931368 TATGACATTG
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 2 0.02
43 92 0.97
44 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:27935194 original size:27 final size:26
Alignment explanation
Indices: 27935154--27935265 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
27935144 AACATGGCTG
* * *
27935154 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGACA
*
27935180 CCAGATACAGATAATCGTGGCAGAGAGA
1 CCAGA-ACAGATAAT-GTGGCAGAGACA
* *
27935208 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGACA
* * *
27935235 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGACA
27935262 CCAG
1 CCAG
27935266 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.69
28 16 0.22
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGACA
Found at i:27935265 original size:54 final size:54
Alignment explanation
Indices: 27935154--27935265 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
27935144 AACATGGCTG
* *
27935154 CCAGAACAAATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGAGA
1 CCAGAACAAATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGACA
* * * *
27935208 CCAGAACAGAA-ATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACA-AATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGACA
27935262 CCAG
1 CCAG
27935266 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
54 30 0.60
55 20 0.40
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAAATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGACA
Found at i:27936546 original size:22 final size:22
Alignment explanation
Indices: 27936506--27936547 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27936496 GCAGAAGAAG
* *
27936506 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
27936528 AAAAGAAAAATAAAAGGAGA
1 AAAAGAAAAACAAAAGGAGA
27936548 AGAAGAGTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.02, G:0.21, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:27937208 original size:56 final size:56
Alignment explanation
Indices: 27937122--27937241 Score: 213
Period size: 56 Copynumber: 2.1 Consensus size: 56
27937112 ACAAGGGATG
*
27937122 ATGGGAAAAACATGTCATGAAACAGGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACAGGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
27937178 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACAGGTTGTGTTAATGGAAAAATAAAATAAGAAGC
27937234 ATGGGCAA
1 ATGGGCAA
27937242 TAAACTAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACAGGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:27938506 original size:79 final size:81
Alignment explanation
Indices: 27938370--27938552 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
27938360 TCGAATGATG
* *
27938370 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
27938434 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
27938449 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
27938511 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
27938529 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27938553 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:27938568 original size:40 final size:40
Alignment explanation
Indices: 27938371--27938554 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
27938361 CGAATGATGT
* * * *
27938371 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
27938411 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
27938451 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
27938489 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
27938530 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27938555 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:27938576 original size:79 final size:79
Alignment explanation
Indices: 27938423--27938587 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
27938413 GGACTAAGAT
* **
27938423 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
27938488 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
27938502 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
27938565 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
27938581 CCGAAGG
1 CCGAAGG
27938588 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:27945121 original size:22 final size:22
Alignment explanation
Indices: 27945081--27945122 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27945071 GCAGAAGAAG
* *
27945081 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
27945103 AAAAGAAAAATAAAAGGAGA
1 AAAAGAAAAACAAAAGGAGA
27945123 AGAAGAGTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.02, G:0.21, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:27945755 original size:56 final size:56
Alignment explanation
Indices: 27945690--27945809 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
27945680 ACAAGGGATG
27945690 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
27945746 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
27945802 ATGGGCAA
1 ATGGGCAA
27945810 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:27947013 original size:40 final size:39
Alignment explanation
Indices: 27946927--27947105 Score: 125
Period size: 40 Copynumber: 4.5 Consensus size: 39
27946917 ATGATGTCCG
* * * * *
27946927 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCA
1 GGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCTA
* * *
27946967 GACTAAGATCCGAAGGCATTTGTGCGAGATACT-AATTTCA
1 GGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCT-A
* * *
27947007 GGCTAAGCCCGAAGGCA--GGTGCGAGTTACTAAATCTG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCTA
* **
27947044 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATCTA
*
27947084 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGT-CCGAAGGCATTTG
27947106 AACGAGTAGC
Statistics
Matches: 111, Mismatches: 20, Indels: 16
0.76 0.14 0.11
Matches are distributed among these distances:
37 17 0.15
38 13 0.12
39 11 0.10
40 60 0.54
41 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCTA
Found at i:27954720 original size:27 final size:27
Alignment explanation
Indices: 27954660--27954769 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
27954650 CATGGCTACT
* *
27954660 AGAACAGATAA-TGTGACAGAGTCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
27954686 AGATACAGATAATCT-TGGCAGAGCCACC
1 AGA-ACAGATAAT-TGTGGCAGAGCCACC
27954714 AGAACAGA-AATATGTGGCAGAGCCACC
1 AGAACAGATAAT-TGTGGCAGAGCCACC
*
27954741 A-AATCAGATAATTGTGGCATAGCCACC
1 AGAA-CAGATAATTGTGGCAGAGCCACC
27954768 AG
1 AG
27954770 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
26 9 0.12
27 46 0.63
28 17 0.23
29 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
AGAACAGATAATTGTGGCAGAGCCACC
Found at i:27954751 original size:54 final size:54
Alignment explanation
Indices: 27954660--27954769 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 54
27954650 CATGGCTACT
* * *
27954660 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCT-TGGCAGAGCCACC
1 AGAACAGAAAATGTGACAGAGCCACCAAATACAGATAAT-TGTGGCAGAGCCACC
* *
27954714 AGAACAGAAATATGTGGCAGAGCCACCAAAT-CAGATAATTGTGGCATAGCCACC
1 AGAACAGAAA-ATGTGACAGAGCCACCAAATACAGATAATTGTGGCAGAGCCACC
27954768 AG
1 AG
27954770 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 31 0.63
55 17 0.35
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (54 bp):
AGAACAGAAAATGTGACAGAGCCACCAAATACAGATAATTGTGGCAGAGCCACC
Found at i:27959699 original size:43 final size:43
Alignment explanation
Indices: 27959651--27959764 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
27959641 TGTGATTACA
* *
27959651 TGTAAGACCATGTCTGAGACATTGGCATTGTATTAA-GATAACG
1 TGTAAGACCATGTCTGGGACATTGGCATT-CATTAACGATAACG
* **
27959694 TGTAAGACCATGTTTGGGACATTGGCA-TCATTAATCGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATTCATTAA-CGATAACG
* *
27959737 TGTAAGACCCTGTCTGGGACAATGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
27959765 CGATATGTGA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 5 0.08
42 1 0.02
43 54 0.90
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTCATTAACGATAACG
Found at i:27970057 original size:34 final size:36
Alignment explanation
Indices: 27969997--27970072 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 36
27969987 TTTTTCAAAT
27969997 TAAAATAATAAAATTGAAATGAAAATAAAAATAAAAA
1 TAAAATAATAAAATTGAAAT-AAAATAAAAATAAAAA
*
27970034 TAAAATAAATAAAA-T-AAAT-AAATAAAAATAAGAA
1 TAAAAT-AATAAAATTGAAATAAAATAAAAATAAAAA
27970068 TAAAA
1 TAAAA
27970073 AGATAGGAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
34 19 0.51
36 4 0.11
37 7 0.19
38 7 0.19
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (36 bp):
TAAAATAATAAAATTGAAATAAAATAAAAATAAAAA
Found at i:27970064 original size:6 final size:6
Alignment explanation
Indices: 27970013--27970073 Score: 59
Period size: 6 Copynumber: 9.5 Consensus size: 6
27970003 AATAAAATTG
* *
27970013 AAATGA AAATAA AAATAA AAATAA AATAAATA AAATAAA TAAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AA-ATA-A AAAT-AA -AAATAA AAATAA
*
27970065 GAATAA AAA
1 AAATAA AAA
27970074 GATAGGAGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
6 32 0.70
7 6 0.13
8 8 0.17
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:27973908 original size:13 final size:13
Alignment explanation
Indices: 27973885--27973917 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27973875 AAGGATTTGT
27973885 TTATC-AAACTAA
1 TTATCTAAACTAA
27973897 TTATCTAAACTAA
1 TTATCTAAACTAA
*
27973910 TTAACTAA
1 TTATCTAA
27973918 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:27977455 original size:30 final size:30
Alignment explanation
Indices: 27977411--27977499 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
27977401 CAAAGATAAC
27977411 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
27977440 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
27977470 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
27977500 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:27977459 original size:15 final size:15
Alignment explanation
Indices: 27977411--27977490 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
27977401 CAAAGATAAC
*
27977411 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
27977425 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
27977440 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
27977455 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
27977470 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
27977485 AAGAAA
1 AAGAAA
27977491 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:27977499 original size:15 final size:15
Alignment explanation
Indices: 27977422--27977499 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
27977412 AGAAAACCGA
27977422 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
27977437 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
27977451 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
27977466 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
27977482 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
27977497 ATA
1 ATA
27977500 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:27980581 original size:93 final size:93
Alignment explanation
Indices: 27980422--27980592 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
27980412 GCCCATAAGT
* * *
27980422 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27980487 CGAGGTCGGATGCCTAGTTACATTTCAC
66 CGAGCTCGGATGCCTAGTTACATTTCAC
* *
27980515 GAACTCAGATTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27980579 ACGAGCTCGGATGC
65 ACGAGCTCGGATGC
27980593 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCAC
Found at i:27980589 original size:46 final size:47
Alignment explanation
Indices: 27980414--27980589 Score: 184
Period size: 46 Copynumber: 3.8 Consensus size: 47
27980404 TGTAACCCGC
*
27980414 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCGCAT
* * *
27980460 CCATAGGTGAACTCGGACTCAACTCAACGAGGTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-A-TTCGCAT
* * * * * *
27980510 --TTCA-CGAACTCAGATTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCGCAT
27980553 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27980590 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCGCAT
Found at i:27984823 original size:53 final size:53
Alignment explanation
Indices: 27984760--27984868 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
27984750 CAGAAAGTAG
* * *
27984760 AATTGGGGAATTACTTTTGGAAAATGGTTGAATTAAGACAATACTTAAGGAAA
1 AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
27984813 AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
1 AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
27984866 AAT
1 AAT
27984869 CCACCTAGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.28
Consensus pattern (53 bp):
AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
Found at i:27989943 original size:43 final size:43
Alignment explanation
Indices: 27989895--27990061 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
27989885 ATTGAGATTT
27989895 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * ** * *
27989938 GATTACGTGTAAGACCATGTATGGGACATTGGCATCACTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGA
* * * * * * *
27989981 GATTTCGTGTAAGACCTTGTCTGAGACAGTGGAATTG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* * * *
27990024 GATAACATGTAATACCATATCTGGGATA-TGGCATTGTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
27990062 CGAGCTTATG
Statistics
Matches: 95, Mismatches: 25, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 83 0.87
44 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:27992701 original size:29 final size:29
Alignment explanation
Indices: 27992656--27992722 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
27992646 TAGTCGATCC
* *
27992656 CACACGGTCGTGTGCTAGATCGTGTGAGA
1 CACACGGTCGTGCGCTAGATCATGTGAGA
*
27992685 CACATGGTCGTGCGCTAGATCATGTGAGA
1 CACACGGTCGTGCGCTAGATCATGTGAGA
27992714 CACACGGTC
1 CACACGGTC
27992723 TAGGCCAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.22
Consensus pattern (29 bp):
CACACGGTCGTGCGCTAGATCATGTGAGA
Found at i:27994410 original size:17 final size:16
Alignment explanation
Indices: 27994384--27994418 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27994374 ATAAAATTGT
* *
27994384 AAAAAGAAAAAATCTA
1 AAAAAAAAAAAAACTA
27994400 AAAAAAAAAAAAACTA
1 AAAAAAAAAAAAACTA
27994416 AAA
1 AAA
27994419 TCGTGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.83, C:0.06, G:0.03, T:0.09
Consensus pattern (16 bp):
AAAAAAAAAAAAACTA
Found at i:27997201 original size:20 final size:20
Alignment explanation
Indices: 27997155--27997204 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
27997145 GCAACCATAG
*
27997155 CACATTACCACAGAAACACC
1 CACATTTCCACAGAAACACC
27997175 CACATTTCCACAGAAACACC
1 CACATTTCCACAGAAACACC
27997195 CACATTTCCA
1 CACATTTCCA
27997205 TTGATATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.40, G:0.04, T:0.16
Consensus pattern (20 bp):
CACATTTCCACAGAAACACC
Found at i:28000180 original size:50 final size:50
Alignment explanation
Indices: 28000112--28000238 Score: 161
Period size: 50 Copynumber: 2.5 Consensus size: 50
28000102 ATCGAGGCCG
* * *
28000112 ATGCCATGTCCCAAACATGGTCTTACACTAGCTC-T-CGTACTTACGTG-CTA
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTA--TACATGTC-A
* *
28000162 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATCCATGTCG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATACATGTCA
28000212 ATGCCATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCTAGACATGGTCTTACA
28000239 TTGGTACACA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
50 63 0.91
51 2 0.03
52 4 0.06
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (50 bp):
ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATACATGTCA
Found at i:28000977 original size:12 final size:12
Alignment explanation
Indices: 28000960--28000984 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28000950 CAAAAATGTA
28000960 AAAATCATCAAG
1 AAAATCATCAAG
28000972 AAAATCATCAAG
1 AAAATCATCAAG
28000984 A
1 A
28000985 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:28002021 original size:15 final size:17
Alignment explanation
Indices: 28002001--28002033 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
28001991 GGAGTTTTGG
28002001 GTTATC-TTATG-TTTT
1 GTTATCTTTATGCTTTT
28002016 GTTATCTTTATGCTTTT
1 GTTATCTTTATGCTTTT
28002033 G
1 G
28002034 AGATGTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.12, C:0.09, G:0.15, T:0.64
Consensus pattern (17 bp):
GTTATCTTTATGCTTTT
Found at i:28011395 original size:15 final size:13
Alignment explanation
Indices: 28011373--28011403 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
28011363 GCACATGGGT
*
28011373 GTGTCACACGAGC
1 GTGTCACACAAGC
28011386 GTGTCACACAAGC
1 GTGTCACACAAGC
28011399 GTGTC
1 GTGTC
28011404 CCTACCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.29, G:0.29, T:0.19
Consensus pattern (13 bp):
GTGTCACACAAGC
Found at i:28017978 original size:40 final size:40
Alignment explanation
Indices: 28017930--28018155 Score: 400
Period size: 40 Copynumber: 5.7 Consensus size: 40
28017920 GCAAACACAT
* *
28017930 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
28017970 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28018010 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28018050 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28018090 TTGCCTTC-GGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28018129 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
28018156 ATCCAATGTT
Statistics
Matches: 177, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 39 0.22
40 138 0.78
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:28026751 original size:40 final size:40
Alignment explanation
Indices: 28026703--28026929 Score: 409
Period size: 40 Copynumber: 5.7 Consensus size: 40
28026693 GCAAACACAT
* *
28026703 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
28026743 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28026783 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28026823 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28026863 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28026903 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
28026930 ATCCAATGTT
Statistics
Matches: 179, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:28041077 original size:46 final size:46
Alignment explanation
Indices: 28040803--28041119 Score: 151
Period size: 50 Copynumber: 6.7 Consensus size: 46
28040793 TTGTCGATGC
* * * * *
28040803 CATGTCTCAGACATGATCTTACACTGGCTA-TCCTCATCGAGGCTGATGG
1 CATGTCCCAGACATGGTCTTACACTGGC-ACTCGTC-TCGA-GCCGAT-A
* * * * * * *
28040852 CATATCCCAAACATGGTCTTACACTAGCTCTCGTACTTACGTGCTGATTC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCGT-C-T-CGAGCCGA-TA
* * * * * * *
28040902 CATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATCTATGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCAC-T-CGTCTCGA-GCCGAT-A
* * *
28040952 CATGTCCCAGATATGGTCTTACACTGACA-T-GTCTCGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCG-AGCCGATA
** * *
28040997 CATGTCTTAGACAT-GTCTTACACTAGC-TTACGTCTCGAGGCCGATA
1 CATGTCCCAGACATGGTCTTACACTGGCACT-CGTCTCGA-GCCGATA
* * * * *
28041043 CATGTCCCGGACAT-GTCTTACACTGGCACTCGTCTCAATTCCGGTGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCGA-GCCGAT-A
*
28041090 CATGTCCCAAACATGGTCTTACACTGGCAC
1 CATGTCCCAGACATGGTCTTACACTGGCAC
28041120 ACAAATTACC
Statistics
Matches: 207, Mismatches: 45, Indels: 33
0.73 0.16 0.12
Matches are distributed among these distances:
44 12 0.06
45 12 0.06
46 55 0.27
47 14 0.07
48 16 0.08
49 28 0.14
50 63 0.30
51 4 0.02
52 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCGAGCCGATA
Found at i:28041851 original size:12 final size:12
Alignment explanation
Indices: 28041834--28041859 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28041824 CCAAAAATGT
28041834 GAAAATCATCAA
1 GAAAATCATCAA
28041846 GAAAATCATCAA
1 GAAAATCATCAA
28041858 GA
1 GA
28041860 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:28047155 original size:41 final size:41
Alignment explanation
Indices: 28047097--28047249 Score: 157
Period size: 41 Copynumber: 3.8 Consensus size: 41
28047087 TGACAACAAA
* * * *
28047097 TCAGCTATATGTAGCACTTAGTGTGTGAGATCGAAATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
*
28047138 TCAGCTATATATGGCACTTAATGTGC-ATGATCGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGA-GATCGAGATAGCT
** * * * *
28047179 TTGGCTATACATGGCACTTAGTGTACGA-TTTGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
* * *
28047219 TCAGCTATGTACGACACTTAGTGTGCGAGAT
1 TCAGCTATATATGGCACTTAGTGTGCGAGAT
28047250 ATTGAGTATT
Statistics
Matches: 89, Mismatches: 20, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
40 32 0.36
41 56 0.63
42 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (41 bp):
TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
Found at i:28057283 original size:46 final size:46
Alignment explanation
Indices: 28057170--28057298 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 46
28057160 GGGTTATTAT
* * * *
28057170 GAGCCAGTGTAAGACCATGTCTGGGACATGTCATTGGTATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCATCGAGACGA
* *
28057218 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-A
*
28057265 -AGCCAGTGTAAGACATGTCTAGGACATGCATCGG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG
28057299 TTAAGATGTG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
46 43 0.60
47 16 0.22
48 13 0.18
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGA
Found at i:28062399 original size:44 final size:44
Alignment explanation
Indices: 28062346--28062436 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
28062336 CAAATCTTAT
28062346 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
28062390 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
28062434 TTA
1 TTA
28062437 ATTTGTGTCG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.46
Consensus pattern (44 bp):
TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
Found at i:28070305 original size:36 final size:36
Alignment explanation
Indices: 28070243--28070326 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
28070233 GTTATATTGT
* * * * *
28070243 GAACCATGTTAACTTGGTGAATTATATTATTATGGC
1 GAACTATGTTAAATTAGTGAATTATATTAATATGAC
*
28070279 GAACTATGTTAAATTAGTG-ATCTATATTAATATGAT
1 GAACTATGTTAAATTAGTGAAT-TATATTAATATGAC
*
28070315 GAACTATATTAA
1 GAACTATGTTAA
28070327 TTTGTCAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (36 bp):
GAACTATGTTAAATTAGTGAATTATATTAATATGAC
Found at i:28070308 original size:18 final size:18
Alignment explanation
Indices: 28070260--28070327 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
28070250 GTTAACTTGG
* * *
28070260 TGAATTATATTATTATGG
1 TGAACTATATTAATATGA
* * *
28070278 CGAACTATGTTAA-ATTA
1 TGAACTATATTAATATGA
*
28070295 GTGATCTATATTAATATGA
1 -TGAACTATATTAATATGA
28070314 TGAACTATATTAAT
1 TGAACTATATTAAT
28070328 TTGTCAAACT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
17 2 0.05
18 32 0.86
19 3 0.08
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (18 bp):
TGAACTATATTAATATGA
Found at i:28071771 original size:46 final size:45
Alignment explanation
Indices: 28071704--28071875 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 45
28071694 AACCCGCCCC
*
28071704 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
* * *
28071750 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * *
28071798 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
28071843 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
28071876 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 3 0.03
46 59 0.56
47 27 0.25
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:28071868 original size:93 final size:93
Alignment explanation
Indices: 28071709--28071879 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
28071699 GCCCCTAAGT
*
28071709 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
28071774 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
28071802 GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
28071867 CGAGTTCGGATGC
66 CGAGTTCGGATGC
28071880 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:28073773 original size:17 final size:17
Alignment explanation
Indices: 28073720--28073776 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
28073710 ATGATGGAGC
* *
28073720 ATGAACTATTATTTTAC
1 ATGAACTATTATTTCAT
* * **
28073737 ATGAATTGTTATTTGGT
1 ATGAACTATTATTTCAT
28073754 ATGAACTATTATTTCAT
1 ATGAACTATTATTTCAT
28073771 ATGAAC
1 ATGAAC
28073777 AGATCTTTGG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (17 bp):
ATGAACTATTATTTCAT
Found at i:28073786 original size:34 final size:34
Alignment explanation
Indices: 28073720--28073787 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
28073710 ATGATGGAGC
* ** *
28073720 ATGAACTATTATTTTACATGAATTGTTATTTGGT
1 ATGAACTATTATTTCACATGAACAGATATTTGGT
* *
28073754 ATGAACTATTATTTCATATGAACAGATCTTTGGT
1 ATGAACTATTATTTCACATGAACAGATATTTGGT
28073788 GCGAATTGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.46
Consensus pattern (34 bp):
ATGAACTATTATTTCACATGAACAGATATTTGGT
Found at i:28075319 original size:42 final size:43
Alignment explanation
Indices: 28075216--28075355 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
28075206 AGACATCGCA
* * * * * *
28075216 TAAGACCGTTTCTAGGACACAGGCCTCG--ATTGAGATTTACTTA
1 TAAGACCATGTCTAGGACAGAGGCATCGATATTGA-A-TTACATG
* * ** *
28075259 TAAGACCATGACTGGGACATTGGCATCG-TATCTG-ATTTCATG
1 TAAGACCATGTCTAGGACAGAGGCATCGATAT-TGAATTACATG
*
28075301 TAAGACCCTGTCTAGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTAGGACAGAGGCATCGATATTGAATTACATG
28075344 TAAGACCATGTC
1 TAAGACCATGTC
28075356 CGGGACGCTG
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
42 29 0.38
43 43 0.57
44 2 0.03
45 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (43 bp):
TAAGACCATGTCTAGGACAGAGGCATCGATATTGAATTACATG
Found at i:28075361 original size:85 final size:85
Alignment explanation
Indices: 28075216--28075375 Score: 189
Period size: 85 Copynumber: 1.9 Consensus size: 85
28075206 AGACATCGCA
* * * * * *
28075216 TAAGACCGTTTCTAGGACACAGGCCTCGATTGAGATTTACTTATAAGACCATGACTGGGACATTG
1 TAAGACCCTGTCTAGGACACAGGCATCGATTGAGATTTACATATAAGACCATGACCGGGACACTG
28075281 GCATCGTATCTGATTTCATG
66 GCATCGTATCTGATTTCATG
* * * *
28075301 TAAGACCCTGTCTAGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCATGTCCGGGACGC
1 TAAGACCCTGTCTAGGACACAGGCATCG--ATTGAGATTTACATATAAGACCATGACCGGGACAC
*
28075364 TGGCATTGTATC
64 TGGCATCGTATC
28075376 GTTTTTGAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 56 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (85 bp):
TAAGACCCTGTCTAGGACACAGGCATCGATTGAGATTTACATATAAGACCATGACCGGGACACTG
GCATCGTATCTGATTTCATG
Found at i:28075369 original size:43 final size:41
Alignment explanation
Indices: 28075259--28075375 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 41
28075249 GATTTACTTA
* * *
28075259 TAAGACCATGACTGGGACATTGGCATCGTATCTGATTTCATG
1 TAAGACCATGTCTGGGAC-GTGGCATCGTATCTGATTACATG
* * *
28075301 TAAGACCCTGTCTAGGACAGAGGCATCGATAT-TGAATTACATG
1 TAAGACCATGTCTGGGAC-GTGGCATCG-TATCTG-ATTACATG
* *
28075344 TAAGACCATGTCCGGGACGCTGGCATTGTATC
1 TAAGACCATGTCTGGGACG-TGGCATCGTATC
28075376 GTTTTTGAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (41 bp):
TAAGACCATGTCTGGGACGTGGCATCGTATCTGATTACATG
Found at i:28085962 original size:85 final size:81
Alignment explanation
Indices: 28085861--28086027 Score: 208
Period size: 81 Copynumber: 2.0 Consensus size: 81
28085851 AAATTAAGCT
* * ** *
28085861 AGGGAAAGTAACGGAAGTTGATTATCCCTGTTTTCCCTTGAAAGTTTAATTTTTATTTATTTATC
1 AGGGAAAGTAACGGAAGTTAAGTATCCCT-CATT---TTGAAAGTTCAATTTTTATTTATTTATC
*
28085926 CCAATTTGGAGGAAAAGATA
62 CCAACTTGGAGGAAAAGATA
* * * *
28085946 AGGGGAAGTAAGGGAAGTTAAGTATCCCTCATTTTGAAAGTTCATTTTTTATTTATTTATGCCAA
1 AGGGAAAGTAACGGAAGTTAAGTATCCCTCATTTTGAAAGTTCAATTTTTATTTATTTATCCCAA
28086011 CTTGGAGGAAAAGATA
66 CTTGGAGGAAAAGATA
28086027 A
1 A
28086028 AAGAAAAGAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
81 45 0.62
84 2 0.03
85 25 0.35
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (81 bp):
AGGGAAAGTAACGGAAGTTAAGTATCCCTCATTTTGAAAGTTCAATTTTTATTTATTTATCCCAA
CTTGGAGGAAAAGATA
Found at i:28087032 original size:16 final size:16
Alignment explanation
Indices: 28087011--28087041 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28087001 GCTTTCCATT
*
28087011 GTTTAATAAGTTTTTA
1 GTTTAAGAAGTTTTTA
28087027 GTTTAAGAAGTTTTT
1 GTTTAAGAAGTTTTT
28087042 GACTCCTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (16 bp):
GTTTAAGAAGTTTTTA
Found at i:28094500 original size:25 final size:25
Alignment explanation
Indices: 28094449--28094500 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
28094439 CTATAAACTT
* *
28094449 ATATATATTATATAATAAAACCGAC
1 ATATATAATATATAATAAAACCCAC
*
28094474 ATATATAATATAT-ATACAACCCCAC
1 ATATATAATATATAATA-AAACCCAC
28094499 AT
1 AT
28094501 GCTTATTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (25 bp):
ATATATAATATATAATAAAACCCAC
Found at i:28101868 original size:16 final size:17
Alignment explanation
Indices: 28101837--28101879 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
28101827 TTACACATAC
*
28101837 AATCATTTCAATTCAA-A
1 AATCAATTC-ATTCAATA
28101854 AATCAATTCATTCAATA
1 AATCAATTCATTCAATA
28101871 AAT-AATTCA
1 AATCAATTCA
28101880 CTTTTCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (17 bp):
AATCAATTCATTCAATA
Found at i:28103628 original size:42 final size:43
Alignment explanation
Indices: 28103581--28103663 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
28103571 TTTTATATGC
* *
28103581 CACACGGCCTGGACACACGCCCATGTCC-TTGCCCGTGTGGCT
1 CACACGGCCTGGACACACACCCATGTCCTTTGCCCATGTGGCT
* *
28103623 CACACGGCTTGGGCACACACCCATGTCCTTTGCCCATGTGG
1 CACACGGCCTGGACACACACCCATGTCCTTTGCCCATGTGG
28103664 TTCTAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 25 0.69
43 11 0.31
ACGTcount: A:0.16, C:0.39, G:0.25, T:0.20
Consensus pattern (43 bp):
CACACGGCCTGGACACACACCCATGTCCTTTGCCCATGTGGCT
Found at i:28104839 original size:37 final size:37
Alignment explanation
Indices: 28104780--28104918 Score: 242
Period size: 37 Copynumber: 3.8 Consensus size: 37
28104770 AGCTCAGACG
* *
28104780 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
28104817 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
28104854 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
28104891 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
28104919 TAGAGCTCGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:28105116 original size:25 final size:25
Alignment explanation
Indices: 28105088--28105165 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
28105078 CTCGGCCCTG
*
28105088 TCACATATATACACTTTCACATTCA
1 TCACATATACACACTTTCACATTCA
* * *
28105113 TCACAT-TGGC-CA--TTCGGCCTT-A
1 TCACATAT-ACACACTTTC-ACATTCA
28105135 TCACATATACACACTTTCACATTCA
1 TCACATATACACACTTTCACATTCA
28105160 TCACAT
1 TCACAT
28105166 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 16 0.41
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (25 bp):
TCACATATACACACTTTCACATTCA
Found at i:28105211 original size:49 final size:49
Alignment explanation
Indices: 28105034--28105498 Score: 716
Period size: 49 Copynumber: 9.7 Consensus size: 49
28105024 ATGCCCTTCG
* * * * *
28105034 GGCCTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTC
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
* * * *
28105081 GGCCCTGTCAC--ATATATACACTTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
*
28105128 GGCCTTATCAC--ATATACACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
28105175 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
28105224 GGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTA
28105275 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
* * *
28105324 GGCCTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTC
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
28105373 GGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
*
28105420 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
28105469 GGCCTTATCACATATATA-A-ACTTTCACATT
1 GGCCTTATCACATATATATACACTTTCACATT
28105499 TATTCAAATA
Statistics
Matches: 392, Mismatches: 18, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.00
47 147 0.38
48 1 0.00
49 194 0.49
51 49 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:28105234 original size:96 final size:97
Alignment explanation
Indices: 28105034--28105498 Score: 694
Period size: 96 Copynumber: 4.8 Consensus size: 97
28105024 ATGCCCTTCG
* * * * * * * *
28105034 GGCCTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATAT
1 GGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
* *
28105096 ATACACTTTCACATTCATCACATTGGCCATTC
66 ATACACTTTCACATTCATCACATCGGCCATTA
*
28105128 GGCCTTATCAC-ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 GGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
28105192 ATACACTTTCACATTCATCACATCGGCCATTA
66 ATACACTTTCACATTCATCACATCGGCCATTA
28105224 GGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 GGCCTTATCAC--A-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
28105289 TATATACACTTTCACATTCATCACATCGGCCATTA
63 TATATACACTTTCACATTCATCACATCGGCCATTA
* * *
28105324 GGCCTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGCCTTATCAC--ATA
1 GGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
28105387 TATACACTTTCACATTCATCACATCGGCCATTA
65 TATACACTTTCACATTCATCACATCGGCCATTA
*
28105420 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATA
1 GGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
28105485 TA-A-ACTTTCACATT
65 TATACACTTTCACATT
28105499 TATTCAAATA
Statistics
Matches: 344, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
94 49 0.14
96 148 0.43
97 1 0.00
98 51 0.15
100 95 0.28
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (97 bp):
GGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
ATACACTTTCACATTCATCACATCGGCCATTA
Found at i:28108652 original size:25 final size:23
Alignment explanation
Indices: 28108623--28108669 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
28108613 TTAAAATTTA
28108623 ATGATAATATAAAATATATAATAAC
1 ATGAT-ATA-AAAATATATAATAAC
* *
28108648 ATGATATAGAATTATATAATAA
1 ATGATATAAAAATATATAATAA
28108670 AATAGGAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 3 0.15
25 5 0.25
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.34
Consensus pattern (23 bp):
ATGATATAAAAATATATAATAAC
Found at i:28110170 original size:20 final size:19
Alignment explanation
Indices: 28110122--28110232 Score: 63
Period size: 19 Copynumber: 5.9 Consensus size: 19
28110112 AATAAGTGAA
*
28110122 ATATA-ATAAAATAAATAAT
1 ATATACATATAATAAA-AAT
* *
28110141 ATATATATATAGTAAAAAT
1 ATATACATATAATAAAAAT
28110160 ATATAACATATAAT-AAAAT
1 ATAT-ACATATAATAAAAAT
* *
28110179 GT-GA-ATATAATAGAATAA-
1 ATATACATATAATA-AA-AAT
* *
28110197 ATAATATATATAATAAAAAC
1 AT-ATACATATAATAAAAAT
*
28110217 ATA-ACATATAGTAAAA
1 ATATACATATAATAAAA
28110233 TTTATAAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 19
0.72 0.10 0.19
Matches are distributed among these distances:
16 7 0.10
17 1 0.01
18 14 0.19
19 23 0.32
20 20 0.27
21 8 0.11
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (19 bp):
ATATACATATAATAAAAAT
Found at i:28111881 original size:44 final size:44
Alignment explanation
Indices: 28111832--28112656 Score: 634
Period size: 44 Copynumber: 18.7 Consensus size: 44
28111822 AAACTCAGGA
* * *
28111832 ACGCCAGATCTGTTATCTTCGATCTGCTCTTTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
28111876 ACGCCAAATCTGCTACCTTCGATCTGCTCTCTAACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
28111920 ACGCCAAATTTACTATCTTTGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
28111964 ACGCCAAATCTACTACCTTCGATCTGCCCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
28112008 ACGCCAAATCTGCTATCTTTGATTTGTTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
28112052 ACGCCAAATCTGTTATCTTTGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * * *
28112096 ATGCCAAATCTGCTATCGTCGATCTACACTCTGACAATATAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * * * *
28112140 ACACCAAGTCTACTATCTTTGATCAGCTCTCTGACAATACAAAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * **
28112184 ACGCCAAACCTGCTATCTTCGATCTACTC-CTTGTA-AACGCA-AGG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTC-TG-ACAATACAGA-G
* * * *
28112228 ATGCCAAA--T-C-ATCTTGGATCTACT-TC-GATGCAAAAACATCCGA-
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA--C-AATACA---GAG
* ** * * *
28112271 AGGTTAGAA-CTACTATGTCTTCGATCTGCTCTCTGTCGAATATAGAG
1 ACGCCA-AATCTGCTA--TCTTCGATCTGCTCTCTGAC-AATACAGAG
* *
28112318 ATGCCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
28112362 ACGCCAAATTTGCTATCTTTGATCTGCTCCCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * **
28112406 ACGCCAAACCTGCTATCTTCAATCTGCTC-CTTGTA-AACGCA-AGG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTC-TG-ACAATACAGA-G
* * * *
28112450 ATGCCAAA--T-C-ATCTTGGATCTACT-TC-GATGCAAAAACATCCGA-
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA--C-AATACA---GAG
* ** * *
28112493 AGGTTAGATCTGCTATGTCTTCGATCTGCTCTCT-ATCGAATATAGAG
1 ACGCCAAATCTGCTA--TCTTCGATCTGCTCTCTGA-C-AATACAGAG
* * * *
28112540 ATGCCAAATCTACTATCTTCGATCTGCTTTCTGACAATATAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
28112584 ACGCTAAATCTGTTATCTTTGATCTGCT-TCCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCT-CTGACAATACAGAG
* *
28112628 ACGCCAAACCTGCTATCTTCGACCTGCTC
1 ACGCCAAATCTGCTATCTTCGATCTGCTC
28112657 CTTGTAAACG
Statistics
Matches: 621, Mismatches: 114, Indels: 91
0.75 0.14 0.11
Matches are distributed among these distances:
37 2 0.00
38 2 0.00
40 26 0.04
41 10 0.02
42 2 0.00
43 12 0.02
44 459 0.74
45 41 0.07
46 9 0.01
47 20 0.03
49 32 0.05
50 5 0.01
51 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (44 bp):
ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
Found at i:28112383 original size:222 final size:221
Alignment explanation
Indices: 28111847--28112818 Score: 1162
Period size: 222 Copynumber: 4.4 Consensus size: 221
28111837 AGATCTGTTA
* * * * * *
28111847 TCTTCGATCTGCTCTTTGAC-AATACAGAGACGCCAAATCTGCTACCTTCGATCTGCTCTCTAAC
1 TCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
28111911 AATACAGAGACGCCAAATTTACTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTA
66 AATACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAACCTG
* ** * * **
28111976 CTACCTTCGATCTGC-CCTCTG-ACAATAC-AGAGACGCCAAATCTGCTATCTTTGAT-TTGTTC
131 CTATCTTCGATCTGCTCCT-TGTA-AACGCAAG-GATGCCAAA--T-C-ATCTTGGATCTACTTC
** * * ** * *
28112037 TCTGACAATACA---GAGACGCCA-AA-T-CTGTTA
189 GATGA-AAAACATCCGA-AGGTTAGAACTACT-ATG
* * * * * *
28112067 TCTTTGATCTGCTCTCTGAC-AATACAGAGATGCCAAATCTGCTATCGTCGATCTACACTCTGAC
1 TCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * * *
28112131 AATATAGAGACACCAAGTCTACTATCTTTGATCAGCTCTCTGACAATACAAAGACGCCAAACCTG
66 AATACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAACCTG
*
28112196 CTATCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGCAA
131 CTATCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATG-AA
28112261 AAACATCCGAAGGTTAGAACTACTATG
195 AAACATCCGAAGGTTAGAACTACTATG
*
28112288 TCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCTGAC
1 TCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
28112353 AATACAGAGACGCCAAATTTGCTATCTTTGATCTGCTCCCTGACAATACAGAGACGCCAAACCTG
66 AATACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAACCTG
*
28112418 CTATCTTCAATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGCAA
131 CTATCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATG-AA
* *
28112483 AAACATCCGAAGGTTAGATCTGCTATG
195 AAACATCCGAAGGTTAGAACTACTATG
* * *
28112510 TCTTCGATCTGCTCTCTATCGAATATAGAGATGCCAAATCTACTATCTTCGATCTGCTTTCTGAC
1 TCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * **
28112575 AATATAGAGACGCTAAATCTGTTATCTTTGATCTGCT-TCCTGACAATACAGAGACGCCAAACCT
66 AATACAGAGACGCCAAATCTACTATCTTTGATCTGCTCT-CTGACAATACAGAGACGCCAAACCT
*
28112639 GCTATCTTCGACCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGAA
130 GCTATCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGAA
*
28112704 AAACCATCCGAAGGTTAGATCTGA-TATG
195 AAA-CATCCGAAGGTTAGAACT-ACTATG
** * * *
28112732 TCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTATTTTTTTTTTCGATCTGTTCTCT
1 TCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATC---TGCTATCTTCGATCTGCTCTCT
*
28112797 GACAATACAGAGATGCCAAATC
63 GACAATACAGAGACGCCAAATC
28112819 ATCTTAGATC
Statistics
Matches: 663, Mismatches: 71, Indels: 31
0.87 0.09 0.04
Matches are distributed among these distances:
216 8 0.01
217 12 0.02
218 2 0.00
219 3 0.00
220 143 0.22
221 31 0.05
222 429 0.65
225 35 0.05
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (221 bp):
TCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
AATACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAACCTG
CTATCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGAAA
AACATCCGAAGGTTAGAACTACTATG
Found at i:28124986 original size:21 final size:21
Alignment explanation
Indices: 28124918--28125100 Score: 77
Period size: 21 Copynumber: 9.1 Consensus size: 21
28124908 TATGTGATAA
* *
28124918 ATAATATAAAT-AATAATAAAA
1 ATAATA-AAATAAATAATATAT
* *
28124939 ATAATAAAATAAGTGA-A-AT
1 ATAATAAAATAAATAATATAT
28124958 ATAATAAAATAAATAATATAT
1 ATAATAAAATAAATAATATAT
* * *
28124979 ATAGTAAAA-ATAT-ATAACAT
1 ATAATAAAATAAATAAT-ATAT
* *
28124999 ATAATAAAAT--GT--GA-AT
1 ATAATAAAATAAATAATATAT
*
28125015 ATAATAGAATAAATAATATAT
1 ATAATAAAATAAATAATATAT
* *
28125036 ATAATAAAA-ACATAACATAT
1 ATAATAAAATAAATAATATAT
* *
28125056 AGTAA-AATTTATAAA-AATGTAT
1 A-TAATAA--AATAAATAATATAT
** *
28125078 ATAATATTATAAATGATATAT
1 ATAATAAAATAAATAATATAT
28125099 AT
1 AT
28125101 TATTTTTCAT
Statistics
Matches: 122, Mismatches: 24, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
16 11 0.09
17 1 0.01
18 1 0.01
19 18 0.15
20 39 0.32
21 42 0.34
22 8 0.07
23 2 0.02
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (21 bp):
ATAATAAAATAAATAATATAT
Found at i:28124987 original size:40 final size:40
Alignment explanation
Indices: 28124918--28125008 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 40
28124908 TATGTGATAA
28124918 ATAATATAAATAATAATAAAAATAAT-AAAATA-AGTGAA-AT
1 ATAATA-AAATAATAATAAAAATAATAAAAATATA-T-AACAT
* * *
28124958 ATAATAAAATAAATAATATATATAGTAAAAATATATAACAT
1 ATAATAAAAT-AATAATAAAAATAATAAAAATATATAACAT
28124999 ATAATAAAAT
1 ATAATAAAAT
28125009 GTGAATATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
39 4 0.09
40 20 0.45
41 19 0.43
42 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (40 bp):
ATAATAAAATAATAATAAAAATAATAAAAATATATAACAT
Found at i:28125051 original size:55 final size:59
Alignment explanation
Indices: 28124923--28125063 Score: 177
Period size: 57 Copynumber: 2.5 Consensus size: 59
28124913 GATAAATAAT
*
28124923 ATAAATAATA-ATAA-AAATAATAAAATAAGTGAAATATAATAAAATAAATAATATATATA
1 ATAAA-AATACATAACATATAATAAAAT-AGTGAAATATAATAAAATAAATAATATATATA
* * *
28124982 GTAAAAATATATAACATATAATAAAAT-GTG-AATATAATAGAATAAATAATATATATA
1 ATAAAAATACATAACATATAATAAAATAGTGAAATATAATAAAATAAATAATATATATA
*
28125039 AT-AAAA-ACATAACATATAGTAAAAT
1 ATAAAAATACATAACATATAATAAAAT
28125064 TTATAAAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
55 17 0.23
56 4 0.05
57 27 0.36
58 7 0.09
59 8 0.11
60 11 0.15
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (59 bp):
ATAAAAATACATAACATATAATAAAATAGTGAAATATAATAAAATAAATAATATATATA
Found at i:28131262 original size:11 final size:11
Alignment explanation
Indices: 28131246--28131281 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
28131236 CCACCCCAAA
28131246 CATATACATAT
1 CATATACATAT
28131257 CATATACATAT
1 CATATACATAT
* *
28131268 CTTATACTTAT
1 CATATACATAT
28131279 CAT
1 CAT
28131282 GATCATAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (11 bp):
CATATACATAT
Found at i:28140234 original size:23 final size:24
Alignment explanation
Indices: 28140208--28140353 Score: 86
Period size: 24 Copynumber: 6.2 Consensus size: 24
28140198 GCAAACCCCC
28140208 ATATGTTTTAATTTGTGAA-CCTT
1 ATATGTTTTAATTTGTGAACCCTT
* * * **
28140231 ATATGATTTAGTATGTGAACCCCC
1 ATATGTTTTAATTTGTGAACCCTT
28140255 ATATGTTTT-ATTATGTGAACCCTT
1 ATATGTTTTAATT-TGTGAACCCTT
* * * *
28140279 AT-GGATTTAATATGTGCACCCTT
1 ATATGTTTTAATTTGTGAACCCTT
* * * *
28140302 ATGTGATTT-ATTATGCGAACCCTC
1 ATATGTTTTAATT-TGTGAACCCTT
* * * *
28140326 ATGTGATTTAGTATGTGAA-CCTT
1 ATATGTTTTAATTTGTGAACCCTT
28140349 ATATG
1 ATATG
28140354 CGAACCATGT
Statistics
Matches: 93, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
23 42 0.45
24 50 0.54
25 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.42
Consensus pattern (24 bp):
ATATGTTTTAATTTGTGAACCCTT
Found at i:28140239 original size:47 final size:48
Alignment explanation
Indices: 28140188--28140340 Score: 141
Period size: 47 Copynumber: 3.2 Consensus size: 48
28140178 AACACTTATG
*
28140188 GATTTGGTATGCAAACCCCCATATGTTTTAATT-TGTGAA-CCTTATAT
1 GATTTAGTATGCAAACCCCCATATGTTTT-ATTATGTGAACCCTTATAT
** *
28140235 GATTTAGTATGTGAACCCCCATATGTTTTATTATGTGAACCCTTAT-G
1 GATTTAGTATGCAAACCCCCATATGTTTTATTATGTGAACCCTTATAT
* *** ** * * * * *
28140282 GATTTAATATGTGCACCCTTATGTGATTTATTATGCGAACCCTCATGT
1 GATTTAGTATGCAAACCCCCATATGTTTTATTATGTGAACCCTTATAT
28140330 GATTTAGTATG
1 GATTTAGTATG
28140341 TGAACCTTAT
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
46 3 0.03
47 70 0.79
48 16 0.18
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (48 bp):
GATTTAGTATGCAAACCCCCATATGTTTTATTATGTGAACCCTTATAT
Found at i:28140316 original size:24 final size:24
Alignment explanation
Indices: 28140221--28140350 Score: 140
Period size: 24 Copynumber: 5.5 Consensus size: 24
28140211 TGTTTTAATT
*
28140221 TGTGAA-CCTTATATGATTTAGTA
1 TGTGAACCCTTATGTGATTTAGTA
** * * *
28140244 TGTGAACCCCCATATGTTTTATTA
1 TGTGAACCCTTATGTGATTTAGTA
*
28140268 TGTGAACCCTTATG-GATTTAATA
1 TGTGAACCCTTATGTGATTTAGTA
* *
28140291 TGTGCACCCTTATGTGATTTATTA
1 TGTGAACCCTTATGTGATTTAGTA
* *
28140315 TGCGAACCCTCATGTGATTTAGTA
1 TGTGAACCCTTATGTGATTTAGTA
28140339 TGTGAA-CCTTAT
1 TGTGAACCCTTAT
28140351 ATGCGAACCA
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
23 31 0.35
24 57 0.65
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (24 bp):
TGTGAACCCTTATGTGATTTAGTA
Found at i:28140322 original size:71 final size:69
Alignment explanation
Indices: 28140214--28140350 Score: 175
Period size: 71 Copynumber: 2.0 Consensus size: 69
28140204 CCCCATATGT
* * * *
28140214 TTTAATTTGTGAACCTTATATGATTTAGTATGTGAACCCCCATATGTTTTATTATGTGAACCCTT
1 TTTAATATGTGAACCTTATATGATTTAGTATGCGAACCCCCATATGATTTAGTATGTGAA-CCTT
28140279 ATGGA
65 ATGGA
* * * * *
28140284 TTTAATATGTGCACCCTTATGTGATTTATTATGCGAACCCTCATGTGATTTAGTATGTGAACCTT
1 TTTAATATGTG-AACCTTATATGATTTAGTATGCGAACCCCCATATGATTTAGTATGTGAACCTT
28140349 AT
65 AT
28140351 ATGCGAACCA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 16 0.28
71 41 0.72
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (69 bp):
TTTAATATGTGAACCTTATATGATTTAGTATGCGAACCCCCATATGATTTAGTATGTGAACCTTA
TGGA
Found at i:28140349 original size:47 final size:47
Alignment explanation
Indices: 28140234--28140353 Score: 143
Period size: 47 Copynumber: 2.5 Consensus size: 47
28140224 GAACCTTATA
** * * *
28140234 TGATTTAGTATGTGAACCCCCATATGTTTTATTATGTGAACCCTTATG
1 TGATTTAGTATGTGAA-CCTTATATGATTTATTATGCGAACCCTCATG
* * *
28140282 -GATTTAATATGTGCACCCTTATGTGATTTATTATGCGAACCCTCATG
1 TGATTTAGTATGTG-AACCTTATATGATTTATTATGCGAACCCTCATG
28140329 TGATTTAGTATGTGAACCTTATATG
1 TGATTTAGTATGTGAACCTTATATG
28140354 CGAACCATGT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
47 46 0.78
48 13 0.22
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (47 bp):
TGATTTAGTATGTGAACCTTATATGATTTATTATGCGAACCCTCATG
Found at i:28140410 original size:28 final size:26
Alignment explanation
Indices: 28140336--28140423 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 26
28140326 ATGTGATTTA
* *
28140336 GTATGTGAACCTTATATGCGAACCAT
1 GTATGTGAACCCTATATGCAAACCAT
* * **
28140362 GTATGTGTGAACTCTACATGCAAACTTT
1 GTA--TGTGAACCCTATATGCAAACCAT
28140390 GTATGTGCAAACCCTATATGCAAACC-T
1 GTATGTG--AACCCTATATGCAAACCAT
28140417 GTTATGT
1 G-TATGT
28140424 AAGTGTTAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
26 7 0.15
27 2 0.04
28 39 0.81
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (26 bp):
GTATGTGAACCCTATATGCAAACCAT
Found at i:28143054 original size:33 final size:31
Alignment explanation
Indices: 28143016--28143076 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
28143006 ATGAAATAAT
*
28143016 TATTTCAAATAATTATTATTTTTATATCTAAAA
1 TATTTCAAAT-ATCATTATTTTT-TATCTAAAA
28143049 TATTTCAAATATCATTATTTTTTATCTA
1 TATTTCAAATATCATTATTTTTTATCTA
28143077 CATTGTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 6 0.22
32 11 0.41
33 10 0.37
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (31 bp):
TATTTCAAATATCATTATTTTTTATCTAAAA
Found at i:28143358 original size:18 final size:18
Alignment explanation
Indices: 28143332--28143369 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
28143322 AAAATGAATT
28143332 AAAATTTTA-AAATTAAA
1 AAAATTTTATAAATTAAA
*
28143349 AAAATATTTATTAATTAAA
1 AAAAT-TTTATAAATTAAA
28143368 AA
1 AA
28143370 TTAAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTTTATAAATTAAA
Found at i:28146175 original size:17 final size:17
Alignment explanation
Indices: 28146145--28146190 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
28146135 CTCTTCTCCC
28146145 TCTTCTTTCATTTT-TATT
1 TCTT-TTTCATTTTCT-TT
*
28146163 TCTTTTTCTTTTTCTTT
1 TCTTTTTCATTTTCTTT
28146180 TCTTTTT-ATTT
1 TCTTTTTCATTT
28146191 GTGCTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 3 0.12
17 17 0.68
18 5 0.20
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (17 bp):
TCTTTTTCATTTTCTTT
Found at i:28152384 original size:13 final size:13
Alignment explanation
Indices: 28152366--28152395 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
28152356 TATTGGTACA
28152366 TTATTTTTTATAT
1 TTATTTTTTATAT
28152379 TTA-TTTTTATAT
1 TTATTTTTTATAT
28152391 TTATT
1 TTATT
28152396 ATATTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTTTATAT
Found at i:28156130 original size:13 final size:13
Alignment explanation
Indices: 28156112--28156139 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
28156102 ATTATTTTAA
28156112 TAGTTTTACTATT
1 TAGTTTTACTATT
28156125 TAGTTTTACTATT
1 TAGTTTTACTATT
28156138 TA
1 TA
28156140 ATTTAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (13 bp):
TAGTTTTACTATT
Found at i:28157258 original size:68 final size:68
Alignment explanation
Indices: 28157149--28157333 Score: 280
Period size: 68 Copynumber: 2.7 Consensus size: 68
28157139 AATAGTCCGT
* *
28157149 CAGGACAATAAACATGGGATTATATTGTGTAAGACCACAACTAGGCTATGGCAACATATGAAGTT
1 CAGGACAATAAACATGGGATTATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTC
28157214 TGC
66 TGC
* * * *
28157217 CAGGACAACAAAAAAGGGTTTATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTC
1 CAGGACAATAAACATGGGATTATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTC
28157282 TGC
66 TGC
* * * *
28157285 CAGAACAATAAACATGGGATCATATTGTGTAAGACTACAACTAAGCTAT
1 CAGGACAATAAACATGGGATTATATTGTGTAAGACCACAACTAGGCTAT
28157334 AGTGCCATAT
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 103 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (68 bp):
CAGGACAATAAACATGGGATTATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTC
TGC
Found at i:28159580 original size:17 final size:17
Alignment explanation
Indices: 28159543--28159581 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
28159533 GCATTTATTC
*
28159543 TATTGTTGGAAATACAT
1 TATTGTTGGAAATACAA
* *
28159560 TATTGTTGGAATTATAA
1 TATTGTTGGAAATACAA
28159577 TATTG
1 TATTG
28159582 AATTGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (17 bp):
TATTGTTGGAAATACAA
Found at i:28163067 original size:17 final size:18
Alignment explanation
Indices: 28163019--28163073 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
28163009 TGAATTTTAT
28163019 CAAGTTTTATTTCAAAAA
1 CAAGTTTTATTTCAAAAA
28163037 CAAGTTTTATTTCAAAAA
1 CAAGTTTTATTTCAAAAA
28163055 CAAGTTTTA-TTCAAAAA
1 CAAGTTTTATTTCAAAAA
28163072 CA
1 CA
28163074 TTATATTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 10 0.27
18 27 0.73
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.36
Consensus pattern (18 bp):
CAAGTTTTATTTCAAAAA
Found at i:28163944 original size:20 final size:19
Alignment explanation
Indices: 28163909--28163949 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
28163899 GATTTTTATG
28163909 TAATATTTTAATTATATAAT
1 TAATATTTTAATTATA-AAT
28163929 TAATATTTTAGA-TATAAAT
1 TAATATTTTA-ATTATAAAT
28163948 TA
1 TA
28163950 TGATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 14 0.70
21 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TAATATTTTAATTATAAAT
Done.