Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 312 of 444
Found at i:90029178 original size:21 final size:21
Alignment explanation
Indices: 90029133--90029179 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
90029123 CACGGCCTGT
*
90029133 TCACACGACCGTGTCCCTATT
1 TCACACGACCGTGTCCCTATG
* * *
90029154 TCACACGAGCGTGTGCCTCTG
1 TCACACGACCGTGTCCCTATG
90029175 TCACA
1 TCACA
90029180 TGGTCGTGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.26
Consensus pattern (21 bp):
TCACACGACCGTGTCCCTATG
Found at i:90033598 original size:26 final size:26
Alignment explanation
Indices: 90033562--90033697 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
90033552 TGATACAAAT
90033562 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
90033588 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90033614 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90033640 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90033666 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
90033692 TGATAA
1 TGATAA
90033698 GAATATCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:90035908 original size:137 final size:137
Alignment explanation
Indices: 90035485--90035893 Score: 809
Period size: 137 Copynumber: 3.0 Consensus size: 137
90035475 GAGTAGTCTC
*
90035485 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
90035550 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
90035615 ACTGTTA
131 ACTGTTA
90035622 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
90035687 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
90035752 ACTGTTA
131 ACTGTTA
90035759 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
90035824 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
90035889 ACTGT
131 ACTGT
90035894 AACTTGAATG
Statistics
Matches: 271, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 271 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:90037414 original size:20 final size:22
Alignment explanation
Indices: 90037389--90037430 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
90037379 TCATAGTTGA
90037389 GAAATTGAT-G-AATTAAGCTT
1 GAAATTGATGGAAATTAAGCTT
90037409 GAAATTGATGGAAATTAAGCTT
1 GAAATTGATGGAAATTAAGCTT
90037431 AGATTATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (22 bp):
GAAATTGATGGAAATTAAGCTT
Found at i:90040223 original size:25 final size:25
Alignment explanation
Indices: 90040191--90040267 Score: 145
Period size: 25 Copynumber: 3.1 Consensus size: 25
90040181 AAACTACATT
90040191 GCACTTGTAGAGAACTGAAACCTAA
1 GCACTTGTAGAGAACTGAAACCTAA
*
90040216 GCATTTGTAGAGAACTGAAACCTAA
1 GCACTTGTAGAGAACTGAAACCTAA
90040241 GCACTTGTAGAGAACTGAAACCTAA
1 GCACTTGTAGAGAACTGAAACCTAA
90040266 GC
1 GC
90040268 CTAAGCTGCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (25 bp):
GCACTTGTAGAGAACTGAAACCTAA
Found at i:90040892 original size:19 final size:19
Alignment explanation
Indices: 90040854--90040892 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
90040844 AAAGAGTGAG
*
90040854 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
90040873 AATTCTATTTTCT-AGAATA
1 AATT-TATTTTCTAAGAATA
90040892 A
1 A
90040893 CAATTCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:90043871 original size:42 final size:42
Alignment explanation
Indices: 90043762--90043881 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 42
90043752 CTGTACCAAT
* *
90043762 GCCATATCCTAGATATGGTCTTACATGTAATCTCATATCGAT
1 GCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGAA
*
90043804 GCCA-ATTGCCCAGCTATGGTCTTACATG-AATTCTCATATCGAA
1 GCCATA-T-CCCAGATATGGTCTTACATGTAA-TCTCATATCGAA
* *
90043847 GCCATATCCCAGATATGGTCTTACACGTTATCTCA
1 GCCATATCCCAGATATGGTCTTACATGTAATCTCA
90043882 ATAACCCTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.45
43 35 0.52
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGAA
Found at i:90048778 original size:17 final size:17
Alignment explanation
Indices: 90048712--90048778 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
90048702 TTCAAGTACA
*
90048712 TTTTCATTTCTTTTCATG
1 TTTTTATTTCTTTTCA-G
*
90048730 TTTATT-TCTTGTTTTCAG
1 TTT-TTAT-TTCTTTTCAG
*
90048748 -TTTTAGTTTATTTTCAG
1 TTTTTA-TTTCTTTTCAG
90048765 TTTTTATTTCTTTT
1 TTTTTATTTCTTTT
90048779 TGTTTTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 2 0.05
17 18 0.45
18 11 0.28
19 9 0.22
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.70
Consensus pattern (17 bp):
TTTTTATTTCTTTTCAG
Found at i:90050766 original size:29 final size:29
Alignment explanation
Indices: 90050675--90050780 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 29
90050665 GTCATTAGGG
* *
90050675 TTTATCAGGCACTAAGTGCCCATGATTATA
1 TTTATCAGGCACTATGTGCCGATG-TTATA
* * * *
90050705 TTTATTAGGTATACTTTGTACCG-TGTTATA
1 TTTATCAGG--CACTATGTGCCGATGTTATA
*
90050735 TTTATCAGGCACTATGTGCTGATGTTATA
1 TTTATCAGGCACTATGTGCCGATGTTATA
*
90050764 TTTATCAGGTACTATGT
1 TTTATCAGGCACTATGT
90050781 ACCAGTGGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
28 8 0.13
29 23 0.38
30 21 0.34
31 2 0.03
32 7 0.11
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (29 bp):
TTTATCAGGCACTATGTGCCGATGTTATA
Found at i:90055190 original size:46 final size:46
Alignment explanation
Indices: 90055130--90055357 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
90055120 TTTGACATGA
* * * * * *
90055130 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
90055176 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
90055222 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
90055268 TGCCATGGTCTCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
90055314 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
90055358 AGAGCACACT
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 163 0.98
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:90057744 original size:13 final size:13
Alignment explanation
Indices: 90057728--90057761 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
90057718 TAAATTATAA
*
90057728 ATTATTATTAACT
1 ATTATTATTAAAT
90057741 ATTATTATTAAAT
1 ATTATTATTAAAT
*
90057754 AATATTAT
1 ATTATTAT
90057762 ATATATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTATTATTAAAT
Found at i:90057813 original size:17 final size:17
Alignment explanation
Indices: 90057791--90057825 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
90057781 AAATGAAGAA
*
90057791 AAAGAATAAAAAGAAAC
1 AAAGAAGAAAAAGAAAC
*
90057808 AAAGAAGAATAAGAAAC
1 AAAGAAGAAAAAGAAAC
90057825 A
1 A
90057826 GAGAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAGAAGAAAAAGAAAC
Found at i:90059451 original size:39 final size:39
Alignment explanation
Indices: 90059344--90059478 Score: 121
Period size: 39 Copynumber: 3.4 Consensus size: 39
90059334 GACCTCGAGT
* * * *
90059344 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGCTAG-TC
** ** * *
90059385 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
*
90059423 CGATGAGACACTGGGTGTCAATTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAATTATTACTTCG-GCTAGTC
*
90059462 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
90059479 CCATATTGGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
Found at i:90060535 original size:11 final size:11
Alignment explanation
Indices: 90060519--90060570 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
90060509 TATACTAAAT
90060519 AAATAATAATA
1 AAATAATAATA
90060530 AAATAATAATA
1 AAATAATAATA
* *
90060541 AACAT-CTCATA
1 AA-ATAATAATA
*
90060552 AAATATTAATA
1 AAATAATAATA
90060563 AAATAATA
1 AAATAATA
90060571 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 2 0.06
11 30 0.88
12 2 0.06
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATAATAATA
Found at i:90071514 original size:13 final size:13
Alignment explanation
Indices: 90071496--90071561 Score: 56
Period size: 13 Copynumber: 5.5 Consensus size: 13
90071486 AATTTAAAAT
90071496 TATTTAGTGATAA
1 TATTTAGTGATAA
90071509 TATTTA---A-AA
1 TATTTAGTGATAA
90071518 TTATTTAGTGATAA
1 -TATTTAGTGATAA
*
90071532 TATTTA-AGAT--
1 TATTTAGTGATAA
*
90071542 TATTTAGTAATAA
1 TATTTAGTGATAA
90071555 TATTTAG
1 TATTTAG
90071562 GAAAATCTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
9 2 0.05
10 13 0.31
11 2 0.05
12 3 0.07
13 20 0.48
14 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:90071514 original size:23 final size:23
Alignment explanation
Indices: 90071487--90071560 Score: 130
Period size: 23 Copynumber: 3.2 Consensus size: 23
90071477 GATTTTTAAA
90071487 ATTTAAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
90071510 ATTTAAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
* *
90071533 ATTTAAGATTATTTAGTAATAAT
1 ATTTAAAATTATTTAGTGATAAT
90071556 ATTTA
1 ATTTA
90071561 GGAAAATCTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (23 bp):
ATTTAAAATTATTTAGTGATAAT
Found at i:90072731 original size:16 final size:16
Alignment explanation
Indices: 90072710--90072741 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
90072700 TTTATAAAAA
90072710 AAAATATCTTAATTAT
1 AAAATATCTTAATTAT
90072726 AAAATATCTTAATTAT
1 AAAATATCTTAATTAT
90072742 TTTTTTCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAATATCTTAATTAT
Found at i:90073382 original size:25 final size:25
Alignment explanation
Indices: 90073354--90073420 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
90073344 CATAGCTTTG
90073354 TGGTTTTATTTTGTCTC-CAATTTCA
1 TGGTTTTATTTTGTC-CACAATTTCA
* *
90073379 TGGTTTGA-TTTGTCCACATTTTCA
1 TGGTTTTATTTTGTCCACAATTTCA
*
90073403 TAGTTTTTATTTTGTCCA
1 T-GGTTTTATTTTGTCCA
90073421 TTTTGTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.03
24 14 0.40
25 12 0.34
26 8 0.23
ACGTcount: A:0.16, C:0.15, G:0.13, T:0.55
Consensus pattern (25 bp):
TGGTTTTATTTTGTCCACAATTTCA
Found at i:90078813 original size:106 final size:105
Alignment explanation
Indices: 90078549--90078823 Score: 309
Period size: 107 Copynumber: 2.6 Consensus size: 105
90078539 AAACCTTTGT
* * * * **
90078549 TCAAAGATGAATTCTACAAGCTTTACTTGGATATTTAGTTCAATGGTTAATTGTGGAGCTCGTTT
1 TCAAAGATGAATTCTACAAGCTTTAC-TGGACATTTAGTTCAATAGTAAATTATGGAGCAAGTTT
* * * *
90078614 CACCTGAACATTTAGCTCAATAGTATATTCATGTATCTCTA
65 AACCTGAACATTTAGCTCAATAGTATATTCATATATCCCAA
* * * **
90078655 TCCAAAGATGAATTCTACAAACTTTACATGGACATTAAGTTCAGTACCAAATTATGGAGCAAGTT
1 T-CAAAGATGAATTCTACAAGCTTTAC-TGGACATTTAGTTCAATAGTAAATTATGGAGCAAGTT
* * *
90078720 TAACCTGAACATTTAGCTCAAT-TTATGTTCATATGTCCCAAA
64 TAACCTGAACATTTAGCTCAATAGTATATTCATATATCCC-AA
* * *
90078762 TCAAAAATGAATTCTACAAGCTATACTCAGACATTTAGTTCAATAGTAAATTATGGAGCAAG
1 TCAAAGATGAATTCTACAAGCTTTACT-GGACATTTAGTTCAATAGTAAATTATGGAGCAAG
90078824 CATTTAGGTC
Statistics
Matches: 139, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
105 1 0.01
106 64 0.46
107 74 0.53
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (105 bp):
TCAAAGATGAATTCTACAAGCTTTACTGGACATTTAGTTCAATAGTAAATTATGGAGCAAGTTTA
ACCTGAACATTTAGCTCAATAGTATATTCATATATCCCAA
Found at i:90082309 original size:41 final size:41
Alignment explanation
Indices: 90082252--90082334 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
90082242 GTGTGGCTAA
*
90082252 CACTTAGGCTATTTTCCAAGCCTTCATGTTTCCCATAAACC
1 CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
90082293 CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
1 CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
90082334 C
1 C
90082335 TTAAAACCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.33
Consensus pattern (41 bp):
CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
Found at i:90083931 original size:49 final size:50
Alignment explanation
Indices: 90083874--90084031 Score: 255
Period size: 50 Copynumber: 3.2 Consensus size: 50
90083864 CTTGTATGCA
* * * * *
90083874 TAGTAGCCTGCACTTAATACTACACATGTGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
90083923 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
90083973 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
90084023 TAGTAGCCT
1 TAGTAGCCT
90084032 AACCTAACCA
Statistics
Matches: 102, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
49 31 0.30
50 71 0.70
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:90083971 original size:24 final size:24
Alignment explanation
Indices: 90083943--90084021 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 24
90083933 CACTTAGTAC
90083943 TACACACGTGACCTAACCATCTGA
1 TACACACGTGACCTAACCATCTGA
90083967 T--ACACGTAGTAGCCT-A-CA-CTTAGTA
1 TACACACGT-G-A-CCTAACCATC-T-G-A
90083992 CTACACACGTGACCTAACCATCTGA
1 -TACACACGTGACCTAACCATCTGA
90084017 TACAC
1 TACAC
90084022 GTAGTAGCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 24
0.64 0.00 0.36
Matches are distributed among these distances:
22 7 0.16
23 4 0.09
24 9 0.21
25 8 0.19
26 4 0.09
27 4 0.09
28 7 0.16
ACGTcount: A:0.33, C:0.32, G:0.13, T:0.23
Consensus pattern (24 bp):
TACACACGTGACCTAACCATCTGA
Found at i:90083973 original size:22 final size:22
Alignment explanation
Indices: 90083946--90084023 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
90083936 TTAGTACTAC
90083946 ACACGTGACCTAACCATCTGAT
1 ACACGTGACCTAACCATCTGAT
* *
90083968 ACACGTAGTAGCCTACACTTAGTACT-AC
1 ACACGT-G-A-CCTA-AC-CA-T-CTGAT
90083996 ACACGTGACCTAACCATCTGAT
1 ACACGTGACCTAACCATCTGAT
90084018 ACACGT
1 ACACGT
90084024 AGTAGCCTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.05
22 14 0.32
23 2 0.05
24 3 0.07
25 8 0.18
26 3 0.07
27 2 0.05
28 8 0.18
29 2 0.05
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (22 bp):
ACACGTGACCTAACCATCTGAT
Found at i:90084039 original size:30 final size:30
Alignment explanation
Indices: 90084003--90084061 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
90083993 TACACACGTG
90084003 ACCTAACCATCTGATACACGTAGTAGCCTA
1 ACCTAACCATCTGATACACGTAGTAGCCTA
90084033 ACCTAACCATCTGATACACGTAGTAGCCT
1 ACCTAACCATCTGATACACGTAGTAGCCT
90084062 GCACTTAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (30 bp):
ACCTAACCATCTGATACACGTAGTAGCCTA
Found at i:90084046 original size:80 final size:80
Alignment explanation
Indices: 90083953--90084111 Score: 264
Period size: 80 Copynumber: 2.0 Consensus size: 80
90083943 TACACACGTG
*
90083953 ACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGAT
1 ACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGGGACCTAACCATCTGAT
90084018 ACACGTAGTAGCCTA
66 ACACGTAGTAGCCTA
* * * * *
90084033 ACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGGGACCTAACTATTTGGT
1 ACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGGGACCTAACCATCTGAT
90084098 ACACGTAGTAGCCT
66 ACACGTAGTAGCCT
90084112 GCGCTTAGTA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (80 bp):
ACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGGGACCTAACCATCTGAT
ACACGTAGTAGCCTA
Found at i:90084088 original size:50 final size:50
Alignment explanation
Indices: 90084033--90084181 Score: 174
Period size: 50 Copynumber: 3.0 Consensus size: 50
90084023 TAGTAGCCTA
90084033 ACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGGG
1 ACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGGG
* * * * * *
90084083 ACCTAACTATTTGGTACACGTAGTAGCCTGCGCTTAGTACTACACACGTG
1 ACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGGG
* * ** *
90084133 ACCTAAAACCATCTTAAACATATAGTAGCCTGCACAT-GTACTACACATG
1 ACCT--AACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATG
90084182 TGTCCTCACA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
50 48 0.59
51 11 0.14
52 22 0.27
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
ACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGGG
Found at i:90090363 original size:22 final size:22
Alignment explanation
Indices: 90090335--90090381 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
90090325 AGTATATTGA
*
90090335 CTTAGACACATCTTTATGGTGT
1 CTTAGACACATCTTTATAGTGT
90090357 CTTAGACACATCTTTATAGTGT
1 CTTAGACACATCTTTATAGTGT
90090379 CTT
1 CTT
90090382 GTAACACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (22 bp):
CTTAGACACATCTTTATAGTGT
Found at i:90095006 original size:17 final size:16
Alignment explanation
Indices: 90094966--90095009 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
90094956 AATTATTCAT
90094966 AATTAACAATAAGTATA
1 AATTAACAA-AAGTATA
90094983 AATTAACAAAAGTAATTA
1 AATTAACAAAAGT-A-TA
90095001 AA-TAACAAA
1 AATTAACAAA
90095010 TTAAACAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.16
17 17 0.68
18 4 0.16
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (16 bp):
AATTAACAAAAGTATA
Found at i:90095930 original size:146 final size:137
Alignment explanation
Indices: 90095667--90096024 Score: 348
Period size: 140 Copynumber: 2.5 Consensus size: 137
90095657 GTGTATATGG
*
90095667 TTACATATCATTAAT-AGTTTACATTAATTATATAATGTTAATTTTATATTATTATAATCTACCA
1 TTACATATCATTAATGA-TTTACATTAATTATATAATGTTAATTTT-TA-TATTATAATCTATCA
* * * *
90095731 T-AAAGTTAGTTACACGTTTAGGGTTTAAGTTTACATATATAAAAATGCACATTATAATATTATA
63 TAAAATTTAG-T-CAC-TTTAGGGTTTAAGCTTACATATATAAAAATACACATTATAATAATATA
* *
90095795 ATCGTATATTATGTTA
125 ATCGTATA-CA-G-GA
* *
90095811 TATATCATTAAT-ATTAATGATTTACTTTAATTATATAATGCTAATTGTTTATATTATAATCTAT
1 T-TA-CA-T-ATCATTAATGATTTACATTAATTATATAATGTTAATT-TTTATATTATAATCTAT
* * *
90095875 CATAAAATTTAG-GA-TTTATGGTTTAAGCTTACATATTAATAGAAAAATATACATTATAATAAT
61 CATAAAATTTAGTCACTTTAGGGTTTAAGCTTACATA-T-AT--AAAAATACACATTATAATAAT
* *
90095938 ATAGTTGTATACAGGA
122 ATAATCGTATACAGGA
* * **
90095954 TTACATATCATTAATGATATACCTTAATTATATAATGTTAATTAAATATATTATAATCTATCATA
1 TTACATATCATTAATGATTTACATTAATTATATAATGTTAATT-TTTATATTATAATCTATCATA
90096019 AAATTT
65 AAATTT
90096025 GTTTCATATT
Statistics
Matches: 182, Mismatches: 20, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
139 2 0.01
140 57 0.31
141 2 0.01
142 21 0.12
143 3 0.02
144 5 0.03
145 3 0.02
146 44 0.24
147 40 0.22
148 5 0.03
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (137 bp):
TTACATATCATTAATGATTTACATTAATTATATAATGTTAATTTTTATATTATAATCTATCATAA
AATTTAGTCACTTTAGGGTTTAAGCTTACATATATAAAAATACACATTATAATAATATAATCGTA
TACAGGA
Found at i:90101256 original size:36 final size:37
Alignment explanation
Indices: 90101173--90101304 Score: 106
Period size: 36 Copynumber: 3.4 Consensus size: 37
90101163 ATCAGCTTGG
* **
90101173 CACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATAAACCG-A--AGTAAATTGA
* * *
90101213 CATCCAGTGTCTCATCGATTAAA-CGAAGTAAATTGGA
1 CACCCAGTGCCTCATCGAATAAACCGAAGTAAATT-GA
90101250 -ACCCAGTGCCTCATCGAATAAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAAA-CCGAAG---TAAATTGA
* *
90101290 CACCCAATGTCTCAT
1 CACCCAGTGCCTCAT
90101305 TGACTCGAAG
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
36 27 0.36
37 2 0.03
38 6 0.08
39 2 0.03
40 20 0.27
41 18 0.24
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGAATAAACCGAAGTAAATTGA
Found at i:90101813 original size:21 final size:20
Alignment explanation
Indices: 90101764--90101814 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
90101754 TTTGTTTTAT
90101764 TATTATAATA-TAATAAATA
1 TATTATAATATTAATAAATA
*
90101783 TACTTA-AATATTAAGTAAATC
1 TA-TTATAATATTAA-TAAATA
90101804 TATTATAATAT
1 TATTATAATAT
90101815 ATATTAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 6 0.22
20 9 0.33
21 12 0.44
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (20 bp):
TATTATAATATTAATAAATA
Found at i:90108215 original size:9 final size:9
Alignment explanation
Indices: 90108201--90108225 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
90108191 TTTGCATCAT
90108201 TTTCTCTTA
1 TTTCTCTTA
90108210 TTTCTCTTA
1 TTTCTCTTA
90108219 TTTCTCT
1 TTTCTCT
90108226 ACAGCAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTCTCTTA
Found at i:90111732 original size:17 final size:18
Alignment explanation
Indices: 90111710--90111743 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90111700 AATCAATCAA
90111710 TTTTTT-GAAAACCCATT
1 TTTTTTAGAAAACCCATT
*
90111727 TTTTTTATAAAACCCAT
1 TTTTTTAGAAAACCCAT
90111744 AATCCACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTTTTAGAAAACCCATT
Found at i:90124105 original size:25 final size:23
Alignment explanation
Indices: 90124077--90124141 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
90124067 CTATAAACAC
*
90124077 ATAAATAAATAAAAAAACAATACTA
1 ATAAA-AAATAAAAAAACAACA-TA
* *
90124102 ATAAAAACATATAAAAATAACATA
1 ATAAAAA-ATAAAAAAACAACATA
*
90124126 ATAAAAAAGAAAAAAA
1 ATAAAAAATAAAAAAA
90124142 AAAGAGAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 7 0.21
24 11 0.32
25 16 0.47
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (23 bp):
ATAAAAAATAAAAAAACAACATA
Found at i:90124131 original size:14 final size:13
Alignment explanation
Indices: 90124084--90124133 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 13
90124074 CACATAAATA
90124084 AATAAAAAAACAAT
1 AATAAAAAAAC-AT
*
90124098 ACTAATAAAAACAT
1 AATAA-AAAAACAT
90124112 -ATAAAAATAACAT
1 AATAAAAA-AACAT
90124125 AATAAAAAA
1 AATAAAAAA
90124134 GAAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 3 0.10
13 9 0.29
14 13 0.42
15 6 0.19
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (13 bp):
AATAAAAAAACAT
Found at i:90124762 original size:13 final size:15
Alignment explanation
Indices: 90124733--90124769 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
90124723 TTTTAATTTC
90124733 AATATTATTTGTATT
1 AATATTATTTGTATT
90124748 AATA-TATTT-TATT
1 AATATTATTTGTATT
*
90124761 AATGTTATT
1 AATATTATT
90124770 ATTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 9 0.45
15 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
AATATTATTTGTATT
Found at i:90125020 original size:22 final size:21
Alignment explanation
Indices: 90124990--90125037 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
90124980 ATTATGTTTC
*
90124990 TATTAATATATTATACATATA
1 TATTAATATATAATACATATA
*
90125011 GTATTTATATATAATACATATA
1 -TATTAATATATAATACATATA
90125033 TATTA
1 TATTA
90125038 TGTATGTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTAATATATAATACATATA
Found at i:90125494 original size:26 final size:26
Alignment explanation
Indices: 90125458--90125567 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
90125448 TGATACAAAT
90125458 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
90125484 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
90125510 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
90125536 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
90125562 TGATAA
1 TGATAA
90125568 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:90127076 original size:26 final size:26
Alignment explanation
Indices: 90127047--90127099 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
90127037 TTTACAGTTT
90127047 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
90127073 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
90127099 T
1 T
90127100 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:90132572 original size:26 final size:26
Alignment explanation
Indices: 90132535--90132644 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
90132525 TAATACAAAT
*
90132535 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90132561 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90132587 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90132613 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90132639 TGATAA
1 TGATAA
90132645 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90134146 original size:26 final size:26
Alignment explanation
Indices: 90134117--90134169 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
90134107 TTTACAGTTT
90134117 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
90134143 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
90134169 T
1 T
90134170 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:90134404 original size:21 final size:20
Alignment explanation
Indices: 90134362--90134409 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
90134352 ATTCCCCACA
90134362 TGGAGTGTATGGTGGTACGGG
1 TGGAGTGTATGGTGGTA-GGG
90134383 TGGAGTGTAGTGGTTGGT-GGG
1 TGGAGTGTA-TGG-TGGTAGGG
*
90134404 TTGAGT
1 TGGAGT
90134410 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 17 0.71
22 3 0.12
23 4 0.17
ACGTcount: A:0.12, C:0.02, G:0.52, T:0.33
Consensus pattern (20 bp):
TGGAGTGTATGGTGGTAGGG
Found at i:90135957 original size:19 final size:19
Alignment explanation
Indices: 90135935--90135991 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
90135925 GTTCCTAATA
*
90135935 TATATTGTATATGTTTATT
1 TATATTGTATATATTTATT
*
90135954 TATATTATGTATATATATATT
1 TATA-T-TGTATATATTTATT
90135975 TAGTA-TGTATATATTTA
1 TA-TATTGTATATATTTA
90135992 GTATTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 15 0.47
20 1 0.03
21 14 0.44
22 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (19 bp):
TATATTGTATATATTTATT
Found at i:90135990 original size:15 final size:15
Alignment explanation
Indices: 90135962--90135995 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
90135952 TTTATATTAT
90135962 GTATATATATATTTA
1 GTATATATATATTTA
*
90135977 GTATGTATATATTTA
1 GTATATATATATTTA
90135992 GTAT
1 GTAT
90135996 TATTATGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:90136002 original size:21 final size:19
Alignment explanation
Indices: 90135940--90136003 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 19
90135930 TAATATATAT
*
90135940 TGTATATGTTTATTTATATTA
1 TGTATATATTTA-TT-TATTA
* *
90135961 TGTATATATATATTTAGTA
1 TGTATATATTTATTTATTA
90135980 TGTATATATTTAGTATTATTA
1 TGTATATATTTA-T-TTATTA
90136001 TGT
1 TGT
90136004 CAATATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 15 0.42
20 3 0.08
21 18 0.50
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (19 bp):
TGTATATATTTATTTATTA
Found at i:90136044 original size:2 final size:2
Alignment explanation
Indices: 90136037--90136066 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
90136027 ACTTATTTTC
90136037 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90136067 GCAATATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90136286 original size:17 final size:18
Alignment explanation
Indices: 90136264--90136301 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
90136254 ATTATGAACG
90136264 TGTTTTTA-ATA-ATATTA
1 TGTTTTTATATATATA-TA
90136281 TGTTTTTATATATATATA
1 TGTTTTTATATATATATA
90136299 TGT
1 TGT
90136302 GTGTGTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 8 0.42
19 3 0.16
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
TGTTTTTATATATATATA
Found at i:90147019 original size:24 final size:22
Alignment explanation
Indices: 90146992--90147035 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
90146982 AGTTGTGGAT
90146992 GTGGTGGAAGAAGGATGAGAGAAG
1 GTGGTGGAAG-AGGA-GAGAGAAG
*
90147016 GTGGTGGTAGAGGAGAGAGA
1 GTGGTGGAAGAGGAGAGAGA
90147036 GGAAAGAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.34, C:0.00, G:0.52, T:0.14
Consensus pattern (22 bp):
GTGGTGGAAGAGGAGAGAGAAG
Found at i:90147106 original size:16 final size:17
Alignment explanation
Indices: 90147057--90147116 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
90147047 TTGTGGTGGA
90147057 GGTGGAGGAGGAGG-GG
1 GGTGGAGGAGGAGGAGG
* * *
90147073 GTTTGAGGAAGAAGGAGGAG
1 GGTGGAGG-AGGAGGA-G-G
90147093 GGTGGAGGAGGAGGAGG
1 GGTGGAGGAGGAGGAGG
90147110 GGTGGAG
1 GGTGGAG
90147117 AGGCGTTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 6 0.18
17 13 0.38
18 1 0.03
19 7 0.21
20 7 0.21
ACGTcount: A:0.25, C:0.00, G:0.65, T:0.10
Consensus pattern (17 bp):
GGTGGAGGAGGAGGAGG
Found at i:90151090 original size:10 final size:11
Alignment explanation
Indices: 90151071--90151099 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
90151061 GTTTTGATTA
90151071 AAAAATAATTT
1 AAAAATAATTT
90151082 AAAAA-AATTT
1 AAAAATAATTT
90151092 AAAAATAA
1 AAAAATAA
90151100 AAAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAATAATTT
Found at i:90153492 original size:19 final size:19
Alignment explanation
Indices: 90153470--90153508 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
90153460 TAATACATGC
90153470 CAAGTAAAGATCCTCTCTA
1 CAAGTAAAGATCCTCTCTA
*
90153489 CAAGTAAAGGTCCTCTCTA
1 CAAGTAAAGATCCTCTCTA
90153508 C
1 C
90153509 TTACGTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (19 bp):
CAAGTAAAGATCCTCTCTA
Found at i:90156011 original size:15 final size:15
Alignment explanation
Indices: 90155991--90156020 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
90155981 GAAACTCCTT
90155991 TTATTATTGTCACGC
1 TTATTATTGTCACGC
90156006 TTATTATTGTCACGC
1 TTATTATTGTCACGC
90156021 AAATATTGTA
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:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (15 bp):
TTATTATTGTCACGC
Found at i:90162296 original size:18 final size:18
Alignment explanation
Indices: 90162273--90162310 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
90162263 TAAATAGAGG
90162273 TTACATAGGTTTTTATTC
1 TTACATAGGTTTTTATTC
90162291 TTACATAGGTTTTTATTC
1 TTACATAGGTTTTTATTC
90162309 TT
1 TT
90162311 GTAGAATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (18 bp):
TTACATAGGTTTTTATTC
Found at i:90168695 original size:22 final size:22
Alignment explanation
Indices: 90168670--90168714 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
90168660 TTTAATAAAA
90168670 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
90168692 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
90168714 A
1 A
90168715 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:90173278 original size:22 final size:22
Alignment explanation
Indices: 90173253--90173297 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
90173243 TTTAATAAAA
90173253 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
90173275 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
90173297 A
1 A
90173298 CATATCTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:90188587 original size:2 final size:2
Alignment explanation
Indices: 90188580--90188624 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
90188570 ACCCTGCTAT
90188580 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90188622 TA T
1 TA T
90188625 TAGATTTGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:90190491 original size:18 final size:19
Alignment explanation
Indices: 90190468--90190512 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
90190458 TTTTTTACTG
90190468 ATAATTATAAATTAAAT-T
1 ATAATTATAAATTAAATAT
**
90190486 ATAATTAT-TTTTAAATAT
1 ATAATTATAAATTAAATAT
90190504 ATAATTATA
1 ATAATTATA
90190513 GTAACTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATTATAAATTAAATAT
Found at i:90190560 original size:41 final size:44
Alignment explanation
Indices: 90190478--90190565 Score: 112
Period size: 41 Copynumber: 2.1 Consensus size: 44
90190468 ATAATTATAA
* * *
90190478 ATTAAATTATAATTATTTTTAAATATATAATTATAGTAACTTCT
1 ATTAAATTATAATTATTTTTAAATATACAACTATAGCAACTTCT
90190522 ATTAAATTATAA-T-TTTTTAAA-ATACAACTATCA-CAACTTCT
1 ATTAAATTATAATTATTTTTAAATATACAACTAT-AGCAACTTCT
90190563 ATT
1 ATT
90190566 TTACATCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
41 18 0.45
42 9 0.22
43 1 0.03
44 12 0.30
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.47
Consensus pattern (44 bp):
ATTAAATTATAATTATTTTTAAATATACAACTATAGCAACTTCT
Found at i:90208872 original size:16 final size:16
Alignment explanation
Indices: 90208849--90208904 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
90208839 CGTTTGGTTG
*
90208849 GCTGTAATGGAATAGG
1 GCTGTAATGGAATAGA
* *
90208865 GTTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
90208881 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
90208897 GCTGTAAT
1 GCTGTAAT
90208905 AATTTGGCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:90219331 original size:43 final size:42
Alignment explanation
Indices: 90219228--90219351 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
90219218 CGCCGCTATA
* * * ** **
90219228 GCAAACGTCGTTAAAGATCATGACCTTTAGCAACTTTTTTTC
1 GCAAACGTCGTTAAAGACCATGACTTTTAGCAGCGCTTTCCC
* *
90219270 GCAAATGTCGCTAAAGACCATGACTTTTAGCAGCGCTTTCCC
1 GCAAACGTCGTTAAAGACCATGACTTTTAGCAGCGCTTTCCC
* *
90219312 TGCAAACGCCGTTAAAGACCATGACTTTTAGCGGCGCTTT
1 -GCAAACGTCGTTAAAGACCATGACTTTTAGCAGCGCTTT
90219352 TTTAACAAAC
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (42 bp):
GCAAACGTCGTTAAAGACCATGACTTTTAGCAGCGCTTTCCC
Found at i:90219361 original size:43 final size:42
Alignment explanation
Indices: 90219278--90219456 Score: 173
Period size: 43 Copynumber: 4.2 Consensus size: 42
90219268 TCGCAAATGT
* * *
90219278 CGCTAAAGACCATGACTTTTAGCAGCGCTTTCCCTGCAAACGC
1 CGCTAAAGACCATAACTTTTAGCAGCGCTTT-TCTACAAACGC
* * * *
90219321 CGTTAAAGACCATGACTTTTAGCGGCGCTTTTTTAACAAACGC
1 CGCTAAAGACCATAACTTTTAGCAGCGCTTTTCT-ACAAACGC
* * * * *
90219364 CGCTAAAAACCATAACCTTTAGC-GACACTTTTTTACAAACAC
1 CGCTAAAGACCATAACTTTTAGCAG-CGCTTTTCTACAAACGC
* * *
90219406 TGCTACAGAACA-AACTTTTAGCAGCGCTTTTCTCACAAACGC
1 CGCTAAAGACCATAACTTTTAGCAGCGCTTTTCT-ACAAACGC
90219448 CGCTAAAGA
1 CGCTAAAGA
90219457 ATATAACCTT
Statistics
Matches: 111, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
41 16 0.14
42 32 0.29
43 63 0.57
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (42 bp):
CGCTAAAGACCATAACTTTTAGCAGCGCTTTTCTACAAACGC
Found at i:90220930 original size:168 final size:167
Alignment explanation
Indices: 90220649--90220989 Score: 637
Period size: 168 Copynumber: 2.0 Consensus size: 167
90220639 ATGGCATGTA
90220649 ACCACATTGCACCAATCTCGTTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
1 ACCACATTGCACCAATCTCGTTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
* *
90220714 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGTAAATTTTCATTT
66 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATCAGACAGTTTGCAAA-TTTCATTT
90220779 AAGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
130 AAGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
*
90220817 ACCACATTGCACCAATCTCGTTCCCTGATTTCAGCTTTTTTATTGAAAGAGAGAGCCAAACTTAG
1 ACCACATTGCACCAATCTCGTTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
90220882 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATCAGACAGTTTGCAAATTTCATTTA
66 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATCAGACAGTTTGCAAATTTCATTTA
*
90220947 AGTTTAAATGATAAAAGAGCATATAGCAGAAGATCAT
131 AGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
90220984 ACCACA
1 ACCACA
90220990 ATCAAATGCG
Statistics
Matches: 169, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
167 51 0.30
168 118 0.70
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (167 bp):
ACCACATTGCACCAATCTCGTTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATCAGACAGTTTGCAAATTTCATTTA
AGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
Found at i:90223544 original size:93 final size:93
Alignment explanation
Indices: 90223385--90223570 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
90223375 GTCAAAACCC
*
90223385 CCAGAAGGAAAAACCACTCTAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
1 CCAGAAGGAAAAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
90223450 AAGAAAACCTAGAAAATAATTCCAATAA
66 AAGAAAACCTAGAAAATAATTCCAATAA
*
90223478 CCAGAAGGAACAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
1 CCAGAAGGAAAAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
90223543 AAGAAAACCTAGAAAATAATTCCAATAA
66 AAGAAAACCTAGAAAATAATTCCAATAA
90223571 AAAAGCCATA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.20
Consensus pattern (93 bp):
CCAGAAGGAAAAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
AAGAAAACCTAGAAAATAATTCCAATAA
Found at i:90224299 original size:6 final size:7
Alignment explanation
Indices: 90224289--90224316 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
90224279 ATATTTTAGT
90224289 TTTTTAA
1 TTTTTAA
90224296 TTTTTAA
1 TTTTTAA
90224303 TTTTTAA
1 TTTTTAA
90224310 TTTTTAA
1 TTTTTAA
90224317 AATTTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:90224299 original size:8 final size:8
Alignment explanation
Indices: 90224282--90224345 Score: 51
Period size: 9 Copynumber: 7.8 Consensus size: 8
90224272 ATATTAAATA
*
90224282 TTTTAGTT
1 TTTTAATT
90224290 TTTTAA-T
1 TTTTAATT
90224297 TTTTAA-T
1 TTTTAATT
90224304 TTTTAATT
1 TTTTAATT
*
90224312 TTTAAAATT
1 TTT-TAATT
90224321 TTTTGAATAT
1 TTTT-AAT-T
*
90224331 TTTTATAAT
1 TTTTA-ATT
90224340 TTTTAA
1 TTTTAA
90224346 ATTATCATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
7 14 0.30
8 10 0.21
9 17 0.36
10 6 0.13
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (8 bp):
TTTTAATT
Found at i:90224348 original size:8 final size:8
Alignment explanation
Indices: 90224275--90224348 Score: 55
Period size: 7 Copynumber: 8.9 Consensus size: 8
90224265 ATATTAAATA
90224275 TTAAATATT
1 TTAAAT-TT
*
90224284 TT-AGTTT
1 TTAAATTT
*
90224291 TTTAATTT
1 TTAAATTT
90224299 TT-AATTT
1 TTAAATTT
90224306 TT-AATTT
1 TTAAATTT
90224313 TTAAAATTTT
1 TT-AAA-TTT
90224323 TTGAATATTT
1 TT-AA-ATTT
90224333 TTATAATTT
1 TTA-AATTT
90224342 TTAAATT
1 TTAAATT
90224349 ATCATATAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
7 18 0.32
8 12 0.21
9 12 0.21
10 13 0.23
11 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:90224897 original size:7 final size:7
Alignment explanation
Indices: 90224887--90224981 Score: 50
Period size: 7 Copynumber: 13.4 Consensus size: 7
90224877 CCCAAACCCC
90224887 TAAACCA
1 TAAACCA
90224894 TAAACCA
1 TAAACCA
*
90224901 TAATCCA
1 TAAACCA
*
90224908 TAAACCT
1 TAAACCA
90224915 TAAA--A
1 TAAACCA
90224920 TAGCAACTCA
1 TA--AAC-CA
* **
90224930 TACACTT
1 TAAACCA
*
90224937 TAAACCT
1 TAAACCA
90224944 TAAACCA
1 TAAACCA
* *
90224951 TATACCC
1 TAAACCA
*
90224958 TAAATCA
1 TAAACCA
*
90224965 TAAACCC
1 TAAACCA
*
90224972 TAAACTA
1 TAAACCA
90224979 TAA
1 TAA
90224982 TGATAATTAA
Statistics
Matches: 64, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
5 2 0.03
7 57 0.89
8 2 0.03
10 3 0.05
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:90225176 original size:21 final size:21
Alignment explanation
Indices: 90225152--90225195 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
90225142 GACCCCTAAC
90225152 CCTT-AACCCCTAACACATAAA
1 CCTTAAACCCC-AACACATAAA
*
90225173 CCTTAAACCCCAACACTTAAA
1 CCTTAAACCCCAACACATAAA
90225194 CC
1 CC
90225196 ACCCTTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (21 bp):
CCTTAAACCCCAACACATAAA
Found at i:90225223 original size:15 final size:15
Alignment explanation
Indices: 90225201--90225235 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
90225191 AAACCACCCT
*
90225201 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
90225215 TAAACCCATAATCCA
1 TAAACCCATAATCCA
90225230 TAAACC
1 TAAACC
90225236 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:90225240 original size:22 final size:22
Alignment explanation
Indices: 90225196--90225273 Score: 54
Period size: 22 Copynumber: 3.6 Consensus size: 22
90225186 CACTTAAACC
* * * *
90225196 ACCCTTAAACCATAATCCCTAA
1 ACCCATAATCCATAAACCTTAA
90225218 ACCCATAATCCATAAACCTTAA
1 ACCCATAATCCATAAACCTTAA
** *
90225240 A-ATAGTAAT-CATAAACATTAA
1 ACCCA-TAATCCATAAACCTTAA
*
90225261 ACCCTTAA-CCATA
1 ACCCATAATCCATA
90225274 TACTGTAAAC
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
21 20 0.47
22 23 0.53
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.24
Consensus pattern (22 bp):
ACCCATAATCCATAAACCTTAA
Found at i:90225273 original size:21 final size:21
Alignment explanation
Indices: 90225249--90225295 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
90225239 AAATAGTAAT
*
90225249 CATAAACAT-TAAACCCTTAAC
1 CATAAAC-TGTAAACCCTAAAC
*
90225270 CATATACTGTAAACCCTAAAC
1 CATAAACTGTAAACCCTAAAC
*
90225291 TATAA
1 CATAA
90225296 TGATAATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (21 bp):
CATAAACTGTAAACCCTAAAC
Found at i:90225714 original size:76 final size:76
Alignment explanation
Indices: 90225586--90225770 Score: 230
Period size: 76 Copynumber: 2.4 Consensus size: 76
90225576 ATGAAATATT
* * * * * * * *
90225586 TTTTGTGGTGTTTTTCAAAAAGCGCTGCTATAGTCACTAAAAACTCATTACAAAATG-CTGGCGT
1 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAACTCAATACAAAACGAC-GGCGT
90225650 TTTGCAAAATTC
65 TTTGCAAAATTC
* * * *
90225662 TTTTGCTGCGTTTTTTGAAAAA-CGCCGCTAAAGCCATTAAAAGCTCAATACAAAACGACGGTGT
1 TTTTGCGGCGTTTTTT-AAAAAGCGCCGCTAAAGCCACTAAAAACTCAATACAAAACGACGGCGT
90225726 TTTGCAAAATTC
65 TTTGCAAAATTC
90225738 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAG
1 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAG
90225771 GTGTACCTAT
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
75 5 0.05
76 82 0.88
77 6 0.06
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (76 bp):
TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAACTCAATACAAAACGACGGCGTT
TTGCAAAATTC
Found at i:90227153 original size:14 final size:13
Alignment explanation
Indices: 90227134--90227172 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
90227124 TTTTTTTTCA
*
90227134 TTTTTTGATTTCTT
1 TTTTTTCATTT-TT
90227148 TTTTTTCA-TTTT
1 TTTTTTCATTTTT
90227160 TTTTTTCATTTTT
1 TTTTTTCATTTTT
90227173 GATTTTGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 10 0.43
13 6 0.26
14 7 0.30
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTTTCATTTTT
Found at i:90227154 original size:9 final size:10
Alignment explanation
Indices: 90227122--90227163 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
90227112 AAAAAGGTTA
90227122 CATTTTTTTT
1 CATTTTTTTT
90227132 CATTTTTTGATTT
1 CA-TTTTT--TTT
90227145 C-TTTTTTTT
1 CATTTTTTTT
90227154 CATTTTTTTT
1 CATTTTTTTT
90227164 TTCATTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 4 0.14
10 10 0.36
11 10 0.36
13 4 0.14
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (10 bp):
CATTTTTTTT
Found at i:90227171 original size:22 final size:23
Alignment explanation
Indices: 90227122--90227172 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
90227112 AAAAAGGTTA
90227122 CATTTTTTTTCATTTTTTGATTT
1 CATTTTTTTTCATTTTTTGATTT
*
90227145 C-TTTTTTTTCATTTTTT-TTTT
1 CATTTTTTTTCATTTTTTGATTT
90227166 CATTTTT
1 CATTTTT
90227173 GATTTTGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 21 0.81
23 1 0.04
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (23 bp):
CATTTTTTTTCATTTTTTGATTT
Found at i:90228121 original size:20 final size:21
Alignment explanation
Indices: 90228098--90228137 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
90228088 TTTTTATATT
*
90228098 ACTATTATTGTTA-TATTATC
1 ACTATTATTCTTACTATTATC
*
90228118 ACTATTTTTCTTACTATTAT
1 ACTATTATTCTTACTATTAT
90228138 TATTACTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
ACTATTATTCTTACTATTATC
Found at i:90228157 original size:3 final size:3
Alignment explanation
Indices: 90228010--90228142 Score: 110
Period size: 3 Copynumber: 44.7 Consensus size: 3
90228000 TTTTCTTGCA
*
90228010 TAT TATT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * *
90228056 TAT TAT TAT TAT CT-T CGT TAC TAT TAT TAT TTT TTT TA- TAT TAC
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
90228100 TAT TAT TGT TA- TAT TAT CAC TAT TTT TCT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
90228143 CTACAACTAT
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
2 4 0.04
3 95 0.92
4 4 0.04
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:90228329 original size:21 final size:21
Alignment explanation
Indices: 90228282--90228370 Score: 94
Period size: 21 Copynumber: 4.4 Consensus size: 21
90228272 CTTTTCCCTG
**
90228282 TTTTATTACTATTATTAATAT
1 TTTTATTACTATTATTTTTAT
**
90228303 CATTATTACTATTATTTTTAT
1 TTTTATTACTATTATTTTTAT
90228324 TTTTATT--T-TTATTTTTAT
1 TTTTATTACTATTATTTTTAT
* * *
90228342 TTTTATTACTACTACTGTTAT
1 TTTTATTACTATTATTTTTAT
90228363 TTTTATTA
1 TTTTATTA
90228371 ACATATTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
18 17 0.30
19 1 0.02
20 1 0.02
21 37 0.66
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (21 bp):
TTTTATTACTATTATTTTTAT
Found at i:90228368 original size:6 final size:6
Alignment explanation
Indices: 90228314--90228348 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
90228304 ATTATTACTA
90228314 TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
90228349 ACTACTACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:90228483 original size:15 final size:15
Alignment explanation
Indices: 90228463--90228493 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
90228453 TATTATTTTC
90228463 TATTTATTACTATTA
1 TATTTATTACTATTA
90228478 TATTTATTACTATTA
1 TATTTATTACTATTA
90228493 T
1 T
90228494 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:90228603 original size:15 final size:15
Alignment explanation
Indices: 90228585--90228622 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
90228575 CCCACTTAGC
90228585 TATTATTACTATTAT
1 TATTATTACTATTAT
*
90228600 TATTTTTACTATTAT
1 TATTATTACTATTAT
*
90228615 AATTATTA
1 TATTATTA
90228623 TTAATCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAT
Found at i:90232962 original size:6 final size:6
Alignment explanation
Indices: 90232951--90232980 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
90232941 GGCGCTATAT
90232951 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
90232981 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:90234216 original size:26 final size:26
Alignment explanation
Indices: 90234187--90234239 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
90234177 TCAAACATGC
90234187 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
90234213 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
90234239 A
1 A
90234240 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:90235763 original size:26 final size:26
Alignment explanation
Indices: 90235727--90235810 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
90235717 CATGAAATTC
90235727 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90235753 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90235779 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90235805 TTATCA
1 TTATCA
90235811 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90237927 original size:47 final size:47
Alignment explanation
Indices: 90237876--90238023 Score: 125
Period size: 47 Copynumber: 3.3 Consensus size: 47
90237866 TCAGGCGGGG
90237876 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTTCGCTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTTCGCTGA
* * * * * *
90237923 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TG-TATCAGGCGGGG
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTTC--GC-TGA
* *
90237964 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTTCGCTGA
*
90238011 AGCAGATCCAAGA
1 AGCAGATCGAAGA
90238024 TGATTTGGCA
Statistics
Matches: 74, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
38 3 0.04
39 2 0.03
40 5 0.07
41 20 0.27
42 2 0.03
46 2 0.03
47 32 0.43
48 4 0.05
49 2 0.03
50 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (47 bp):
AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTTCGCTGA
Found at i:90237968 original size:41 final size:41
Alignment explanation
Indices: 90237835--90238064 Score: 130
Period size: 41 Copynumber: 5.3 Consensus size: 41
90237825 CCTTCGCTGA
90237835 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGG
* * * * * *
90237876 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTTC--GC-TGA
1 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TG-TATCAGGCGGGG
90237923 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGG
* * * * * *
90237964 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTTGA
1 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGGCG-GGG
*
90238011 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGTGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGG
*
90238052 AGCAGATCGAAGA
1 AGCAGATCCAAGA
90238065 CACAGCTGAT
Statistics
Matches: 139, Mismatches: 26, Indels: 48
0.65 0.12 0.23
Matches are distributed among these distances:
38 3 0.02
39 5 0.04
40 10 0.07
41 52 0.37
42 5 0.04
46 6 0.04
47 40 0.29
48 10 0.07
49 5 0.04
50 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (41 bp):
AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGG
Found at i:90237976 original size:88 final size:88
Alignment explanation
Indices: 90237829--90238151 Score: 533
Period size: 88 Copynumber: 3.7 Consensus size: 88
90237819 ATCTGACCTT
90237829 CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
1 CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
*
90237894 CTGATTTGGCTTTCACGTGTTTT
66 CTGATTTGGCTTTCACGTGTTTA
90237917 CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
1 CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
90237982 CTGATTTGGCTTTCACGTGTTTA
66 CTGATTTGGCTTTCACGTGTTTA
* * *
90238005 CGTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGTGGGGAGCAGATCGAAGACACAG
1 CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
*
90238070 CTGATTTGGCTTTCACATGTTTA
66 CTGATTTGGCTTTCACGTGTTTA
* * * * *
90238093 CGTTGAAGCAAATCCAAGATGATTTAG-AGTCTCTGTAGC-GGCGGAGAGCAGATCGAAGA
1 CGCTGAAGCAGATCCAAGATGATTTGGCA-TCTCTGTATCAGGCGGGGAGCAGATCGAAGA
90238152 TTGCAGATTT
Statistics
Matches: 224, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
87 19 0.08
88 205 0.92
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (88 bp):
CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
CTGATTTGGCTTTCACGTGTTTA
Found at i:90238322 original size:132 final size:132
Alignment explanation
Indices: 90238155--90239481 Score: 2118
Period size: 132 Copynumber: 10.1 Consensus size: 132
90238145 TCGAAGATTG
* * * *
90238155 CAGATTTGACATCCCTATGTTTATAGGGAAAAGATCGAAGATAACAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
* * *
90238220 TACAGTGAAGCAGATCAAAGATTTTAACATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
*
90238285 AG
131 AA
* * *
90238287 CAGATTTGCCATCCCTGTGCTTATAGGGAGCAGATCAAAGATAACAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
*
90238352 TACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
90238417 AA
131 AA
* * * *
90238419 CAGATTTGGCATCCCTGTGCTTATAAGGAACATATCGAAGACAACAGATCTGGCATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
90238484 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
90238549 AA
131 AA
* * * * *
90238551 CAGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAAATCTAACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
* *
90238616 TACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATTGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
90238681 AA
131 AA
* * *
90238683 CAGATTTGGCATCCCTGTGCTTATAGGGAATAGATCGAAGA-AAGCAAATCTAACATTCCTGTGC
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAA-CAGATCTGACATTCCTGTGC
90238747 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
65 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
90238812 TAA
130 TAA
* * * *
90238815 TAGATTTGGCATCCCTGTGTTTGTAGGGAACAGATCGAAGATAACAGATCTGACATTCCTATGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
*
90238880 TACAATGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
90238945 AA
131 AA
* * * * *
90238947 CAGATTTGGCATCCCTGTGTTTGTAGGGAACAGATCGAAGATAGCAAATCTAACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
* * *
90239012 TACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGCTTATAGGGAAAAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
90239077 AA
131 AA
* *
90239079 CAGATTTGGCATCCCTGTGCTTATAGGGAATAGATCGAAGATAACACATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
*
90239144 TACAGTGAAGCAAATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
*
90239209 AG
131 AA
* *
90239211 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTAACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
*
90239276 TACAGTGAAGCAGATCGAAGATTTCAGCAT-GCATCCTTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
*
90239340 AG
131 AA
** * * *
90239342 CAGATTTCCCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTACTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
** * *
90239407 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATTTCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
*
90239472 AG
131 AA
90239474 CAGATTTG
1 CAGATTTG
90239482 ACCCCCTAAG
Statistics
Matches: 1115, Mismatches: 77, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 126 0.11
132 987 0.89
133 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
AA
Found at i:90239404 original size:44 final size:44
Alignment explanation
Indices: 90239356--90239483 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 44
90239346 TTTCCCATCC
90239356 CTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTA
1 CTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTA
* * * ** * *
90239400 CTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG--CATGGCATTT
1 CTGTGTTTATAGGGAA-CAGATCGAAGATAGCAGATC-TGACATTA
* *
90239444 CTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGAC
1 CTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTGAC
90239484 CCCCTAAGCA
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
42 1 0.02
43 13 0.20
44 35 0.55
45 15 0.23
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (44 bp):
CTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTA
Found at i:90239535 original size:44 final size:43
Alignment explanation
Indices: 90239484--90239990 Score: 276
Period size: 44 Copynumber: 11.7 Consensus size: 43
90239474 CAGATTTGAC
90239484 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGAC-GAGCCTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACAGA-CCTTAA
* * * * *** *
90239527 CTCCCTAAGTAGTAGGGTAACA-AGCTAAATTTACAGATCTTAA
1 C-CCCTAAGCAGTAGGGAAACAGATCGAAAGCGACAGACCTTAA
* *
90239570 CCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGA-TGAACCTTAAA
1 -CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACAG-ACCTT-AA
* * * * *** *
90239615 CCCCTAAGCAGTAGGGTAATAGGTTG-AATTTACAGATCTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACAGACCTTAA
* * *
90239657 CCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAAACCTTAAA
1 -CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACAGACCTT-AA
* * * * *** *
90239702 CCCCTAAGCAGTAGGGTAACAGGTTG-GATTTACAGATCTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACAGACCTTAA
**
90239744 CCCCCTAAGCAGTAGGGAAACAGATC-AAAGGCGATGGACCTTAAA
1 -CCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGACAGACCTT-AA
* * * * *** *
90239789 CCCTTAAGCAGTAGGGTAACAGGT-GGAATTTACAGATCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACAGACCTT-AA
* * * *** *
90239832 CCCCTAAGCAGTAGGGTAACAGGT-GGAATTTACAGATCTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACAGACCTTAA
* * * * **
90239874 CCCCCTAAGCAGTAGGAAAATAGATCGAAGGTGATGGACCTTAAA
1 -CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACAGACCTT-AA
* * * *** *
90239919 CCCCTAAGCAGTAGGGTAACAG-GCTAAATTTACAAGATCTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGAC-AGACCTTAA
*
90239962 CCCCCTAAGCAGTAGGGAAATAGATCGAA
1 -CCCCTAAGCAGTAGGGAAACAGATCGAA
90239991 GGTGATGGGC
Statistics
Matches: 346, Mismatches: 97, Indels: 40
0.72 0.20 0.08
Matches are distributed among these distances:
42 6 0.02
43 164 0.47
44 165 0.48
45 11 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (43 bp):
CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACAGACCTTAA
Found at i:90239581 original size:87 final size:87
Alignment explanation
Indices: 90239453--90239853 Score: 558
Period size: 87 Copynumber: 4.6 Consensus size: 87
90239443 TCTGTGTTTA
** *
90239453 TAGGG-AACAAGTTGAAGATAGCAGAT-TTGACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCG
1 TAGGGTAACAAGTTGAATTTA-CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCG
* * *
90239516 ACGAGCCTT-AACTCCCTAAGTAG
65 ATGAACCTTAAAC-CCCTAAGCAG
* * *
90239539 TAGGGTAACAAGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGA
1 TAGGGTAACAAGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGA
90239604 TGAACCTTAAACCCCTAAGCAG
66 TGAACCTTAAACCCCTAAGCAG
* * *
90239626 TAGGGTAATAGGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGA
1 TAGGGTAACAAGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGA
*
90239691 TAAACCTTAAACCCCTAAGCAG
66 TGAACCTTAAACCCCTAAGCAG
* *
90239713 TAGGGTAACAGGTTGGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-AAAGGCG
1 TAGGGTAACAAGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCG
* *
90239777 ATGGACCTTAAACCCTTAAGCAG
65 ATGAACCTTAAACCCCTAAGCAG
* * * *
90239800 TAGGGTAACAGGTGGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAG
1 TAGGGTAACAAGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
90239854 GTGGAATTTA
Statistics
Matches: 287, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
86 12 0.04
87 272 0.95
88 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (87 bp):
TAGGGTAACAAGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGA
TGAACCTTAAACCCCTAAGCAG
Found at i:90239847 original size:130 final size:131
Alignment explanation
Indices: 90239474--90239978 Score: 467
Period size: 130 Copynumber: 3.9 Consensus size: 131
90239464 TTGAAGATAG
* * *
90239474 CAGAT-TTGACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGA-CGAGCCTT-AACTCCCTAA
1 CAGATCTTAACCCCCTAAGCAGTAGGAAAACAGATC-AAAGGCGATGGA-CCTTAAAC-CCCTAA
* * * * * *
90239535 GTAGTAGGGTAACAAGCTAAATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA
63 GCAGTAGGGTAACAGGCTAAATTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAA
**
90239599 --GG
128 TTTA
* * ** * * ** *** ** * *
90239601 CGATGAACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAA-TTTACAGATCTTAACCCCCTAA
1 C-A-G-ATCTTAACCCCCTAAGCAGTAGGAAAACAGATCAAAGGCGATGGACCTTAAACCCCTAA
* * * **** * *
90239665 GCAGTAGGGAAACAGATCGAAGGCGATAA-ACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGG
63 GCAGTAGGGTAACAG-GCTAAATTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGG-TGG
90239729 -ATTTA
126 AATTTA
* *
90239734 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGATGGACCTTAAACCCTTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGAAAACAGATCAAAGGCGATGGACCTTAAACCCCTAAGCA
*
90239799 GTAGGGTAACAGG-TGGAATTTAC-AGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATT
66 GTAGGGTAACAGGCT-AAATTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATT
90239862 TA
130 TA
* * *
90239864 CAGATCTTAACCCCCTAAGCAGTAGGAAAATAGATCGAAGGTGATGGACCTTAAACCCCTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGAAAACAGATCAAAGGCGATGGACCTTAAACCCCTAAGCA
*
90239929 GTAGGGTAACAGGCTAAATTTACAAGATCTTAACCCCCTAAGCAGTAGGG
66 GTAGGGTAACAGGCTAAATTTACAAGATCTTAAACCCCTAAGCAGTAGGG
90239979 AAATAGATCG
Statistics
Matches: 298, Mismatches: 63, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
127 1 0.00
128 1 0.00
129 5 0.02
130 171 0.57
131 115 0.39
132 4 0.01
133 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (131 bp):
CAGATCTTAACCCCCTAAGCAGTAGGAAAACAGATCAAAGGCGATGGACCTTAAACCCCTAAGCA
GTAGGGTAACAGGCTAAATTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTT
A
Found at i:90239917 original size:87 final size:88
Alignment explanation
Indices: 90239826--90240034 Score: 341
Period size: 88 Copynumber: 2.4 Consensus size: 88
90239816 ATTTACAGAT
*
90239826 CTTAAACCCCTAAGCAGTAGGGTAACAGG-TGGAATTTAC-AGATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AAATTTACAAGATCTTAACCCCCTAAGCAGTAG
90239889 GAAAATAGATCGAAGGTGATGGAC
65 GAAAATAGATCGAAGGTGATGGAC
90239913 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTAACCCCCTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTAACCCCCTAAGCAGTAGG
* *
90239978 GAAATAGATCGAAGGTGATGGGC
66 AAAATAGATCGAAGGTGATGGAC
* * *
90240001 TTTAAACCCCAAAGCAATAGGGTAACAGGCTAAA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAA
90240035 AATTATAGAT
Statistics
Matches: 114, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
87 36 0.32
88 78 0.68
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (88 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTAACCCCCTAAGCAGTAGG
AAAATAGATCGAAGGTGATGGAC
Found at i:90239925 original size:174 final size:174
Alignment explanation
Indices: 90239484--90239940 Score: 506
Period size: 174 Copynumber: 2.6 Consensus size: 174
90239474 CAGATTTGAC
* * * * **
90239484 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAGCCTT-AACTCCCTAAGTAGTAGGGTAAC
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACAAACCTTAAAC-CCCTAAGCAGTAGGAAAAC
* * * * * *
90239548 A-AGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTT
65 AGATC-GAAGTGACAGACCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGATGAACCTT
* * *
90239612 AAACCCCTAAGCAGTAGGGTAATAGGTTGAATTTACAGATCTTAAC
129 AAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAAA
* **
90239658 CCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAAACCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACAAACCTTAAACCCCTAAGCAGTAGGAAAACA
* * * * * * *
90239723 GGTTGGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGATGGACCTTAA
66 GATCGAAGTGACAGACCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGATGAACCTTAA
*
90239788 ACCCTTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAAA
131 ACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAAA
* * * *** * * * *
90239832 CCCCTAAGCAGTAGGGTAACAGGTGGAA-TTTACAGATCTTAACCCCCTAAGCAGTAGGAAAATA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACAAACCTTAAACCCCTAAGCAGTAGGAAAACA
** * *
90239896 GATCGAAGGTGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAG
66 GATCGAA-GTGACAGACCTTAACCCCCTAAGCAGTAGGGAAACAG
90239941 GCTAAATTTA
Statistics
Matches: 241, Mismatches: 39, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
173 30 0.12
174 208 0.86
175 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (174 bp):
CCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACAAACCTTAAACCCCTAAGCAGTAGGAAAACA
GATCGAAGTGACAGACCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGATGAACCTTAA
ACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAAA
Found at i:90240016 original size:44 final size:44
Alignment explanation
Indices: 90239870--90240022 Score: 128
Period size: 44 Copynumber: 3.5 Consensus size: 44
90239860 TTTACAGATC
* * * *
90239870 TTAACCCCCTAAGCAGTAGGAAAATAGATCGAAGGTGATGGACC
1 TTAAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCT
* * * * ** * *** *
90239914 TTAAACCCCTAAGCAGTAGGGTAACAG-GCTAAATTTACAAGAT
1 TTAAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCT
*
90239957 CTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCT
1 -TTAAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCT
* *
90240002 TTAAACCCCAAAGCAATAGGG
1 TTAAACCCCTAAGCAGTAGGG
90240023 TAACAGGCTA
Statistics
Matches: 77, Mismatches: 30, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
43 5 0.06
44 65 0.84
45 7 0.09
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (44 bp):
TTAAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCT
Found at i:90241706 original size:20 final size:21
Alignment explanation
Indices: 90241683--90241722 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
90241673 TTTTTATATT
*
90241683 ACTATTATTGTTA-TATTATC
1 ACTATTATTCTTACTATTATC
*
90241703 ACTATTTTTCTTACTATTAT
1 ACTATTATTCTTACTATTAT
90241723 TATTACTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
ACTATTATTCTTACTATTATC
Found at i:90241742 original size:3 final size:3
Alignment explanation
Indices: 90241620--90241727 Score: 67
Period size: 3 Copynumber: 35.7 Consensus size: 3
90241610 TTGTTGTTTA
* * *
90241620 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CTCCGT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T--AT TAT TAT
* * * * * * * *
90241668 TAT TTT TTT TA- TAT TAC TAT TAT TGT TA- TAT TAT CAC TAT TTT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
90241714 TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TA
90241728 CTACAACTAT
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
2 4 0.05
3 73 0.92
5 1 0.01
6 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:90241907 original size:6 final size:6
Alignment explanation
Indices: 90241898--90241932 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
90241888 ATTATTACTA
90241898 TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
90241933 ACTACTACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:90241913 original size:21 final size:21
Alignment explanation
Indices: 90241866--90241953 Score: 85
Period size: 21 Copynumber: 4.4 Consensus size: 21
90241856 CTTTTCCCTG
**
90241866 TTTTATTACTATTATTAATAT
1 TTTTATTACTATTATTTTTAT
**
90241887 CATTATTACTATTATTTTTAT
1 TTTTATTACTATTATTTTTAT
90241908 TTTTATT--T-TTATTTTTAT
1 TTTTATTACTATTATTTTTAT
* * *
90241926 TTTTATTACTACTACTGTTA-
1 TTTTATTACTATTATTTTTAT
90241946 TTTTATTA
1 TTTTATTA
90241954 ACATATTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
18 17 0.31
19 1 0.02
20 9 0.16
21 28 0.51
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (21 bp):
TTTTATTACTATTATTTTTAT
Found at i:90242172 original size:15 final size:15
Alignment explanation
Indices: 90242154--90242191 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
90242144 CCCACTTAGC
90242154 TATTATTACTATTAT
1 TATTATTACTATTAT
*
90242169 TATTTTTACTATTAT
1 TATTATTACTATTAT
*
90242184 AATTATTA
1 TATTATTA
90242192 TTAATCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAT
Found at i:90242943 original size:2 final size:2
Alignment explanation
Indices: 90242931--90242967 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
90242921 TTTAACATCA
90242931 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90242968 GTTCATAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90244247 original size:23 final size:23
Alignment explanation
Indices: 90244185--90244241 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
90244175 TTTTTTTACA
*
90244185 ACAATAATATAAATA-ATGATATGT
1 ACAA-AATATATATATAT-ATATGT
90244209 ACAAAATATATATATATATATGT
1 ACAAAATATATATATATATATGT
*
90244232 ACATAATATA
1 ACAAAATATA
90244242 GTTATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (23 bp):
ACAAAATATATATATATATATGT
Found at i:90245052 original size:14 final size:15
Alignment explanation
Indices: 90245016--90245052 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
90245006 TTTTGTTGTT
90245016 TTTTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
*
90245031 ATTTTTTTGCT-GAA
1 TTTTTTTTGCTGGAA
90245045 TTTTTTTT
1 TTTTTTTT
90245053 TTTGCTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.14, C:0.05, G:0.14, T:0.68
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:90245052 original size:15 final size:16
Alignment explanation
Indices: 90245015--90245053 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
90245005 TTTTTGTTGT
90245015 TTTTTTTTTGCTGGAA
1 TTTTTTTTTGCTGGAA
*
90245031 -ATTTTTTTGCT-GAA
1 TTTTTTTTTGCTGGAA
90245045 TTTTTTTTT
1 TTTTTTTTT
90245054 TTGCTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.13, C:0.05, G:0.13, T:0.69
Consensus pattern (16 bp):
TTTTTTTTTGCTGGAA
Found at i:90245309 original size:29 final size:30
Alignment explanation
Indices: 90245270--90245400 Score: 117
Period size: 30 Copynumber: 4.4 Consensus size: 30
90245260 TTCTGGGGAT
* *
90245270 AAATGTAATTTTTAGAAAATTTA-GGGTAA
1 AAATGAAATTTTAAGAAAATTTAGGGGTAA
* **
90245299 AAATGAAA-TTTAAGGAAAGTTTAGGGGTTT
1 AAATGAAATTTTAA-GAAAATTTAGGGGTAA
* * * * *
90245329 AAGTGAAATTTAAAGAAAGTTTAAGGGTTA
1 AAATGAAATTTTAAGAAAATTTAGGGGTAA
90245359 AAATGAAA-TTTAAGAAAAGTTTAGGGGTAA
1 AAATGAAATTTTAAGAAAA-TTTAGGGGTAA
90245389 AAAT-ACAATTTT
1 AAATGA-AATTTT
90245401 TATTTTTTGA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
28 4 0.05
29 24 0.29
30 47 0.57
31 7 0.09
ACGTcount: A:0.46, C:0.01, G:0.21, T:0.33
Consensus pattern (30 bp):
AAATGAAATTTTAAGAAAATTTAGGGGTAA
Found at i:90245338 original size:30 final size:30
Alignment explanation
Indices: 90245284--90245392 Score: 139
Period size: 30 Copynumber: 3.7 Consensus size: 30
90245274 GTAATTTTTA
* *
90245284 GAAAATTTA-GGGTAAAAATGAAATTTAAG
1 GAAAGTTTAGGGGTTAAAATGAAATTTAAG
* * *
90245313 GAAAGTTTAGGGGTTTAAGTGAAATTTAAA
1 GAAAGTTTAGGGGTTAAAATGAAATTTAAG
*
90245343 GAAAGTTTAAGGGTTAAAATGAAATTTAAG
1 GAAAGTTTAGGGGTTAAAATGAAATTTAAG
* *
90245373 AAAAGTTTAGGGGTAAAAAT
1 GAAAGTTTAGGGGTTAAAAT
90245393 ACAATTTTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 8 0.12
30 59 0.88
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (30 bp):
GAAAGTTTAGGGGTTAAAATGAAATTTAAG
Found at i:90245775 original size:75 final size:77
Alignment explanation
Indices: 90245650--90245793 Score: 211
Period size: 75 Copynumber: 1.9 Consensus size: 77
90245640 AAAAAGCAAA
* *
90245650 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTT
1 AAATTGAAAATACCTCA-CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTT
90245714 TTTTGAAAGATTG
65 TTTTGAAAGATTG
* * **
90245727 AAATTGAAAATACCTCA-ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACTTTT
1 AAATTGAAAATACCTCACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTT
90245791 TTT
66 TTT
90245794 TTTTAAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 36 0.60
76 7 0.12
77 17 0.28
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (77 bp):
AAATTGAAAATACCTCACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTT
TTTGAAAGATTG
Found at i:90246026 original size:176 final size:177
Alignment explanation
Indices: 90245726--90246137 Score: 543
Period size: 176 Copynumber: 2.4 Consensus size: 177
90245716 TTGAAAGATT
* * * ** *
90245726 GAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACTTTT
1 GAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTT
*** * * * * *
90245791 T---TTTTTTA-A---AAAAAAACAGGAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCA
66 TGAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA
* *
90245849 CCTCTCGTAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACG
131 CCTCTCGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACA
* *
90245896 GAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGA-TTTT
1 GAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTT
*
90245960 TGAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
66 TGAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA
* *
90246025 CCTCTCGCAATATGAATTGATTTTTGCAAAATATAAATTGAAAAACA
131 CCTCTCGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACA
* * * *
90246072 TAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTT
1 GAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTT
90246137 T
66 T
90246138 TTTTTGACAA
Statistics
Matches: 209, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
169 5 0.02
170 54 0.26
172 3 0.01
173 1 0.00
176 141 0.67
177 5 0.02
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (177 bp):
GAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTT
TGAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA
CCTCTCGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACA
Found at i:90246074 original size:14 final size:14
Alignment explanation
Indices: 90246052--90246081 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90246042 TGATTTTTGC
*
90246052 AAAATATAAATTGA
1 AAAACATAAATTGA
90246066 AAAACATAAATTGA
1 AAAACATAAATTGA
90246080 AA
1 AA
90246082 TTACCTCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:90246138 original size:89 final size:87
Alignment explanation
Indices: 90245726--90246137 Score: 510
Period size: 87 Copynumber: 4.7 Consensus size: 87
90245716 TTGAAAGATT
** * **
90245726 GAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
*** * *
90245791 T---TTTTTTAAA--AAAAAACA
65 TGAAAAATATAAATTGAAAAACA
* * * * * *
90245809 GGAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
90245874 GAAAAACATAAATTGAAAAACG
66 GAAAAATATAAATTGAAAAACA
* * *
90245896 GAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
90245961 GAAAAATATAGATTGGAAAAAACA
66 GAAAAATATAAATT-G-AAAAACA
*
90245985 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
90246050 GCAAAATATAAATTGAAAAACA
66 GAAAAATATAAATTGAAAAACA
* * *
90246072 TAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
90246137 T
65 T
90246138 TTTTTGACAA
Statistics
Matches: 281, Mismatches: 40, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
82 5 0.02
83 49 0.17
85 4 0.01
87 137 0.49
88 7 0.02
89 79 0.28
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (87 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
GAAAAATATAAATTGAAAAACA
Found at i:90248599 original size:68 final size:70
Alignment explanation
Indices: 90248527--90248724 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
90248517 ACACCCTGTA
* * * * *
90248527 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTTGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
90248589 ATAAAT
65 ATAAAT
* *
90248595 GTAGCTAGGACGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
90248660 ATAAAT
65 ATAAAT
*
90248666 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
90248725 AGACAAATTG
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 23 0.19
69 3 0.03
70 1 0.01
71 91 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:90248638 original size:41 final size:41
Alignment explanation
Indices: 90248593--90248710 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
90248583 TGAAAGATAA
90248593 ATGTAGCTAGGACGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGACGCATGCGTGATTCCAAGTGAAGGACACC
* * * *
90248634 ATGTAGAC-AAGA-G-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGACGCATGCGTGATTCCAAGTGAAGGACACC
*
90248664 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGACGCATGCGTGATTCCAAGTGAAGGACACC
90248705 ATGTAG
1 ATGTAG
90248711 ACAAGAGAGC
Statistics
Matches: 55, Mismatches: 9, Indels: 26
0.61 0.10 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.16
32 1 0.02
33 3 0.05
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.05
39 1 0.02
40 9 0.16
41 15 0.27
42 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (41 bp):
ATGTAGCTAGGACGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:90248650 original size:71 final size:71
Alignment explanation
Indices: 90248561--90248724 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
90248551 GAGATGTATC
*
90248561 CCATGTTGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGACGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGACGCATGCGTGATTCCAAGTGA
90248626 AGGACA
66 AGGACA
*
90248632 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGACGCATGCGTGATTCCAAGTGA
90248697 AGGACA
66 AGGACA
90248703 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
90248725 AGACAAATTG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGACGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:90257319 original size:4 final size:4
Alignment explanation
Indices: 90257273--90257300 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
90257263 TGGGATATGC
90257273 AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG
90257301 CATAAATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:90260867 original size:19 final size:20
Alignment explanation
Indices: 90260845--90260932 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 20
90260835 TAATAATAAT
90260845 ATAAAATAATA-ATATGTAC
1 ATAAAATAATATATATGTAC
*
90260864 ATAAAAATATATATATATATATGC
1 AT-AAAATA-ATATATATGTA--C
*
90260888 ATATAATAA-ATATATGTA-
1 ATAAAATAATATATATGTAC
*
90260906 ATAATAATAATA-ATATCTAC
1 ATAA-AATAATATATATGTAC
90260926 AATAAAA
1 -ATAAAA
90260933 GAAAATATTA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
18 3 0.05
19 13 0.24
20 9 0.16
21 15 0.27
22 7 0.13
23 5 0.09
24 3 0.05
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
ATAAAATAATATATATGTAC
Found at i:90261015 original size:17 final size:17
Alignment explanation
Indices: 90260993--90261053 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
90260983 ACAATAATAT
90260993 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
90261010 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
90261027 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
90261041 AAAATATATATAT
1 AAAATATATATAT
90261054 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:90262088 original size:29 final size:28
Alignment explanation
Indices: 90262056--90262156 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 28
90262046 TTTTTTAAAA
*
90262056 TTTAGGGTTAATATGCAATTTAAGGAAAG
1 TTTAGGGTTAA-ATGAAATTTAAGGAAAG
* *
90262085 TTTAGGGGTCTAAGTGAAATTTAAAGAAAG
1 TTTA-GGGT-TAAATGAAATTTAAGGAAAG
*
90262115 TTTAAGGGTCAAAATGAAATTT-AGGAAAAG
1 TTT-AGGGT-TAAATGAAATTTAAGG-AAAG
*
90262145 TTTAGGGGTAAA
1 TTTAGGGTTAAA
90262157 AATAAAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
28 3 0.05
29 10 0.17
30 43 0.72
31 4 0.07
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.31
Consensus pattern (28 bp):
TTTAGGGTTAAATGAAATTTAAGGAAAG
Found at i:90262108 original size:30 final size:30
Alignment explanation
Indices: 90262072--90262166 Score: 120
Period size: 30 Copynumber: 3.2 Consensus size: 30
90262062 GTTAATATGC
* *
90262072 AATTTAAGGAAAGTTTAGGGGTCTAAGTGA
1 AATTTAAGGAAAGTTTAGGGGTCAAAATGA
* *
90262102 AATTTAAAGAAAGTTTAAGGGTCAAAATGA
1 AATTTAAGGAAAGTTTAGGGGTCAAAATGA
* *
90262132 AATTT-AGGAAAAGTTTAGGGGTAAAAATAA
1 AATTTAAGG-AAAGTTTAGGGGTCAAAATGA
90262162 AATTT
1 AATTT
90262167 TTATTTTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.04
30 54 0.96
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.29
Consensus pattern (30 bp):
AATTTAAGGAAAGTTTAGGGGTCAAAATGA
Found at i:90262194 original size:24 final size:23
Alignment explanation
Indices: 90262163--90262207 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
90262153 TAAAAATAAA
90262163 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTT-AAAATTTTTT
*
90262187 ATTTTTATTTTTTTAAATTTT
1 ATTTTTATTTTTTAAAATTTT
90262208 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
ATTTTTATTTTTTAAAATTTTTT
Found at i:90262531 original size:17 final size:18
Alignment explanation
Indices: 90262511--90262558 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
90262501 ACCTTTTTTT
*
90262511 TTCTTTTTTCT-TTCTTC
1 TTCTTTCTTCTCTTCTTC
90262528 TTC-TTCTTCTCTTCTTC
1 TTCTTTCTTCTCTTCTTC
*
90262545 TCCTTTC-TCTCTTC
1 TTCTTTCTTCTCTTC
90262559 CGTGTGAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.22
17 18 0.67
18 3 0.11
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTCTTCTCTTCTTC
Done.