Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 54 of 333
Found at i:15699538 original size:27 final size:28
Alignment explanation
Indices: 15699498--15699554 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
15699488 TCTCATGTAC
* *
15699498 ATATTCTTGAATACTATGTTACGTATAT
1 ATATTCTTGAATACCATATTACGTATAT
* *
15699526 ATATT-TTTAATACCATATTATGTATAT
1 ATATTCTTGAATACCATATTACGTATAT
15699553 AT
1 AT
15699555 TATTATATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (28 bp):
ATATTCTTGAATACCATATTACGTATAT
Found at i:15699625 original size:43 final size:41
Alignment explanation
Indices: 15699578--15699677 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 41
15699568 TTATCCCTAT
*
15699578 TATATTTATTATTAATAT-TAGTACATATATTTTATTATATGGG
1 TATATTTATTATTAATATATAGTA-ATAT-TTTTA-TATATCGG
* * * *
15699621 TATATATATATTTTTTATATATAGTATTATTTTTATATATCGT
1 TATAT-T-TATTATTAATATATAGTAATATTTTTATATATCGG
15699664 TATATTTATTATTA
1 TATATTTATTATTA
15699678 TACCTACTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
41 6 0.13
42 1 0.02
43 16 0.34
44 6 0.13
45 13 0.28
46 5 0.11
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (41 bp):
TATATTTATTATTAATATATAGTAATATTTTTATATATCGG
Found at i:15699657 original size:16 final size:15
Alignment explanation
Indices: 15699621--15699660 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
15699611 ATTATATGGG
15699621 TATATATATATTTTT
1 TATATATATATTTTT
15699636 TATATATAGTATTATTT
1 TATATATA-TATT-TTT
15699653 T-TATATAT
1 TATATATAT
15699661 CGTTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.39
16 10 0.43
17 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TATATATATATTTTT
Found at i:15699669 original size:18 final size:17
Alignment explanation
Indices: 15699621--15699679 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
15699611 ATTATATGGG
15699621 TATATATA-TAT-TTTT
1 TATATATAGTATATTTT
15699636 TATATATAGTATTATTTT
1 TATATATAGTA-TATTTT
*
15699654 TATATATCGTTATATTTAT
1 TATATATAG-TATATTT-T
15699673 TAT-TATA
1 TATATATA
15699680 CCTACTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
15 8 0.22
16 2 0.05
17 1 0.03
18 20 0.54
19 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (17 bp):
TATATATAGTATATTTT
Found at i:15699812 original size:19 final size:19
Alignment explanation
Indices: 15699779--15699839 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 19
15699769 ATAATAATAA
15699779 TTATTAT-TA-GTATATGT
1 TTATTATATATGTATATGT
*
15699796 TTATTATATATGTATATATCT
1 TTATTATATATG--TATATGT
*
15699817 TTAATATATATGTATATGT
1 TTATTATATATGTATATGT
15699836 TTAT
1 TTAT
15699840 GCAGTATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 7 0.19
18 2 0.06
19 10 0.28
21 17 0.47
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (19 bp):
TTATTATATATGTATATGT
Found at i:15703100 original size:20 final size:20
Alignment explanation
Indices: 15703041--15703104 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
15703031 TACTTCGGTA
15703041 CCCTAAATGAACATACA-TGC
1 CCCTAAATGAACATA-AGTGC
* * * **
15703061 CCCTATATGTACTTCGGTGC
1 CCCTAAATGAACATAAGTGC
*
15703081 CCCTAAATGCACATAAGTGC
1 CCCTAAATGAACATAAGTGC
15703101 CCCT
1 CCCT
15703105 GTTTGTACTC
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (20 bp):
CCCTAAATGAACATAAGTGC
Found at i:15703102 original size:40 final size:39
Alignment explanation
Indices: 15703007--15703205 Score: 175
Period size: 40 Copynumber: 5.0 Consensus size: 39
15702997 AATATCCTTG
*
15703007 AATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCTA
1 AATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCTA
* * * *
15703046 AATGAACATACA-TGCCCCTATATGTACTTCGGTGCCCCTA
1 AATGCACATA-AGTGCCCCTGTTTGTACTTCGGT-ACCCTA
*
15703086 AATGCACATAAGTGCCCCTGTTTGTACTCCGGTATCCCTA
1 AATGCACATAAGTGCCCCTGTTTGTACTTCGGTA-CCCTA
* * * * * * **
15703126 AATACACATACGTACCCCTGTTTTTATTTTGGTACCTCGG
1 AATGCACATAAGTGCCCCTGTTTGTACTTCGGTACC-CTA
* * * * * *
15703166 ATTGCACATACGTGCACTTGTTTGTACTTTGATACCCTA
1 AATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCTA
15703205 A
1 A
15703206 CACACATTCA
Statistics
Matches: 126, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
39 33 0.26
40 93 0.74
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (39 bp):
AATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCTA
Found at i:15708175 original size:20 final size:20
Alignment explanation
Indices: 15708150--15708195 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
15708140 TACGTAACAT
*
15708150 AGGCAC-AAATGTGCAATTAG
1 AGGCACTAAA-GTGCAAATAG
15708170 AGGCACTAAAGTGCAAATAG
1 AGGCACTAAAGTGCAAATAG
15708190 AGGCAC
1 AGGCAC
15708196 CGAAGTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.15
Consensus pattern (20 bp):
AGGCACTAAAGTGCAAATAG
Found at i:15708201 original size:20 final size:20
Alignment explanation
Indices: 15708150--15708202 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
15708140 TACGTAACAT
*
15708150 AGGCA-CAAATGTGCAATTAG
1 AGGCACCAAA-GTGCAAATAG
*
15708170 AGGCACTAAAGTGCAAATAG
1 AGGCACCAAAGTGCAAATAG
*
15708190 AGGCACCGAAGTG
1 AGGCACCAAAGTG
15708203 TAATCTTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAATAG
Found at i:15710973 original size:16 final size:14
Alignment explanation
Indices: 15710939--15710987 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
15710929 CTAATCGAAA
*
15710939 AAGAAGAAAAAAAG
1 AAGAAGAGAAAAAG
*
15710953 GAGAAGAGAAACAGAG
1 AAGAAGAGAAA-A-AG
*
15710969 AAGAAGGGAAAAAG
1 AAGAAGAGAAAAAG
15710983 AAGAA
1 AAGAA
15710988 AAAAAGTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 16 0.55
15 2 0.07
16 11 0.38
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (14 bp):
AAGAAGAGAAAAAG
Found at i:15712538 original size:40 final size:39
Alignment explanation
Indices: 15712449--15712539 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
15712439 ATCTCCGTCT
* *
15712449 AACCCAACACAC-TATGTGGGGATAAAATCAACCCACCC
1 AACCCAACACACTTATATGGGGATAAAATCAACCCAACC
* ** * *
15712487 ATCCCTTCACACTGTATATGGGGATATAATCGACCCAACC
1 AACCCAACACACT-TATATGGGGATAAAATCAACCCAACC
15712527 AACCCAACACACT
1 AACCCAACACACT
15712540 ATAAAGTACC
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
38 9 0.22
40 32 0.78
ACGTcount: A:0.36, C:0.34, G:0.12, T:0.18
Consensus pattern (39 bp):
AACCCAACACACTTATATGGGGATAAAATCAACCCAACC
Found at i:15715636 original size:16 final size:16
Alignment explanation
Indices: 15715615--15715645 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15715605 GAATAGACCA
15715615 TGTCTAAGAGTACATT
1 TGTCTAAGAGTACATT
15715631 TGTCTAAGAGTACAT
1 TGTCTAAGAGTACAT
15715646 AGGGTGACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (16 bp):
TGTCTAAGAGTACATT
Found at i:15718606 original size:46 final size:46
Alignment explanation
Indices: 15718539--15718706 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 46
15718529 AACCCGCCCC
* *
15718539 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
15718585 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
15718633 TCACT-AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
15718678 TAGGTGAACTCGGACTCAACTCAACGAGT
1 TAAGTGAACTCGGACTCAACTCAACGAGT
15718707 CCGGATGCTC
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 54 0.53
47 27 0.26
48 4 0.04
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:15718653 original size:93 final size:93
Alignment explanation
Indices: 15718545--15718714 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
15718535 CCCCTAAGTG
* *
15718545 AACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
15718610 GAGTTCGGATGCCTAGTTACATCTCACT
66 GAGTCCGGATGCCTAGTTACATCTCACT
* * *
15718638 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
15718703 GAGTCCGGATGC
66 GAGTCCGGATGC
15718715 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTCCGGATGCCTAGTTACATCTCACT
Found at i:15719168 original size:30 final size:30
Alignment explanation
Indices: 15719134--15719193 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
15719124 ATTTAATACG
15719134 AACTTTTGAAAAATTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTTGCCCCTA
* *
15719164 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTTGCCCCTA
15719194 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGAAAAATTACACTTTTGCCCCTA
Found at i:15723705 original size:51 final size:51
Alignment explanation
Indices: 15723633--15723765 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 51
15723623 CCATCAAATC
* * *
15723633 TCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* * * * * ** *
15723684 TGTAATATTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
15723735 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
15723766 CATGTTTCCA
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:15724846 original size:96 final size:96
Alignment explanation
Indices: 15724672--15724961 Score: 438
Period size: 96 Copynumber: 3.0 Consensus size: 96
15724662 TCGCTTCTTT
* *
15724672 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTG
* * *
15724737 GTCTACTCTATCGTTTCCTTTGATGACAGAC
66 GTCTACTCCATCGTTCCCTTCGATGACAGAC
15724768 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTG
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTG
*
15724833 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
66 GTCTACTCCATCGTTCCCTTCGATGACAGAC
* *
15724864 TTGCTCCTCTTTGCCCTCTTGGCTTCGACTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCC-G
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTG
* * * * * *
15724928 TATCTGCTCGATCATTCCCATCGATAACAGAC
66 -GTCTACTCCATCGTTCCCTTCGATGACAGAC
15724960 TT
1 TT
15724962 CCTCGGACAC
Statistics
Matches: 180, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
95 1 0.01
96 179 0.99
ACGTcount: A:0.12, C:0.34, G:0.18, T:0.36
Consensus pattern (96 bp):
TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTG
GTCTACTCCATCGTTCCCTTCGATGACAGAC
Found at i:15726685 original size:17 final size:17
Alignment explanation
Indices: 15726663--15726736 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 17
15726653 AATATAATAT
15726663 CATATCTTATAAGATTA
1 CATATCTTATAAGATTA
15726680 CATATCTTAGATAAGA-TA
1 CATATCTT--ATAAGATTA
** * *
15726698 TGTAATATTATAA-AATA
1 CAT-ATCTTATAAGATTA
*
15726715 -ATATCTTATAAGATTC
1 CATATCTTATAAGATTA
15726731 CATATC
1 CATATC
15726737 ATATCTAAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
15 8 0.18
16 4 0.09
17 19 0.43
18 3 0.07
19 10 0.23
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (17 bp):
CATATCTTATAAGATTA
Found at i:15726719 original size:51 final size:51
Alignment explanation
Indices: 15726647--15726779 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
15726637 CCATCAAATC
* *
15726647 TCTAAGAATATAATATCATATCTTATAAGATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* * * * * ** *
15726698 TGTAATATTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
15726749 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
15726780 CATGTTTCCA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:15729879 original size:46 final size:46
Alignment explanation
Indices: 15729812--15729984 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
15729802 AACCCGCCCC
* *
15729812 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* *
15729858 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC--GTTCGCATCCA
* * *
15729906 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
15729951 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15729985 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 1 0.01
46 60 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:15729924 original size:93 final size:93
Alignment explanation
Indices: 15729817--15729987 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
15729807 GCCCCTAAGT
* *
15729817 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15729882 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* *
15729910 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
15729975 CGAGTTCGGATGC
66 CGAGTTCGAATGC
15729988 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:15730440 original size:30 final size:30
Alignment explanation
Indices: 15730406--15730465 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
15730396 ATTTAATACG
15730406 AACTTTTGAAAAATTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTTGCCCCTA
* *
15730436 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTTGCCCCTA
15730466 GGCTCGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGAAAAATTACACTTTTGCCCCTA
Found at i:15732948 original size:46 final size:47
Alignment explanation
Indices: 15732878--15733140 Score: 358
Period size: 46 Copynumber: 5.7 Consensus size: 47
15732868 GTGTGCTCTC
* *
15732878 TGATATGAAATGTGTATGACCATGGTTGAAAGATACCATGACAACCA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCA
* *
15732925 T-TTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC-
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCA
*
15732970 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC-
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCA
* *
15733016 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-AGCA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCA
* **
15733062 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCA
* * *
15733108 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGA
15733141 CATATGGCAT
Statistics
Matches: 198, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
45 3 0.02
46 193 0.97
47 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (47 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCA
Found at i:15745675 original size:55 final size:55
Alignment explanation
Indices: 15745608--15745732 Score: 151
Period size: 55 Copynumber: 2.3 Consensus size: 55
15745598 GGTGAAGCTA
** *
15745608 CCAAAACAACACGGGCGTGCGACACACCCGTGCCTTGAAACCGTGGCCGAACCTG
1 CCAAAACAACACGGGCGTGCGACACACCCGTGCCAAGAAACCGTGGCCAAACCTG
* ** * ** * *
15745663 TCAAATTAACACGGGCGTGTGACATGCCCGTGCCAAGCAACCGTGGGCAAACCTG
1 CCAAAACAACACGGGCGTGCGACACACCCGTGCCAAGAAACCGTGGCCAAACCTG
15745718 CCAAAACAACACGGG
1 CCAAAACAACACGGG
15745733 TGTGGACCTT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.12
Consensus pattern (55 bp):
CCAAAACAACACGGGCGTGCGACACACCCGTGCCAAGAAACCGTGGCCAAACCTG
Found at i:15746347 original size:26 final size:26
Alignment explanation
Indices: 15746318--15746369 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
15746308 TATGCTACAT
15746318 AGAATTATTTGCCATTTTTTATGAAA
1 AGAATTATTTGCCATTTTTTATGAAA
15746344 AGAATTATTTGCCATTTTTTATGAAA
1 AGAATTATTTGCCATTTTTTATGAAA
15746370 CTCATACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (26 bp):
AGAATTATTTGCCATTTTTTATGAAA
Found at i:15753038 original size:19 final size:21
Alignment explanation
Indices: 15753016--15753056 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
15753006 TGATATAATT
*
15753016 TATATTATATTA-AAT-TAAA
1 TATACTATATTATAATGTAAA
15753035 TATACTATATTATAATGTAAA
1 TATACTATATTATAATGTAAA
15753056 T
1 T
15753057 GTATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 3 0.16
21 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TATACTATATTATAATGTAAA
Found at i:15756161 original size:20 final size:21
Alignment explanation
Indices: 15756098--15756175 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 21
15756088 AACATTTAAT
* *
15756098 TAATTTTTTAAAATTTAAAAAA
1 TAATTTTTT-ATATTTTAAAAA
**
15756120 TAATTTTTTATATTTT-TCAA
1 TAATTTTTTATATTTTAAAAA
*
15756140 TAATTTTTTGT-TTTTAAAAA
1 TAATTTTTTATATTTTAAAAA
*
15756160 T-AGTTTTTATAATTTT
1 TAATTTTTTAT-ATTTT
15756176 TTTTAGAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
19 11 0.25
20 15 0.34
21 9 0.20
22 9 0.20
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (21 bp):
TAATTTTTTATATTTTAAAAA
Found at i:15768343 original size:13 final size:12
Alignment explanation
Indices: 15768318--15768349 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
15768308 TATTAAAAGT
15768318 AAAGTAAATAAAA
1 AAAG-AAATAAAA
15768331 AAAGAAATAAAA
1 AAAGAAATAAAA
15768343 AAAGAAA
1 AAAGAAA
15768350 GAATTAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAGAAATAAAA
Found at i:15776929 original size:51 final size:51
Alignment explanation
Indices: 15776861--15776963 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
15776851 GTCACTTATC
15776861 AAGCTCACCCATTTGGTACCAAATATACCGTTCTAAACCAATCATCAATAT
1 AAGCTCACCCATTTGGTACCAAATATACCGTTCTAAACCAATCATCAATAT
15776912 AAGCTCACCCATTTGGTACCAAATATACCGTTCTAAACCAATCATCAATAT
1 AAGCTCACCCATTTGGTACCAAATATACCGTTCTAAACCAATCATCAATAT
15776963 A
1 A
15776964 CCTATAAGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (51 bp):
AAGCTCACCCATTTGGTACCAAATATACCGTTCTAAACCAATCATCAATAT
Found at i:15777584 original size:67 final size:67
Alignment explanation
Indices: 15777506--15777640 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
15777496 GTTTAACAAC
*
15777506 TATTCAAACTCCATATACATGTAACATCTATACTATTTATCCATATATCATATAGAAACCATTTT
1 TATTCAAACTCCATATACATGTAACATCTATACTATGTATCCATATATCATATAGAAACCATTTT
15777571 CA
66 CA
*
15777573 TATTCAAACTCCATATACGTGTAACATCTATACTATGTATCCATATATCATATAGAAACCATTTT
1 TATTCAAACTCCATATACATGTAACATCTATACTATGTATCCATATATCATATAGAAACCATTTT
15777638 CA
66 CA
15777640 T
1 T
15777641 GTAATTCATG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (67 bp):
TATTCAAACTCCATATACATGTAACATCTATACTATGTATCCATATATCATATAGAAACCATTTT
CA
Found at i:15777853 original size:25 final size:25
Alignment explanation
Indices: 15777794--15777867 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
15777784 GTACATGTAT
*
15777794 GCTCATACGAGCTGTA-AACAATAA
1 GCTCATACGAGCTGAATAACAATAA
* * ** *
15777818 GCTCCTCCGAGCTGAATAACGGTAG
1 GCTCATACGAGCTGAATAACAATAA
*
15777843 GCTCATACGAGCTGAGTAACAATAA
1 GCTCATACGAGCTGAATAACAATAA
15777868 CCCTAATGAC
Statistics
Matches: 37, Mismatches: 12, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
24 13 0.35
25 24 0.65
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACAATAA
Found at i:15779544 original size:25 final size:25
Alignment explanation
Indices: 15779492--15779561 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
15779482 GTACATGTAT
*
15779492 GCTCATACGAGCTGTA-AACAGTAA
1 GCTCATACGAGCTGAATAACAGTAA
* *
15779516 GCTCCT-CTGAGCTGAATAACAGTAG
1 GCTCATAC-GAGCTGAATAACAGTAA
*
15779541 GCTCATACGAGCTGAGTAACA
1 GCTCATACGAGCTGAATAACA
15779562 ATAACCCTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
23 1 0.03
24 12 0.32
25 24 0.63
26 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACAGTAA
Found at i:15784270 original size:21 final size:20
Alignment explanation
Indices: 15784223--15784272 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
15784213 TATTTATCCA
15784223 TTTATTTATTTGCTTGTTTT
1 TTTATTTATTTGCTTGTTTT
* *
15784243 GTTATTTATTATTCTT-TTTAT
1 TTTATTTATT-TGCTTGTTT-T
15784264 TTTATTTAT
1 TTTATTTAT
15784273 CTGTTCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTATTTGCTTGTTTT
Found at i:15784372 original size:25 final size:28
Alignment explanation
Indices: 15784344--15784402 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 28
15784334 GTATTCATCT
*
15784344 ATTATTCATTCATTTT-TTT-TCT-TTC
1 ATTATTCACTCATTTTATTTATCTCTTC
* *
15784369 ATTAGTCACTCATTTTATTTATGTCTTC
1 ATTATTCACTCATTTTATTTATCTCTTC
15784397 ATTATT
1 ATTATT
15784403 ATTGGTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 14 0.52
26 3 0.11
27 2 0.07
28 8 0.30
ACGTcount: A:0.20, C:0.15, G:0.03, T:0.61
Consensus pattern (28 bp):
ATTATTCACTCATTTTATTTATCTCTTC
Found at i:15784519 original size:3 final size:3
Alignment explanation
Indices: 15784511--15784585 Score: 107
Period size: 3 Copynumber: 25.3 Consensus size: 3
15784501 TTTTCACTTA
15784511 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * *
15784559 TAT CGT CA- CAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15784586 TTTACATATG
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:15785300 original size:20 final size:20
Alignment explanation
Indices: 15785275--15785312 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15785265 AAAGGATCGT
15785275 ACTTTAATTGATCAATTAAG
1 ACTTTAATTGATCAATTAAG
*
15785295 ACTTTATTTGATCAATTA
1 ACTTTAATTGATCAATTA
15785313 GGTACCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.45
Consensus pattern (20 bp):
ACTTTAATTGATCAATTAAG
Found at i:15786223 original size:29 final size:30
Alignment explanation
Indices: 15786176--15786243 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
15786166 TGGCCCAAGA
* *
15786176 GTAAATACTCAAAATTTGAAAGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAAGACTAATAGT
* *
15786206 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAAGACTAATAGT
*
15786236 GCAAATAT
1 GTAAATAT
15786244 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAAGACTAATAGT
Found at i:15788438 original size:46 final size:46
Alignment explanation
Indices: 15788373--15789003 Score: 910
Period size: 46 Copynumber: 13.7 Consensus size: 46
15788363 GTGTGCTCTC
**
15788373 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
**
15788419 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
** *
15788465 TGATATGAAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
15788511 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
15788557 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
15788603 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
**
15788649 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
** * *
15788695 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCTACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
15788741 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
15788787 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
15788833 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
15788879 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
15788925 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
15788971 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGA
15789004 CATTATAGCA
Statistics
Matches: 536, Mismatches: 45, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
45 3 0.01
46 532 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:15788529 original size:92 final size:92
Alignment explanation
Indices: 15788373--15789003 Score: 1016
Period size: 92 Copynumber: 6.9 Consensus size: 92
15788363 GTGTGCTCTC
** *** **
15788373 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-TGATATGAAATGTGTAAG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CATGACGGGAAATGAATAAG
15788437 ACCATGGTTGAAAGATACCATGGCAATC-
65 ACCATGGTTGAAAGATACCATGGCAA-CG
** *
15788465 TGATATGAAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
15788530 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGATACCATGGCAACG
15788557 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
15788622 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGATACCATGGCAACG
** *** **
15788649 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-TGATATGAAATGTGTAAG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CATGACGGGAAATGAATAAG
*
15788713 ACCATGGTTGAAAGATACCATGGCTACG
65 ACCATGGTTGAAAGATACCATGGCAACG
15788741 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
15788806 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGATACCATGGCAACG
15788833 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
15788898 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGATACCATGGCAACG
* * *
15788925 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
*
15788990 CCATAGTTGAAAGA
66 CCATGGTTGAAAGA
15789004 CATTATAGCA
Statistics
Matches: 506, Mismatches: 29, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
91 3 0.01
92 502 0.99
93 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
CCATGGTTGAAAGATACCATGGCAACG
Found at i:15789320 original size:16 final size:17
Alignment explanation
Indices: 15789299--15789331 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15789289 ATGATGGAGC
15789299 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
15789315 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
15789332 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:15792556 original size:29 final size:29
Alignment explanation
Indices: 15792523--15792582 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
15792513 GTGGACAAGA
* *
15792523 GAAAGAAAAGGGCCCTATGGTCCATACTG
1 GAAAGAAAAGGACCCTATGGTCAATACTG
15792552 GAAAGAAAAGGACCCTATGGTCAATACTG
1 GAAAGAAAAGGACCCTATGGTCAATACTG
15792581 GA
1 GA
15792583 GATAACAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (29 bp):
GAAAGAAAAGGACCCTATGGTCAATACTG
Found at i:15795154 original size:21 final size:20
Alignment explanation
Indices: 15795107--15795156 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
15795097 TATTTATCCA
15795107 TTTATTTATTTGCTTGTTTT
1 TTTATTTATTTGCTTGTTTT
* *
15795127 GTTATTTATTATTCTT-TTTAT
1 TTTATTTATT-TGCTTGTTT-T
15795148 TTTATTTAT
1 TTTATTTAT
15795157 CTGTTCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTATTTGCTTGTTTT
Found at i:15795315 original size:3 final size:3
Alignment explanation
Indices: 15795304--15795334 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
15795294 TTAGTGTTTG
15795304 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
15795335 TAATCATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:15795468 original size:3 final size:3
Alignment explanation
Indices: 15795407--15795448 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
15795397 TTACTTATAG
* *
15795407 TAT TAT TAT TGT CAT T-T CTAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
15795449 CATCGTCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.03
3 31 0.94
4 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:15799524 original size:20 final size:20
Alignment explanation
Indices: 15799499--15799539 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15799489 CATTGATAAT
15799499 CTCAAGAATTAAGGCATGAC
1 CTCAAGAATTAAGGCATGAC
*
15799519 CTCAAGAATTAGGGCATGAC
1 CTCAAGAATTAAGGCATGAC
15799539 C
1 C
15799540 ACTCTCTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (20 bp):
CTCAAGAATTAAGGCATGAC
Found at i:15806978 original size:18 final size:19
Alignment explanation
Indices: 15806955--15806998 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 19
15806945 TCAACTCCTT
15806955 TTTATTTATAAAATATTA-
1 TTTATTTATAAAATATTAC
15806973 TTTATTT-T-AAATATTAC
1 TTTATTTATAAAATATTAC
15806990 TTT-TTTATA
1 TTTATTTATA
15806999 TATAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 11 0.48
17 5 0.22
18 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATTTATAAAATATTAC
Found at i:15808389 original size:15 final size:15
Alignment explanation
Indices: 15808369--15808398 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15808359 ATTCCAACCC
*
15808369 AAATTAAATATATTT
1 AAATTAAACATATTT
15808384 AAATTAAACATATTT
1 AAATTAAACATATTT
15808399 TGGACACTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATTAAACATATTT
Found at i:15809265 original size:17 final size:17
Alignment explanation
Indices: 15809243--15809275 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15809233 TGGATAGCCA
15809243 TATATAGGTACTATATG
1 TATATAGGTACTATATG
15809260 TATATAGGTACTATAT
1 TATATAGGTACTATAT
15809276 AGTAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (17 bp):
TATATAGGTACTATATG
Found at i:15816083 original size:6 final size:6
Alignment explanation
Indices: 15816072--15816105 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
15816062 GATAAGCAGC
*
15816072 AAACAA AAACAA AAACAA AAACAA AAAAAA AAAC
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAAC
15816106 TAACAATCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:15818981 original size:17 final size:17
Alignment explanation
Indices: 15818955--15818989 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15818945 AGATGTATTA
15818955 TTTATATTATAATTATG
1 TTTATATTATAATTATG
*
15818972 TTTATTTTATAATTATG
1 TTTATATTATAATTATG
15818989 T
1 T
15818990 ACATTATACC
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:0.00, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTATATTATAATTATG
Found at i:15823260 original size:19 final size:18
Alignment explanation
Indices: 15823218--15823260 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
15823208 TTAATATTAC
*
15823218 ATATTTCAATTTCACATT
1 ATATTTCAATTTCACACT
*
15823236 ACATTTCAAATTTCACACT
1 ATATTTC-AATTTCACACT
15823255 ATATTT
1 ATATTT
15823261 TGCTTATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTCAATTTCACACT
Found at i:15823692 original size:13 final size:13
Alignment explanation
Indices: 15823674--15823706 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
15823664 GGGTTTTCTC
15823674 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
15823687 TTTTC-TTTCTTT
1 TTTTCTTTTCTTT
15823699 TCTTTCTT
1 T-TTTCTT
15823707 AATTTTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 9 0.50
14 1 0.06
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTCTTT
Found at i:15823701 original size:9 final size:9
Alignment explanation
Indices: 15823675--15823706 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
15823665 GGTTTTCTCT
15823675 TTTCTTTTC
1 TTTCTTTTC
15823684 TTT-TTTTC
1 TTTCTTTTC
15823692 TTTCTTTTC
1 TTTCTTTTC
15823701 TTTCTT
1 TTTCTT
15823707 AATTTTGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:15823794 original size:36 final size:39
Alignment explanation
Indices: 15823754--15823829 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 39
15823744 TCTTATAACT
* *
15823754 TTAATTTTAAT-TATTAT-TATAATAAAT-ATATATACA
1 TTAATGTTAATATATAATATATAATAAATAATATATACA
*
15823790 TTAATGTTAATATATAATATATAATATATAATATATACA
1 TTAATGTTAATATATAATATATAATAAATAATATATACA
15823829 T
1 T
15823830 GCATTTTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 10 0.29
37 5 0.15
38 9 0.26
39 10 0.29
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (39 bp):
TTAATGTTAATATATAATATATAATAAATAATATATACA
Found at i:15823809 original size:7 final size:7
Alignment explanation
Indices: 15823797--15823826 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
15823787 ACATTAATGT
15823797 TAATATA
1 TAATATA
15823804 TAATATA
1 TAATATA
15823811 TAATATA
1 TAATATA
15823818 TAATATA
1 TAATATA
15823825 TA
1 TA
15823827 CATGCATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAATATA
Found at i:15842822 original size:19 final size:18
Alignment explanation
Indices: 15842779--15842822 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
15842769 ATTAATATTA
*
15842779 TACATTTCAATTCCACAT
1 TACATTTCAATTCCACAC
*
15842797 TACATTTCAAATTTCACAC
1 TACATTTC-AATTCCACAC
*
15842816 TATATTT
1 TACATTT
15842823 TGCTTATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (18 bp):
TACATTTCAATTCCACAC
Found at i:15843423 original size:308 final size:308
Alignment explanation
Indices: 15842865--15843435 Score: 1106
Period size: 308 Copynumber: 1.9 Consensus size: 308
15842855 ACCTAGACTA
*
15842865 ATTTTAATCATCACGTTTAACTTCATATTTTTGTGCTAATTTCACTCTTGACCACATTTAGCTTC
1 ATTTTAATCATCACGTTTAACTTCATATTTTTGTGCTAATTTCACTCTAGACCACATTTAGCTTC
*
15842930 CTCCTTTCCAATTCAACCCCAAACTTTTAAATTTTTTCACAATTTAGTCCCTATTGTTCAAAATA
66 CTCCTTTCCAATTCAACCCCAAACTTTTAAATTTTTTCACAATTTAGTCCCTATTATTCAAAATA
*
15842995 AATAATTAATTCCACAATTTAGTCATTTTCCATTTCTAACTTAAAAATCTATCTATTTAATCCCT
131 AATAAATAATTCCACAATTTAGTCATTTTCCATTTCTAACTTAAAAATCTATCTATTTAATCCCT
15843060 AATACTTAAACTATTCAATAATGTCAACATATAAAATCTTGAGCAATACTAAAAATTACAATATG
196 AATACTTAAACTATTCAATAATGTCAACATATAAAATCTTGAGCAATACTAAAAATTACAATATG
15843125 GGTCGGGTAGCCCTAGGTACCGAGATTCCTAAGATATAAAAATTACAT
261 GGTCGGGTAGCCCTAGGTACCGAGATTCCTAAGATATAAAAATTACAT
15843173 ATTTTAATCATCACGTTTAACTTCATATTTTTGTGCTAATTTCACTCTAGACCACATTTAGCTTC
1 ATTTTAATCATCACGTTTAACTTCATATTTTTGTGCTAATTTCACTCTAGACCACATTTAGCTTC
*
15843238 CTCTTTTCCAATTCAACCCCAAACTTTTAAATTTTTTCACAATTTAGTCCCTATTATTCAAAATA
66 CTCCTTTCCAATTCAACCCCAAACTTTTAAATTTTTTCACAATTTAGTCCCTATTATTCAAAATA
15843303 AATAAATAATTCCACAATTTAGTCATTTTCCATTTCTAACTTAAAAATCTATCTATTTAATCCCT
131 AATAAATAATTCCACAATTTAGTCATTTTCCATTTCTAACTTAAAAATCTATCTATTTAATCCCT
15843368 AATACTTAAACTATTCAATAATGTCAACATATAAAATCTTGAGCAATACTAAAAATTACAATATG
196 AATACTTAAACTATTCAATAATGTCAACATATAAAATCTTGAGCAATACTAAAAATTACAATATG
15843433 GGT
261 GGT
15843436 TTAGTCCTTA
Statistics
Matches: 259, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
308 259 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (308 bp):
ATTTTAATCATCACGTTTAACTTCATATTTTTGTGCTAATTTCACTCTAGACCACATTTAGCTTC
CTCCTTTCCAATTCAACCCCAAACTTTTAAATTTTTTCACAATTTAGTCCCTATTATTCAAAATA
AATAAATAATTCCACAATTTAGTCATTTTCCATTTCTAACTTAAAAATCTATCTATTTAATCCCT
AATACTTAAACTATTCAATAATGTCAACATATAAAATCTTGAGCAATACTAAAAATTACAATATG
GGTCGGGTAGCCCTAGGTACCGAGATTCCTAAGATATAAAAATTACAT
Found at i:15851633 original size:51 final size:53
Alignment explanation
Indices: 15851536--15851644 Score: 141
Period size: 51 Copynumber: 2.1 Consensus size: 53
15851526 AAATATAAAG
* *
15851536 ACATAACTTGTGAGAGATCTTATTTTATTAAGGTCTCCGACAAAATCAACATTA
1 ACATAACTTGT-AGAGATCTTACTTTATTAAGATCTCCGACAAAATCAACATTA
* ** *
15851590 ACATAACTTGT-GAGATCTT-CTTTATTAAGATCTTCGGTAAAATCAGCATTA
1 ACATAACTTGTAGAGATCTTACTTTATTAAGATCTCCGACAAAATCAACATTA
15851641 ACAT
1 ACAT
15851645 CCCAATGACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
51 30 0.61
52 8 0.16
54 11 0.22
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (53 bp):
ACATAACTTGTAGAGATCTTACTTTATTAAGATCTCCGACAAAATCAACATTA
Found at i:15855455 original size:23 final size:23
Alignment explanation
Indices: 15855429--15855474 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
15855419 ATAGAATATT
15855429 TAACTTAATCTCACAGAAACATG
1 TAACTTAATCTCACAGAAACATG
*
15855452 TAACTTAATCTCGCAGAAACATG
1 TAACTTAATCTCACAGAAACATG
15855475 AAAATTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (23 bp):
TAACTTAATCTCACAGAAACATG
Found at i:15858815 original size:390 final size:390
Alignment explanation
Indices: 15858096--15858876 Score: 1481
Period size: 390 Copynumber: 2.0 Consensus size: 390
15858086 TTTAGCCACC
15858096 TTGAAGATTGAGGAAATCATTAAGTCCGTTGGTGAGATCCCAAAAGAAGTGTACCAATTGTTGCA
1 TTGAAGATTGAGGAAATCATTAAGTCCGTTGGTGAGATCCCAAAAGAAGTGTACCAATTGTTGCA
15858161 GCCTTTTCGGGATGTGATACCTGCCTTGTTGCCCAAAATTTTGCCACCGAAGAGGGAGGTGGACC
66 GCCTTTTCGGGATGTGATACCTGCCTTGTTGCCCAAAATTTTGCCACCGAAGAGGGAGGTGGACC
15858226 ATAAGATCGAGTTAGTGTCCAATATGGTGCCGCCAGCAAGGGCCCCATATTGTAAGTCTCCGCCA
131 ATAAGATCGAGTTAGTGTCCAATATGGTGCCGCCAGCAAGGGCCCCATATTGTAAGTCTCCGCCA
*
15858291 AAATTAGAAGAGTTACGGAAACAATTGGAGGAGTTTTTAGATGTGGGATTTATTAGGCCATCTAA
196 AAATTAGAAGAGTTACGGAAACAATTGGAGGAGTTTTTAGATGTGGGATTCATTAGGCCATCTAA
*
15858356 ATTTCCATATGGTGCGCCAGTGTTGTTTCAGAAACACATGATGGGTTGTTGAGAATGTGGATCGA
261 ATTTCCATATGGTGCGCCAGTGTTGTTTCAGAAAAACATGATGGGTTGTTGAGAATGTGGATCGA
* *
15858421 TTATCGGGTTCTAAACAAGATCGTTGTGAAGAACAGGTACTCTATTCCTCTTATTGTGAATTTTT
326 TTATCAGGCTCTAAACAAGATCGTTGTGAAGAACAGGTACTCTATTCCTCTTATTGTGAATTTTT
* * *
15858486 TTGAAGATTGAGGAAATCGTTAAGTCCGTTGGTGAGATCCCGAAAGAAGTGTGCCAATTGTTGCA
1 TTGAAGATTGAGGAAATCATTAAGTCCGTTGGTGAGATCCCAAAAGAAGTGTACCAATTGTTGCA
15858551 GCCTTTTCGGGATGTGATACCTGCCTTGTTGCCCAAAATTTTGCCACCGAAGAGGGAGGTGGACC
66 GCCTTTTCGGGATGTGATACCTGCCTTGTTGCCCAAAATTTTGCCACCGAAGAGGGAGGTGGACC
15858616 ATAAGATCGAGTTAGTGTCCAATATGGTGCCGCCAGCAAGGGCCCCATATTGTAAGTCTCCGCCA
131 ATAAGATCGAGTTAGTGTCCAATATGGTGCCGCCAGCAAGGGCCCCATATTGTAAGTCTCCGCCA
* *
15858681 AAGTTAGAAGAGTTGCGGAAACAATTGGAGGAGTTTTTAGATGTGGGATTCATTAGGCCATCTAA
196 AAATTAGAAGAGTTACGGAAACAATTGGAGGAGTTTTTAGATGTGGGATTCATTAGGCCATCTAA
15858746 ATTTCCATATGGTGCGCCAGTGTTGTTTCAGAAAAACATGATGGGTTGTTGAGAATGTGGATCGA
261 ATTTCCATATGGTGCGCCAGTGTTGTTTCAGAAAAACATGATGGGTTGTTGAGAATGTGGATCGA
15858811 TTATCAGGCTCTAAACAAGATCGTTGTGAAGAACAGGTACTCTATTCCTCTTATTGTGAATTTTT
326 TTATCAGGCTCTAAACAAGATCGTTGTGAAGAACAGGTACTCTATTCCTCTTATTGTGAATTTTT
15858876 T
1 T
15858877 GATCAAGTTG
Statistics
Matches: 382, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
390 382 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (390 bp):
TTGAAGATTGAGGAAATCATTAAGTCCGTTGGTGAGATCCCAAAAGAAGTGTACCAATTGTTGCA
GCCTTTTCGGGATGTGATACCTGCCTTGTTGCCCAAAATTTTGCCACCGAAGAGGGAGGTGGACC
ATAAGATCGAGTTAGTGTCCAATATGGTGCCGCCAGCAAGGGCCCCATATTGTAAGTCTCCGCCA
AAATTAGAAGAGTTACGGAAACAATTGGAGGAGTTTTTAGATGTGGGATTCATTAGGCCATCTAA
ATTTCCATATGGTGCGCCAGTGTTGTTTCAGAAAAACATGATGGGTTGTTGAGAATGTGGATCGA
TTATCAGGCTCTAAACAAGATCGTTGTGAAGAACAGGTACTCTATTCCTCTTATTGTGAATTTTT
Found at i:15863774 original size:43 final size:43
Alignment explanation
Indices: 15863725--15863895 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
15863715 GGTTATCAAG
* *
15863725 ATGTGATTACTTGTAAGACCATGTCTAGGACGTTGGCATTGTAT
1 ATGTGATT-CTTGTAAGACCATGTCTAGGACATTGGCATCGTAT
* *
15863769 -TGTGATTGTGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 ATGTGATTCT-TGTAAGACCATGTCTAGGACATTGGCATCGTAT
* * * * * *
15863812 AT-TGATTCGTGTAAGACCCTGTTTGGGATAGTGGCATCG-AT
1 ATGTGATTCTTGTAAGACCATGTCTAGGACATTGGCATCGTAT
* ** * * *
15863853 ATATGATTAAGTGTAAGACCATATCTAGGATA-TGGCATTGTAT
1 ATGTGATT-CTTGTAAGACCATGTCTAGGACATTGGCATCGTAT
15863896 GAACTTATGT
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
41 4 0.04
42 39 0.37
43 62 0.58
44 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (43 bp):
ATGTGATTCTTGTAAGACCATGTCTAGGACATTGGCATCGTAT
Found at i:15863839 original size:42 final size:44
Alignment explanation
Indices: 15863736--15863874 Score: 151
Period size: 43 Copynumber: 3.2 Consensus size: 44
15863726 TGTGATTACT
* * * * **
15863736 TGTAAGACCATGTCTAGGACGTTGGCATTGTAT-TGTGATTGTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATATGATTAAG
*
15863779 TGTAAGACCATGTCTGGGACATTGGCATCGTATAT-TGATT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATATGATTAAG
* * * *
15863821 TGTAAGACCCTGTTTGGGATAGTGGCATCG-ATATATGATTAAG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATATGATTAAG
15863864 TGTAAGACCAT
1 TGTAAGACCAT
15863875 ATCTAGGATA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
41 4 0.05
42 32 0.39
43 46 0.55
44 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATATATGATTAAG
Found at i:15867101 original size:29 final size:29
Alignment explanation
Indices: 15867068--15867123 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
15867058 GAAACTCAAT
15867068 TATCTCCATTTATACTTAATCTTTTTTTG
1 TATCTCCATTTATACTTAATCTTTTTTTG
15867097 TATCTCCATTTATACTTAATCTTTTTT
1 TATCTCCATTTATACTTAATCTTTTTT
15867124 GTCTAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.18, G:0.02, T:0.59
Consensus pattern (29 bp):
TATCTCCATTTATACTTAATCTTTTTTTG
Found at i:15869466 original size:3 final size:3
Alignment explanation
Indices: 15869458--15869484 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15869448 TAATAGACCC
15869458 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
15869485 ATTTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15869550 original size:25 final size:27
Alignment explanation
Indices: 15869498--15869552 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
15869488 TTTGTTTTTT
*
15869498 ATACTTTTAAATAATTTTTTTTGCAATAA
1 ATACTTTTAAATAA--TTTTTTGAAATAA
15869527 ATACTTTTAAATAA-TTTTT-AAATAA
1 ATACTTTTAAATAATTTTTTGAAATAA
15869552 A
1 A
15869553 AGCAATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
29 14 0.56
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (27 bp):
ATACTTTTAAATAATTTTTTGAAATAA
Found at i:15881107 original size:20 final size:19
Alignment explanation
Indices: 15881074--15881111 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
15881064 TTATCTTTTT
15881074 ATATATAAATTTTTTAATAA
1 ATATATAAA-TTTTTAATAA
15881094 ATATGATAAA-TTTTAATA
1 ATAT-ATAAATTTTTAATA
15881112 TAAAAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
ATATATAAATTTTTAATAA
Found at i:15896466 original size:86 final size:86
Alignment explanation
Indices: 15896320--15896477 Score: 237
Period size: 86 Copynumber: 1.8 Consensus size: 86
15896310 TTGGAAAAAA
* *
15896320 CGCCGCTAAAAGCCACAACTTTTAGCGGCGTTTGTGGTAAAAGTGCCACTGAAAGCCATGGCTTT
1 CGCCGCTAAAAGCCACAACTTTTAGCGGCATTTGTGGTAAAAGTGCCACTAAAAGCCATGGCTTT
15896385 AAGCGGCGTTTGTGGGTAAAG
66 AAGCGGCGTTTGTGGGTAAAG
* * * *
15896406 CGCCGCTGAAAGTCACGACTTTTAGCGGCATTTGTGGGT-AAAGTGCCACTAAAAGTCATGGCTT
1 CGCCGCTAAAAGCCACAACTTTTAGCGGCATTTGT-GGTAAAAGTGCCACTAAAAGCCATGGCTT
*
15896470 TTAGCGGC
65 TAAGCGGC
15896478 ACTTTTTCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
86 61 0.95
87 3 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (86 bp):
CGCCGCTAAAAGCCACAACTTTTAGCGGCATTTGTGGTAAAAGTGCCACTAAAAGCCATGGCTTT
AAGCGGCGTTTGTGGGTAAAG
Found at i:15896478 original size:43 final size:43
Alignment explanation
Indices: 15896338--15896478 Score: 185
Period size: 43 Copynumber: 3.3 Consensus size: 43
15896328 AAAGCCACAA
* *
15896338 CTTTTAGCGGCGTTTGT-GGTAAAAGTGCCACTGAAAGCCATGG
1 CTTTTAGCGGCATTTGTGGGT-AAAGTGCCACTGAAAGTCATGG
* * * * * *
15896381 CTTTAAGCGGCGTTTGTGGGTAAAGCGCCGCTGAAAGTCACGA
1 CTTTTAGCGGCATTTGTGGGTAAAGTGCCACTGAAAGTCATGG
*
15896424 CTTTTAGCGGCATTTGTGGGTAAAGTGCCACTAAAAGTCATGG
1 CTTTTAGCGGCATTTGTGGGTAAAGTGCCACTGAAAGTCATGG
15896467 CTTTTAGCGGCA
1 CTTTTAGCGGCA
15896479 CTTTTTCTAC
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 81 0.96
44 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
CTTTTAGCGGCATTTGTGGGTAAAGTGCCACTGAAAGTCATGG
Found at i:15896496 original size:86 final size:86
Alignment explanation
Indices: 15896316--15896500 Score: 223
Period size: 86 Copynumber: 2.2 Consensus size: 86
15896306 TTTATTGGAA
* *
15896316 AAAACGCCGCTAAAAGCCACAACTTTTAGCGGCGTTTGTGGTAAAAGTGCCACTGAAAGCCATGG
1 AAAACGCCGCTAAAAGCCACAACTTTTAGCGGCATTTGTGGTAAAAGTGCCACTAAAAGCCATGG
* *
15896381 CTTTAAGCGGCGTTTGTGGGT
66 CTTTAAGCGGCCTTTGTGGCT
* * * * *
15896402 AAAGCGCCGCTGAAAGTCACGACTTTTAGCGGCATTTGTGGGT-AAAGTGCCACTAAAAGTCATG
1 AAAACGCCGCTAAAAGCCACAACTTTTAGCGGCATTTGT-GGTAAAAGTGCCACTAAAAGCCATG
* *
15896466 GCTTTTAGCGGCACTTT-T-TCT
65 GCTTTAAGCGGC-CTTTGTGGCT
15896487 ACAAACGCCGCTAA
1 A-AAACGCCGCTAA
15896501 TTTTGGCAGA
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
85 2 0.02
86 75 0.90
87 6 0.07
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (86 bp):
AAAACGCCGCTAAAAGCCACAACTTTTAGCGGCATTTGTGGTAAAAGTGCCACTAAAAGCCATGG
CTTTAAGCGGCCTTTGTGGCT
Found at i:15896631 original size:33 final size:31
Alignment explanation
Indices: 15896553--15896635 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
15896543 CTTCCTGCAT
* * *
15896553 TAAAATCCAACCAAATACAACAAATATATCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
* * * *
15896584 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
15896615 TAAAAAATACAACCAAAAACA
1 T--AAAATACAACCAAAAACA
15896636 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.59, C:0.20, G:0.05, T:0.16
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAGCA
Found at i:15900943 original size:14 final size:14
Alignment explanation
Indices: 15900924--15900952 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15900914 CACAAACTTC
15900924 AGAATTATGTATTT
1 AGAATTATGTATTT
15900938 AGAATTATGTATTT
1 AGAATTATGTATTT
15900952 A
1 A
15900953 TATAAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (14 bp):
AGAATTATGTATTT
Found at i:15902243 original size:16 final size:16
Alignment explanation
Indices: 15902222--15902275 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
15902212 AGAATTAGAT
15902222 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
15902238 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
*
15902248 AAAATTTGAAATCTTT
1 AAAATTTGAAATCTTG
15902264 AAAATTTGAAAT
1 AAAATTTGAAAT
15902276 TATTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:15902532 original size:22 final size:22
Alignment explanation
Indices: 15902507--15902549 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15902497 TAAACCATGT
15902507 ACCCTTAACCC-TTAACCCCTAG
1 ACCCTT-ACCCTTTAACCCCTAG
15902529 ACCCTTACCCTTTAACCCCTA
1 ACCCTTACCCTTTAACCCCTA
15902550 AATCATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.26, C:0.47, G:0.02, T:0.26
Consensus pattern (22 bp):
ACCCTTACCCTTTAACCCCTAG
Found at i:15902573 original size:15 final size:14
Alignment explanation
Indices: 15902545--15902724 Score: 51
Period size: 14 Copynumber: 12.5 Consensus size: 14
15902535 ACCCTTTAAC
15902545 CCCTAAATCATAAA
1 CCCTAAATCATAAA
*
15902559 CCCTAAATCTCTAAA
1 CCCTAAATC-ATAAA
** * *
15902574 -CCTCAACCCTTGAA
1 CCCT-AAATCATAAA
* *
15902588 CCATAAATCATAAT
1 CCCTAAATCATAAA
* *
15902602 CCCTAAGTCCATAAT
1 CCCTAAAT-CATAAA
* *
15902617 CCAT-AATCCATAAT
1 CCCTAAAT-CATAAA
* *
15902631 CCATAAACCATAAA
1 CCCTAAATCATAAA
* * *
15902645 CCTTGAGAT-ATTAA
1 CCCT-AAATCATAAA
* *
15902659 CTCATAAACCATAAA
1 C-CCTAAATCATAAA
* *
15902674 CCCCTAAACCTTAAA
1 -CCCTAAATCATAAA
* *
15902689 CCCTAAACCCTAAA
1 CCCTAAATCATAAA
*
15902703 CCCATAATTCATAAA
1 CCC-TAAATCATAAA
*
15902718 CCTTAAA
1 CCCTAAA
15902725 ATATTAACTC
Statistics
Matches: 123, Mismatches: 33, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
14 73 0.59
15 49 0.40
16 1 0.01
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (14 bp):
CCCTAAATCATAAA
Found at i:15902613 original size:22 final size:21
Alignment explanation
Indices: 15902588--15902643 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
15902578 AACCCTTGAA
*
15902588 CCATAAATCATAATCCCTAAGT
1 CCATAAATCATAATCCATAA-T
15902610 CCAT-AATCCATAATCCATAAT
1 CCATAAAT-CATAATCCATAAT
*
15902631 CCATAAACCATAA
1 CCATAAATCATAA
15902644 ACCTTGAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.25
Consensus pattern (21 bp):
CCATAAATCATAATCCATAAT
Found at i:15902644 original size:7 final size:7
Alignment explanation
Indices: 15902586--15902779 Score: 75
Period size: 7 Copynumber: 26.6 Consensus size: 7
15902576 TCAACCCTTG
15902586 AACCATA
1 AACCATA
*
15902593 AATCATA
1 AACCATA
* *
15902600 ATCCCTA
1 AACCATA
*
15902607 AGTCCATA
1 A-ACCATA
*
15902615 ATCCATA
1 AACCATA
*
15902622 ATCCATA
1 AACCATA
*
15902629 ATCCATA
1 AACCATA
15902636 AACCATA
1 AACCATA
*
15902643 AACCTTGA
1 AACCAT-A
* * *
15902651 GA-TATT
1 AACCATA
15902657 AACTCATA
1 AAC-CATA
15902665 AACCATA
1 AACCATA
*
15902672 AACCCCTA
1 AA-CCATA
*
15902680 AACCTTA
1 AACCATA
*
15902687 AACCCTA
1 AACCATA
*
15902694 AACCCTA
1 AACCATA
15902701 AACCCATA
1 AA-CCATA
**
15902709 ATTCATA
1 AACCATA
*
15902716 AACCTTA
1 AACCATA
**
15902723 AAATATTA
1 AACCA-TA
*
15902731 ACTCATCATA
1 A---ACCATA
15902741 AACCATA
1 AACCATA
*
15902748 AACCTTA
1 AACCATA
*
15902755 AACTATA
1 AACCATA
* *
15902762 TACCCTA
1 AACCATA
15902769 AACCATA
1 AACCATA
15902776 AACC
1 AACC
15902780 TTGAACTATA
Statistics
Matches: 140, Mismatches: 37, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
6 1 0.01
7 107 0.76
8 27 0.19
10 3 0.02
11 2 0.01
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.24
Consensus pattern (7 bp):
AACCATA
Found at i:15902790 original size:14 final size:14
Alignment explanation
Indices: 15902739--15902790 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
15902729 TAACTCATCA
*
15902739 TAAACCATAAACCT
1 TAAACTATAAACCT
* *
15902753 TAAACTATATACCC
1 TAAACTATAAACCT
*
15902767 TAAACCATAAACCT
1 TAAACTATAAACCT
*
15902781 TGAACTATAA
1 TAAACTATAA
15902791 TGATAAGTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (14 bp):
TAAACTATAAACCT
Found at i:15902925 original size:29 final size:30
Alignment explanation
Indices: 15902892--15902959 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
15902882 CTTTAAAATT
*
15902892 ATTTTAAATGATAGTATTTTTAT-T-TTTTC
1 ATTTTAAATCATA-TATTTTTATATGTTTTC
* *
15902921 ATTTTTAA-CATATATTTTTATATGTTTTT
1 ATTTTAAATCATATATTTTTATATGTTTTC
15902950 ATTTTCAAAT
1 ATTTT-AAAT
15902960 TTTTTCTACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
27 9 0.29
28 4 0.13
29 16 0.52
30 2 0.06
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (30 bp):
ATTTTAAATCATATATTTTTATATGTTTTC
Found at i:15903148 original size:41 final size:41
Alignment explanation
Indices: 15903058--15903340 Score: 374
Period size: 41 Copynumber: 6.9 Consensus size: 41
15903048 TTTATGGAGC
* * * * *
15903058 TTTTTGAAAAAACACCGCTATAAATC-GAGCATTAGCGGCA
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
* * * *
15903098 TTTTTCAAAAAGCGCAGTTATAGATCTGAGCATTGGCGGTG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
* * *
15903139 TTTTCCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGACT
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
*
15903180 TTTTTCAAAAAGCGCCGCTATAGATCTTAGCATTAGCGGCG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
*
15903221 TTTTTCAAAAAGCGTCGCTATAGATCTGAGCATTAGCGGC-
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
* *
15903261 TTTTTTAAATAAGTGCCGCTATAGATCTGAGCATTAGCGGCG
1 TTTTTCAAA-AAGCGCCGCTATAGATCTGAGCATTAGCGGCG
*
15903303 TTTTT-AAATAAGCGCCGCTATAGATATGAGCATTAGCG
1 TTTTTCAAA-AAGCGCCGCTATAGATCTGAGCATTAGCG
15903341 ACGCTTTTGG
Statistics
Matches: 213, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
40 28 0.13
41 180 0.85
42 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (41 bp):
TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
Found at i:15903502 original size:39 final size:40
Alignment explanation
Indices: 15903428--15903519 Score: 91
Period size: 39 Copynumber: 2.3 Consensus size: 40
15903418 GTTTTAAAAA
* * **
15903428 AAACACCGCTAATGCTCGATTTTTAGAGGCATTTTT-TT-
1 AAACGCCGCTAATGCTAGATCGTTAGAGGCATTTTTATTC
*
15903466 AAAGCGCCGCTAATGCTAGATCGTTAGTGG-AGTTTTTCATTC
1 AAA-CGCCGCTAATGCTAGATCGTTAGAGGCA-TTTTT-ATTC
15903508 AAACGCCGCTAA
1 AAACGCCGCTAA
15903520 AAACGCCACA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
38 4 0.09
39 26 0.59
41 11 0.25
42 3 0.07
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (40 bp):
AAACGCCGCTAATGCTAGATCGTTAGAGGCATTTTTATTC
Found at i:15905639 original size:14 final size:14
Alignment explanation
Indices: 15905620--15905650 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
15905610 AGTGTTATGA
15905620 ATGCTATTAAGTGG
1 ATGCTATTAAGTGG
15905634 ATGCTATTAAGTGG
1 ATGCTATTAAGTGG
15905648 ATG
1 ATG
15905651 TTCATTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (14 bp):
ATGCTATTAAGTGG
Found at i:15907921 original size:34 final size:36
Alignment explanation
Indices: 15907878--15907956 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
15907868 AATTTGTTTT
*
15907878 AAAA-TAAAATTA-TAAAATTATAT-AAAAATT-TA
1 AAAATTAAAAATATTAAAATTATATAAAAAATTATA
* *
15907910 AAAATTAAAAATATTGAAATTATTTAAAAAATTATA
1 AAAATTAAAAATATTAAAATTATATAAAAAATTATA
15907946 AAAATTAAAAA
1 AAAATTAAAAA
15907957 AACATTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
32 4 0.10
33 7 0.17
34 9 0.22
35 7 0.17
36 13 0.32
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (36 bp):
AAAATTAAAAATATTAAAATTATATAAAAAATTATA
Found at i:15907948 original size:9 final size:9
Alignment explanation
Indices: 15907883--15907977 Score: 56
Period size: 10 Copynumber: 10.4 Consensus size: 9
15907873 GTTTTAAAAT
15907883 AAAATTATA
1 AAAATTATA
*
15907892 AAATTATATA
1 AAAAT-TATA
15907902 AAAATT-TA
1 AAAATTATA
15907910 AAAA-T-TA
1 AAAATTATA
*
15907917 AAAA-TATT
1 AAAATTATA
*
15907925 GAAATTATTTAA
1 AAAATTA--T-A
15907937 AAAATTATA
1 AAAATTATA
*
15907946 AAAATTAAAA
1 AAAATT-ATA
*
15907956 AAACATTTTA
1 AAA-ATTATA
15907966 AAAA-TATA
1 AAAATTATA
15907974 AAAA
1 AAAA
15907978 ACTAAAATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
7 8 0.12
8 17 0.25
9 15 0.22
10 18 0.26
11 4 0.06
12 6 0.09
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:15907979 original size:20 final size:20
Alignment explanation
Indices: 15907935--15907978 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15907925 GAAATTATTT
15907935 AAAAA-ATTATAAAAATTAA
1 AAAAACATTATAAAAATTAA
*
15907954 AAAAACATTTTAAAAATATAA
1 AAAAACATTATAAAAAT-TAA
15907975 AAAA
1 AAAA
15907979 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAACATTATAAAAATTAA
Found at i:15908003 original size:8 final size:8
Alignment explanation
Indices: 15907901--15907957 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
15907891 AAAATTATAT
*
15907901 AAAAATTT
1 AAAAATTA
15907909 AAAAATTA
1 AAAAATTA
15907917 AAAATATTGA
1 AAAA-ATT-A
* *
15907927 AATTATTTA
1 AA-AAATTA
15907936 AAAAATTA
1 AAAAATTA
15907944 TAAAAATTA
1 -AAAAATTA
15907953 AAAAA
1 AAAAA
15907958 ACATTTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 20 0.50
9 14 0.35
10 5 0.12
11 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (8 bp):
AAAAATTA
Found at i:15908371 original size:31 final size:31
Alignment explanation
Indices: 15908333--15908397 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
15908323 AACGTCCAAA
* *
15908333 GGACTAAATTGAAAATGTCTGATAATGTTAG
1 GGACTAAATTGAAAATATCTGATAACGTTAG
* *
15908364 GGACTAAATTGAAAATATCTTATACCGTTAG
1 GGACTAAATTGAAAATATCTGATAACGTTAG
15908395 GGA
1 GGA
15908398 TTAGTAGGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (31 bp):
GGACTAAATTGAAAATATCTGATAACGTTAG
Found at i:15909626 original size:14 final size:14
Alignment explanation
Indices: 15909609--15909652 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
15909599 AATAAAAATA
*
15909609 TAATTATATTATTT
1 TAATAATATTATTT
*
15909623 TAATAATTTTATTT
1 TAATAATATTATTT
*
15909637 TAA-AAGATTATTT
1 TAATAATATTATTT
15909650 TAA
1 TAA
15909653 ATTTAGATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TAATAATATTATTT
Found at i:15910141 original size:17 final size:16
Alignment explanation
Indices: 15910103--15910145 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
15910093 TTTAATTTTT
*
15910103 TAAAAGTTATAAAAATA
1 TAAAA-TTATTAAAATA
15910120 T-AAATTATTAAAATAA
1 TAAAATTATTAAAAT-A
15910136 TAAAATTATT
1 TAAAATTATT
15910146 TTAACCTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 9 0.39
16 5 0.22
17 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAATTATTAAAATA
Found at i:15910330 original size:29 final size:27
Alignment explanation
Indices: 15910276--15910341 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
15910266 GATGTATTTC
* *
15910276 TTTAAAATTTTTAGAATTAGATTTAAA
1 TTTAAAATTTTTAAAATTAGAATTAAA
* *
15910303 TTTAAAATATTTGTAAAATTATAATTAAG
1 TTTAAAAT-TTT-TAAAATTAGAATTAAA
*
15910332 TTTGAAATTT
1 TTTAAAATTT
15910342 GAGTTTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 8 0.25
28 5 0.16
29 19 0.59
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (27 bp):
TTTAAAATTTTTAAAATTAGAATTAAA
Found at i:15915594 original size:30 final size:30
Alignment explanation
Indices: 15915539--15915595 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
15915529 CCGAGCCTAA
* *
15915539 GGGCAAAAGTGTAATTATGTAAAAGTTTAG
1 GGGCAAAAATGTAATTATGCAAAAGTTTAG
* *
15915569 GGGCAAAAATGTAATTTTGCCAAAGTT
1 GGGCAAAAATGTAATTATGCAAAAGTT
15915596 CGTATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGCAAAAGTTTAG
Found at i:15921674 original size:96 final size:96
Alignment explanation
Indices: 15921510--15921691 Score: 303
Period size: 96 Copynumber: 1.9 Consensus size: 96
15921500 CTTCTTTTTG
* *
15921510 CTCCTCTTAGCCCTCTTGGCTTCGGCTTTTCTCTTGCTCGAACCAAGCTTCTTGGGCTCCTTGTC
1 CTCCTCTTAGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGTGTC
*
15921575 TGCTCCATCGTTCCCTTCGATGATAAACTTT
66 TGCTCCATCGTTCCCATCGATGATAAACTTT
*
15921606 CTCCTCTTTA-CCCTCTTGGCTTCGGCTTTTCCCTTGCTCTAACCAAGCTTCTTGGGCTCCGTGT
1 CTCCTC-TTAGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGTGT
*
15921670 CTGCTCCATCGTTTCCATCGAT
65 CTGCTCCATCGTTCCCATCGAT
15921692 AACAGACTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
96 77 0.96
97 3 0.04
ACGTcount: A:0.10, C:0.35, G:0.16, T:0.38
Consensus pattern (96 bp):
CTCCTCTTAGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGTGTC
TGCTCCATCGTTCCCATCGATGATAAACTTT
Found at i:15925967 original size:4 final size:4
Alignment explanation
Indices: 15925958--15926001 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
15925948 TATGTATTGT
* * *
15925958 TTTA TTTA TTTA TTTA TATA TTTA TTCA TTTA TTTA TTTC TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
15926002 CTTTTTTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:15926026 original size:13 final size:13
Alignment explanation
Indices: 15926008--15926041 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
15925998 TTTACTTTTT
15926008 TTTGTATTTAAAA
1 TTTGTATTTAAAA
15926021 TTTGTATTTAAAA
1 TTTGTATTTAAAA
15926034 TTTGTATT
1 TTTGTATT
15926042 GTCATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTGTATTTAAAA
Found at i:15926223 original size:8 final size:8
Alignment explanation
Indices: 15926162--15926228 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
15926152 TATTATTTGG
*
15926162 TATTTTAC
1 TATTTTAT
15926170 TATTATTAT
1 TATT-TTAT
*
15926179 AATTTTAT
1 TATTTTAT
*
15926187 TATTATAT
1 TATTTTAT
*
15926195 TATTCCT-T
1 TATT-TTAT
15926203 TA-TTTAT
1 TATTTTAT
15926210 TA-TTTAT
1 TATTTTAT
*
15926217 TATTTTAG
1 TATTTTAT
15926225 TATT
1 TATT
15926229 CTACCCACAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
6 1 0.02
7 11 0.23
8 29 0.60
9 7 0.15
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (8 bp):
TATTTTAT
Found at i:15935264 original size:3 final size:3
Alignment explanation
Indices: 15935252--15935281 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
15935242 ACAGAAAAAA
15935252 AAG AATG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AA-G AAG AAG AAG AAG AAG AAG AAG AA
15935282 AAGGGGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:15938759 original size:69 final size:69
Alignment explanation
Indices: 15938677--15938995 Score: 274
Period size: 69 Copynumber: 4.5 Consensus size: 69
15938667 ATGTTACACC
* * *
15938677 TAAAAACAGTAGCAAAATCTTAGATATTTAAGAACATATGGCAAACCAACACTTAACTAAAACAA
1 TAAAAACAGTAGCAAAATCTTAGATATTTAAGAACATATAGAAAACCAACACTTAACCAAAACAA
15938742 GACT
66 GACT
* ** * *
15938746 TAAAAACAGTAGCAAAA-CATTAGATATTTGAGAACATA-AGAAAATTTTGACATATGTTACACT
1 TAAAAACAGTAGCAAAATC-TTAGATATTTAAGAACATATAGAAAA---CCA-ACA-CTTA-AC-
* *
15938809 TTAAAAC-ATA-T
58 -CAAAACAAGACT
* ** *
15938820 TAAAAACAGTAGC-AAATCATTATATAAGTAAGAACATATAGCAAACCAACACTTAACCAAAACA
1 TAAAAACAGTAGCAAAATC-TTAGATATTTAAGAACATATAGAAAACCAACACTTAACCAAAACA
* *
15938884 ACAGTT
65 AGA-CT
* ** *
15938890 TACAAACAGTAGCCAAAA-AGTAGATATTTAAGAACATAT-GAAAAACTAACACTTAACCAAAAC
1 TAAAAACAGTAG-CAAAATCTTAGATATTTAAGAACATATAG-AAAACCAACACTTAACCAAAAC
15938953 AAGACT
64 AAGACT
* *
15938959 TAAAAACAATAGCAAAATATTAGATATTTAAGAACAT
1 TAAAAACAGTAGCAAAATCTTAGATATTTAAGAACAT
15938996 GTGAAAATTT
Statistics
Matches: 200, Mismatches: 32, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
67 5 0.03
68 12 0.06
69 67 0.34
70 54 0.27
71 4 0.02
72 6 0.03
73 6 0.03
74 33 0.17
75 7 0.04
76 6 0.03
ACGTcount: A:0.52, C:0.15, G:0.10, T:0.23
Consensus pattern (69 bp):
TAAAAACAGTAGCAAAATCTTAGATATTTAAGAACATATAGAAAACCAACACTTAACCAAAACAA
GACT
Found at i:15939001 original size:69 final size:70
Alignment explanation
Indices: 15938819--15939002 Score: 214
Period size: 70 Copynumber: 2.6 Consensus size: 70
15938809 TTAAAACATA
* ** *
15938819 TTAAAAACAGTAGC-AAATCATTATATAAGTAAGAACATAT-AGCAAACCAACACTTAACCAAAA
1 TTAAAAACAGTAGCAAAAT-ATTAGATATTTAAGAACATATGA-AAAACCAACACTTAACCAAAA
*
15938882 CAACAGT
64 CAACAGC
* * *
15938889 TTACAAACAGTAGCCAAAA-AGTAGATATTTAAGAACATATGAAAAACTAACACTTAACCAAAAC
1 TTAAAAACAGTAG-CAAAATATTAGATATTTAAGAACATATGAAAAACCAACACTTAACCAAAAC
*
15938953 AAGA-C
65 AACAGC
* *
15938958 TTAAAAACAATAGCAAAATATTAGATATTTAAGAACATGTGAAAA
1 TTAAAAACAGTAGCAAAATATTAGATATTTAAGAACATATGAAAA
15939003 TTTTGGCATA
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
68 5 0.05
69 35 0.36
70 52 0.54
71 2 0.02
72 3 0.03
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (70 bp):
TTAAAAACAGTAGCAAAATATTAGATATTTAAGAACATATGAAAAACCAACACTTAACCAAAACA
ACAGC
Found at i:15939047 original size:213 final size:212
Alignment explanation
Indices: 15938672--15939147 Score: 679
Period size: 213 Copynumber: 2.2 Consensus size: 212
15938662 AAAGTATGTT
* ** *
15938672 ACACCTAAAAACAGTAGCAAAATC-TTAGATATTTAAGAACATATGGCAAACCAACACTTAACTA
1 ACACTTAAAAACAGTAGCAAAA-CATTAGATATTTAAGAACATATGAAAAACCAACACTTAACCA
* *
15938736 AAACAAGACTTAAAAACAGTAGCAAAACATTAGATATTTGAGAACATAAGAAAATTTTGACATAT
65 AAACAAGACTTAAAAACAATAGCAAAACATTAGATATTTAAGAACATAAGAAAATTTTGACATAT
*
15938801 GTTACACTTTAAAACATATTAAAAACAGTAGCAAATCATTATATAAGTAAGAACATATAGCAAAC
130 GTTACACTTTAAAACATATTAAAAACAGTAGCAAATCATTATATAAGTAAGAACATATAGAAAAC
15938866 CAACACT-TAACCAAAACA
195 CAACA-TATAACCAAAACA
* * * *
15938884 ACAGTTTACAAACAGTAGCCAAAA-AGTAGATATTTAAGAACATATGAAAAACTAACACTTAACC
1 ACA-CTTAAAAACAGTAG-CAAAACATTAGATATTTAAGAACATATGAAAAACCAACACTTAACC
* ** *
15938948 AAAACAAGACTTAAAAACAATAGCAAAATATTAGATATTTAAGAACATGTGAAAATTTTGGCATA
64 AAAACAAGACTTAAAAACAATAGCAAAACATTAGATATTTAAGAACATAAGAAAATTTTGACATA
* ** ** *
15939013 TGTTACACTTTAAAACATATTTAAAATGGTAGCAAATCATTATATAAGTAAGGGCATATGGAAAA
129 TGTTACACTTTAAAACATATTAAAAACAGTAGCAAATCATTATATAAGTAAGAACATATAGAAAA
*
15939078 CCAACATATAACCAAAACT
194 CCAACATATAACCAAAACA
* *
15939097 ACACTTAAAAATAGTAGTAAAACATTAGATATTTAAGAACATATGAAAAAC
1 ACACTTAAAAACAGTAGCAAAACATTAGATATTTAAGAACATATGAAAAAC
15939148 AGTAGCAAAT
Statistics
Matches: 232, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
211 4 0.02
212 42 0.18
213 181 0.78
214 5 0.02
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (212 bp):
ACACTTAAAAACAGTAGCAAAACATTAGATATTTAAGAACATATGAAAAACCAACACTTAACCAA
AACAAGACTTAAAAACAATAGCAAAACATTAGATATTTAAGAACATAAGAAAATTTTGACATATG
TTACACTTTAAAACATATTAAAAACAGTAGCAAATCATTATATAAGTAAGAACATATAGAAAACC
AACATATAACCAAAACA
Found at i:15939140 original size:69 final size:69
Alignment explanation
Indices: 15938819--15939147 Score: 211
Period size: 69 Copynumber: 4.7 Consensus size: 69
15938809 TTAAAACATA
* * ** * *
15938819 TTAAAAACAGTAGCAAATCATTATATAAGTAAGAACATATAGCAAACCAACACTTAACCAAAACA
1 TTAAAAACAGTAGCAAAACATTAGATATTTAAGAACATATGGAAAACCAACACTTAACCAAAACA
*
15938884 ACAGT
66 ACA-C
* * * *
15938889 TTACAAACAGTAGCCAAAA-AGTAGATATTTAAGAACATATGAAAAACTAACACTTAACCAAAAC
1 TTAAAAACAGTAG-CAAAACATTAGATATTTAAGAACATATGGAAAACCAACACTTAACCAAAAC
*
15938953 AAGAC
65 AACAC
* * * * **
15938958 TTAAAAACAATAGCAAAATATTAGATATTTAAGAACATGT-GAAAATTTTGGCATA-TGTTACAC
1 TTAAAAACAGTAGCAAAACATTAGATATTTAAGAACATATGGAAAA-----CCA-ACACTTA-AC
* *
15939021 TTTAAAAC-ATA-
59 --CAAAACAACAC
* ** * * ** **
15939032 TTTAAAATGGTAGCAAATCATTATATAAGTAAGGGCATATGGAAAACCAACA-TATAACCAAAAC
1 TTAAAAACAGTAGCAAAACATTAGATATTTAAGAACATATGGAAAACCAACACT-TAACCAAAAC
*
15939096 TACAC
65 AACAC
* * *
15939101 TTAAAAATAGTAGTAAAACATTAGATATTTAAGAACATATGAAAAAC
1 TTAAAAACAGTAGCAAAACATTAGATATTTAAGAACATATGGAAAAC
15939148 AGTAGCAAAT
Statistics
Matches: 194, Mismatches: 49, Indels: 33
0.70 0.18 0.12
Matches are distributed among these distances:
67 5 0.03
68 11 0.06
69 71 0.37
70 56 0.29
71 4 0.02
73 4 0.02
74 31 0.16
75 7 0.04
76 5 0.03
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (69 bp):
TTAAAAACAGTAGCAAAACATTAGATATTTAAGAACATATGGAAAACCAACACTTAACCAAAACA
ACAC
Found at i:15939146 original size:39 final size:39
Alignment explanation
Indices: 15939103--15939179 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
15939093 AACTACACTT
* * **
15939103 AAAAATAGTAGTAAAACATTAGATATTTAAGAACATATG
1 AAAAACAGTAGCAAAACATTAGATAAGTAAGAACATATG
* *
15939142 AAAAACAGTAGCAAATCATTATATAAGTAAGAACATAT
1 AAAAACAGTAGCAAAACATTAGATAAGTAAGAACATAT
15939180 CGCAAACCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.26
Consensus pattern (39 bp):
AAAAACAGTAGCAAAACATTAGATAAGTAAGAACATATG
Found at i:15943640 original size:33 final size:33
Alignment explanation
Indices: 15943602--15943700 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
15943592 GACTGAGTGG
*
15943602 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
15943635 GAGTGTTTTGCTGCTAGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
15943668 GGGTGTTTTGTTGCTGGACAGGAGCTGAAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
15943701 CAAGAAGAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.19, C:0.10, G:0.39, T:0.31
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:15946160 original size:23 final size:22
Alignment explanation
Indices: 15946108--15946160 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
15946098 TCCACGTCTT
*
15946108 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
15946130 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
15946153 TTTCTTTT
1 TTTCTTTT
15946161 TCACTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:15946205 original size:18 final size:18
Alignment explanation
Indices: 15946119--15946207 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 18
15946109 TTCTTTTGTT
** *
15946119 TCTTTTTCTAATTCATTT
1 TCTTTTTCTTTTTCATTC
*
15946137 TC-TCTTCTTTCTTCAATT-
1 TCTTTTTCTTT-TTC-ATTC
** *
15946155 TCTTTTTCACTTTCAATC
1 TCTTTTTCTTTTTCATTC
15946173 TCTTTTTGCTCTTTTTCATTC
1 TC-TTTT--TCTTTTTCATTC
15946194 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
15946208 CTCACTTGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
17 7 0.13
18 20 0.37
19 12 0.22
20 4 0.07
21 11 0.20
ACGTcount: A:0.10, C:0.24, G:0.01, T:0.65
Consensus pattern (18 bp):
TCTTTTTCTTTTTCATTC
Found at i:15949949 original size:23 final size:22
Alignment explanation
Indices: 15949897--15949949 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
15949887 TCCACGTCTT
*
15949897 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
15949919 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
15949942 TTTCTTTT
1 TTTCTTTT
15949950 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:15952316 original size:12 final size:13
Alignment explanation
Indices: 15952299--15952327 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15952289 TTAAACTAAG
15952299 TAAATAAAT-AAA
1 TAAATAAATAAAA
15952311 TAAATAAATAAAA
1 TAAATAAATAAAA
15952324 TAAA
1 TAAA
15952328 AATAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:15953730 original size:23 final size:22
Alignment explanation
Indices: 15953678--15953730 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
15953668 TCCACGTCTT
*
15953678 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
15953700 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
15953723 TTTCTTTT
1 TTTCTTTT
15953731 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:15956105 original size:12 final size:13
Alignment explanation
Indices: 15956088--15956116 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15956078 TTAAACTAAG
15956088 TAAATAAAT-AAA
1 TAAATAAATAAAA
15956100 TAAATAAATAAAA
1 TAAATAAATAAAA
15956113 TAAA
1 TAAA
15956117 AATAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:15959890 original size:5 final size:4
Alignment explanation
Indices: 15959863--15959896 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
15959853 TTAAACTAAG
15959863 TAAA TAAA TAAA TAAA TAAA TAAAA TAAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA T-AAA T-AAA TAAA
15959897 CTTTACAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 20 0.69
5 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:15971556 original size:19 final size:18
Alignment explanation
Indices: 15971532--15971582 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
15971522 TCTTTTTCAC
15971532 TTTCATCTCTTTTTCTCTT
1 TTTCATCTCTTTTT-TCTT
*
15971551 TTTCAT-TCTCTTTTCTT
1 TTTCATCTCTTTTTTCTT
* *
15971568 TTTCCTCACTTTTTT
1 TTTCATCTCTTTTTT
15971583 ACAGAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 9 0.33
18 12 0.44
19 6 0.22
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTCATCTCTTTTTTCTT
Found at i:15971567 original size:17 final size:19
Alignment explanation
Indices: 15971532--15971571 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
15971522 TCTTTTTCAC
*
15971532 TTTCATCTCTTTTTCTCTT
1 TTTCATCTCTCTTTCTCTT
15971551 TTTCAT-TCTCTTT-TCTT
1 TTTCATCTCTCTTTCTCTT
15971568 TTTC
1 TTTC
15971572 CTCACTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 6 0.30
19 6 0.30
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTCATCTCTCTTTCTCTT
Found at i:15973866 original size:12 final size:11
Alignment explanation
Indices: 15973844--15973876 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
15973834 TTAAACTAAG
15973844 TAAATAATAAA
1 TAAATAATAAA
15973855 TAAATAAATAAA
1 TAAAT-AATAAA
15973867 TAAA-AATAAA
1 TAAATAATAAA
15973877 ACTTTACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 5 0.24
12 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:15975274 original size:23 final size:22
Alignment explanation
Indices: 15975222--15975274 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
15975212 TCCACGTCTT
*
15975222 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
15975244 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
15975267 TTTCTTTT
1 TTTCTTTT
15975275 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:15979048 original size:23 final size:22
Alignment explanation
Indices: 15978996--15979048 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
15978986 TCCACGTCTT
*
15978996 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
15979018 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
15979041 TTTCTTTT
1 TTTCTTTT
15979049 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:15982843 original size:23 final size:22
Alignment explanation
Indices: 15982791--15982843 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
15982781 TCCACGTCTT
*
15982791 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
15982813 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
15982836 TTTCTTTT
1 TTTCTTTT
15982844 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:15989101 original size:104 final size:104
Alignment explanation
Indices: 15988911--15989132 Score: 293
Period size: 104 Copynumber: 2.1 Consensus size: 104
15988901 CAATGTGTTG
* * * * * * *
15988911 TAAATTTAGAGGCTTCAAGATTTTCTTGTAAGTAATGAATCAAAGCTCTTACATTGTAGAATGAG
1 TAAACTTAGAGGTTTAAAAATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAAGGAG
* * *
15988976 TTTGATTTTGATTCATCATTTTCGCTTAAACTTGAGTAT
66 TTTGATTTTGATTCATAATTTTCGCATAAACTCGAGTAT
*
15989015 TAAACTTAGAGGTTTAAAAATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGCAGGAG
1 TAAACTTAGAGGTTTAAAAATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAAGGAG
* *
15989080 TTTGTTTTTGA-TCTGTAATTTTCGCATAAACTCGAGTAT
66 TTTGATTTTGATTC-ATAATTTTCGCATAAACTCGAGTAT
* *
15989119 TTAACTTAGTGGTT
1 TAAACTTAGAGGTT
15989133 GGTGCCTGAT
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
103 2 0.02
104 100 0.98
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.41
Consensus pattern (104 bp):
TAAACTTAGAGGTTTAAAAATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAAGGAG
TTTGATTTTGATTCATAATTTTCGCATAAACTCGAGTAT
Found at i:15991450 original size:91 final size:91
Alignment explanation
Indices: 15991312--15991519 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
15991302 TTGATTTTAG
* *
15991312 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
15991377 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
15991404 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
15991469 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
15991495 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
15991520 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:15991488 original size:26 final size:28
Alignment explanation
Indices: 15991434--15991494 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
15991424 TATTATCAAG
* *
15991434 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
15991462 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
15991488 AATTATA
1 AATTATA
15991495 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:15991494 original size:44 final size:43
Alignment explanation
Indices: 15991352--15991494 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
15991342 GAATTTTATG
* *
15991352 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
15991396 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
15991443 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
15991487 AAATTATA
1 AAATTATA
15991495 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:15991612 original size:59 final size:57
Alignment explanation
Indices: 15991546--15991733 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
15991536 ATTTTATTAA
15991546 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
15991605 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A-T
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * *
15991667 -T-ATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
15991724 ATCATATATT
1 ATCATATATT
15991734 ATGATTCGAG
Statistics
Matches: 99, Mismatches: 15, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
53 14 0.14
54 7 0.07
55 5 0.05
56 3 0.03
57 1 0.01
58 2 0.02
59 21 0.21
60 11 0.11
61 2 0.02
62 1 0.01
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:15991681 original size:119 final size:120
Alignment explanation
Indices: 15991535--15991831 Score: 499
Period size: 119 Copynumber: 2.5 Consensus size: 120
15991525 AATTATTTTA
* * *
15991535 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
*
15991599 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTCGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
15991655 AATTTTATT-AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
15991719 ATAGTATCATATATTATGATTCGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTCGAGTAAATTCATATAAGAATATTAATTATTAAG
15991774 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
15991832 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
119 109 0.66
120 51 0.31
121 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTCGAGTAAATTCATATAAGAATATTAATTATTAAG
Done.