Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008702.1 Hibiscus syriacus cultivar Beakdansim tig00111741_pilon, whole genome shotgun sequence
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: 3201804
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:891672 original size:14 final size:15
Alignment explanation
Indices: 891653--891704 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
891643 GTCCCCTGTA
891653 AATAA-AATAATATT
1 AATAATAATAATATT
891667 AAT-A-AATAAT-TAT
1 AATAATAATAATAT-T
*
891680 AATAATGATAATA-T
1 AATAATAATAATATT
891694 AATAATAATAA
1 AATAATAATAA
891705 ATTCTGACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 1 0.03
13 11 0.34
14 15 0.47
15 5 0.16
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
AATAATAATAATATT
Found at i:891695 original size:11 final size:11
Alignment explanation
Indices: 891653--891703 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
891643 GTCCCCTGTA
*
891653 AATAAAATAAT
1 AATAATATAAT
*
891664 ATTAATA-AAT
1 AATAATATAAT
*
891674 AATTATAATAAT
1 AATAAT-ATAAT
*
891686 GATAATATAAT
1 AATAATATAAT
891697 AATAATA
1 AATAATA
891704 AATTCTGACC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
10 7 0.23
11 17 0.55
12 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AATAATATAAT
Found at i:891698 original size:3 final size:3
Alignment explanation
Indices: 891653--891704 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
891643 GTCCCCTGTA
* * *
891653 AAT AA- AAT AAT ATT AAT AAAT AAT TAT AAT AAT GAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
891697 AAT AAT AA
1 AAT AAT AA
891705 ATTCTGACCT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:895931 original size:13 final size:13
Alignment explanation
Indices: 895922--895956 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
895912 CTATGACGCG
895922 CATTTATGACACA
1 CATTTATGACACA
* *
895935 AATTTATGACACT
1 CATTTATGACACA
895948 CATTTATGA
1 CATTTATGA
895957 TGCGTATTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (13 bp):
CATTTATGACACA
Found at i:905493 original size:4 final size:4
Alignment explanation
Indices: 905472--905510 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
905462 TATATATATA
* * *
905472 TATG TGTG TGTG TGTG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
905511 ATGAAGATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:905730 original size:2 final size:2
Alignment explanation
Indices: 905723--905782 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
905713 TAATTGGACC
905723 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
905765 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
905783 CAAGCACTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:920941 original size:2 final size:2
Alignment explanation
Indices: 920934--920988 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
920924 TACAAAATTA
920934 AT AT AT AT AT 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 AT AT
920976 AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT
920989 TTATTAAAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:921190 original size:2 final size:2
Alignment explanation
Indices: 921183--921230 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
921173 TAAATGAAAC
921183 AT AT AT AT AT 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 AT AT
921225 AT AT AT
1 AT AT AT
921231 GAAAGAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:922641 original size:19 final size:19
Alignment explanation
Indices: 922618--922666 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
922608 TTGCAAAAGA
922618 AATAAAATAAAATAA-AAT
1 AATAAAATAAAATAATAAT
922636 -ATATAAATATAAATAATAAT
1 AATA-AAATA-AAATAATAAT
922656 AATAATAATAA
1 AATAA-AATAA
922667 CTTTTTCCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 3 0.12
18 5 0.19
19 6 0.23
20 5 0.19
21 7 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAAAATAAAATAATAAT
Found at i:925744 original size:130 final size:125
Alignment explanation
Indices: 925589--925836 Score: 374
Period size: 130 Copynumber: 1.9 Consensus size: 125
925579 AAAGTTAGTG
* *
925589 GTTAGCAGAGTCTGAACCATAATAATGTGGATCATACCCCGGATCA-GGTCACCACAAGGTCGAT
1 GTTAGCAGAGTCCGAACCATAATAATGTGGATCATACCCCGGAT-ATGGTCACCACAAGGTCGAA
* *
925653 TCAAATATTAGAA-ACAATTAACAAATAAATAAATAATGGGTAGAGTGCAATAAAATAAAGTCAA
65 TCAAATATTAGAATA-AA-T---AAATAAAT-AACAATGGGTAAAGTGCAATAAAATAAAGTCAA
925717 TA
124 TA
925719 GTTAGCAGAGTCCGAACCATAATAATGTGGATCATACCCCGGATATGGTCACCACAAGGTCGAAT
1 GTTAGCAGAGTCCGAACCATAATAATGTGGATCATACCCCGGATATGGTCACCACAAGGTCGAAT
*
925784 CAAATATTAGAATAAATAAATAAATAACAATGGTTAAAGTGCAATAAAATAAA
66 CAAATATTAGAATAAATAAATAAATAACAATGGGTAAAGTGCAATAAAATAAA
925837 AGTTAGTAGT
Statistics
Matches: 111, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
125 25 0.23
126 8 0.07
129 2 0.02
130 75 0.68
131 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (125 bp):
GTTAGCAGAGTCCGAACCATAATAATGTGGATCATACCCCGGATATGGTCACCACAAGGTCGAAT
CAAATATTAGAATAAATAAATAAATAACAATGGGTAAAGTGCAATAAAATAAAGTCAATA
Found at i:927295 original size:132 final size:136
Alignment explanation
Indices: 927008--927569 Score: 570
Period size: 132 Copynumber: 4.1 Consensus size: 136
926998 TCTGGTCGTT
* * *
927008 TTTAGGTA-AATTT-GGAGACAACATGGTTCCTACATGATGAGGAAGTCTGGTTATCTAAGGATG
1 TTTAGGGATAATTTGGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATG
** * * *
927071 ACGTTGCTCCTACGTGATAAGGAGATCGGGTCAGTGGATGACATTGTTCCTACATGATGAGGATG
66 ACACTG--ACTAC--GATGAGGAGATCGGGTCGGTGGATGACATTGTTCCTACATGATGAGGATG
927136 TCTAGCCATC
127 TCTAGCCATC
* * * *
927146 TTTAGGGATAATTTGGGAGACAACACGGTTCCTACGTGAGGGGGAAGTTTGATTATCTAAGGATG
1 TTTAGGGATAATTTGGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATG
* * * * * *
927211 ACACTG-CT-C-CT-A-GAGATCGGGTTCGGTGAATGACATTTTTCCTACGTGATGAAGATATCT
66 ACACTGACTACGATGAGGAGATCGGG-TCGGTGGATGACATTGTTCCTACATGATGAGGATGTCT
927271 AGCCATC
130 AGCCATC
* *
927278 TTTAAGGATAATTTGGGAGACGAA-ACGATTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGAT
1 TTTAGGGATAATTTGGGAGAC-AACACGGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGAT
* *
927342 AACATTGATCCTACGTGATGAGGAGATCGGGTCGGTGGATGACATTGTTCCTACATGATGAGGAT
65 GACACTGA--CTAC--GATGAGGAGATCGGGTCGGTGGATGACATTGTTCCTACATGATGAGGAT
927407 GTCTAGCCATC
126 GTCTAGCCATC
* * * *
927418 TTTAGGGATAA-AT-GGAGACAACACGGTTCCTATGTGATGAGGAAGTCAGGTTATTTAAGGATG
1 TTTAGGGATAATTTGGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATG
** * * * * * * * * *
927481 A-GTTGCTCCTATGTGATGAGGAGATCTGGTTGGTGGATGACATTATTCCTACGTGATAAGAACG
66 ACACTG--ACTA--CGATGAGGAGATCGGGTCGGTGGATGACATTGTTCCTACATGATGAGGATG
* *
927545 TCTAACTATC
127 TCTAGCCATC
927555 TTTAGGGATAATTTG
1 TTTAGGGATAATTTG
927570 TTTTAAGAGA
Statistics
Matches: 354, Mismatches: 50, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
131 9 0.03
132 100 0.28
133 3 0.01
135 2 0.01
136 2 0.01
137 72 0.20
138 51 0.14
139 7 0.02
140 99 0.28
141 9 0.03
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (136 bp):
TTTAGGGATAATTTGGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATG
ACACTGACTACGATGAGGAGATCGGGTCGGTGGATGACATTGTTCCTACATGATGAGGATGTCTA
GCCATC
Found at i:927597 original size:19 final size:19
Alignment explanation
Indices: 927573--927610 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
927563 TAATTTGTTT
927573 TAAGAGAAATTGTCTCAAG
1 TAAGAGAAATTGTCTCAAG
927592 TAAGAGAAATTGTCTCAAG
1 TAAGAGAAATTGTCTCAAG
927611 CGAGACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (19 bp):
TAAGAGAAATTGTCTCAAG
Found at i:927701 original size:36 final size:36
Alignment explanation
Indices: 927654--927819 Score: 120
Period size: 36 Copynumber: 4.8 Consensus size: 36
927644 AATGTTTTTA
927654 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAATT
1 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAATT
* ** **
927690 TGTTTAAAGAGAGACAATCTCAA-T--G----TTTT
1 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAATT
*
927719 TGTCTT-AAG-GAAGACTGTCTCAAGTGAGACGAAATT
1 TGT-TTAAAGAGAA-ACTGTCTCAAGTGAGACAAAATT
* *
927755 TAGTTTTAAGAG-AACTGTCTCAAGCGAGACAAAATT
1 T-GTTTAAAGAGAAACTGTCTCAAGTGAGACAAAATT
* **
927791 TGTTTTTAAGA-AAACAATCTCAAGTGAGA
1 TG-TTTAAAGAGAAACTGTCTCAAGTGAGA
927820 TCAATTTTGT
Statistics
Matches: 101, Mismatches: 15, Indels: 28
0.70 0.10 0.19
Matches are distributed among these distances:
28 2 0.02
29 16 0.16
30 3 0.03
32 1 0.01
33 1 0.01
35 2 0.02
36 69 0.68
37 6 0.06
38 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (36 bp):
TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAATT
Found at i:927707 original size:67 final size:65
Alignment explanation
Indices: 927592--927768 Score: 232
Period size: 67 Copynumber: 2.7 Consensus size: 65
927582 TTGTCTCAAG
* * * *
927592 TAAGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATGTTTTTATGT
1 TAAGAGAAACTGTCTCAAGTGAGACAAAATTTGTTTAAAGAGAAACAATCTCAATG-TTTT-TGT
927657 -T
64 CT
*
927658 TAAAGAGAAACTGTCTCAAGTGAGACAAAATTTGTTTAAAGAGAGACAATCTCAATGTTTTTGTC
1 T-AAGAGAAACTGTCTCAAGTGAGACAAAATTTGTTTAAAGAGAAACAATCTCAATGTTTTTGTC
927723 T
65 T
* *
927724 TAAG-GAAGACTGTCTCAAGTGAGACGAAATTTAGTTTTAAGAGAA
1 TAAGAGAA-ACTGTCTCAAGTGAGACAAAATTT-GTTTAAAGAGAA
927769 CTGTCTCAAG
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
64 3 0.03
65 29 0.29
66 17 0.17
67 50 0.51
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (65 bp):
TAAGAGAAACTGTCTCAAGTGAGACAAAATTTGTTTAAAGAGAAACAATCTCAATGTTTTTGTCT
Found at i:927829 original size:36 final size:36
Alignment explanation
Indices: 927736--927831 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 36
927726 AGGAAGACTG
* * **
927736 TCTCAAGTGAGACGAAATTTAG-TTTTAAGAGAACTG
1 TCTCAAGTGAGAC-AAATTTTGTTTTTAAGAAAACAA
* *
927772 TCTCAAGCGAGACAAAATTTGTTTTTAAGAAAACAA
1 TCTCAAGTGAGACAAATTTTGTTTTTAAGAAAACAA
927808 TCTCAAGTGAGATC-AATTTTGTTT
1 TCTCAAGTGAGA-CAAATTTTGTTT
927832 CAAATAAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
35 6 0.12
36 43 0.86
37 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (36 bp):
TCTCAAGTGAGACAAATTTTGTTTTTAAGAAAACAA
Found at i:928075 original size:36 final size:35
Alignment explanation
Indices: 928034--928145 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 35
928024 TCTCAAGGTA
*
928034 AAATTGTCTCAAGCAAGAAGAAATTTGTTTTGAGAG
1 AAATTGTCTCAAGCGAGAAGAAATTT-TTTTGAGAG
* **
928070 AAATTGTCTCAAGCGAGACAAAAAAATTTTT-AGAG
1 AAATTGTCTCAAGCGAGA-AGAAATTTTTTTGAGAG
* * *
928105 AAAATTGTCTCAAGTGAGACGAAACTTTATTTCGAGAG
1 -AAATTGTCTCAAGCGAGAAGAAA-TTT-TTTTGAGAG
928143 AAA
1 AAA
928146 CAATCTCAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
35 7 0.11
36 39 0.64
37 11 0.18
38 4 0.07
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.28
Consensus pattern (35 bp):
AAATTGTCTCAAGCGAGAAGAAATTTTTTTGAGAG
Found at i:930576 original size:13 final size:13
Alignment explanation
Indices: 930560--930587 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
930550 TTACTTTTTC
930560 TTCTCTTTGCTTT
1 TTCTCTTTGCTTT
930573 TTCTCTTTGCTTT
1 TTCTCTTTGCTTT
930586 TT
1 TT
930588 TTTTCTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.71
Consensus pattern (13 bp):
TTCTCTTTGCTTT
Found at i:930588 original size:15 final size:15
Alignment explanation
Indices: 930553--930595 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
930543 TTCTTTTTTA
930553 CTTTTTCTTCTCTTTG
1 CTTTTT-TTCTCTTTG
930569 C--TTTTTCTCTTTG
1 CTTTTTTTCTCTTTG
*
930582 CTTTTTTTTTCTTT
1 CTTTTTTTCTCTTT
930596 AATTTTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 10 0.42
14 3 0.12
15 10 0.42
16 1 0.04
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (15 bp):
CTTTTTTTCTCTTTG
Found at i:930800 original size:13 final size:13
Alignment explanation
Indices: 930784--930840 Score: 52
Period size: 12 Copynumber: 4.7 Consensus size: 13
930774 AGGCTCAAAA
930784 TTCTTTGCTTTTT
1 TTCTTTGCTTTTT
930797 TTC-TT--TTTTT
1 TTCTTTGCTTTTT
930807 TTCTTTG-TTTTT
1 TTCTTTGCTTTTT
* *
930819 TCTCTTTTC-TATT
1 T-TCTTTGCTTTTT
930832 TTCTTTGCT
1 TTCTTTGCT
930841 CTTCTCTCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
10 8 0.22
11 2 0.06
12 14 0.39
13 12 0.33
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (13 bp):
TTCTTTGCTTTTT
Found at i:930807 original size:10 final size:10
Alignment explanation
Indices: 930792--930826 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
930782 AATTCTTTGC
930792 TTTTTTTCTT
1 TTTTTTTCTT
930802 TTTTTTTCTT
1 TTTTTTTCTT
930812 TGTTTTTTCTCT
1 T-TTTTTTCT-T
930824 TTT
1 TTT
930827 CTATTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.48
11 10 0.43
12 2 0.09
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:931630 original size:11 final size:11
Alignment explanation
Indices: 931614--931652 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
931604 TCATTCTTTA
931614 AAATATTTAAG
1 AAATATTTAAG
931625 AAATATTTAAG
1 AAATATTTAAG
* *
931636 AAAATACTAAAG
1 -AAATATTTAAG
931648 AAATA
1 AAATA
931653 ATAAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (11 bp):
AAATATTTAAG
Found at i:933733 original size:18 final size:17
Alignment explanation
Indices: 933706--933744 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
933696 AACGTCTTTT
933706 AAATATTTTTTAAGA-AA
1 AAATA-TTTTTAAGACAA
933723 AAATCATTTTTAAGACAA
1 AAAT-ATTTTTAAGACAA
933741 AAAT
1 AAAT
933745 TGGTCTGCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (17 bp):
AAATATTTTTAAGACAA
Found at i:933866 original size:21 final size:21
Alignment explanation
Indices: 933842--933884 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
933832 TGCTACTTAG
933842 TCGCTTATATATTGTCGCAAA
1 TCGCTTATATATTGTCGCAAA
933863 TCGCTTATATATTGTCGCAAA
1 TCGCTTATATATTGTCGCAAA
933884 T
1 T
933885 GGAGAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (21 bp):
TCGCTTATATATTGTCGCAAA
Found at i:934844 original size:15 final size:15
Alignment explanation
Indices: 934824--934853 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
934814 CTAGTTGTTA
934824 GAAAAGTTAGCGGTT
1 GAAAAGTTAGCGGTT
934839 GAAAAGTTAGCGGTT
1 GAAAAGTTAGCGGTT
934854 AGCATAGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (15 bp):
GAAAAGTTAGCGGTT
Found at i:934949 original size:14 final size:15
Alignment explanation
Indices: 934919--934961 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
934909 TCGAATAATT
* *
934919 TAAACAAATAT-ATA
1 TAAATAAATATAAAA
934933 TAAATAAA-ATAAAA
1 TAAATAAATATAAAA
934947 TAAATAAATATAAAA
1 TAAATAAATATAAAA
934962 AGTTAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 17 0.68
15 6 0.24
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATAAATATAAAA
Found at i:940151 original size:18 final size:18
Alignment explanation
Indices: 940128--940180 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
940118 ACCAGTTCCA
940128 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
940146 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
940164 ACCCGACCCGA-CCGTTG
1 ACCCGACCCGACCCGTTG
940181 TCCGGGTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 6 0.17
18 29 0.83
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:940229 original size:29 final size:29
Alignment explanation
Indices: 940185--940392 Score: 228
Period size: 29 Copynumber: 7.2 Consensus size: 29
940175 CCGTTGTCCG
*
940185 GGTGATATTTTAGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* *
940214 GGTGGTATTCTGGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* * * * *
940243 GGTGCTATTTTTGTAATTGTTTTTAAAAAA
1 GGTGATATTTTGGTAATT-ATTTTGAAAAT
* *
940273 AGTGGTATTTT-GTAATT-TTTT-AAAA-
1 GGTGATATTTTGGTAATTATTTTGAAAAT
940298 GGATGATATTTTGGTAATTATTTTGTAAAA-
1 GG-TGATATTTTGGTAATTATTTTG-AAAAT
*
940328 GGTGATATTTTGGTAATTATTTTTAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* * *
940357 GATGATATTTTAGAAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
940386 GGTGATA
1 GGTGATA
940393 ATTGTGTAAA
Statistics
Matches: 153, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.01
26 12 0.08
27 10 0.07
28 8 0.05
29 99 0.65
30 23 0.15
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.48
Consensus pattern (29 bp):
GGTGATATTTTGGTAATTATTTTGAAAAT
Found at i:940337 original size:85 final size:88
Alignment explanation
Indices: 940190--940392 Score: 265
Period size: 85 Copynumber: 2.4 Consensus size: 88
940180 GTCCGGGTGA
* * *
940190 TATTTTAGTAATTATTTTGAAAATGGTGGTATTCTGGTAATTATTTTGAAAATGGTGCTATTTTT
1 TATTTTAGTAATTATTTTGAAAATGGTGATATTCTGGTAATTATTTTGAAAATGGTGATATTTTG
*
940255 GTAATTGTTTTTAAAAAAAGTGG
66 GTAATTATTTTTAAAAAAAGTGG
*
940278 TATTTT-GTAATT-TTTT-AAAA-GGATGATATTTTGGTAATTATTTTGTAAAA-GGTGATATTT
1 TATTTTAGTAATTATTTTGAAAATGG-TGATATTCTGGTAATTATTTTG-AAAATGGTGATATTT
** *
940338 TGGTAATTATTTTTAAAATGA-TGA
64 TGGTAATTATTTTTAAAAAAAGTGG
*
940362 TATTTTAGAAATTATTTTGAAAATGGTGATA
1 TATTTTAGTAATTATTTTGAAAATGGTGATA
940393 ATTGTGTAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
84 10 0.10
85 55 0.55
86 12 0.12
87 15 0.15
88 8 0.08
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (88 bp):
TATTTTAGTAATTATTTTGAAAATGGTGATATTCTGGTAATTATTTTGAAAATGGTGATATTTTG
GTAATTATTTTTAAAAAAAGTGG
Found at i:940401 original size:114 final size:114
Alignment explanation
Indices: 940187--940401 Score: 272
Period size: 114 Copynumber: 1.9 Consensus size: 114
940177 GTTGTCCGGG
* * *
940187 TGATATTTTAGTAATTATTTTGAAAATGGTGGTATTCTGGTAATTATTTTGAAAATGGTGCTATT
1 TGATATTTTAGTAATTATTTTGAAAATGGTGATATTCTGGTAATTATTTTGAAAATGATGATATT
* * * * *
940252 TTTGTAATTGTTTTTAAAAAAAGTGGTATTTTGTAATTTTTTAAAAGGA
66 TTAGAAATTGATTTTAAAAAAAGTGATATTGTGTAATTTTTTAAAAGGA
* * *
940301 TGATATTTTGGTAATTATTTTGTAAAA-GGTGATATTTTGGTAATTATTTTTAAAATGATGATAT
1 TGATATTTTAGTAATTATTTTG-AAAATGGTGATATTCTGGTAATTATTTTGAAAATGATGATAT
* **
940365 TTTAGAAATT-ATTTTGAAAATGGTGATAATTGTGTAA
65 TTTAGAAATTGATTTTAAAAAAAGTGAT-ATTGTGTAA
940402 AATGGTTGAG
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
113 12 0.14
114 69 0.81
115 4 0.05
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (114 bp):
TGATATTTTAGTAATTATTTTGAAAATGGTGATATTCTGGTAATTATTTTGAAAATGATGATATT
TTAGAAATTGATTTTAAAAAAAGTGATATTGTGTAATTTTTTAAAAGGA
Found at i:941123 original size:24 final size:24
Alignment explanation
Indices: 941096--941196 Score: 130
Period size: 24 Copynumber: 4.2 Consensus size: 24
941086 TATATGGTTT
* * *
941096 TTGACTTGGATCTTGATATGATAC
1 TTGACCTGGATTTTTATATGATAC
*
941120 TTGACTTGGATTTTTATATGATAC
1 TTGACCTGGATTTTTATATGATAC
* *
941144 TTGACCTAGATTTTTATACGATAC
1 TTGACCTGGATTTTTATATGATAC
* *
941168 TTGACCTGAATATTTATATGATAC
1 TTGACCTGGATTTTTATATGATAC
941192 TTGAC
1 TTGAC
941197 ATAGATTCTG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.44
Consensus pattern (24 bp):
TTGACCTGGATTTTTATATGATAC
Found at i:941148 original size:48 final size:48
Alignment explanation
Indices: 941077--941202 Score: 135
Period size: 48 Copynumber: 2.6 Consensus size: 48
941067 AACTATCATA
* ** * * * *
941077 TGAATAGTTTATATGGTTTTTGACTTGGATCTTGATATGATACTTGACT
1 TGAATA-TTTATATGATACTTGACCTAGATCTTGATACGATACTTGACC
* * * *
941126 TGGATTTTTATATGATACTTGACCTAGATTTTTATACGATACTTGACC
1 TGAATATTTATATGATACTTGACCTAGATCTTGATACGATACTTGACC
*
941174 TGAATATTTATATGATACTTGACATAGAT
1 TGAATATTTATATGATACTTGACCTAGAT
941203 TCTGATCTGC
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
48 59 0.94
49 4 0.06
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (48 bp):
TGAATATTTATATGATACTTGACCTAGATCTTGATACGATACTTGACC
Found at i:941219 original size:48 final size:48
Alignment explanation
Indices: 941109--941226 Score: 139
Period size: 48 Copynumber: 2.5 Consensus size: 48
941099 ACTTGGATCT
* * * * * *
941109 TGATATGATACTTGACTTGGATTTTTATATGATACTTGACCTAGATTT
1 TGATACGATACTTGACCTGAATATTTATATGATACTTGACATAGATTC
*
941157 TTATACGATACTTGACCTGAATATTTATATGATACTTGACATAGATTC
1 TGATACGATACTTGACCTGAATATTTATATGATACTTGACATAGATTC
* *
941205 TGAT-CTGCTGCTTGACCTGAAT
1 TGATAC-GATACTTGACCTGAAT
941227 TATGTTTTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.02
48 58 0.98
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (48 bp):
TGATACGATACTTGACCTGAATATTTATATGATACTTGACATAGATTC
Found at i:946946 original size:21 final size:21
Alignment explanation
Indices: 946916--946963 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
946906 ATTCATTCTG
946916 AAATTCAGAATGAATTTCATC
1 AAATTCAGAATGAATTTCATC
*
946937 AAATTTAGAATGAATTTCATC
1 AAATTCAGAATGAATTTCATC
946958 AAATTC
1 AAATTC
946964 CTCCCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (21 bp):
AAATTCAGAATGAATTTCATC
Found at i:947535 original size:29 final size:29
Alignment explanation
Indices: 947498--947728 Score: 256
Period size: 29 Copynumber: 8.0 Consensus size: 29
947488 CCGTTGACCG
*
947498 GGTGATATTTTAGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* *
947527 GGTGGTATTATGGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* *
947556 GGTGGTATTCTGGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* * *
947585 GGT-ACTATTTTCGTAATTTTTTTTAAAA-
1 GGTGA-TATTTTGGTAATTATTTTGAAAAT
* * *
947613 AGTGATATTTTTGTAATT-TTATT-AAAAA
1 GGTGATATTTTGGTAATTATT-TTGAAAAT
947641 GGTGATATTTTGGTAATTATTTTGTAAAA-
1 GGTGATATTTTGGTAATTATTTTG-AAAAT
*
947670 GGTGATATTTTGGTAATTATTTTTAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
** * *
947699 AATGATATTTTGGAAATTATTTTAAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
947728 G
1 G
947729 AAGATAATTG
Statistics
Matches: 175, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
27 6 0.03
28 38 0.22
29 127 0.73
30 4 0.02
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.48
Consensus pattern (29 bp):
GGTGATATTTTGGTAATTATTTTGAAAAT
Found at i:947662 original size:85 final size:86
Alignment explanation
Indices: 947498--947726 Score: 259
Period size: 85 Copynumber: 2.7 Consensus size: 86
947488 CCGTTGACCG
* * ** * * * * *
947498 GGTGATATTTTAGTAATTATTTTGAAAATGGTGGTATTATGGTAATTATTTTGAAAATGGTGGTA
1 GGTGATATTTTCGTAATTATTTTTAAAATAATGATATTTTGGAAATTATTTT-AAAAAGGTGATA
947563 TTCTGGTAATTATTTTG-AAAA
65 TTCTGGTAATTATTTTGTAAAA
* * * *
947584 TGGT-ACTATTTTCGTAATTTTTTTTAAAA-AGTGATATTTTTGTAATT-TTATTAAAAAGGTGA
1 -GGTGA-TATTTTCGTAATTATTTTTAAAATAATGATATTTTGGAAATTATT-TTAAAAAGGTGA
*
947646 TATTTTGGTAATTATTTTGTAAAA
63 TATTCTGGTAATTATTTTGTAAAA
*
947670 GGTGATATTTTGGTAATTATTTTTAAAATAATGATATTTTGGAAATTATTTTAAAAA
1 GGTGATATTTTCGTAATTATTTTTAAAATAATGATATTTTGGAAATTATTTTAAAAA
947727 TGAAGATAAT
Statistics
Matches: 121, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
85 52 0.43
86 44 0.36
87 25 0.21
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (86 bp):
GGTGATATTTTCGTAATTATTTTTAAAATAATGATATTTTGGAAATTATTTTAAAAAGGTGATAT
TCTGGTAATTATTTTGTAAAA
Found at i:948472 original size:24 final size:24
Alignment explanation
Indices: 948430--948557 Score: 157
Period size: 24 Copynumber: 5.3 Consensus size: 24
948420 TATCTGGTTT
* * *
948430 TTGACATGGATCTTGATATGATAC
1 TTGACCTGGATTTTTATATGATAC
* *
948454 TTGACCTAGATTTTTATATGATAT
1 TTGACCTGGATTTTTATATGATAC
*
948478 TTGACCTGGATTTTTATACGATAC
1 TTGACCTGGATTTTTATATGATAC
948502 TTGACCTGGATTTTTATATGATAC
1 TTGACCTGGATTTTTATATGATAC
* * * * *
948526 TTGACATGGATTCTGATCTGCTAC
1 TTGACCTGGATTTTTATATGATAC
948550 TTGACCTG
1 TTGACCTG
948558 AATTATGTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 89 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (24 bp):
TTGACCTGGATTTTTATATGATAC
Found at i:950697 original size:20 final size:20
Alignment explanation
Indices: 950624--950694 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
950614 GCAATTTTCC
*
950624 TAAATCGCAACGCGATTACG
1 TAAATCGCAACGCGAATACG
* *
950644 TAAATCGCAACGTGAATTAGG
1 TAAATCGCAACGCGAA-TACG
* *
950665 AAAATCGCAATGCGAATACG
1 TAAATCGCAACGCGAATACG
950685 TAAATCGCAA
1 TAAATCGCAA
950695 TGCAAATCTG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
TAAATCGCAACGCGAATACG
Found at i:951302 original size:21 final size:21
Alignment explanation
Indices: 951241--951319 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
951231 TTCTAAACTT
951241 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
951261 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
951281 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
951302 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
951320 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:951323 original size:14 final size:14
Alignment explanation
Indices: 951301--951365 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
951291 CGAGAGAAAT
951301 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
951315 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
951333 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
951348 GATAATCGCAACGC
1 GAAAATCGCAACGA
951362 GAAA
1 GAAA
951366 CCAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:951337 original size:33 final size:33
Alignment explanation
Indices: 951296--951376 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
951286 CGCAACGAGA
951296 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
951329 GAAATGAAAATCGCAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
951362 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
951377 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:951417 original size:14 final size:14
Alignment explanation
Indices: 951394--951482 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
951384 TTTCATTTCA
*
951394 CGTTGTGATTCTCT
1 CGTTGCGATTCTCT
*
951408 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
951427 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
951441 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
951460 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
951474 CGTTGCGAT
1 CGTTGCGAT
951483 AGTCATTTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
14 28 0.47
16 6 0.10
17 6 0.10
19 20 0.33
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:951419 original size:33 final size:33
Alignment explanation
Indices: 951377--951503 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
951367 CAAAATCGCA
* *
951377 TTGCGATTTTCATTTCACGTTGTGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
951410 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
951443 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
951476 TTGCGATAGTCATTTCCGCGTTGCGATT
1 TTGCGATTTTCATTT-CGCGTTGCGATT
951504 TTCATTCTCT
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 77 0.87
34 12 0.13
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:951508 original size:20 final size:19
Alignment explanation
Indices: 951372--951531 Score: 107
Period size: 19 Copynumber: 9.1 Consensus size: 19
951362 GAAACCAAAA
*
951372 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
951391 TCACGTTGTGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
951405 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
951424 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
951438 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
951457 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
951471 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
951490 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
* *
951510 CTCTCGTTGTGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
951530 TC
1 TC
951532 AACCAAAAGA
Statistics
Matches: 109, Mismatches: 15, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
14 29 0.27
16 8 0.07
17 9 0.08
19 31 0.28
20 31 0.28
21 1 0.01
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:953388 original size:94 final size:93
Alignment explanation
Indices: 953227--953512 Score: 500
Period size: 94 Copynumber: 3.1 Consensus size: 93
953217 TAGATTGCTT
* * *
953227 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACATTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
953292 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
953321 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
953386 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * *
953415 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
953480 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
953508 AGTAA
1 AGTAA
953513 TGCAATCCAT
Statistics
Matches: 185, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
93 26 0.14
94 159 0.86
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:953653 original size:33 final size:33
Alignment explanation
Indices: 953606--953682 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
953596 AATGACTATT
* *
953606 GCAACGCGAAATGAAAATTGCAACGAGAGAATC
1 GCAACGCGAAATGAAAACTGCAACGAGAAAATC
*
953639 GCAATGCGAAATGAAAACTGCAACGAGAAAATC
1 GCAACGCGAAATGAAAACTGCAACGAGAAAATC
953672 GCAACGCGAAA
1 GCAACGCGAAA
953683 CCAAAAATCG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.10
Consensus pattern (33 bp):
GCAACGCGAAATGAAAACTGCAACGAGAAAATC
Found at i:953689 original size:20 final size:20
Alignment explanation
Indices: 953666--953703 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
953656 CTGCAACGAG
953666 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
953686 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
953704 TATAATCGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.29, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAATCGCAACGCGAAACCA
Found at i:953731 original size:19 final size:19
Alignment explanation
Indices: 953709--953806 Score: 99
Period size: 19 Copynumber: 5.7 Consensus size: 19
953699 GAAACTATAA
953709 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
953728 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
953742 TCTCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
953761 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
953777 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
953794 TCGCGTTGCGATT
1 TCGCGTTGCGATT
953807 CTCTCGTTAC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 17 0.27
16 8 0.13
17 8 0.13
19 30 0.48
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:953754 original size:33 final size:33
Alignment explanation
Indices: 953712--953836 Score: 200
Period size: 33 Copynumber: 3.8 Consensus size: 33
953702 ACTATAATCG
*
953712 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* *
953745 CGTTGCGATTTTTATTTCGCGTTGCGATTCTTT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
953778 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
953811 CGTTACGA--TTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
953837 AGTCATTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
31 18 0.21
33 68 0.79
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:953783 original size:14 final size:15
Alignment explanation
Indices: 953712--953827 Score: 67
Period size: 14 Copynumber: 7.1 Consensus size: 15
953702 ACTATAATCG
953712 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTCATTT
*
953729 CGCATTGCGATTC-TCT
1 CG--TTGCGATTCATTT
*
953745 CGTTGCGATTTTTATTT
1 CGTTGCGA--TTCATTT
953762 CGCGTTGCGATTC-TTT
1 --CGTTGCGATTCATTT
953778 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTCATTT
*
953795 CGCGTTGCGATTC-TCT
1 --CGTTGCGATTCATTT
*
953811 CGTTACGATTCATTT
1 CGTTGCGATTCATTT
953826 CG
1 CG
953828 CGTTGCGATA
Statistics
Matches: 79, Mismatches: 7, Indels: 28
0.69 0.06 0.25
Matches are distributed among these distances:
14 24 0.30
15 4 0.05
16 14 0.18
17 15 0.19
19 22 0.28
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (15 bp):
CGTTGCGATTCATTT
Found at i:954337 original size:21 final size:21
Alignment explanation
Indices: 954313--954379 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
954303 TCATTCCTCG
954313 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
954334 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
954355 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
954376 AGAG
1 AGAG
954380 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:954337 original size:42 final size:42
Alignment explanation
Indices: 954291--954379 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
954281 CCTATTGTTG
* *
954291 AAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCACCGTTC
1 AAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCACCATTC
* * *
954333 AAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCACCATTC
1 AAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCACCATTC
954375 AAGAG
1 AAGAG
954380 CCCGATTCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 4 0.10
42 34 0.85
43 2 0.05
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (42 bp):
AAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCACCATTC
Found at i:955738 original size:14 final size:14
Alignment explanation
Indices: 955719--955754 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
955709 ATTGTTTAAT
955719 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
955733 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
955747 TGATTTGT
1 TGATTTGT
955755 TTAATTGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:955877 original size:19 final size:19
Alignment explanation
Indices: 955861--955899 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
955851 AAAAATGACT
*
955861 ATCACAATGCGAAATGAAA
1 ATCACAACGCGAAATGAAA
*
955880 ATCGCAACGCGAAATGAAA
1 ATCACAACGCGAAATGAAA
955899 A
1 A
955900 CTGCAACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (19 bp):
ATCACAACGCGAAATGAAA
Found at i:955905 original size:19 final size:19
Alignment explanation
Indices: 955869--955926 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
955859 CTATCACAAT
955869 GCGAAATGAAAATCGCAAC
1 GCGAAATGAAAATCGCAAC
955888 GCGAAATGAAAA-CTGCAA-
1 GCGAAATGAAAATC-GCAAC
955906 -CG-AA--AAAATCGCAAC
1 GCGAAATGAAAATCGCAAC
955921 GCGAAA
1 GCGAAA
955927 CTAAATTCGC
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 8 0.24
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 16 0.47
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.09
Consensus pattern (19 bp):
GCGAAATGAAAATCGCAAC
Found at i:955978 original size:33 final size:33
Alignment explanation
Indices: 955936--956029 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
955926 ACTAAATTCG
*
955936 CGTTGCGATTTTTATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTTATTTCGCATTGCGATTCCCT
* *
955969 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTTATTTCGCATTGCGATTCCCT
*
956002 CGTTGCGATTTTTATTTCACATTGCGAT
1 CGTTGCGATTTTTATTTCGCATTGCGAT
956030 AGTCATTTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTTATTTCGCATTGCGATTCCCT
Found at i:955995 original size:19 final size:19
Alignment explanation
Indices: 955971--956049 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 19
955961 GATTCCCTCG
955971 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
955990 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
* *
956004 TTGCGATTTTTATTTCACA
1 TTGCGATTTTCATTTCGCA
**
956023 TTGCGATAGTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
956043 TTGCGAT
1 TTGCGAT
956050 AGACATTAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
14 6 0.13
16 6 0.13
17 6 0.13
19 18 0.39
20 10 0.22
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:956095 original size:20 final size:20
Alignment explanation
Indices: 956023--956095 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
956013 TTATTTCACA
* **
956023 TTGCGATAGTCATTTCCGCA
1 TTGCGATAGTCATTTCAGTG
* *
956043 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCAG-TG
*
956063 ATTGCGA-ACGTCATTTCTGTG
1 -TTGCGATA-GTCATTTCAGTG
956084 TTGCGATAGTCA
1 TTGCGATAGTCA
956096 AATGAATGCC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.55
21 12 0.30
22 3 0.08
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTCAGTG
Found at i:956302 original size:12 final size:12
Alignment explanation
Indices: 956287--956317 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
956277 ATTTTAAAGA
956287 TGATTGCGATTT
1 TGATTGCGATTT
956299 TGATTGCGATTT
1 TGATTGCGATTT
956311 TGATTGC
1 TGATTGC
956318 CTTTTGCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.10, G:0.26, T:0.48
Consensus pattern (12 bp):
TGATTGCGATTT
Found at i:958643 original size:24 final size:24
Alignment explanation
Indices: 958592--958643 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
958582 ATCCGAGTAT
** *
958592 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
* *
958616 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
958640 TGAC
1 TGAC
958644 TAGTACTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:960849 original size:2 final size:2
Alignment explanation
Indices: 960842--960990 Score: 139
Period size: 2 Copynumber: 77.0 Consensus size: 2
960832 TATTTAAGTA
960842 AT AT AT AT AT 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 AT AT
* * * * ** * *
960884 AT AT AT AT AT AT AT A- AC A- AGT GT CT -T TT AT -T CC AT TT TT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* ** *
960923 AT A- AT GT GC AT AT GT -T 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 AT AT
960963 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
960991 TATGTTCGCT
Statistics
Matches: 127, Mismatches: 13, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
1 6 0.05
2 121 0.95
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:964798 original size:19 final size:19
Alignment explanation
Indices: 964774--964825 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
964764 AATGCATTTG
964774 ATGCATCGATGCACCAGCC
1 ATGCATCGATGCACCAGCC
964793 ATGCATCGATGCACCAGCC
1 ATGCATCGATGCACCAGCC
964812 ATGCATCGATGCAC
1 ATGCATCGATGCAC
964826 TCTGGCTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.27, C:0.35, G:0.21, T:0.17
Consensus pattern (19 bp):
ATGCATCGATGCACCAGCC
Found at i:964870 original size:17 final size:19
Alignment explanation
Indices: 964848--964890 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
964838 GAAACATCAA
*
964848 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
964865 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
964884 ATGCACT
1 ATGCACT
964891 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:972883 original size:63 final size:62
Alignment explanation
Indices: 972807--972989 Score: 201
Period size: 64 Copynumber: 2.9 Consensus size: 62
972797 GAATTAAATT
*
972807 GAACATCGAATGCATTCCATGCATCGATGCACATCATGCACCGATGCACTAAGGAT-TTTATAA
1 GAACATCGAATGCATT-GATGCATCGATGCACATCATGCACCGATGCACTAAGGATATTT-TAA
* * ** * *
972870 GAACATCGAATGCATTTGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGCTATTTTGA
1 GAACATCGAATGCA-TTGATGCATCGATGCA-C-ATCATGCACCGATGCACTAAGGATATTTTAA
972935 -AACATCGAATGCACTTGATGCATCGATGCAC-TCTTAGTGCACCGATGCACTAAGG
1 GAACATCGAATGCA-TTGATGCATCGATGCACATC--A-TGCACCGATGCACTAAGG
972990 GTCCAACGGT
Statistics
Matches: 101, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
61 1 0.01
63 29 0.29
64 47 0.47
65 21 0.21
66 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (62 bp):
GAACATCGAATGCATTGATGCATCGATGCACATCATGCACCGATGCACTAAGGATATTTTAA
Found at i:972939 original size:127 final size:129
Alignment explanation
Indices: 972758--972989 Score: 323
Period size: 127 Copynumber: 1.8 Consensus size: 129
972748 TTTTTGAGAG
*
972758 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCA-T
1 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGAACTAAATTGAACATCGAATGCACT
972822 TCCATGCATCGATGCACATC-A-TGCACCGATGCACTAAGGATTTTATAAGAACATCGAATGCAT
66 T-CATGCATCGATGCAC-TCTAGTGCACCGATGCACTAAGGATTTTATAAGAACATCGAATGCAT
972885 T
129 T
* * **
972886 TGATGCATCGATGCACCAA-CCATGCATCGATGCACTC-TG-GCTATTTTGAAACATCGAATGCA
1 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGAACTAAATTG-AACATCGAATGCA
*
972948 CTTGATGCATCGATGCACTCTTAGTGCACCGATGCACTAAGG
64 CTTCATGCATCGATGCACTC-TAGTGCACCGATGCACTAAGG
972990 GTCCAACGGT
Statistics
Matches: 92, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
126 7 0.08
127 45 0.49
128 22 0.24
129 18 0.20
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (129 bp):
TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGAACTAAATTGAACATCGAATGCACT
TCATGCATCGATGCACTCTAGTGCACCGATGCACTAAGGATTTTATAAGAACATCGAATGCATT
Found at i:972965 original size:17 final size:19
Alignment explanation
Indices: 972937--972985 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
972927 TATTTTGAAA
972937 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
972955 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
972974 CACCGATGCACT
1 CATCGATGCACT
972986 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:979140 original size:27 final size:27
Alignment explanation
Indices: 979103--979172 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 27
979093 TAGGGGATAA
* *
979103 AAAAAACACAGAGAGCATTCATGATCAT
1 AAAAAA-ACAGAGAGCATTCATCAACAT
979131 AAAAAAACAGAGAGCATTCATCAACAT
1 AAAAAAACAGAGAGCATTCATCAACAT
979158 AAAAAAACAAGAGAG
1 AAAAAAAC-AGAGAG
979173 AACCATTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 27 0.69
28 12 0.31
ACGTcount: A:0.57, C:0.16, G:0.14, T:0.13
Consensus pattern (27 bp):
AAAAAAACAGAGAGCATTCATCAACAT
Found at i:981121 original size:18 final size:18
Alignment explanation
Indices: 981098--981138 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
981088 CACATATGTC
* *
981098 AAAATTTTTGTTTTAATT
1 AAAATTATTATTTTAATT
*
981116 AAAATTATTATTTTTATT
1 AAAATTATTATTTTAATT
981134 AAAAT
1 AAAAT
981139 GAAAAATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AAAATTATTATTTTAATT
Found at i:987613 original size:256 final size:255
Alignment explanation
Indices: 986865--987661 Score: 1021
Period size: 255 Copynumber: 3.1 Consensus size: 255
986855 TCTTACATAG
* * * * *
986865 TAAGTCTTTTGGGCCATCAGTAAGTCTTTTGAGAATGATGATTAAATCCTTCGGGTTATCTGTAA
1 TAAGTC-TTTAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGTAA
* * * * * *
986930 GTCTTTCAAGCAAGATGATAAGTCATTTGGACCATCTATAAGAACTTCGAGAAGGGTATTTTTAC
65 GTCTTTCGAGCAAGATGATAAGTCATTTGGGCCATCTATAAGACCTTAGAGAA-GGTGTTTTCAC
** * *
986995 ATGAATTTGAAAAATGAGAAAGTGATTTTCAAAGTTTCTCATTTAGTATTTTCATAAAGTGAAAA
129 ATGAATTTGAAAAATGAGAAAACGATTTTCAAAGTTTCTCATTTAGTATTTTCAAAAAGTGAAAT
* * *
987060 TTTTGAAAAGTAAGAAAGCGATTTCCAATGTTTCTTTCCTGGTAAACTATTTCCAAAATCGA
194 TTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATCGA
* * * * *
987122 TAAGTCTTTAGGGACATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTTAGGTCATATATAA
1 TAAGTCTTTA-GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGTAA
* * * * *
987187 GTCTTTCGAGCAATATAATAAGTC-TTTCGGGCCATTTATAAGACCTTCA-AGCATGATGTTTTC
65 GTCTTTCGAGCAAGATGATAAGTCATTT-GGGCCATCTATAAGACCTT-AGAG-AAGGTGTTTTC
* * *
987250 ACATGAGTTTGAAAAATGAG--AACAATTTTCAAAGTTTCTCATTTAGTATTTTCAAAAAGTGGA
127 ACATGAATTTGAAAAATGAGAAAACGATTTTCAAAGTTTCTCATTTAGTATTTTCAAAAAGTGAA
* * * *
987313 ATTTTTGAAAAGTAAGAAAGTGATTTACAAAGTTTCTAACCTAGTAAACTATTTCCAAAATCGG
192 ATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATCGA
* * *
987377 TAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATTATTAAAT-CTTCAGGTCATCTGTCA
1 TAAGT-CTTTAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGTAA
**
987441 GTCATTT-GAGCAAGATGATAAGTCATTTGGGCCATCCGTAAGACCTTAGAGTAAGGTGTTTTCA
65 GTC-TTTCGAGCAAGATGATAAGTCATTTGGGCCATCTATAAGACCTTAGAG-AAGGTGTTTTCA
* * * *
987505 CATGAATTTGAAAAATGAGAAAACGATTTCCAAAGTTTCTTATTTAGTATTTTTAGAAAGTGAAA
128 CATGAATTTGAAAAATGAGAAAACGATTTTCAAAGTTTCTCATTTAGTATTTTCAAAAAGTGAAA
* * * *
987570 TTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTGCAAAATTGT
193 TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATCGA
*
987633 TAAGTTCTTTGGGCCATCAGTAAGTCTTT
1 TAAG-TCTTTAGGCCATCAGTAAGTCTTT
987662 TGACAGATGT
Statistics
Matches: 462, Mismatches: 67, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
253 1 0.00
254 77 0.17
255 138 0.30
256 129 0.28
257 116 0.25
258 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (255 bp):
TAAGTCTTTAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGTAAG
TCTTTCGAGCAAGATGATAAGTCATTTGGGCCATCTATAAGACCTTAGAGAAGGTGTTTTCACAT
GAATTTGAAAAATGAGAAAACGATTTTCAAAGTTTCTCATTTAGTATTTTCAAAAAGTGAAATTT
TTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATCGA
Found at i:987930 original size:45 final size:45
Alignment explanation
Indices: 987834--988121 Score: 300
Period size: 45 Copynumber: 6.4 Consensus size: 45
987824 ACAGATTGAT
*
987834 AGAGAAGTCAATCTTTT-G-G-TGT-TATTCTTGACTTTCTTGTGA
1 AGAGAAGTCAATCTTTTAGTGTTGTCT-TTCTTGACTTTCTCGTGA
*
987876 AGAGAAGTCAATCTTTTAGTGTTGT-TTTCCTTAACTTTCTCGTGA
1 AGAGAAGTCAATCTTTTAGTGTTGTCTTT-CTTGACTTTCTCGTGA
* *
987921 AGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTCGTGA
1 AGAGAAGTCAATCTTTTAGTGTTGTCTTTCTTGACTTTCTCGTGA
* * * * * *
987966 AGAGAAATCAATATTTTAATGTTGTCATTCTTGACTTTCTCATTA
1 AGAGAAGTCAATCTTTTAGTGTTGTCTTTCTTGACTTTCTCGTGA
* * * *
988011 AGAGGAGTCGATCTTTTAGTGTTGTCATTCTTGATTTTCTCGTGA
1 AGAGAAGTCAATCTTTTAGTGTTGTCTTTCTTGACTTTCTCGTGA
* * * *
988056 AGAGAAGTCAACCTTTTAGTGATGTTATTCTCAACTTGACTTTTTCGTGA
1 AGAGAAGTCAATCTTTTAGTGTTG-TCTT-T---CTTGACTTTCTCGTGA
*
988106 AGAGGAGTC-ATCTTTT
1 AGAGAAGTCAATCTTTT
988122 CAGTAGTATC
Statistics
Matches: 206, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
42 17 0.08
43 1 0.00
44 3 0.01
45 152 0.74
46 4 0.02
47 1 0.00
49 6 0.03
50 22 0.11
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (45 bp):
AGAGAAGTCAATCTTTTAGTGTTGTCTTTCTTGACTTTCTCGTGA
Found at i:987989 original size:90 final size:90
Alignment explanation
Indices: 987834--988121 Score: 334
Period size: 90 Copynumber: 3.2 Consensus size: 90
987824 ACAGATTGAT
* * * *
987834 AGAGAAGTCAATCTTTT-G-G-TGTTATTCTTGACTTTCTTGTGAAGAGAAGTCAATCTTTTAGT
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTTAAT
*
987896 GTTGTTTTCCTTAACTTTCTCGTGA
66 GTTGTTTTCCTTGACTTTCTCGTGA
* * *
987921 AGAGGAGTCAATCTTTTAGTGTTGTCCTTCTTGACTTTCTCGTGAAGAGAAATCAATATTTTAAT
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTTAAT
* * *
987986 GTTGTCATT-CTTGACTTTCTCATTA
66 GTTGT-TTTCCTTGACTTTCTCGTGA
* * *
988011 AGAGGAGTCGATCTTTTAGTGTTGTCATTCTTGATTTTCTCGTGAAGAGAAGTCAACCTTTTAGT
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTTA--
* * *
988076 GATGTTATTCTCAACTTGACTTTTTCGTGA
64 -ATGTTGTTTTC--CTTGACTTTCTCGTGA
988106 AGAGGAGTC-ATCTTTT
1 AGAGGAGTCAATCTTTT
988122 CAGTAGTATC
Statistics
Matches: 168, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
87 16 0.10
88 1 0.01
89 1 0.01
90 112 0.67
91 2 0.01
92 1 0.01
93 6 0.04
94 7 0.04
95 22 0.13
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (90 bp):
AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTTAAT
GTTGTTTTCCTTGACTTTCTCGTGA
Found at i:988161 original size:51 final size:51
Alignment explanation
Indices: 988040--988228 Score: 208
Period size: 51 Copynumber: 3.7 Consensus size: 51
988030 TGTTGTCATT
* * **
988040 CTTGATTTTCTCGTGAAGAGAAGTCAACCTTTT-AGT-G-ATGTTATTCTCAA
1 CTTGACTTTCTCGTGAAGAGGAGTCAA-CTTTTCAGTAGTATCCT-TTCTCAA
* * *
988090 CTTGACTTTTTCGTGAAGAGGAGTCATCTTTTCAGTAGTATCCTTTCTTAA
1 CTTGACTTTCTCGTGAAGAGGAGTCAACTTTTCAGTAGTATCCTTTCTCAA
*
988141 CTTGACTTTCTCGT-AGAGAGGAGTCAACTTTTCAGTAGTATCCTTCCTCAA
1 CTTGACTTTCTCGTGA-AGAGGAGTCAACTTTTCAGTAGTATCCTTTCTCAA
* * *
988192 CTTGACTTTCTCGTGTAGAGAAGTTAA-TCTTTCAGTA
1 CTTGACTTTCTCGTGAAGAGGAGTCAACT-TTTCAGTA
988229 ATGTTATCTC
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
49 5 0.04
50 28 0.24
51 83 0.70
52 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.40
Consensus pattern (51 bp):
CTTGACTTTCTCGTGAAGAGGAGTCAACTTTTCAGTAGTATCCTTTCTCAA
Found at i:989080 original size:134 final size:133
Alignment explanation
Indices: 988840--989426 Score: 579
Period size: 134 Copynumber: 4.4 Consensus size: 133
988830 TAAGAGGAGT
* * * *
988840 AAATCACGTTCGATTCAATCTTACCTTAAGAGCAACGAAGTGGATCAAAATTTCCTCAAGTCTGA
1 AAATCACGTTCGATTCAATCTTCCCTAAAGAGCAACGAAGTGGATAAAAATTTCATCAAGTCTGA
* * * * *
988905 TATCCCATAAAGAGTAGTGG-GGAATGCTATTATTCTTTCAGATTTGGTCTTCCTTAAGAGCAGC
66 TATCCCCTAAAGAGTAGTGGAGCAAT--TCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGC
*
988969 GAAGG
129 GAAGC
* * ** * * *
988974 AAATCACTTTCGATTCAATATTCTTTAAAGAGTAACGAATTGGATAAAAATTTCAT-AGAGTATG
1 AAATCACGTTCGATTCAATCTTCCCTAAAGAGCAACGAAGTGGATAAAAATTTCATCA-AGTCTG
* * * *
989038 ATCTCCCTTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGCCTTCCTGAAGAGTAGC
65 ATATCCCCTAAAGAGTAGTGGAGCA-ATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGC
989103 GAAGC
129 GAAGC
* * * * * * * * * *
989108 CAATCACGTTTGATTAAATCTTCCCTGAAGAGCAGCAAAGTGGATCAAAGTTTTATCGAGTCTGA
1 AAATCACGTTCGATTCAATCTTCCCTAAAGAGCAACGAAGTGGATAAAAATTTCATCAAGTCTGA
* ** * * * *
989173 TCTCCCCTAAAGAGTAGTGGATTAAATTCCTT-TTCTTTGAGATTTGGTATTGCTAAAGAGCAGC
66 TATCCCCTAAAGAGTAGTGGA-GCAATT-CTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGC
*
989237 GGAGC
129 GAAGC
* * * * *
989242 AAATCAAGTTCGATTCAGTCTTTCCTAAAGAGCATCGAAGTGGATCAAAATTTTC-TCAAGTCTG
1 AAATCACGTTCGATTCAATCTTCCCTAAAGAGCAACGAAGTGGAT-AAAAATTTCATCAAGTCTG
* * * *
989306 ATATCCCCTAAAGAATAGTGGAACATATTCTTCTTCTTTTAAATTTGGTCTTCCTGAAGAGCAGC
65 ATATCCCCTAAAGAGTAGTGGAGCA-ATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGC
989371 GAAGC
129 GAAGC
* * * * * *
989376 AAATCAAGTTCGATTCCATCTCCCCTCAAGAGCATCGAAGTGAATCAAAAA
1 AAATCACGTTCGATTCAATCTTCCCTAAAGAGCAACGAAGTGGAT-AAAAA
989427 AATTTCGAGA
Statistics
Matches: 367, Mismatches: 77, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
133 5 0.01
134 348 0.95
135 12 0.03
136 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (133 bp):
AAATCACGTTCGATTCAATCTTCCCTAAAGAGCAACGAAGTGGATAAAAATTTCATCAAGTCTGA
TATCCCCTAAAGAGTAGTGGAGCAATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGCGA
AGC
Found at i:989327 original size:268 final size:268
Alignment explanation
Indices: 988840--989425 Score: 660
Period size: 268 Copynumber: 2.2 Consensus size: 268
988830 TAAGAGGAGT
* * *
988840 AAATCACGTTCGATTCAATCTTACCTTAAGAGCAACGAAGTGGATCAAAATTTCCTCAAGTCTGA
1 AAATCACGTTCGATTCAATCTTCCCTCAAGAGCAACGAAGTGGATCAAAATTTCATCAAGTCTGA
* * *
988905 TATCCCATAAAGAGTAGTGGGGAATGCTATTATTCTTTCAGATTTGGTCTTCCTTAAGAGCAGCG
66 TATCCCATAAAGAGTAGTGGGAAATGCTATTATTCTTTCAGATTTGGTATTCCTAAAGAGCAGCG
* ** * * *
988970 AAGGAAATCACTTTCGATTCAATATTCTTTAAAGAGTAACGAATTGGATAAAAATTTCATAGAGT
131 AAGCAAATCAAGTTCGATTCAATATTCTCTAAAGAGCAACGAAGTGGATAAAAATTTCATAGAGT
* * * * * *
989035 ATGATCTCCCTTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGCCTTCCTGAAGAGT
196 ATGATATCCCCTAAAGAATAGTGGAACAGATTCTTCTTCTTTCAAATTTGGCCTTCCTGAAGAGC
989100 AGCGAAGC
261 AGCGAAGC
* * * * * * * * *
989108 CAATCACGTTTGATTAAATCTTCCCTGAAGAGCAGCAAAGTGGATCAAAGTTTTATCGAGTCTGA
1 AAATCACGTTCGATTCAATCTTCCCTCAAGAGCAACGAAGTGGATCAAAATTTCATCAAGTCTGA
* * * * * * *
989173 TCTCCCCTAAAGAGTAGTGGATTAAATTC-CTT-TTCTTTGAGATTTGGTATTGCTAAAGAGCAG
66 TATCCCATAAAGAGTAGTGG--GAAATGCTATTATTCTTTCAGATTTGGTATTCCTAAAGAGCAG
* * * * *
989236 CGGAGCAAATCAAGTTCGATTCAGTCTT-TCCTAAAGAGCATCGAAGTGGATCAAAATTTTC-TC
129 CGAAGCAAATCAAGTTCGATTCAATATTCT-CTAAAGAGCAACGAAGTGGAT-AAAAATTTCAT-
* * * *
989299 A-AGTCTGATATCCCCTAAAGAATAGTGGAACATATTCTTCTTCTTTTAAATTTGGTCTTCCTGA
191 AGAGTATGATATCCCCTAAAGAATAGTGGAACAGATTCTTCTTCTTTCAAATTTGGCCTTCCTGA
989363 AGAGCAGCGAAGC
256 AGAGCAGCGAAGC
* * * * *
989376 AAATCAAGTTCGATTCCATCTCCCCTCAAGAGCATCGAAGTGAATCAAAA
1 AAATCACGTTCGATTCAATCTTCCCTCAAGAGCAACGAAGTGGATCAAAA
989426 AAATTTCGAG
Statistics
Matches: 260, Mismatches: 53, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
267 1 0.00
268 244 0.94
269 11 0.04
270 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (268 bp):
AAATCACGTTCGATTCAATCTTCCCTCAAGAGCAACGAAGTGGATCAAAATTTCATCAAGTCTGA
TATCCCATAAAGAGTAGTGGGAAATGCTATTATTCTTTCAGATTTGGTATTCCTAAAGAGCAGCG
AAGCAAATCAAGTTCGATTCAATATTCTCTAAAGAGCAACGAAGTGGATAAAAATTTCATAGAGT
ATGATATCCCCTAAAGAATAGTGGAACAGATTCTTCTTCTTTCAAATTTGGCCTTCCTGAAGAGC
AGCGAAGC
Found at i:990500 original size:27 final size:28
Alignment explanation
Indices: 990459--990519 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
990449 GAGGGGATAA
**
990459 AAAAAACACAAAGAGCATTCATGGACAT
1 AAAAAACACAAAGAGCATTCATCAACAT
* *
990487 AAAAAAC-CAGAGAGCATTTATCAACAT
1 AAAAAACACAAAGAGCATTCATCAACAT
990514 AAAAAA
1 AAAAAA
990520 AGCAGATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.57, C:0.16, G:0.11, T:0.15
Consensus pattern (28 bp):
AAAAAACACAAAGAGCATTCATCAACAT
Found at i:990518 original size:28 final size:28
Alignment explanation
Indices: 990458--990525 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
990448 AGAGGGGATA
* **
990458 AAAAAAACACAAAGAGCATTCATGGACAT
1 AAAAAAAC-CAGAGAGCATTCATCAACAT
*
990487 -AAAAAACCAGAGAGCATTTATCAACAT
1 AAAAAAACCAGAGAGCATTCATCAACAT
*
990514 AAAAAAAGCAGA
1 AAAAAAACCAGA
990526 TATAACCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 16 0.48
28 17 0.52
ACGTcount: A:0.57, C:0.16, G:0.13, T:0.13
Consensus pattern (28 bp):
AAAAAAACCAGAGAGCATTCATCAACAT
Found at i:992885 original size:56 final size:56
Alignment explanation
Indices: 992817--992984 Score: 230
Period size: 56 Copynumber: 3.0 Consensus size: 56
992807 TCCTTAACAA
* *
992817 ATTTCCATTGAATTTTAAAGAAGCTTAGCCTGATTTTTAGGGGTTTCCTT-ATGATT
1 ATTTCCAATGAATTTTAAAGAAGCTAAGCCTGATTTTTAGGGGTTT-CTTAATGATT
* * *
992873 ATTTCCAATGAATTTTAAAGAAGCTAAGCTTGATTTTCAGGGGTTTCTTGATGATT
1 ATTTCCAATGAATTTTAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCTTAATGATT
* ** *
992929 ATTTCCAAAGAATTTTTAAAGAAGCTAAAACTAATTTTTAGGGGTTTCTTAATGAT
1 ATTTCCAATGAA-TTTTAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCTTAATGAT
992985 AACTGTAAAC
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
55 3 0.03
56 59 0.60
57 37 0.37
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (56 bp):
ATTTCCAATGAATTTTAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCTTAATGATT
Found at i:993308 original size:20 final size:20
Alignment explanation
Indices: 993283--993373 Score: 155
Period size: 20 Copynumber: 4.5 Consensus size: 20
993273 TCATACTTAG
993283 TAAGTCCTTCAGGCCATCAA
1 TAAGTCCTTCAGGCCATCAA
993303 TAAGTCCTTCAGGCCATCAA
1 TAAGTCCTTCAGGCCATCAA
*
993323 TAAGTCCTTCAGGCCATCAG
1 TAAGTCCTTCAGGCCATCAA
*
993343 TAAGTCCTTCAGGCCATCAG
1 TAAGTCCTTCAGGCCATCAA
*
993363 TAAGTCTTTCA
1 TAAGTCCTTCA
993374 AGCATGATGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (20 bp):
TAAGTCCTTCAGGCCATCAA
Found at i:993865 original size:176 final size:177
Alignment explanation
Indices: 993561--993929 Score: 517
Period size: 176 Copynumber: 2.1 Consensus size: 177
993551 GTAAGAACAT
* * * * *
993561 GATTTCTAAGGTTTCTTACTTAGTAAGTTATTTAGGACATTAGTAAGTCTTTTAAGAATGATGTT
1 GATTTCAAAAGTTTCTTACTTAGTAAGTTATTTAGGACATCAGTAAGTATTTCAAGAATGATGTT
* * * **
993626 TAAATCCTTCGGGTCATCTATAATTATTTTGAGCAAGATGATAAGTACTTCGGGCCATCCATAAG
66 TAAATCATTCGGGTCATCTATAAGTATTTCGAGCAAGATGATAAGTACTTCCAGCCATCCATAAG
993691 AACTTCAGGCAGGATGTTTTCACATGA-TTTTCAAAAATGAGAAAGC
131 AACTTCAGGCAGGATGTTTTCACATGATTTTTCAAAAATGAGAAAGC
* * * * *
993737 GATTTCCAAAGTTTCTTACTTAGTAAG-TCTTTCGGACCATCAGTAAGTATTTCGAGCATGATGT
1 GATTTCAAAAGTTTCTTACTTAGTAAGTTATTTAGGA-CATCAGTAAGTATTTCAAGAATGATGT
* * *
993801 TTAAATCATTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCCAGTCATCCATAA
65 TTAAATCATTCGGGTCATCTATAAGTATTTCGAGCAAGATGATAAGTACTTCCAGCCATCCATAA
* * * *
993866 GACCTTCGGGCAGGATGTTTTCACATGATTTTTCGAAAATGAGAAAGT
130 GAACTTCAGGCAGGATGTTTTCACATGATTTTTCAAAAATGAGAAAGC
993914 GATTTCAAAAGTTTCT
1 GATTTCAAAAGTTTCT
993930 CATTTAAACC
Statistics
Matches: 169, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
175 7 0.04
176 130 0.77
177 32 0.19
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (177 bp):
GATTTCAAAAGTTTCTTACTTAGTAAGTTATTTAGGACATCAGTAAGTATTTCAAGAATGATGTT
TAAATCATTCGGGTCATCTATAAGTATTTCGAGCAAGATGATAAGTACTTCCAGCCATCCATAAG
AACTTCAGGCAGGATGTTTTCACATGATTTTTCAAAAATGAGAAAGC
Found at i:995080 original size:15 final size:15
Alignment explanation
Indices: 995060--995088 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
995050 ACGAACGAAT
995060 AATGGGCCGGCCGAC
1 AATGGGCCGGCCGAC
995075 AATGGGCCGGCCGA
1 AATGGGCCGGCCGA
995089 GGAGAGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.31, G:0.41, T:0.07
Consensus pattern (15 bp):
AATGGGCCGGCCGAC
Found at i:995880 original size:20 final size:20
Alignment explanation
Indices: 995843--995880 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
995833 CGTTCCATTA
*
995843 TAAATATATGTTATAATATT
1 TAAATATATGTTACAATATT
995863 TAAATAATATG-TACAATA
1 TAAAT-ATATGTTACAATA
995881 AGTGTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
TAAATATATGTTACAATATT
Found at i:999261 original size:17 final size:17
Alignment explanation
Indices: 999217--999260 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
999207 AGGATTTGGA
999217 ATTAGAGTTTTCAAAGT
1 ATTAGAGTTTTCAAAGT
*
999234 ACTAGAGTTTTCAAAGT
1 ATTAGAGTTTTCAAAGT
999251 -TTAGAGTTTT
1 ATTAGAGTTTT
999261 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (17 bp):
ATTAGAGTTTTCAAAGT
Found at i:999446 original size:22 final size:21
Alignment explanation
Indices: 999410--999450 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
999400 AAATTGATTC
*
999410 AAAAAAGATAAAATACTTAAAT
1 AAAAAAAATAAAATA-TTAAAT
*
999432 AAAAAAAATATAATATTAA
1 AAAAAAAATAAAATATTAA
999451 TTATTTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAAAAATAAAATATTAAAT
Found at i:999855 original size:2 final size:2
Alignment explanation
Indices: 999848--999926 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
999838 AGAAGGGATT
999848 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
999890 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
999927 TAGCTCCACG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1001193 original size:18 final size:19
Alignment explanation
Indices: 1001167--1001224 Score: 82
Period size: 18 Copynumber: 3.1 Consensus size: 19
1001157 TCGAGGGATA
1001167 ATCAGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
* *
1001186 AT-AGTGGTTCTTCGGAAC
1 ATCAGTGGTCCTTCGGGAC
1001204 AATCAGTGGTCCTTCGGGAC
1 -ATCAGTGGTCCTTCGGGAC
1001224 A
1 A
1001225 AATACTGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 14 0.42
19 5 0.15
20 14 0.42
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (19 bp):
ATCAGTGGTCCTTCGGGAC
Found at i:1001213 original size:20 final size:20
Alignment explanation
Indices: 1001161--1001225 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
1001151 CAAGAGTCGA
*
1001161 GGGATAATCAGTGGTCCTTC
1 GGGACAATCAGTGGTCCTTC
*
1001181 GGGAC-AT-AGTGGTTCTTC
1 GGGACAATCAGTGGTCCTTC
*
1001199 GGAACAATCAGTGGTCCTTC
1 GGGACAATCAGTGGTCCTTC
1001219 GGGACAA
1 GGGACAA
1001226 ATACTGAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 14 0.37
19 4 0.11
20 20 0.53
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (20 bp):
GGGACAATCAGTGGTCCTTC
Found at i:1004002 original size:40 final size:40
Alignment explanation
Indices: 1003947--1004028 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
1003937 TGCAGGTTTA
1003947 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1003987 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1004027 TA
1 TA
1004029 GCTCTACGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:1004233 original size:47 final size:46
Alignment explanation
Indices: 1004176--1004304 Score: 197
Period size: 47 Copynumber: 2.8 Consensus size: 46
1004166 GTATATGGGA
1004176 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTGTAT
1 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTG-AT
* * * *
1004223 AAAATAAGCTTATGAGCTTATGGAATTTATATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGGA-TTAAATGGTAAGTATTTTGAT
1004270 AAAATAAGCTTACGAGCTTATGGGA-TAAATGGTAA
1 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAA
1004305 AAGATTTTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 9 0.12
47 47 0.64
48 18 0.24
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (46 bp):
AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTGAT
Found at i:1004312 original size:94 final size:91
Alignment explanation
Indices: 1004133--1004304 Score: 256
Period size: 94 Copynumber: 1.9 Consensus size: 91
1004123 GTAAGCATAC
*
1004133 AAATAAGCTTATAAGCTTTTGGAATAATGGCAAGTATATGGGAAAAATAAGCTTACGAGCTTATG
1 AAATAAGCTTATAAGCTTATGGAATAATGGCAAGTATATGGGAAAAATAAGCTTACGAGCTTATG
1004198 GGATTAAATGGTAAGTATTTTGTATA
66 GGATTAAATGGTAAGTATTTTGTATA
* * * * *
1004224 AAATAAGCTTATGAGCTTATGGAATTTATATGGTAAGTATTTTGGTAAAATAAGCTTACGAGCTT
1 AAATAAGCTTATAAGCTTATGGAA--TA-ATGGCAAGTATATGGGAAAAATAAGCTTACGAGCTT
1004289 ATGGGA-TAAATGGTAA
63 ATGGGATTAAATGGTAA
1004305 AAGATTTTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
91 22 0.31
93 12 0.17
94 38 0.53
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (91 bp):
AAATAAGCTTATAAGCTTATGGAATAATGGCAAGTATATGGGAAAAATAAGCTTACGAGCTTATG
GGATTAAATGGTAAGTATTTTGTATA
Found at i:1010833 original size:40 final size:40
Alignment explanation
Indices: 1010778--1010939 Score: 288
Period size: 40 Copynumber: 4.0 Consensus size: 40
1010768 TGCAGGTTTA
1010778 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
1010818 TAATACACTTCGGTGTACATGGTGGGCACGACCTTATATG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
1010858 TAATACACTTCGGTGTATATGGTTGGCATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1010898 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1010938 TA
1 TA
1010940 GAACTACGAT
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 114 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:1011094 original size:44 final size:46
Alignment explanation
Indices: 1011044--1011212 Score: 148
Period size: 47 Copynumber: 3.7 Consensus size: 46
1011034 GTAAGCATAC
* *
1011044 AAATAAGCTTACAAGCTTTTGGAAT-AATGGCAAGTATATGGGA-G
1 AAATAAGCTTACGAGCTTTTGGAATAAATGGCAAGTATATGGGATA
* * * * * *
1011088 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTGTATA
1 AAATAAGCTTACGAGCTT-TTGGAATAAATGGCAAGTATATGGGATA
* * * *
1011135 AAATAAGCTTACGAGCTTATGGAATTTATATGGTC-AGTATTTTGG-TA
1 AAATAAGCTTACGAGCTTTTGGAA--TAAATGG-CAAGTATATGGGATA
* *
1011182 AAATAAGCTTACGAGCTTATGGGATAAATGG
1 AAATAAGCTTACGAGCTTTTGGAATAAATGG
1011213 TAAAAGATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
44 17 0.17
45 11 0.11
46 17 0.17
47 43 0.42
48 15 0.15
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTTTGGAATAAATGGCAAGTATATGGGATA
Found at i:1011145 original size:47 final size:46
Alignment explanation
Indices: 1011088--1011215 Score: 195
Period size: 47 Copynumber: 2.8 Consensus size: 46
1011078 TATATGGGAG
1011088 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTGTATA
1 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTG-ATA
* * * *
1011135 AAATAAGCTTACGAGCTTATGGAATTTATATGGTCAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGGA-TTAAATGGTAAGTATTTTGATA
1011182 AAATAAGCTTACGAGCTTATGGGA-TAAATGGTAA
1 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAA
1011216 AAGATTTTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 8 0.11
47 48 0.66
48 17 0.23
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTGATA
Found at i:1015181 original size:3 final size:3
Alignment explanation
Indices: 1015173--1015197 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1015163 GAATTGGGTT
1015173 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
1015198 ATTATACGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:1017579 original size:20 final size:20
Alignment explanation
Indices: 1017527--1017609 Score: 104
Period size: 18 Copynumber: 4.3 Consensus size: 20
1017517 CATGAGTCGA
*
1017527 GGGATAATCAGTGGTCCTTC
1 GGGACAATCAGTGGTCCTTC
*
1017547 GGGAC-AT-AGTGGTTCTT-
1 GGGACAATCAGTGGTCCTTC
1017564 GGGAACAATCAGTGGTCCTTC
1 GGG-ACAATCAGTGGTCCTTC
1017585 GGGAC-AT-AGTGGTCCTTC
1 GGGACAATCAGTGGTCCTTC
1017603 GGGACAA
1 GGGACAA
1017610 ATACTGAACA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.05
18 27 0.49
19 7 0.13
20 15 0.27
21 3 0.05
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.27
Consensus pattern (20 bp):
GGGACAATCAGTGGTCCTTC
Found at i:1017583 original size:38 final size:39
Alignment explanation
Indices: 1017532--1017606 Score: 134
Period size: 38 Copynumber: 1.9 Consensus size: 39
1017522 GTCGAGGGAT
*
1017532 AATCAGTGGTCCTTCGGGACATAGTGGTTCTT-GGGAAC
1 AATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGAAC
1017570 AATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGA
1 AATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGA
1017607 CAAATACTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 31 0.89
39 4 0.11
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (39 bp):
AATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGAAC
Found at i:1040865 original size:16 final size:16
Alignment explanation
Indices: 1040844--1040874 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1040834 AATAAATTTA
1040844 TGATTTAAATTTTACT
1 TGATTTAAATTTTACT
1040860 TGATTTAAATTTTAC
1 TGATTTAAATTTTAC
1040875 AAACTCAATA
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:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
TGATTTAAATTTTACT
Found at i:1046972 original size:17 final size:17
Alignment explanation
Indices: 1046950--1046983 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1046940 CGGATTTGGA
1046950 ATTAGAGCTTTT-AAAGT
1 ATTAGAG-TTTTCAAAGT
1046967 ATTAGAGTTTTCAAAGT
1 ATTAGAGTTTTCAAAGT
1046984 TTTGAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (17 bp):
ATTAGAGTTTTCAAAGT
Found at i:1048528 original size:13 final size:13
Alignment explanation
Indices: 1048510--1048553 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
1048500 TGAACCAATC
*
1048510 TGACCCGACCTGT
1 TGACCCGACCCGT
1048523 TGACCCGACCCGT
1 TGACCCGACCCGT
*
1048536 TGACCTGACCCGT
1 TGACCCGACCCGT
1048549 TGACC
1 TGACC
1048554 ATTGACCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.16, C:0.41, G:0.23, T:0.20
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:1048572 original size:14 final size:14
Alignment explanation
Indices: 1048532--1048582 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
1048522 TTGACCCGAC
1048532 CCGTTGACC--TGA
1 CCGTTGACCGTTGA
*
1048544 CCCGTTGACCATTGA
1 -CCGTTGACCGTTGA
*
1048559 CCGTTAACCGTTGA
1 CCGTTGACCGTTGA
*
1048573 TCGTTGACCG
1 CCGTTGACCG
1048583 GGTGTTAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 9 0.28
14 20 0.62
15 3 0.09
ACGTcount: A:0.18, C:0.31, G:0.24, T:0.27
Consensus pattern (14 bp):
CCGTTGACCGTTGA
Found at i:1048624 original size:29 final size:29
Alignment explanation
Indices: 1048582--1048656 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
1048572 ATCGTTGACC
*
1048582 GGGTGTTAGTTTTGTAAATATTTTTAAAA
1 GGGTGTTAGTTTTGTAAATATTGTTAAAA
*
1048611 GGGTATTAGTTTTGTAAATATTGTTAAAA
1 GGGTGTTAGTTTTGTAAATATTGTTAAAA
1048640 GGGTGTTAGTTTTGTAA
1 GGGTGTTAGTTTTGTAA
1048657 TTAATTTCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (29 bp):
GGGTGTTAGTTTTGTAAATATTGTTAAAA
Found at i:1053995 original size:29 final size:29
Alignment explanation
Indices: 1053953--1054022 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
1053943 TGACCGAGTG
*
1053953 TTAGTTTTGTAAATATTTTTAAAAGGGTA
1 TTAGTTTTGTAAATATTGTTAAAAGGGTA
*
1053982 TTAGTTTTGTAAATATTGTTAAAAGGGTG
1 TTAGTTTTGTAAATATTGTTAAAAGGGTA
1054011 TTAGTTTTGTAA
1 TTAGTTTTGTAA
1054023 TTAATTTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (29 bp):
TTAGTTTTGTAAATATTGTTAAAAGGGTA
Found at i:1056355 original size:21 final size:20
Alignment explanation
Indices: 1056310--1056358 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
1056300 TTGTTTATTT
*
1056310 TATTTTATCAAAAAATTAAA
1 TATTTTATAAAAAAATTAAA
* *
1056330 AATTTTGATAAAAAAATTATA
1 TATTTT-ATAAAAAAATTAAA
1056351 TATTTTAT
1 TATTTTAT
1056359 TTTTATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TATTTTATAAAAAAATTAAA
Found at i:1056367 original size:13 final size:14
Alignment explanation
Indices: 1056346--1056375 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1056336 GATAAAAAAA
1056346 TTATATATTTTATTT
1 TTATAT-TTTTATTT
1056361 TTATATTTTTATTT
1 TTATATTTTTATTT
1056375 T
1 T
1056376 GAATTGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATATTTTTATTT
Found at i:1056991 original size:23 final size:25
Alignment explanation
Indices: 1056951--1057002 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
1056941 CTAATTAATT
*
1056951 ATTTATTTTATAAATATCTT-AA-A
1 ATTTAATTTATAAATATCTTGAACA
**
1056974 ATTTAATTTATATCTATCTTGAACA
1 ATTTAATTTATAAATATCTTGAACA
1056999 ATTT
1 ATTT
1057003 TTTAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 2 0.08
25 5 0.21
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTAATTTATAAATATCTTGAACA
Found at i:1057827 original size:6 final size:6
Alignment explanation
Indices: 1057800--1057845 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
1057790 AATTTAGGGG
1057800 TGAAGA TGAACCGA -GAACGA TGAAGA TGAAGA TGAAGA TGAAGA TG
1 TGAAGA TGAA--GA TGAA-GA TGAAGA TGAAGA TGAAGA TGAAGA TG
1057846 GGAGACACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 29 0.78
7 6 0.16
8 2 0.05
ACGTcount: A:0.46, C:0.07, G:0.33, T:0.15
Consensus pattern (6 bp):
TGAAGA
Found at i:1062094 original size:46 final size:46
Alignment explanation
Indices: 1062027--1062120 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
1062017 TGCAAGAACA
1062027 TTGTGATTTGTCCTTCCACATCTTTAACAAGCTCCCATTGTCCTTT
1 TTGTGATTTGTCCTTCCACATCTTTAACAAGCTCCCATTGTCCTTT
*
1062073 TTGTGATTTGTCCTTTCACATCTTTAACAAGCTCCCATTGTCCTTT
1 TTGTGATTTGTCCTTCCACATCTTTAACAAGCTCCCATTGTCCTTT
1062119 TT
1 TT
1062121 CTTGTTAAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.17, C:0.27, G:0.11, T:0.46
Consensus pattern (46 bp):
TTGTGATTTGTCCTTCCACATCTTTAACAAGCTCCCATTGTCCTTT
Found at i:1062976 original size:32 final size:30
Alignment explanation
Indices: 1062923--1062989 Score: 71
Period size: 32 Copynumber: 2.2 Consensus size: 30
1062913 CTATTTGCAT
*
1062923 AAAAAATAGCTAAAACGATAAGAAAATGACA
1 AAAAAATAGCTAAAACAATAAGAAAATGA-A
* * **
1062954 AAAAAAGTTGCTACAACAATAAGCCAATGAA
1 AAAAAA-TAGCTAAAACAATAAGAAAATGAA
1062985 AAAAA
1 AAAAA
1062990 TATGTTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.63, C:0.12, G:0.12, T:0.13
Consensus pattern (30 bp):
AAAAAATAGCTAAAACAATAAGAAAATGAA
Found at i:1065902 original size:18 final size:18
Alignment explanation
Indices: 1065879--1065914 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1065869 CAAGTCTCAC
1065879 TCGATTTGAAATAAGAGT
1 TCGATTTGAAATAAGAGT
1065897 TCGATTTGAAATAAGAGT
1 TCGATTTGAAATAAGAGT
1065915 CTCATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (18 bp):
TCGATTTGAAATAAGAGT
Found at i:1066014 original size:21 final size:21
Alignment explanation
Indices: 1065982--1066037 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
1065972 AGGCCTGCTC
*
1065982 ATATTATTTTATTTTTAATATA
1 ATATT-TTTTATTTTTAATAAA
1066004 ATATTTTTTA-TTTTAATAAA
1 ATATTTTTTATTTTTAATAAA
1066024 AGTA-TTTTTATTTT
1 A-TATTTTTTATTTT
1066038 GTTATATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 16 0.52
21 10 0.32
22 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATATTTTTTATTTTTAATAAA
Found at i:1069273 original size:24 final size:24
Alignment explanation
Indices: 1069246--1069343 Score: 160
Period size: 24 Copynumber: 4.1 Consensus size: 24
1069236 ATTTTCGATT
1069246 TGGATTTTGATATGATACTTGACC
1 TGGATTTTGATATGATACTTGACC
1069270 TGGATTTTGATATGATACTTGACC
1 TGGATTTTGATATGATACTTGACC
* *
1069294 TGGATTTTTATATGTTACTTGACC
1 TGGATTTTGATATGATACTTGACC
* *
1069318 TGGATTCTGATATGCTACTTGACC
1 TGGATTTTGATATGATACTTGACC
1069342 TG
1 TG
1069344 AATTATGTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (24 bp):
TGGATTTTGATATGATACTTGACC
Found at i:1072833 original size:129 final size:129
Alignment explanation
Indices: 1072602--1073342 Score: 735
Period size: 128 Copynumber: 5.8 Consensus size: 129
1072592 ACGTATGAGT
** * * * ** * * *
1072602 CGTGTCATCAATTGACCAGATCTCCTCATTATGTAGGAGTTGTGTCAA-CTCAGATAACCAGTCG
1 CGTGTCATCACCTGACCAGATTTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGCCA
* * * * *
1072666 TCCTCATCACGTAGGAACCGTGTTATCACTCTAAGATGGTCTGTCGTTCTCATCGCGTAGGAAC
66 TCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGTCGTCCTCATCGCGTAGGAAC
* * * * ** *
1072730 TGTGTCATCACCTGACCAGATTTCATCATTATGTAGGAGCTATGTCAATCCCAGATAACCAGCCA
1 CGTGTCATCACCTGACCAGATTTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGCCA
* *
1072795 TCCTCATCACGTTGGAACCATGTTATCATCCTTAGATGGCCTG-CTGTCCTCATCGCGTAGGAAC
66 TCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGTC-GTCCTCATCGCGTAGGAAC
* * * *
1072859 CATGTCATCACCCGACCTA-ATTTCCTCATCACGTAGGAACCGTGTC-ACTCCAGATAACCAGCC
1 CGTGTCATCACCTGACC-AGATTTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGCC
* * *
1072922 ATCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCATGCCATCCTCATCG-GATAGGAA
65 ATCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGTCGTCCTCATCGCG-TAGGAA
1072986 C
129 C
* * * * * **
1072987 CGTTTCATCACCTGACCAG-TTCTCCTCATCACATAGAAGCCGTGTCAACCCCATATAACTAGTT
1 CGTGTCATCACCTGACCAGATT-TCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGCC
* * * * * * * * *
1073051 ATCTTTATCAGGTAGGAATCATGTTATCACCCTTAGATGGCCTATTGTCTTCATCACATAGGAAC
65 ATCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGTCGTCCTCATCGCGTAGGAAC
* * * * * *
1073116 CGTGTCATCACCCGACCTGATTTTCTCATCACGTAGGAACCGTGTC-ACCCCATATAATCAGCCA
1 CGTGTCATCACCTGACCAGATTTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGCCA
* * *** *
1073180 TCCTCATCACGTAAGAACCGTGTTATCACCCTTAGATGGCCTGTCGTCCTCATCATATAAGAAC
66 TCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGTCGTCCTCATCGCGTAGGAAC
* * * * * *
1073244 CATGTCATCATCC-GACCTGATCTCCTCATCACGTAGGAGTCGTGTC-ACCCCTTTGATAGCCAG
1 CGTGTCATCA-CCTGACCAGATTTCCTCATCACGTAGGAGCCGTGTCAACCCC--AGATAACCAG
* * * *
1073307 TCGTCCTCATCGCGTAGGAACCAAGTTATCACCCTT
63 CCATCCTCATCACGTAGGAACCATGTTATCACCCTT
1073343 CCTAAAGATA
Statistics
Matches: 508, Mismatches: 92, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
127 4 0.01
128 259 0.51
129 206 0.41
130 39 0.08
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (129 bp):
CGTGTCATCACCTGACCAGATTTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGCCA
TCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTGTCGTCCTCATCGCGTAGGAAC
Found at i:1073076 original size:257 final size:256
Alignment explanation
Indices: 1072643--1073342 Score: 807
Period size: 257 Copynumber: 2.7 Consensus size: 256
1072633 TGTAGGAGTT
* * * *
1072643 GTGTCAACT-CAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACTCTAAGATGGTC
1 GTGTC-ACTCCAGATAACCAGCCATCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGG-C
* * * * *
1072707 TGTCGTTCTCATCGCG-TAGGAACTGTGTCATCACCTGACCAGATT-TCATCATTATGTAGGAGC
64 TGTCGTCCTCATCG-GATAGGAACCGTGTCATCACCTGACCAG-TTCTCCTCATCACGTAGGAGC
** * * *
1072770 TATGTCAATCCCAGATAACCAGCCATCCTCATCACGTTGGAACCATGTTATCATCCTTAGATGGC
127 CGTGTCAACCCCAGATAACCAGCCATCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGC
* * *
1072835 CTGCTGTCCTCATCGCGTAGGAACCATGTCATCACCCGACCTAATTTCCTCATCACGTAGGAACC
192 CTACTGTCCTCATCACATAGGAACCATGTCATCACCCGACCTAATTTCCTCATCACGTAGGAACC
*
1072900 GTGTCACTCCAGATAACCAGCCATCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCAT
1 GTGTCACTCCAGATAACCAGCCATCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGC-T
* * * * *
1072965 GCCATCCTCATCGGATAGGAACCGTTTCATCACCTGACCAGTTCTCCTCATCACATAGAAGCCGT
65 GTCGTCCTCATCGGATAGGAACCGTGTCATCACCTGACCAGTTCTCCTCATCACGTAGGAGCCGT
* * ** * * * *
1073030 GTCAACCCCATATAACTAGTTATCTTTATCAGGTAGGAATCATGTTATCACCCTTAGATGGCCTA
130 GTCAACCCCAGATAACCAGCCATCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTA
* * * * *
1073095 TTGTCTTCATCACATAGGAACCGTGTCATCACCCGACCTGATTTTCTCATCACGTAGGAACC
195 CTGTCCTCATCACATAGGAACCATGTCATCACCCGACCTAATTTCCTCATCACGTAGGAACC
* * * *
1073157 GTGTCACCCCATATAATCAGCCATCCTCATCACGTAAGAACCGTGTTATCACCCTTAGATGGCCT
1 GTGTCACTCCAGATAACCAGCCATCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGG-CT
** * * * * *
1073222 GTCGTCCTCATCATATAAGAACCATGTCATCATCC-GACCTGATCTCCTCATCACGTAGGAGTCG
65 GTCGTCCTCATCGGATAGGAACCGTGTCATCA-CCTGACCAGTTCTCCTCATCACGTAGGAGCCG
* * * * * *
1073286 TGTC-ACCCCTTTGATAGCCAGTCGTCCTCATCGCGTAGGAACCAAGTTATCACCCTT
129 TGTCAACCCC--AGATAACCAGCCATCCTCATCACGTAGGAACCATGTTATCACCCTT
1073343 CCTAAAGATA
Statistics
Matches: 370, Mismatches: 65, Indels: 15
0.82 0.14 0.03
Matches are distributed among these distances:
256 12 0.03
257 321 0.87
258 37 0.10
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (256 bp):
GTGTCACTCCAGATAACCAGCCATCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCTG
TCGTCCTCATCGGATAGGAACCGTGTCATCACCTGACCAGTTCTCCTCATCACGTAGGAGCCGTG
TCAACCCCAGATAACCAGCCATCCTCATCACGTAGGAACCATGTTATCACCCTTAGATGGCCTAC
TGTCCTCATCACATAGGAACCATGTCATCACCCGACCTAATTTCCTCATCACGTAGGAACC
Found at i:1081530 original size:16 final size:14
Alignment explanation
Indices: 1081509--1081572 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 14
1081499 AAAGGGCAAA
1081509 AACAAAAAATAAAAG
1 AACAAAAAA-AAAAG
1081524 AAGCAAAAAAGAAGAA-
1 AA-CAAAAAA-AA-AAG
1081540 AACAAAAAAAGAAAG
1 AACAAAAAAA-AAAG
1081555 AACAAAAATCAAAAAG
1 AACAAAAA--AAAAAG
1081571 AA
1 AA
1081573 AAAGGGACAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
14 3 0.07
15 18 0.43
16 17 0.40
17 4 0.10
ACGTcount: A:0.78, C:0.08, G:0.11, T:0.03
Consensus pattern (14 bp):
AACAAAAAAAAAAG
Found at i:1083255 original size:106 final size:106
Alignment explanation
Indices: 1083034--1084725 Score: 2334
Period size: 106 Copynumber: 16.0 Consensus size: 106
1083024 ATATCGTGCC
* * * * * *
1083034 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTTAAC-AACAATTTTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
* * * * * * *
1083097 CAATTTCGGAGCTAATTTTAAATTCACAGCAAAGAATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1083139 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1083204 AATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
1083245 ACTCCAGACAACACAAGTTCAACTTTACGACGAAGGGACTGTTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1083310 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* **
1083351 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1083416 AATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1083457 ACTCCAGACAACGCAACTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1083522 AATTTCAGAGCCAATTTCAATTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1083563 ACTCTAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1083628 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1083669 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1083734 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1083775 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGTCCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1083840 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1083881 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTTTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
1083946 AATTTCAAAGCCAATTTCAATTTCAGAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1083987 ACTCTAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1084052 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1084093 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1084158 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * ** * * *
1084199 ACTCAAGACAACGCAAGTTCAACTTCACAAAGAAGAAACCGTTGGTTGTCAACAAAAAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1084264 AATTTCAGAGCCAATTTCAACTTCACAACGAAGG-TATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1084304 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1084369 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
1084410 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGTTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * *
1084475 AATTTCAGAGCCAATTTTAACTTCGCAGCGAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1084516 AC-CCAAGGCAACACAAGCTT-AACTTCACGATGAAGAGG--CGACTGATTGTCAAC-AA-AA-T
1 ACTCC-AGACAACGCAAG-TTCAACTTCACGACGAAG-GGACCG-CTGGTTGTCAACAAACAACT
* * * *
1084574 T-TC-A-TTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTGG
62 TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
** * * *
1084616 ACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
** * *
1084680 C-GGTTCTAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 CAATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1084722 ACTC
1 ACTC
1084726 AGAACAGTGC
Statistics
Matches: 1426, Mismatches: 145, Indels: 31
0.89 0.09 0.02
Matches are distributed among these distances:
99 4 0.00
100 74 0.05
101 3 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 148 0.10
106 1183 0.83
107 4 0.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1085508 original size:37 final size:37
Alignment explanation
Indices: 1085455--1085559 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
1085445 CCTTTTCGTC
*
1085455 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * * *
1085492 TTGCTAGGATTTAAACTCCTAAAAATAAGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
1085529 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
1085560 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:1086262 original size:12 final size:11
Alignment explanation
Indices: 1086240--1086280 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
1086230 TCTTTCTTTT
1086240 TATTATTCTTG
1 TATTATTCTTG
1086251 TATTATTACTTG
1 TATTATT-CTTG
* *
1086263 TATTATTTTTA
1 TATTATTCTTG
1086274 TATTATT
1 TATTATT
1086281 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:1086502 original size:2 final size:2
Alignment explanation
Indices: 1086497--1086528 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1086487 TTTACTATTA
1086497 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
1086529 CTACACATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1092568 original size:19 final size:19
Alignment explanation
Indices: 1092514--1092568 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
1092504 AACCAATAAT
1092514 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
1092533 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
1092552 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
1092569 GAAGATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:1092676 original size:21 final size:19
Alignment explanation
Indices: 1092652--1092779 Score: 66
Period size: 21 Copynumber: 6.2 Consensus size: 19
1092642 GTAAAGAAAC
1092652 TAAAAATATAATGAAAATAAA
1 TAAAAATATAAT-AAAAT-AA
*
1092673 TAAATAGTATAAATAAAATAA
1 TAAA-AATAT-AATAAAATAA
1092694 TAAAATATATATATATAAAT-A
1 TAAAA-ATATA-ATA-AAATAA
* *
1092715 TAAAAATGTATGTATAATATAA
1 TAAAAA--TAT-AATAAAATAA
1092737 T-AAAATACTAAATAATAATAA
1 TAAAAATA-T-AATAA-AATAA
*
1092758 TAATAAATA-AATGAAA-AA
1 TAA-AAATATAATAAAATAA
1092776 TAAA
1 TAAA
1092780 TATACATATA
Statistics
Matches: 86, Mismatches: 8, Indels: 30
0.69 0.06 0.24
Matches are distributed among these distances:
17 1 0.01
18 5 0.06
19 4 0.05
20 12 0.14
21 34 0.40
22 22 0.26
23 8 0.09
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.30
Consensus pattern (19 bp):
TAAAAATATAATAAAATAA
Found at i:1092699 original size:22 final size:22
Alignment explanation
Indices: 1092665--1092764 Score: 73
Period size: 22 Copynumber: 4.5 Consensus size: 22
1092655 AAATATAATG
1092665 AAAATAA-ATAAATAGTATAAAT
1 AAAATAATA-AAATAGTATAAAT
*
1092687 AAAATAATAAAATA-TATATAT
1 AAAATAATAAAATAGTATAAAT
**
1092708 ATAAAT-ATAAAA-ATGTATGTAT
1 A-AAATAATAAAATA-GTATAAAT
* * *
1092730 AATATAATAAAATACTAAATAAT
1 AAAATAATAAAATAGTATA-AAT
1092753 AATAATAATAAA
1 AA-AATAATAAA
1092765 TAAATGAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 16 0.26
22 31 0.50
23 6 0.10
24 8 0.13
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (22 bp):
AAAATAATAAAATAGTATAAAT
Found at i:1092764 original size:16 final size:15
Alignment explanation
Indices: 1092728--1092781 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
1092718 AAATGTATGT
1092728 ATAATATAATAAAATA
1 ATAA-ATAATAAAATA
*
1092744 CTAAATAATAATAATA
1 ATAAATAATAA-AATA
*
1092760 ATAAATAAATGAAA-A
1 ATAAAT-AATAAAATA
1092775 ATAAATA
1 ATAAATA
1092782 TACATATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.03
15 14 0.42
16 14 0.42
17 4 0.12
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
ATAAATAATAAAATA
Done.