Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 31 of 185
Found at i:8504108 original size:23 final size:23
Alignment explanation
Indices: 8504081--8504126 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8504071 ATTCATACTT
8504081 ATTTTCTGAAAT-TATAAATAAAC
1 ATTTT-TGAAATATATAAATAAAC
**
8504104 ATTTTTTTAATATATAAATAAAC
1 ATTTTTGAAATATATAAATAAAC
8504127 TCATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTTTTGAAATATATAAATAAAC
Found at i:8508637 original size:18 final size:18
Alignment explanation
Indices: 8508611--8508646 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8508601 GGTGCTGGTA
*
8508611 GGGATTGTAATGAGGGTG
1 GGGAGTGTAATGAGGGTG
8508629 GGGAGTGTAATGAGGGTG
1 GGGAGTGTAATGAGGGTG
8508647 AAGGTGTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.53, T:0.25
Consensus pattern (18 bp):
GGGAGTGTAATGAGGGTG
Found at i:8511748 original size:27 final size:27
Alignment explanation
Indices: 8511710--8511765 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
8511700 TTGAGGAGAA
8511710 AAAAAAAGTAGTTAAGTCAACAGTTCT
1 AAAAAAAGTAGTTAAGTCAACAGTTCT
8511737 AAAAAAAGTAGTTAAGTCAACAGTTCT
1 AAAAAAAGTAGTTAAGTCAACAGTTCT
8511764 AA
1 AA
8511766 TAGATGGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (27 bp):
AAAAAAAGTAGTTAAGTCAACAGTTCT
Found at i:8514833 original size:8 final size:8
Alignment explanation
Indices: 8514820--8514848 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8514810 GAGAATACAA
8514820 AAAATATT
1 AAAATATT
8514828 AAAATATT
1 AAAATATT
8514836 AAAATATT
1 AAAATATT
8514844 AAAAT
1 AAAAT
8514849 TACAAACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATATT
Found at i:8515020 original size:17 final size:17
Alignment explanation
Indices: 8514908--8515018 Score: 57
Period size: 16 Copynumber: 6.2 Consensus size: 17
8514898 CTAAAAATGT
*
8514908 TATACAAATTTATAAAAA
1 TATA-AAATTTTTAAAAA
* *
8514926 TAATAAAA-ATATAAAACA
1 T-ATAAAATTTTTAAAA-A
*
8514944 TATTTAAAATTTTATATAAACT
1 TA--TAAAATTTT-TA-AAA-A
*
8514966 TATAAAATTATTAAAAA
1 TATAAAATTTTTAAAAA
* *
8514983 -ATAAAAATTCTAAAAA
1 TATAAAATTTTTAAAAA
*
8514999 T-TATAATTTTTAAAAA
1 TATAAAATTTTTAAAAA
8515015 TATA
1 TATA
8515019 TATTATAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
16 26 0.36
17 10 0.14
18 9 0.12
19 10 0.14
20 9 0.12
21 2 0.03
22 6 0.08
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
TATAAAATTTTTAAAAA
Found at i:8515568 original size:9 final size:9
Alignment explanation
Indices: 8515505--8515595 Score: 64
Period size: 9 Copynumber: 10.0 Consensus size: 9
8515495 AATGACTTTA
8515505 TATAATTTT
1 TATAATTTT
8515514 TAT-A-TTT
1 TATAATTTT
8515521 TATAA-TTT
1 TATAATTTT
*
8515529 TACAATTTAT
1 TATAATTT-T
*
8515539 TAAAATTTT
1 TATAATTTT
*
8515548 CTATAAATTT
1 -TATAATTTT
*
8515558 TATAATATT
1 TATAATTTT
8515567 TAT-ATGTTT
1 TATAAT-TTT
8515576 TAATTAATTTT
1 T-A-TAATTTT
*
8515587 GATAATTTT
1 TATAATTTT
8515596 ACATAAAATT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
7 6 0.09
8 11 0.17
9 26 0.39
10 17 0.26
11 4 0.06
12 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (9 bp):
TATAATTTT
Found at i:8515732 original size:9 final size:9
Alignment explanation
Indices: 8515717--8515831 Score: 56
Period size: 9 Copynumber: 12.2 Consensus size: 9
8515707 AGTTCATATA
8515717 AATTTTTAT
1 AATTTTTAT
*
8515726 TATTTTTAGT
1 AATTTTTA-T
*
8515736 CATTTTTAT
1 AATTTTTAT
*
8515745 AATTTTCAT
1 AATTTTTAT
8515754 --TTTTTAAT
1 AATTTTT-AT
**
8515762 AAACTTTAT
1 AATTTTTAT
*
8515771 AAGTTTATAT
1 AA-TTTTTAT
* *
8515781 AACATTTTAA
1 AA-TTTTTAT
8515791 AATTTTTAAT
1 AATTTTT-AT
8515801 ATATATTTTA-
1 A-AT-TTTTAT
8515811 AATTTTTTAT
1 AA-TTTTTAT
*
8515821 GATTTTTAT
1 AATTTTTAT
8515830 AA
1 AA
8515832 GGAAAATAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
7 4 0.05
8 2 0.03
9 37 0.47
10 28 0.36
11 3 0.04
12 4 0.05
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (9 bp):
AATTTTTAT
Found at i:8515798 original size:21 final size:22
Alignment explanation
Indices: 8515774--8515820 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
8515764 ACTTTATAAG
8515774 TTTATATA-ACATTTTAAAATT
1 TTTATATATACATTTTAAAATT
* *
8515795 TTTA-ATATATATTTTAAATTT
1 TTTATATATACATTTTAAAATT
8515816 TTTAT
1 TTTAT
8515821 GATTTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATATATACATTTTAAAATT
Found at i:8516164 original size:32 final size:30
Alignment explanation
Indices: 8516096--8516154 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
8516086 CACTCAAAAG
*
8516096 ATAATTTTTTTAAAATTATGTGATTATATA
1 ATAATTTTTTTAAAATTATGTGATTAAATA
8516126 ATAATTTTTTTAAAAATT-TAGTGATTAAA
1 ATAATTTTTTT-AAAATTAT-GTGATTAAA
8516155 ATATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (30 bp):
ATAATTTTTTTAAAATTATGTGATTAAATA
Found at i:8519839 original size:21 final size:21
Alignment explanation
Indices: 8519799--8519839 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8519789 AACCTTCACA
* *
8519799 AAGTAAGTTTTTATTTTTATG
1 AAGTAAGTTTTTACTATTATG
*
8519820 AAGTAATTTTTTACTATTAT
1 AAGTAAGTTTTTACTATTAT
8519840 TTTCGCATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (21 bp):
AAGTAAGTTTTTACTATTATG
Found at i:8524129 original size:3 final size:3
Alignment explanation
Indices: 8524121--8524173 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
8524111 TAATTATCAC
8524121 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8524169 TAT TA
1 TAT TA
8524174 AAAAGATGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8527015 original size:3 final size:3
Alignment explanation
Indices: 8527009--8527038 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8526999 TTGGAAGCTT
8527009 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8527039 ATGTTTGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8528328 original size:16 final size:17
Alignment explanation
Indices: 8528297--8528329 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8528287 GTAAATGAAC
8528297 TTTTTCGGACTGTTTAA
1 TTTTTCGGACTGTTTAA
*
8528314 TTTTTGGGACT-TTTAA
1 TTTTTCGGACTGTTTAA
8528330 ATCTCCGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (17 bp):
TTTTTCGGACTGTTTAA
Found at i:8530544 original size:26 final size:27
Alignment explanation
Indices: 8530515--8530566 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
8530505 AACCCACCTT
*
8530515 TAGTACAG-TTTCATTCTTTCAATACC
1 TAGTACAGTTTTCATTCATTCAATACC
*
8530541 TAGTACAGTTTTCGTTCATTCAATAC
1 TAGTACAGTTTTCATTCATTCAATAC
8530567 ATATTACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
TAGTACAGTTTTCATTCATTCAATACC
Found at i:8530574 original size:27 final size:26
Alignment explanation
Indices: 8530515--8530574 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
8530505 AACCCACCTT
* *
8530515 TAGTACAGTTTCATTCTTTCAATACC
1 TAGTACAGTTTCATTCATTCAATACA
*
8530541 TAGTACAGTTTTCGTTCATTCAATACA
1 TAGTACAG-TTTCATTCATTCAATACA
*
8530568 TATTACA
1 TAGTACA
8530575 TTAAATTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (26 bp):
TAGTACAGTTTCATTCATTCAATACA
Found at i:8535705 original size:26 final size:26
Alignment explanation
Indices: 8535648--8535722 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
8535638 TATTACTCAA
* * * *
8535648 TACATTTTCATTCTTTGAATACTTGG
1 TACAGTTTCATTCTTTCAATACCTAG
*
8535674 TGCAGTTTCATTCTTTCAATACCTAG
1 TACAGTTTCATTCTTTCAATACCTAG
* *
8535700 TACAGTTTTCGTTCATTCAATAC
1 TACAG-TTTCATTCTTTCAATAC
8535723 ATATTACATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 25 0.62
27 15 0.38
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (26 bp):
TACAGTTTCATTCTTTCAATACCTAG
Found at i:8542319 original size:2 final size:2
Alignment explanation
Indices: 8542312--8542343 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8542302 ATGTGATGTC
8542312 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8542344 TTACCCTAAG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8551105 original size:18 final size:18
Alignment explanation
Indices: 8551082--8551156 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
8551072 TACGACCATT
*
8551082 TACGGTATTATTCACGTA
1 TACGGTACTATTCACGTA
*
8551100 TACGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
* *
8551118 TACGGCACTATTCACATA
1 TACGGTACTATTCACGTA
*
8551136 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
8551154 TAC
1 TAC
8551157 AGTAGTTGGG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:8557412 original size:73 final size:73
Alignment explanation
Indices: 8557324--8557509 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
8557314 ACAACTTGAC
*
8557324 AACTTAGTTGAAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
8557389 CACTAACA
66 CACTAACA
8557397 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
8557462 CACTAACA
66 CACTAACA
*
8557470 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
8557510 AATAATAATA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:8557518 original size:3 final size:3
Alignment explanation
Indices: 8557510--8557535 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8557500 ATTACATCCA
8557510 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
8557536 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8566782 original size:16 final size:15
Alignment explanation
Indices: 8566758--8566795 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8566748 GCCCGGGCCC
8566758 AAAAAAACA-AATAAT
1 AAAAAAACATAA-AAT
8566773 AAATAAAACATAAAAT
1 AAA-AAAACATAAAAT
8566789 AAAAAAA
1 AAAAAAA
8566796 GCCCAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 12 0.57
17 2 0.10
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAAAACATAAAAT
Found at i:8567913 original size:10 final size:10
Alignment explanation
Indices: 8567898--8567933 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
8567888 AAAGTGCTCT
8567898 TTTATTATAA
1 TTTATTATAA
8567908 TTTATTATAA
1 TTTATTATAA
8567918 TTT-TTAT-A
1 TTTATTATAA
8567926 TTTATTAT
1 TTTATTAT
8567934 TTATTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 4 0.16
9 8 0.32
10 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATTATAA
Found at i:8568056 original size:23 final size:22
Alignment explanation
Indices: 8568019--8568077 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
8568009 ATATTTCAAA
*
8568019 TTTATATATATTTAAAAACTGT
1 TTTATATTTATTTAAAAACTGT
*
8568041 TTTATATGTTATTTAAAAACTTT
1 TTTATAT-TTATTTAAAAACTGT
8568064 TTTATTATTTATTT
1 TTTA-TATTTATTT
8568078 TGAATTGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 7 0.21
23 23 0.70
24 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTATATTTATTTAAAAACTGT
Found at i:8570949 original size:27 final size:27
Alignment explanation
Indices: 8570919--8570982 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
8570909 CGCCAATGGG
8570919 ATTGGCGGCACCAAAGGTGCCAA-AGCC
1 ATTGGCGGCACCAAAGGTGCCAATA-CC
*
8570946 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAATACC
8570973 ATTGGCGGCA
1 ATTGGCGGCA
8570983 GCAAGTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.27, C:0.28, G:0.30, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAATACC
Found at i:8571038 original size:4 final size:4
Alignment explanation
Indices: 8571029--8571135 Score: 112
Period size: 4 Copynumber: 26.0 Consensus size: 4
8571019 GAAGGAGAGG
*
8571029 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA TGAGAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA
*
8571079 G-AA -AAA GAAG GAAA GAAAA GGAAA GGAGAA GAAA -AAA GAAA GAAA
1 GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA GAAA GAAA GAAA GAAA
*
8571124 GAAG GAAA GAAA
1 GAAA GAAA GAAA
8571136 AGGAAATGAG
Statistics
Matches: 89, Mismatches: 6, Indels: 16
0.80 0.05 0.14
Matches are distributed among these distances:
3 7 0.08
4 63 0.71
5 15 0.17
6 4 0.04
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:8571076 original size:18 final size:17
Alignment explanation
Indices: 8571037--8571135 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 17
8571027 GGGAAAGAAA
*
8571037 GAAAGAAAGAAAGA-AA
1 GAAAGAAAGAAAGAGAG
8571053 GAAAGAAAGAAATGAGAG
1 GAAAGAAAGAAA-GAGAG
*
8571071 GAAAGAAAGAAAAAGAAG
1 GAAAGAAAGAAAGAG-AG
*
8571089 GAAAGAAAAGGAAAGGAGAA
1 GAAAG-AAA-GAAA-GAGAG
*
8571109 GAAA-AAAGAAAGA-AA
1 GAAAGAAAGAAAGAGAG
*
8571124 GAAGGAAAGAAA
1 GAAAGAAAGAAA
8571136 AGGAAATGAG
Statistics
Matches: 71, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
15 5 0.07
16 21 0.30
17 8 0.11
18 23 0.32
19 3 0.04
20 9 0.13
21 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (17 bp):
GAAAGAAAGAAAGAGAG
Found at i:8571131 original size:39 final size:39
Alignment explanation
Indices: 8571031--8571196 Score: 172
Period size: 39 Copynumber: 4.4 Consensus size: 39
8571021 AGGAGAGGGA
*
8571031 AAGAAAGAAAGAAAGAAAGAAAGAAAG-AAA-GAAATGAG
1 AAGAAA-AAAGAAAGAAAGAAGGAAAGAAAAGGAAATGAG
* *
8571069 AGGAAAGAAAG-AA-AAAGAAGGAAAGAAAAGGAAAGGAG
1 AAGAAA-AAAGAAAGAAAGAAGGAAAGAAAAGGAAATGAG
8571107 AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAATGAG
1 AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAATGAG
* * *
8571146 AAGAGAAAA-AAA-AAAGAA-G-AAGAAGAGGGAA-G-G
1 AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAATGAG
*
8571179 AAGGAAAAAGAAAAGAAA
1 AAGAAAAAAG-AAAGAAA
8571197 AGAAAAGGTA
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
33 8 0.07
34 1 0.01
35 13 0.12
36 15 0.14
37 15 0.14
38 27 0.24
39 32 0.29
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (39 bp):
AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAATGAG
Found at i:8571152 original size:18 final size:17
Alignment explanation
Indices: 8571069--8571204 Score: 60
Period size: 17 Copynumber: 8.2 Consensus size: 17
8571059 AAGAAATGAG
8571069 AGGAAAGA-AAGA-AAA
1 AGGAAAGAGAAGAGAAA
8571084 A-G-AAG-GAA-AGAAA
1 AGGAAAGAGAAGAGAAA
8571097 AGGAAAGGAGAAGA-AAA
1 AGGAAA-GAGAAGAGAAA
*
8571114 AAGAAAGAAAGAAGGAAAGAAA
1 AGGAAAG--AGAA-G--AGAAA
8571136 AGGAAATGAGAAGAGAAA
1 AGGAAA-GAGAAGAGAAA
* * *
8571154 A-AAAAAAGAAGAAGAAG
1 AGGAAAGAGAAG-AGAAA
*
8571171 AGGGAAG-GAAG-GAAA
1 AGGAAAGAGAAGAGAAA
* *
8571186 AAGAAA-AGAAAAGAAA
1 AGGAAAGAGAAGAGAAA
8571202 AGG
1 AGG
8571205 TAATTTTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 35
0.65 0.09 0.25
Matches are distributed among these distances:
12 1 0.01
13 9 0.10
14 2 0.02
15 13 0.14
16 13 0.14
17 23 0.26
18 13 0.14
19 1 0.01
20 1 0.01
21 5 0.06
22 8 0.09
23 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (17 bp):
AGGAAAGAGAAGAGAAA
Found at i:8571179 original size:79 final size:73
Alignment explanation
Indices: 8571028--8571201 Score: 194
Period size: 75 Copynumber: 2.3 Consensus size: 73
8571018 AGAAGGAGAG
*
8571028 GGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAATGAGAGGAAAGAAAGAAAAAGAAGGAAA
1 GGAAAGAAA-AAAGAAAGAAAGAAAGAAAGAAAGAAATGAGAGGAAAGAAAAAAAAAGAAGGAAA
8571093 GAAAAGGAAA
65 GAAAAGG-AA
* * *
8571103 GGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAATGAGAAGAGA-AAAAAAAAAGAA-G-
1 GGA-AAGAAAAAAGAAAGAAAGAAAGAAAG-AAA-GAAATGAGAGGAAAGAAAAAAAAAGAAGGA
*
8571165 AAGAAGAGGGAA
63 AAGAA-AAGGAA
*
8571177 GG-AAGGAAAAAGAAAAGAAAAGAAA
1 GGAAAGAAAAAAG-AAAG-AAAGAAA
8571202 AGGTAATTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
72 9 0.10
73 4 0.05
74 15 0.17
75 26 0.30
76 20 0.23
77 12 0.14
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (73 bp):
GGAAAGAAAAAAGAAAGAAAGAAAGAAAGAAAGAAATGAGAGGAAAGAAAAAAAAAGAAGGAAAG
AAAAGGAA
Found at i:8572061 original size:26 final size:26
Alignment explanation
Indices: 8572007--8572073 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
8571997 TTTTTTTTGG
*
8572007 ATATATTTTGGTAAATAAAAATATAT
1 ATATATTTTGGTAAATAAAAAAATAT
*
8572033 ATATTTTTTGGTAAATAAAAAAAGT-T
1 ATATATTTTGGTAAATAAAAAAA-TAT
*
8572059 ATAAAATTTTGGTAA
1 AT-ATATTTTGGTAA
8572074 TTTTTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 24 0.69
27 11 0.31
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (26 bp):
ATATATTTTGGTAAATAAAAAAATAT
Found at i:8576709 original size:18 final size:18
Alignment explanation
Indices: 8576686--8576723 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8576676 ATCCCAATGA
8576686 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
8576704 TCGCCAGCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
8576722 TC
1 TC
8576724 ACCATCAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.47, G:0.08, T:0.34
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:8577333 original size:15 final size:12
Alignment explanation
Indices: 8577301--8577326 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8577291 AATTTATAGT
8577301 CAAAATAATACA
1 CAAAATAATACA
8577313 CAAAATAATACA
1 CAAAATAATACA
8577325 CA
1 CA
8577327 CTAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.15
Consensus pattern (12 bp):
CAAAATAATACA
Found at i:8577462 original size:3 final size:3
Alignment explanation
Indices: 8577454--8577494 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8577444 TCTTAATACT
8577454 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
8577495 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:8577583 original size:19 final size:21
Alignment explanation
Indices: 8577559--8577597 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8577549 CTAAAACAAA
*
8577559 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
8577578 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
8577598 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:8577661 original size:10 final size:11
Alignment explanation
Indices: 8577621--8577660 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
8577611 AAAAAAATAC
8577621 CTTCTTTTTCT
1 CTTCTTTTTCT
*
8577632 CCTCTTTTTCT
1 CTTCTTTTTCT
8577643 C-TCTTTTTCT
1 CTTCTTTTTCT
8577653 CTTCTTTT
1 CTTCTTTT
8577661 CCGCAATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:8577712 original size:58 final size:58
Alignment explanation
Indices: 8577648--8577768 Score: 197
Period size: 58 Copynumber: 2.1 Consensus size: 58
8577638 TTTCTCTCTT
* * *
8577648 TTTCTCTTCTTTTCCGCAATAACTCTTCTTCTTCTTTTTCTTTTTCTTTTGATTTTTC
1 TTTCTCTTCTTTTCCACAATAACTCTTCTTCTTCTTCTTCTTCTTCTTTTGATTTTTC
* *
8577706 TTTCTCTTCTTTTTCACAGTAACTCTTCTTCTTCTTCTTCTTCTTCTTTTGATTTTTC
1 TTTCTCTTCTTTTCCACAATAACTCTTCTTCTTCTTCTTCTTCTTCTTTTGATTTTTC
8577764 TTTCT
1 TTTCT
8577769 TCAGCTGGAC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.08, C:0.25, G:0.03, T:0.64
Consensus pattern (58 bp):
TTTCTCTTCTTTTCCACAATAACTCTTCTTCTTCTTCTTCTTCTTCTTTTGATTTTTC
Found at i:8577735 original size:3 final size:3
Alignment explanation
Indices: 8577729--8577753 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8577719 TCACAGTAAC
8577729 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
8577754 TTGATTTTTC
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:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:8577904 original size:27 final size:27
Alignment explanation
Indices: 8577804--8577891 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
8577794 AATACGAGTA
8577804 GTGCCGCCAAT--CAATATGGCACCATTG
1 GTGCCGCCAATGGC-AT-TGGCACCATTG
8577831 GTGCCGCCAATGGCATTGGCACCATTG
1 GTGCCGCCAATGGCATTGGCACCATTG
** *
8577858 GTGCCGCCAATGGTTTTGGCACCTTTG
1 GTGCCGCCAATGGCATTGGCACCATTG
8577885 GTGCCGC
1 GTGCCGC
8577892 TAATCCCATT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
27 53 0.95
28 2 0.04
29 1 0.02
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (27 bp):
GTGCCGCCAATGGCATTGGCACCATTG
Found at i:8577999 original size:27 final size:29
Alignment explanation
Indices: 8577964--8578033 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
8577954 TTTATTTTTT
8577964 TATATATTTTGGTAAAT-AAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
*
8577991 TATATATTTTAGTAAATAAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
*
8578020 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
8578034 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.42
28 17 0.45
29 5 0.13
ACGTcount: A:0.50, C:0.01, G:0.09, T:0.40
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAAGTTA
Found at i:8585000 original size:12 final size:13
Alignment explanation
Indices: 8584983--8585019 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
8584973 GAACCGGACA
8584983 CGAACCGAA-CTC
1 CGAACCGAAGCTC
8584995 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
8585007 CGAACCGTAGCTC
1 CGAACCGAAGCTC
8585020 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:8586290 original size:16 final size:17
Alignment explanation
Indices: 8586271--8586309 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
8586261 TTATTATTTT
8586271 TAAAATTA-TAAAAATA
1 TAAAATTATTAAAAATA
*
8586287 TAAAATCATTAAAAATA
1 TAAAATTATTAAAAATA
8586304 -AAAATT
1 TAAAATT
8586310 CAAAATATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAATTATTAAAAATA
Found at i:8594378 original size:17 final size:16
Alignment explanation
Indices: 8594356--8594394 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
8594346 AAAAATGAAC
8594356 TTTTAAATATTTTTAGT
1 TTTTAAATATTTTTA-T
*
8594373 TTTTAAATTTTTTTAT
1 TTTTAAATATTTTTAT
8594389 TTTTAA
1 TTTTAA
8594395 TTTTTAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTAAATATTTTTAT
Found at i:8594384 original size:16 final size:15
Alignment explanation
Indices: 8594356--8594399 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
8594346 AAAAATGAAC
8594356 TTTTAAATATTTTTAGT
1 TTTTAAAT-TTTTTA-T
8594373 TTTTAAATTTTTTTAT
1 TTTTAAA-TTTTTTAT
8594389 TTTT-AATTTTT
1 TTTTAAATTTTT
8594400 AAGAAGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 2 0.08
16 5 0.19
17 13 0.50
18 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTAAATTTTTTAT
Found at i:8601027 original size:41 final size:40
Alignment explanation
Indices: 8601006--8601111 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 40
8600996 GACTTTAAGT
*
8601006 CTAGCAGGCTAAGTGCCGGTG-ATCTGAACCAGGTTATGAAC
1 CTAGCAGGCTAAGTGCCGGTGAAT-TGAATCAGGTTAT-AAC
*
8601047 CTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGTTAT-AAC
*
8601088 CTAGCAGGCTACGTGCCGGTGAAT
1 CTAGCAGGCTAAGTGCCGGTGAAT
8601112 ATTTTAAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 58 0.98
42 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
CTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGTTATAAC
Found at i:8608476 original size:16 final size:16
Alignment explanation
Indices: 8608455--8608488 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8608445 AATAAATTAC
8608455 TAAAAAT-TTATAAAAA
1 TAAAAATATT-TAAAAA
8608471 TAAAAATATTTAAAAA
1 TAAAAATATTTAAAAA
8608487 TA
1 TA
8608489 GAGAAAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAATATTTAAAAA
Found at i:8609297 original size:9 final size:9
Alignment explanation
Indices: 8609283--8609308 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8609273 TAGGTAAAAG
8609283 TTGAAAATT
1 TTGAAAATT
8609292 TTGAAAATT
1 TTGAAAATT
8609301 TTGAAAAT
1 TTGAAAAT
8609309 AGGGGACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (9 bp):
TTGAAAATT
Found at i:8610350 original size:75 final size:74
Alignment explanation
Indices: 8610227--8610500 Score: 259
Period size: 75 Copynumber: 3.7 Consensus size: 74
8610217 AAGTTTTTCA
** * * * * * ** * *
8610227 CCCAGCGCTAGTTAGAT-AACTGGCAATTATAATGATGTGCCCAACACTAGTCACATAAACTGAT
1 CCCAGCGCTAGTCGGATAAACCGACAAATATAATGGTGTGCTCTGCACTAGTCAGATAAACTGAC
8610291 GAAAGTTATG
66 GAAAGTTA-G
* * *
8610301 CCCAGTGCTAGTCGGATAAACCGACAAATATAATGGTGTGCTCTGCACTAGTTAGATAAATTGAC
1 CCCAGCGCTAGTCGGATAAACCGACAAATATAATGGTGTGCTCTGCACTAGTCAGATAAACTGAC
8610366 GAAAGTT-G
66 GAAAGTTAG
* * * * *
8610374 CGCCAAGCGCTAGTCGAATAAACCGACAAATATAATGGTGTGCCCTACACTAGCCAGATAAACTA
1 C-CC-AGCGCTAGTCGGATAAACCGACAAATATAATGGTGTGCTCTGCACTAGTCAGATAAACTG
8610439 ACG-AAGATTGAG
64 ACGAAAG-TT-AG
* * *
8610451 CCCAGCACTAGTCGGATAAACCGACAGATATAGAGGGTGTG-TCTAGCACT
1 CCCAGCGCTAGTCGGATAAACCGACAAATATA-ATGGTGTGCTCT-GCACT
8610501 GGTTGGCTAA
Statistics
Matches: 164, Mismatches: 28, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
73 2 0.01
74 19 0.12
75 128 0.78
76 13 0.08
77 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (74 bp):
CCCAGCGCTAGTCGGATAAACCGACAAATATAATGGTGTGCTCTGCACTAGTCAGATAAACTGAC
GAAAGTTAG
Found at i:8614119 original size:5 final size:5
Alignment explanation
Indices: 8614088--8614118 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
8614078 TGAGCATTCG
*
8614088 ATCGA ATCGA ATCGA ATCGA ATCGA AACGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
8614119 AATTTTCGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.16
Consensus pattern (5 bp):
ATCGA
Found at i:8615154 original size:9 final size:9
Alignment explanation
Indices: 8615140--8615176 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
8615130 TATAGTTTGA
8615140 TATTCGAAT
1 TATTCGAAT
8615149 TATTCGAAT
1 TATTCGAAT
*
8615158 TATTCGAGT
1 TATTCGAAT
8615167 TATTCGAAT
1 TATTCGAAT
8615176 T
1 T
8615177 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:8619064 original size:15 final size:13
Alignment explanation
Indices: 8619026--8619080 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
8619016 GAACTTTGTA
*
8619026 TGTGCGAACCCCTA
1 TGTGCGAA-CCCTT
*
8619040 AGTGCGAACCCTACT
1 TGTGCGAACCCT--T
*
8619055 TGTGCAAACCCTT
1 TGTGCGAACCCTT
8619068 TGTGCGAACCCTT
1 TGTGCGAACCCTT
8619081 AGGTGCGAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 17 0.50
14 7 0.21
15 10 0.29
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (13 bp):
TGTGCGAACCCTT
Found at i:8619088 original size:14 final size:14
Alignment explanation
Indices: 8619024--8619093 Score: 63
Period size: 14 Copynumber: 5.0 Consensus size: 14
8619014 ACGAACTTTG
*
8619024 TATGTGCGAACCCC
1 TATGTGCGAACCCT
*
8619038 TAAGTGCGAACCC-
1 TATGTGCGAACCCT
*
8619051 TACTTGTGCAAACCCT
1 TA--TGTGCGAACCCT
8619067 T-TGTGCGAACCCT
1 TATGTGCGAACCCT
* *
8619080 TAGGTGCGAGCCCT
1 TATGTGCGAACCCT
8619094 ACCTATGTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
13 14 0.30
14 22 0.48
15 9 0.20
16 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (14 bp):
TATGTGCGAACCCT
Found at i:8619107 original size:42 final size:41
Alignment explanation
Indices: 8619026--8619109 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 41
8619016 GAACTTTGTA
8619026 TGTGCGAACCCCTAAGTGCGAACCCTACTTGTGCAAACCCTT
1 TGTGCGAACCCCTAAGTGCGAACCCTACTTGTG-AAACCCTT
* * * *
8619068 TGTGCGAACCCTTAGGTGCGAGCCCTACCTATGTGAACCCCT
1 TGTGCGAACCCCTAAGTGCGAACCCTA-CT-TGTGAAACCCT
8619110 GAGTGTGCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 24 0.67
43 8 0.22
44 4 0.11
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.24
Consensus pattern (41 bp):
TGTGCGAACCCCTAAGTGCGAACCCTACTTGTGAAACCCTT
Found at i:8626057 original size:422 final size:418
Alignment explanation
Indices: 8625548--8626794 Score: 1178
Period size: 422 Copynumber: 3.0 Consensus size: 418
8625538 CCCTTTCAAG
* * * *
8625548 AAACAATATAAATAGTAAGTCATTTTCCTAATTTTACATAACAAACAAACAACAAT-TTGTCTCT
1 AAACAACATAAATAGCAGGTCATTTTCCTCATTTTACATAACAAACAAACAACAATCTT-TCTCT
* * * * * *
8625612 CATGCTCTTTTTCTTTTGTCTGTTTTCTTTTTACCAATTTTTTAGTCAAATTTTCGACTACATTT
65 CATTCTCCTTTTCTTTCGTCTGTTTTCTTTTTAACAATTTTTCAGTCAAATTTTCAACTACATTT
* * * *
8625677 TCTGCTTTGTTTT-TCAATTTCTTTCGAGAAAAACATTATCAATTGTGTTTCACCTTCTTTATTC
130 TCTGCTTTGTTTTAT-GATTTCTTTCGAGAAGAGCAATATCAATTGTGTTTCACCTTCTTTATTC
* * * * ** *
8625741 GTGTGTACGAATCGCCACTTGACCTAGTTCGTGTCTGTTTCCGTCTTAACACGTGTCTTTGACAG
194 GAGTGTACGAATCGCCGCTAGACCTAGTTCGTGTCTATTTCCGTCTTAACACGTGTCTACGACAC
* * *
8625806 GTACCCCGCGTGTTTCTTTTTAGAAAATTTTTCTGTTTTTTTTTCAACTTTTTTTTCAAAATATT
259 GTACCACGCGTGTTTCTTTTTGGAAAATTTTTATGTTTTTTTTT-AA-TTTTTTTT-AAAATATT
* * * * * *
8625871 TTCAATTACAGAAAATCATCTAACTGTTGTGGAAAATCTGATAAGTTTCATTGTTTAAAGAAACT
321 TTCAATTGCGGAAAATC-TCTAACTGTTGTGAAAAATCTGGTAAGTTGCATTTTTTAAAGAAACT
* * *
8625936 GACACTGCGTGTTTTACCGTTTTACTCC-TTTGGA
385 AACACTGCATGTTTTACCGTTTTAC-CCTTTTAGA
* * * *
8625970 AAATAGCATAAATAGCGGGTCATTTTCCTCATTTTACATAACAAGCAAACAACAATCTTTCTCTC
1 AAACAACATAAATAGCAGGTCATTTTCCTCATTTTACATAACAAACAAACAACAATCTTTCTCTC
* ** * * ** *
8626035 ATTCTCCTTTTCTTTCGTCTGTTTTATTTTTAGTAGTTTTTCAGTCAATTTTTTTACTACAATTT
66 ATTCTCCTTTTCTTTCGTCTGTTTTCTTTTTAACAATTTTTCAGTCAAATTTTCAACTACATTTT
* * * * * **
8626100 CTGTTTTGTTTTATGATTCCTTTCGAGAAGAGTAATATCAATTGTGTTCCACCTTTTTTATTTAA
131 CTGCTTTGTTTTATGATTTCTTTCGAGAAGAGCAATATCAATTGTGTTTCACCTTCTTTATTCGA
** ** * * * * *
8626165 GTGTACGAGCCGCCGCCCGA-CTA----G-GTCTATTTCCATGTTAACATGTATCTACAACACGT
196 GTGTACGAATCGCCGCTAGACCTAGTTCGTGTCTATTTCCGTCTTAACACGTGTCTACGACACGT
* * * * * *
8626224 ACCGCACGTGTTTCCTTTTGGATAAA-ATTTATGTTTTTCTTTTTTAAATTATTTTAAAAATATT
261 ACCACGCGTGTTTCTTTTTGGA-AAATTTTTATG--TTT-TTTTTT-AATTTTTTTTAAAATATT
* * ** *
8626288 TTCAATTGCGGAAAATTCTCTGATTGTTGCAAAAAAATCTGGTCAA-TTGCATTTTTTGAAGAAA
321 TTCAATTGCGGAAAA-TCTCTAACTGTTG-TGAAAAATCTGGT-AAGTTGCATTTTTTAAAGAAA
* * * *
8626352 CTAACACT--ATATTTAACCATTTTGCCCTTTTAGA
383 CTAACACTGCATGTTTTACCGTTTTACCCTTTTAGA
* * * * *
8626386 AAACAATATAAATAGCAGGTCATTTTTCTC-TGTTTACATAACAACCAAACATCAATCTTTATCT
1 AAACAACATAAATAGCAGGTCATTTTCCTCAT-TTTACATAACAAACAAACAACAATCTTTCTCT
* * * *
8626450 CATTCTCCTTTTCTCTCATCTGATTTCTTTTTAACAA-TTTTCAATCAAATTTTCAACTACATTT
65 CATTCTCCTTTTCTTTCGTCTGTTTTCTTTTTAACAATTTTTCAGTCAAATTTTCAACTACA--T
* * *
8626514 TTTTTGCTTTGTTTTATGATTTCTTTCGAGAAGTGCAATATCAATTGTGTTTCACCTTCTTTACT
128 TTTCTGCTTTGTTTTATGATTTCTTTCGAGAAGAGCAATATCAATTGTGTTTCACCTTCTTTATT
* * * * * * * *
8626579 CGGGTATACAAATCGCCGCTCAGACTTGGTATGGCGTGTCCATGTCCGTCTTAACACATGTCTAC
193 CGAGTGTACGAATCGCCGCT-AGACCTAGT-T--CGTGTCTATTTCCGTCTTAACACGTGTCTAC
* * * * *
8626644 GACACGTACCATGTGTGTTTCTTTTTGGATAATTTTTTTGGTTTTTTCTT--TTTTTTTTAAAAT
254 GACACGTACCACGCGTGTTTCTTTTTGGAAAATTTTTAT-GTTTTTTTTTAATTTTTTTTAAAAT
* * * * * * *
8626707 ATTTTCAGTTGTGGAAAATCCTCTAACTATTGTGAAAAATCTGGTCAGTTGCTTTTTTTTAGGAA
318 ATTTTCAATTGCGGAAAAT-CTCTAACTGTTGTGAAAAATCTGGTAAGTTGCATTTTTTAAAGAA
*
8626772 ACTAACAATGCATGTTTTACCGT
382 ACTAACACTGCATGTTTTACCGT
8626795 GTTGCCCCAC
Statistics
Matches: 650, Mismatches: 146, Indels: 57
0.76 0.17 0.07
Matches are distributed among these distances:
415 23 0.04
416 150 0.23
417 103 0.16
418 44 0.07
419 11 0.02
420 1 0.00
421 37 0.06
422 209 0.32
423 12 0.02
425 5 0.01
426 6 0.01
427 48 0.07
428 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.43
Consensus pattern (418 bp):
AAACAACATAAATAGCAGGTCATTTTCCTCATTTTACATAACAAACAAACAACAATCTTTCTCTC
ATTCTCCTTTTCTTTCGTCTGTTTTCTTTTTAACAATTTTTCAGTCAAATTTTCAACTACATTTT
CTGCTTTGTTTTATGATTTCTTTCGAGAAGAGCAATATCAATTGTGTTTCACCTTCTTTATTCGA
GTGTACGAATCGCCGCTAGACCTAGTTCGTGTCTATTTCCGTCTTAACACGTGTCTACGACACGT
ACCACGCGTGTTTCTTTTTGGAAAATTTTTATGTTTTTTTTTAATTTTTTTTAAAATATTTTCAA
TTGCGGAAAATCTCTAACTGTTGTGAAAAATCTGGTAAGTTGCATTTTTTAAAGAAACTAACACT
GCATGTTTTACCGTTTTACCCTTTTAGA
Found at i:8626808 original size:13 final size:13
Alignment explanation
Indices: 8626790--8626815 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8626780 TGCATGTTTT
8626790 ACCGTGTTGCCCC
1 ACCGTGTTGCCCC
8626803 ACCGTGTTGCCCC
1 ACCGTGTTGCCCC
8626816 TTCGAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.46, G:0.23, T:0.23
Consensus pattern (13 bp):
ACCGTGTTGCCCC
Found at i:8626872 original size:14 final size:14
Alignment explanation
Indices: 8626861--8626908 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
8626851 GTAAAATGTT
8626861 TTTC-GGAAAATGA
1 TTTCTGGAAAATGA
8626874 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
8626888 TTTACT-GAAAAT-A
1 TTT-CTGGAAAATGA
8626901 TTTTCTGG
1 -TTTCTGG
8626909 TGTTTGGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 7 0.23
14 22 0.71
15 2 0.06
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:8626885 original size:28 final size:28
Alignment explanation
Indices: 8626853--8626908 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
8626843 GTTTGCCAGT
* *
8626853 AAAATGTTTTTCGGAAAATGA-TTTCTGG
1 AAAATGATTTACGGAAAAT-ATTTTCTGG
*
8626881 AAAATGATTTACTGAAAATATTTTCTGG
1 AAAATGATTTACGGAAAATATTTTCTGG
8626909 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (28 bp):
AAAATGATTTACGGAAAATATTTTCTGG
Found at i:8636937 original size:11 final size:11
Alignment explanation
Indices: 8636921--8636945 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8636911 CTTTTAATTA
8636921 TTTTATTTTAT
1 TTTTATTTTAT
8636932 TTTTATTTTAT
1 TTTTATTTTAT
8636943 TTT
1 TTT
8636946 GTTTCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:8643643 original size:123 final size:124
Alignment explanation
Indices: 8643476--8643732 Score: 419
Period size: 123 Copynumber: 2.1 Consensus size: 124
8643466 ATTTATGACT
* *
8643476 AATTTGAGTAACACATCAACATCGTGACGTAAAAAAACTAATATATATATATATTATAAGC-TAT
1 AATTTGAGTAACACATCAACATCGTCACCTAAAAAAACTAATATATATATATATTATAAGCATAT
8643540 ACTACTAAGCAAAGAAACATTCCAACATGACATCC-TATATTTATGACAAATAGACATCC
66 ACTACTAAGCAAAGAAACATTCCAACATGACATCCTTATATTTATGACAAATAGA-ATCC
* *
8643599 AATTTGAGTAACACATCAACATCGTCACCTAAGAAAATTAATATATATATATATTATAAGCTATA
1 AATTTGAGTAACACATCAACATCGTCACCTAAAAAAACTAATATATATATATATTATAAGC-ATA
** *
8643664 TACTACTAATTAAAGAAACATTCCAACATGACATCCTTATATTTATGGCAAATAGAATCC
65 TACTACTAAGCAAAGAAACATTCCAACATGACATCCTTATATTTATGACAAATAGAATCC
8643724 AATTTGAGT
1 AATTTGAGT
8643733 GACGTAAGAA
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
123 57 0.46
125 49 0.40
126 18 0.15
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (124 bp):
AATTTGAGTAACACATCAACATCGTCACCTAAAAAAACTAATATATATATATATTATAAGCATAT
ACTACTAAGCAAAGAAACATTCCAACATGACATCCTTATATTTATGACAAATAGAATCC
Found at i:8651955 original size:30 final size:31
Alignment explanation
Indices: 8651916--8651980 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
8651906 ATTCCTTTAA
*
8651916 ATGTGTACATTT-AAATCAAACTAAAGTTTC
1 ATGTATACATTTAAAATCAAACTAAAGTTTC
* * *
8651946 ATGTATACATTTAAAATGAAATTAAAGTTTT
1 ATGTATACATTTAAAATCAAACTAAAGTTTC
8651977 ATGT
1 ATGT
8651981 GTATAACTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (31 bp):
ATGTATACATTTAAAATCAAACTAAAGTTTC
Found at i:8653383 original size:25 final size:25
Alignment explanation
Indices: 8653354--8653435 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
8653344 TCTGAACCAT
8653354 AGCTCGTGAGAGCATACCGATTTAC
1 AGCTCGTGAGAGCATACCGATTTAC
* *
8653379 AGCTCGTGAGAGCATACCGATCTAT
1 AGCTCGTGAGAGCATACCGATTTAC
*
8653404 AGCT--TGAGTAAGCATACCGATTCAC
1 AGCTCGTGAG--AGCATACCGATTTAC
8653429 AGCTCGT
1 AGCTCGT
8653436 ATAACCATAC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
23 4 0.08
25 43 0.90
27 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTTAC
Found at i:8664256 original size:14 final size:14
Alignment explanation
Indices: 8664222--8664257 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8664212 TATTCAGTAA
*
8664222 TATTATAAATCTAT
1 TATTATTAATCTAT
*
8664236 TATTATTAATTTAT
1 TATTATTAATCTAT
8664250 TATTATTA
1 TATTATTA
8664258 TCACCGCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTATTAATCTAT
Found at i:8672750 original size:23 final size:23
Alignment explanation
Indices: 8672695--8672750 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
8672685 AGATGACTAT
*
8672695 ATATAAAATTTTAATAAATAAAA
1 ATATAAAAATTTAATAAATAAAA
* * *
8672718 ATATATAAATTTATTAAATATTAA
1 ATATAAAAATTTAATAAATA-AAA
8672742 AT-TAAAAAT
1 ATATAAAAAT
8672751 AATATAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATATAAAAATTTAATAAATAAAA
Found at i:8675149 original size:16 final size:16
Alignment explanation
Indices: 8675128--8675159 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8675118 TTCCCTCCTC
8675128 TCTAGTTATAGGTCTT
1 TCTAGTTATAGGTCTT
8675144 TCTAGTTATAGGTCTT
1 TCTAGTTATAGGTCTT
8675160 GATATAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (16 bp):
TCTAGTTATAGGTCTT
Found at i:8675675 original size:30 final size:30
Alignment explanation
Indices: 8675639--8675699 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
8675629 AGACCTTTAG
8675639 CGGCGC-TTCCAACACAAACGCCGCTAAAGA
1 CGGCGCTTTCC-ACACAAACGCCGCTAAAGA
*
8675669 CGGCGCTTTTCACACAAACGCCGCTAAAGA
1 CGGCGCTTTCCACACAAACGCCGCTAAAGA
8675699 C
1 C
8675700 CAAGACCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.31, C:0.36, G:0.20, T:0.13
Consensus pattern (30 bp):
CGGCGCTTTCCACACAAACGCCGCTAAAGA
Found at i:8675730 original size:43 final size:44
Alignment explanation
Indices: 8675669--8675809 Score: 167
Period size: 44 Copynumber: 3.2 Consensus size: 44
8675659 CCGCTAAAGA
8675669 CGGCGCTTTTCACACAAACGCCGCTAAAGACCAAGACC-TTTAG
1 CGGCGCTTTTCACACAAACGCCGCTAAAGACCAAGACCATTTAG
** * *
8675712 CGGCGCTTCCCACACAAACGCCGCTAAAGACGACGACCATTTAG
1 CGGCGCTTTTCACACAAACGCCGCTAAAGACCAAGACCATTTAG
* * * * * * *
8675756 CGGCACTTTTCTCACAAATGCCGCAAAAGACTAAGGCCTTTTAG
1 CGGCGCTTTTCACACAAACGCCGCTAAAGACCAAGACCATTTAG
*
8675800 CGGCGTTTTT
1 CGGCGCTTTT
8675810 GGCAAAAACG
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
43 34 0.42
44 47 0.58
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (44 bp):
CGGCGCTTTTCACACAAACGCCGCTAAAGACCAAGACCATTTAG
Found at i:8681735 original size:16 final size:16
Alignment explanation
Indices: 8681724--8681792 Score: 84
Period size: 16 Copynumber: 4.1 Consensus size: 16
8681714 AGTTATGAAG
8681724 GTTATGTATTATGTAA
1 GTTATGTATTATGTAA
*
8681740 GTTGTGTATTATGTAA
1 GTTATGTATTATGTAA
8681756 GTTATGTAAGTTATGTAA
1 GTTATGT-A-TTATGTAA
**
8681774 GTTAAATATTTATGTAA
1 GTTATGTA-TTATGTAA
8681791 GT
1 GT
8681793 CCGACAACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
16 21 0.46
17 12 0.26
18 13 0.28
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (16 bp):
GTTATGTATTATGTAA
Found at i:8681747 original size:9 final size:9
Alignment explanation
Indices: 8681714--8681777 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
8681704 AGTATATATG
8681714 AGTTATG-A
1 AGTTATGTA
8681722 AGGTTATGT-
1 A-GTTATGTA
8681731 A-TTATGTA
1 AGTTATGTA
*
8681739 AGTTGTGT-
1 AGTTATGTA
8681747 A-TTATGTA
1 AGTTATGTA
8681755 AGTTATGTA
1 AGTTATGTA
8681764 AGTTATGTA
1 AGTTATGTA
8681773 AGTTA
1 AGTTA
8681778 AATATTTATG
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
7 11 0.23
8 4 0.08
9 33 0.69
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:8681860 original size:22 final size:22
Alignment explanation
Indices: 8681829--8681870 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8681819 TAATTTAGTT
*
8681829 ATGTACGTTACGTATCATATTA
1 ATGTAAGTTACGTATCATATTA
* *
8681851 ATGTAAGTTATGTATTATAT
1 ATGTAAGTTACGTATCATAT
8681871 AAGTTATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (22 bp):
ATGTAAGTTACGTATCATATTA
Found at i:8681877 original size:9 final size:9
Alignment explanation
Indices: 8681851--8681945 Score: 81
Period size: 9 Copynumber: 10.6 Consensus size: 9
8681841 TATCATATTA
8681851 ATGTAAGTT
1 ATGTAAGTT
8681860 ATGT-A-TT
1 ATGTAAGTT
*
8681867 ATATAAGTT
1 ATGTAAGTT
*
8681876 ATTTAAGTT
1 ATGTAAGTT
8681885 ATGTAAGTT
1 ATGTAAGTT
*
8681894 GTGTAAGTT
1 ATGTAAGTT
*
8681903 ATGTATAATATT
1 ATG--TAA-GTT
*
8681915 AACGTAAGTT
1 -ATGTAAGTT
8681925 ATGT-A-TT
1 ATGTAAGTT
8681932 ATGTAAGTT
1 ATGTAAGTT
8681941 ATGTA
1 ATGTA
8681946 TAATATTAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
7 11 0.16
8 4 0.06
9 42 0.61
10 2 0.03
11 6 0.09
12 2 0.03
13 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:8681891 original size:18 final size:18
Alignment explanation
Indices: 8681851--8681945 Score: 81
Period size: 16 Copynumber: 5.3 Consensus size: 18
8681841 TATCATATTA
8681851 ATGTAAGTTATGT-A-TT
1 ATGTAAGTTATGTAAGTT
* *
8681867 ATATAAGTTATTTAAGTT
1 ATGTAAGTTATGTAAGTT
*
8681885 ATGTAAGTTGTGTAAGTT
1 ATGTAAGTTATGTAAGTT
* *
8681903 ATGTATAATATTAACGTAAGTT
1 ATG--TAA-GTT-ATGTAAGTT
8681925 ATGT-A-TTATGTAAGTT
1 ATGTAAGTTATGTAAGTT
8681941 ATGTA
1 ATGTA
8681946 TAATATTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
16 23 0.37
17 3 0.05
18 20 0.32
19 1 0.02
20 4 0.06
21 2 0.03
22 10 0.16
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (18 bp):
ATGTAAGTTATGTAAGTT
Found at i:8681924 original size:22 final size:21
Alignment explanation
Indices: 8681896--8681970 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 21
8681886 TGTAAGTTGT
8681896 GTAAGTTATGTATAATATTAA
1 GTAAGTTATGTATAATATTAA
8681917 CGTAAGTTATGTAT--TA-T--
1 -GTAAGTTATGTATAATATTAA
8681934 GTAAGTTATGTATAATATTAA
1 GTAAGTTATGTATAATATTAA
8681955 TGTGATAGTTATGTAT
1 -GT-A-AGTTATGTAT
8681971 TATGTTAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
16 13 0.29
18 2 0.04
19 2 0.04
20 2 0.04
22 15 0.33
23 1 0.02
24 10 0.22
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.45
Consensus pattern (21 bp):
GTAAGTTATGTATAATATTAA
Found at i:8682047 original size:69 final size:69
Alignment explanation
Indices: 8681972--8682166 Score: 293
Period size: 69 Copynumber: 2.8 Consensus size: 69
8681962 GTTATGTATT
*
8681972 ATGTTAATATTTAGAAAATAGCATTTACAATTATTTCTAAAATTATAAAATTTATTATTGAAAAT
1 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAATTTATTATTGAAAAT
8682037 ATAG
66 ATAG
* * *
8682041 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTTTTGAGAAT
1 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAATTTATTATTGAAAAT
8682106 ATAG
66 ATAG
* * * * * *
8682110 GTTTTATTATTTAAAAAATAACATTTACAATTATTTTTAAAATTA-AAAGTTTATTAT
1 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAATTTATTAT
8682167 CAATAAAATT
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 9 0.08
69 105 0.92
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (69 bp):
ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAATTTATTATTGAAAAT
ATAG
Found at i:8684277 original size:19 final size:20
Alignment explanation
Indices: 8684250--8684290 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
8684240 AAAATTTTAA
8684250 TTAAATAAT-TATTAAAA-TT
1 TTAAATAATAT-TTAAAAGTT
*
8684269 TTAAGTAATATTTAAAAGTT
1 TTAAATAATATTTAAAAGTT
8684289 TT
1 TT
8684291 TGATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TTAAATAATATTTAAAAGTT
Found at i:8685031 original size:8 final size:7
Alignment explanation
Indices: 8685011--8685106 Score: 84
Period size: 7 Copynumber: 12.9 Consensus size: 7
8685001 ACCCTTGACA
8685011 CCCTAAC
1 CCCTAAC
*
8685018 CCCTAAAT
1 CCCT-AAC
8685026 CCCTAAC
1 CCCTAAC
8685033 CCCTAAC
1 CCCTAAC
8685040 CCCTAAATCC
1 CCCT-AA--C
8685050 CCCTAAC
1 CCCTAAC
* *
8685057 TCCTAAAT
1 CCCT-AAC
*
8685065 CACTAAC
1 CCCTAAC
8685072 CCCTAAC
1 CCCTAAC
*
8685079 CCCTAAAT
1 CCCT-AAC
*
8685087 TCCTAAC
1 CCCTAAC
8685094 CCCTAAC
1 CCCTAAC
8685101 CCCTAA
1 CCCTAA
8685107 ACCTTAATCT
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
7 47 0.66
8 17 0.24
9 2 0.03
10 5 0.07
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:8685038 original size:22 final size:22
Alignment explanation
Indices: 8685011--8685107 Score: 132
Period size: 22 Copynumber: 4.6 Consensus size: 22
8685001 ACCCTTGACA
8685011 CCCTAACCCCTAAATCCCTAAC
1 CCCTAACCCCTAAATCCCTAAC
8685033 CCCTAACCCCTAAAT--C---C
1 CCCTAACCCCTAAATCCCTAAC
* *
8685050 CCCTAACTCCTAAATCACTAAC
1 CCCTAACCCCTAAATCCCTAAC
*
8685072 CCCTAACCCCTAAATTCCTAAC
1 CCCTAACCCCTAAATCCCTAAC
8685094 CCCTAACCCCTAAA
1 CCCTAACCCCTAAA
8685108 CCTTAATCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
17 15 0.23
19 1 0.02
20 1 0.02
22 49 0.74
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (22 bp):
CCCTAACCCCTAAATCCCTAAC
Found at i:8685054 original size:17 final size:16
Alignment explanation
Indices: 8685032--8685107 Score: 63
Period size: 15 Copynumber: 4.9 Consensus size: 16
8685022 AAATCCCTAA
8685032 CCCCTAACCCCTAAAT
1 CCCCTAACCCCTAAAT
*
8685048 CCCCCTAACTCCTAAAT
1 -CCCCTAACCCCTAAAT
*
8685065 -CACTAACCCCT-AA-
1 CCCCTAACCCCTAAAT
**
8685078 CCCCTAAATTCCT-AA-
1 CCCCT-AACCCCTAAAT
8685093 CCCCTAACCCCTAAA
1 CCCCTAACCCCTAAA
8685108 CCTTAATCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
14 10 0.21
15 23 0.48
17 15 0.31
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (16 bp):
CCCCTAACCCCTAAAT
Found at i:8685055 original size:39 final size:37
Alignment explanation
Indices: 8685011--8685099 Score: 133
Period size: 39 Copynumber: 2.4 Consensus size: 37
8685001 ACCCTTGACA
*
8685011 CCCTAACCCCTAAATCCCTAACCCCTAACCCCTAAAT
1 CCCTAACCCCTAAATCACTAACCCCTAACCCCTAAAT
*
8685048 CCCCCTAACTCCTAAATCACTAACCCCTAACCCCTAAAT
1 --CCCTAACCCCTAAATCACTAACCCCTAACCCCTAAAT
*
8685087 TCCTAACCCCTAA
1 CCCTAACCCCTAA
8685100 CCCCTAAACC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 11 0.24
39 35 0.76
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (37 bp):
CCCTAACCCCTAAATCACTAACCCCTAACCCCTAAAT
Found at i:8685790 original size:42 final size:41
Alignment explanation
Indices: 8685743--8685874 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
8685733 ACTCCAACAC
8685743 TAGCGGCGCTTTACAAACAAACGCCACTAAAAACCTTAACTA
1 TAGCGGCGC-TTACAAACAAACGCCACTAAAAACCTTAACTA
* * * * *
8685785 TAGCGGCGCATTATC-AA-AAATGCCGCTAAAAGCCCTAAAGT-
1 TAGCGGCGC-TTA-CAAACAAACGCCACTAAAA-ACCTTAACTA
* * *
8685826 TAGCGGCGCTCAGAAACAAACGCCACTAAAAACCATAAC-A
1 TAGCGGCGCTTACAAACAAACGCCACTAAAAACCTTAACTA
8685866 TTAGCGGCG
1 -TAGCGGCG
8685875 TTTGTTTAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
40 8 0.11
41 41 0.59
42 20 0.29
43 1 0.01
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (41 bp):
TAGCGGCGCTTACAAACAAACGCCACTAAAAACCTTAACTA
Found at i:8685855 original size:41 final size:40
Alignment explanation
Indices: 8685720--8685874 Score: 111
Period size: 41 Copynumber: 3.8 Consensus size: 40
8685710 GTTTCCATCA
* * *
8685720 AAACGCCGCTAAAACTCC-AACACTAGCGGCGCTTTACAAAC
1 AAACGCCACTAAAAC-CCTAA-ATTAGCGGCGCATTACAAAC
* *
8685761 AAACGCCACTAAAAACCTTAACTATAGCGGCGCATTATC-AA-
1 AAACGCCACT-AAAACCCTAAAT-TAGCGGCGCATTA-CAAAC
* * * *
8685802 AAATGCCGCTAAAAGCCCTAAAGTTAGCGGCGC-TCAGAAAC
1 AAACGCCACTAAAA-CCCTAAA-TTAGCGGCGCATTACAAAC
*
8685843 AAACGCCACTAAAAACCATAACATTAGCGGCG
1 AAACGCCACT-AAAACCCTAA-ATTAGCGGCG
8685875 TTTGTTTAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
40 8 0.09
41 54 0.60
42 27 0.30
43 1 0.01
ACGTcount: A:0.39, C:0.29, G:0.16, T:0.15
Consensus pattern (40 bp):
AAACGCCACTAAAACCCTAAATTAGCGGCGCATTACAAAC
Found at i:8688141 original size:36 final size:38
Alignment explanation
Indices: 8688099--8688177 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
8688089 GAGGATTAAA
8688099 ATTCTGCAACAGTCA-A-GATTTTCCTCAACCAAAAAT
1 ATTCTGCAACAGTCAGAGGATTTTCCTCAACCAAAAAT
*
8688135 ATTCTGCAACAGTCAGAGGATTTTCCTCAACCGAAAAT
1 ATTCTGCAACAGTCAGAGGATTTTCCTCAACCAAAAAT
8688173 ATTCT
1 ATTCT
8688178 AGAAAACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 15 0.38
37 1 0.03
38 24 0.60
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.29
Consensus pattern (38 bp):
ATTCTGCAACAGTCAGAGGATTTTCCTCAACCAAAAAT
Found at i:8690291 original size:22 final size:22
Alignment explanation
Indices: 8690260--8690308 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
8690250 CCGCAAAATC
* *
8690260 TCATATTACCTTTAAAGGGCTT
1 TCATACTACCTGTAAAGGGCTT
8690282 TCATACTACCTGTAAAGGGCTT
1 TCATACTACCTGTAAAGGGCTT
8690304 TCATA
1 TCATA
8690309 TCCATAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (22 bp):
TCATACTACCTGTAAAGGGCTT
Found at i:8694391 original size:115 final size:116
Alignment explanation
Indices: 8694216--8694567 Score: 559
Period size: 115 Copynumber: 3.1 Consensus size: 116
8694206 CACATTCAGA
* * * *
8694216 AAACTTCAAATAAAAAAATATGATAATCTAAACCAGAACCAATCTGGATATGAAAAAATTAAATC
1 AAACTTCAAATAAAAAATTATGATAATCTAAACCAGACCCAGTCCGGATATGAAAAAATTAAATC
*
8694281 CCAAAAATTCTAAATACGGAAGCGCCTAAGCTTAACAAATCCAAATCCAAG
66 CCAAAAATTCTAAATACGAAAGCGCCTAAGCTTAACAAATCCAAATCCAAG
* *
8694332 AAACTTCAAAT-AAATATTATGATAACCTAAACCAGACCCAGTCCGGATATGAAAAAATTAAATC
1 AAACTTCAAATAAAAAATTATGATAATCTAAACCAGACCCAGTCCGGATATGAAAAAATTAAATC
*
8694396 CCAAAAATTCTAAACT-CGAAAGCGCCTAAACTTAACAAATCCAAATCCAAG
66 CCAAAAATTCTAAA-TACGAAAGCGCCTAAGCTTAACAAATCCAAATCCAAG
*
8694447 AAACTTCAAATAAAAAATT-TGATAATCTAAACCAGACCCAGT-CTGATATGAAAAAATTAAATC
1 AAACTTCAAATAAAAAATTATGATAATCTAAACCAGACCCAGTCCGGATATGAAAAAATTAAATC
* * *
8694510 CCAAAAATTCTAAACACGAAAGCACCTAAGCTTAACAAATCCAAATCCAAT
66 CCAAAAATTCTAAATACGAAAGCGCCTAAGCTTAACAAATCCAAATCCAAG
8694561 AAACTTC
1 AAACTTC
8694568 CAGAATGAAT
Statistics
Matches: 218, Mismatches: 15, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
114 73 0.33
115 127 0.58
116 18 0.08
ACGTcount: A:0.49, C:0.21, G:0.08, T:0.21
Consensus pattern (116 bp):
AAACTTCAAATAAAAAATTATGATAATCTAAACCAGACCCAGTCCGGATATGAAAAAATTAAATC
CCAAAAATTCTAAATACGAAAGCGCCTAAGCTTAACAAATCCAAATCCAAG
Found at i:8697242 original size:21 final size:22
Alignment explanation
Indices: 8697212--8697253 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
8697202 GATGAAATAA
8697212 TTTTTCCCTATAA-ATACTCAAG
1 TTTTTCCCTATAAGA-ACTCAAG
8697234 TTTTT-CCTATAAGAACTCAA
1 TTTTTCCCTATAAGAACTCAA
8697254 TTAATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.40
Consensus pattern (22 bp):
TTTTTCCCTATAAGAACTCAAG
Found at i:8698688 original size:22 final size:22
Alignment explanation
Indices: 8698644--8698706 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
8698634 TGTTTCCTTG
* *
8698644 TATAATTACATAATGA-TA-TA
1 TATAATTACATATTTATTATTA
*
8698664 TATAAATTATATATTT-TTATTA
1 TAT-AATTACATATTTATTATTA
8698686 TATAATTACATATTTATTATT
1 TATAATTACATATTTATTATT
8698707 TTATTTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 3 0.09
21 22 0.63
22 10 0.29
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (22 bp):
TATAATTACATATTTATTATTA
Found at i:8698958 original size:19 final size:19
Alignment explanation
Indices: 8698925--8698964 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8698915 ACTAAAAATA
* *
8698925 TAATATATTTTATAAGTAT
1 TAATATATATAATAAGTAT
*
8698944 TAATATATATAATAATTAT
1 TAATATATATAATAAGTAT
8698963 TA
1 TA
8698965 TATTATAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TAATATATATAATAAGTAT
Found at i:8699695 original size:20 final size:20
Alignment explanation
Indices: 8699658--8699696 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8699648 AATCTAAAAC
***
8699658 TATAAAAAAAGTTTAGAAAT
1 TATAAAAAAAGAAAAGAAAT
8699678 TATAAAAAAAGAAAAGAAA
1 TATAAAAAAAGAAAAGAAA
8699697 AAAATCAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (20 bp):
TATAAAAAAAGAAAAGAAAT
Found at i:8700239 original size:22 final size:22
Alignment explanation
Indices: 8700200--8700249 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
8700190 CGATTTGATC
* *
8700200 TGAGCCTGACTTTGAAAAAATT
1 TGAGCCCGACTTTAAAAAAATT
*
8700222 TGAGCCCGATTTTAAAAAAATT
1 TGAGCCCGACTTTAAAAAAATT
8700244 TGAGCC
1 TGAGCC
8700250 TGAACAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (22 bp):
TGAGCCCGACTTTAAAAAAATT
Found at i:8700640 original size:14 final size:14
Alignment explanation
Indices: 8700621--8700662 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
8700611 CCGCCCACCC
8700621 ATATTAATTTTTTT
1 ATATTAATTTTTTT
8700635 ATATT-ATTATTTTT
1 ATATTAATT-TTTTT
8700649 ATA-TAATTTTTTT
1 ATATTAATTTTTTT
8700662 A
1 A
8700663 AAATATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATATTAATTTTTTT
Found at i:8701370 original size:24 final size:24
Alignment explanation
Indices: 8701320--8701371 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
8701310 AATCAAAGTC
* **
8701320 AAATATATTATGCTAATAAATGGT
1 AAATATATTATACTAATAAATACT
*
8701344 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
8701368 AAAT
1 AAAT
8701372 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:8706617 original size:19 final size:19
Alignment explanation
Indices: 8706593--8706629 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8706583 TTGAAATTTC
*
8706593 TCCAATTTTCGATTTCAAG
1 TCCAATTTTCGAGTTCAAG
8706612 TCCAATTTTCGAGTTCAA
1 TCCAATTTTCGAGTTCAA
8706630 TTACCAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (19 bp):
TCCAATTTTCGAGTTCAAG
Found at i:8708243 original size:67 final size:67
Alignment explanation
Indices: 8708130--8708372 Score: 253
Period size: 66 Copynumber: 3.7 Consensus size: 67
8708120 CTGTCTTGGC
* * * **
8708130 AGACTACACTAGTTGCCA-AATCTGAGCTATGGTCTTACACCGTAATCCCCATATTTAATATCCT
1 AGACTACACTGGTTGTCATAA-CTGAGCTATGGTCTTACACCTTAATCCCCATATTTAACGTCCT
8708194 GGT
65 GGT
* * * **
8708197 AGACTACATTGGTTGTCATAACTGAGTTATGGTCTTACACCTTAATCCTCC--ATGTAGGGTCCT
1 AGACTACACTGGTTGTCATAACTGAGCTATGGTCTTACACCTTAATCC-CCATATTTAACGTCCT
*
8708260 AGT
65 GGT
* * * * *
8708263 AGACTACACTGGTTGCCATAGCCGAGCTATGG-CTTACCCCTTAATCCCCATGTTTAACGTCCTG
1 AGACTACACTGGTTGTCATAACTGAGCTATGGTCTTACACCTTAATCCCCATATTTAACGTCCTG
8708327 GT
66 GT
* * *
8708329 AGACTGCACTGATTGTCAT-AGTCGAGCTATGGTCTTACACCTTA
1 AGACTACACTGGTTGTCATAACT-GAGCTATGGTCTTACACCTTA
8708373 TAACCTCTTT
Statistics
Matches: 142, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
64 2 0.01
65 14 0.10
66 72 0.51
67 50 0.35
68 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (67 bp):
AGACTACACTGGTTGTCATAACTGAGCTATGGTCTTACACCTTAATCCCCATATTTAACGTCCTG
GT
Found at i:8708368 original size:132 final size:133
Alignment explanation
Indices: 8708130--8708372 Score: 337
Period size: 132 Copynumber: 1.8 Consensus size: 133
8708120 CTGTCTTGGC
* * *
8708130 AGACTACACTAGTTGCCAAATCTGAGCTATGGTCTTACACCGTAATCCCCATATTTAATATCCTG
1 AGACTACACTAGTTGCCAAAGCCGAGCTATGGTCTTACACCGTAATCCCCATATTTAACATCCTG
* * *
8708195 GTAGACTACATTGGTTGTCATAACTGAGTTATGGTCTTACACCTTAATCCTCCATGTAGGGTCCT
66 GTAGACTACACTGATTGTCATAACTGAGCTATGGTCTTACACCTTAATCCTCCATGTAGGGTCCT
8708260 AGT
131 AGT
* * * * * *
8708263 AGACTACACTGGTTGCCATAGCCGAGCTATGG-CTTACCCCTTAATCCCCATGTTTAACGTCCTG
1 AGACTACACTAGTTGCCAAAGCCGAGCTATGGTCTTACACCGTAATCCCCATATTTAACATCCTG
* *
8708327 GTAGACTGCACTGATTGTCAT-AGTCGAGCTATGGTCTTACACCTTA
66 GTAGACTACACTGATTGTCATAACT-GAGCTATGGTCTTACACCTTA
8708373 TAACCTCTTT
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
131 2 0.02
132 65 0.68
133 28 0.29
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (133 bp):
AGACTACACTAGTTGCCAAAGCCGAGCTATGGTCTTACACCGTAATCCCCATATTTAACATCCTG
GTAGACTACACTGATTGTCATAACTGAGCTATGGTCTTACACCTTAATCCTCCATGTAGGGTCCT
AGT
Found at i:8714153 original size:21 final size:21
Alignment explanation
Indices: 8714127--8714170 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
8714117 CAAAAAAAGA
8714127 TTAAAAAATCTTTATTCTAGG
1 TTAAAAAATCTTTATTCTAGG
*
8714148 TTAAAAAATCTTTATTCTGGG
1 TTAAAAAATCTTTATTCTAGG
8714169 TT
1 TT
8714171 TTCGTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (21 bp):
TTAAAAAATCTTTATTCTAGG
Found at i:8714994 original size:10 final size:10
Alignment explanation
Indices: 8714981--8715025 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
8714971 GAAAAGAATG
8714981 GAAAATAAAA
1 GAAAATAAAA
8714991 GAAAA-AAAA
1 GAAAATAAAA
8715000 GAAAATTAAAA
1 GAAAA-TAAAA
*
8715011 GAACATAAAA
1 GAAAATAAAA
8715021 GAAAA
1 GAAAA
8715026 GAATTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 9 0.29
10 14 0.45
11 8 0.26
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (10 bp):
GAAAATAAAA
Found at i:8715009 original size:20 final size:20
Alignment explanation
Indices: 8714981--8715025 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
8714971 GAAAAGAATG
8714981 GAAAATAAAAGAA-AAAAAA
1 GAAAATAAAAGAACAAAAAA
*
8715000 GAAAATTAAAAGAACATAAAA
1 GAAAA-TAAAAGAACAAAAAA
8715021 GAAAA
1 GAAAA
8715026 GAATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 10 0.43
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (20 bp):
GAAAATAAAAGAACAAAAAA
Found at i:8715025 original size:15 final size:15
Alignment explanation
Indices: 8714981--8715028 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
8714971 GAAAAGAATG
8714981 GAAAATAAAAGAAAA
1 GAAAATAAAAGAAAA
* *
8714996 -AAAAGAAAATTAAAA
1 GAAAATAAAA-GAAAA
*
8715011 GAACATAAAAGAAAA
1 GAAAATAAAAGAAAA
8715026 GAA
1 GAA
8715029 TTAAATTGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 8 0.31
15 11 0.42
16 7 0.27
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.08
Consensus pattern (15 bp):
GAAAATAAAAGAAAA
Found at i:8721870 original size:25 final size:24
Alignment explanation
Indices: 8721837--8721885 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
8721827 AATTTAAATT
*
8721837 TTATATTAATTTTAAATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
8721862 TTATATTAATATTAAATAAAATAA
1 TTATATTAATATTAAATAAAATAA
8721886 AAAATCCCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:8723348 original size:26 final size:26
Alignment explanation
Indices: 8723314--8723412 Score: 128
Period size: 26 Copynumber: 3.8 Consensus size: 26
8723304 TATTTTCTCG
* *
8723314 AAATTTTACCGGGGGTAAAATCGTGA
1 AAATTTTACCAGGGGTAAAATCGTCA
**
8723340 AAATTTTACCAGGGGTAAAATTATCA
1 AAATTTTACCAGGGGTAAAATCGTCA
* *
8723366 AAATTTTACCAGTGGTAAAATTGTCA
1 AAATTTTACCAGGGGTAAAATCGTCA
*
8723392 GAATTTTACCA-GGGTAAAATC
1 AAATTTTACCAGGGGTAAAATC
8723413 ATAAAAAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
25 8 0.12
26 56 0.88
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (26 bp):
AAATTTTACCAGGGGTAAAATCGTCA
Found at i:8723397 original size:52 final size:51
Alignment explanation
Indices: 8723314--8723425 Score: 143
Period size: 52 Copynumber: 2.2 Consensus size: 51
8723304 TATTTTCTCG
* * * *
8723314 AAATTTTACCGGGGGTAAAATCGTGAAAATTTTACCAGGGGTAAAATTATCA
1 AAATTTTACCAGGGGTAAAATCGTCAAAATTTTACCA-GGGTAAAATCATAA
* * *
8723366 AAATTTTACCAGTGGTAAAATTGTCAGAATTTTACCAGGGTAAAATCATAA
1 AAATTTTACCAGGGGTAAAATCGTCAAAATTTTACCAGGGTAAAATCATAA
*
8723417 AAAATTTAC
1 AAATTTTAC
8723426 TAAAGGTAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 20 0.38
52 32 0.62
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (51 bp):
AAATTTTACCAGGGGTAAAATCGTCAAAATTTTACCAGGGTAAAATCATAA
Found at i:8723422 original size:26 final size:25
Alignment explanation
Indices: 8723314--8723425 Score: 116
Period size: 26 Copynumber: 4.4 Consensus size: 25
8723304 TATTTTCTCG
* * *
8723314 AAATTTTACCGGGGGTAAAATCGTGA
1 AAATTTTACC-AGGGTAAAATCATCA
*
8723340 AAATTTTACCAGGGGTAAAATTATCA
1 AAATTTTACCA-GGGTAAAATCATCA
**
8723366 AAATTTTACCAGTGGTAAAATTGTCA
1 AAATTTTACCAG-GGTAAAATCATCA
* *
8723392 GAATTTTACCAGGGTAAAATCATAA
1 AAATTTTACCAGGGTAAAATCATCA
*
8723417 AAAATTTAC
1 AAATTTTAC
8723426 TAAAGGTAAG
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
25 18 0.25
26 55 0.75
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (25 bp):
AAATTTTACCAGGGTAAAATCATCA
Found at i:8723434 original size:51 final size:52
Alignment explanation
Indices: 8723327--8723434 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 52
8723317 TTTTACCGGG
* * * * **
8723327 GGTAAAATCGTGAAAATTTTACCAGGGGTAAAATTATCAAAATTTTACCAGT
1 GGTAAAATCGTCAAAATTTTACCAGGGGTAAAATCATAAAAAATTTACCAAA
* * *
8723379 GGTAAAATTGTCAGAATTTTACCA-GGGTAAAATCATAAAAAATTTACTAAA
1 GGTAAAATCGTCAAAATTTTACCAGGGGTAAAATCATAAAAAATTTACCAAA
8723430 GGTAA
1 GGTAA
8723435 GATAGGGATG
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
51 26 0.55
52 21 0.45
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.30
Consensus pattern (52 bp):
GGTAAAATCGTCAAAATTTTACCAGGGGTAAAATCATAAAAAATTTACCAAA
Found at i:8729329 original size:36 final size:36
Alignment explanation
Indices: 8729282--8729385 Score: 190
Period size: 36 Copynumber: 2.9 Consensus size: 36
8729272 GCTAAGCTAC
*
8729282 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
8729318 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
8729354 CACTTATCACTTTTTCACTTGATCAGATAAGT
1 CACTTATCACTTTTTCACTTGATCAGATAAGT
8729386 GTAGCTAAAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
Found at i:8729329 original size:43 final size:42
Alignment explanation
Indices: 8729238--8729365 Score: 128
Period size: 36 Copynumber: 3.1 Consensus size: 42
8729228 TTACGTATGG
* *
8729238 TCACTTATCATTTGTC-CCTGATCAGATAAGTGTAGCTAAGC-TA
1 TCACTTATCATTTGTCACTTGATCAGATAAGTATAGC--A-CTTA
* *
8729281 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAACACTTA
1 TCACTTATCA-TTTGTCACTTGATCAGATAAGTATAGCACTTA
8729324 TCAC---T--TTT-TCACTTGATCAGATAAGTATAGCACTTA
1 TCACTTATCATTTGTCACTTGATCAGATAAGTATAGCACTTA
8729360 TCACTT
1 TCACTT
8729366 TTTCACTTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
36 31 0.42
37 3 0.04
40 1 0.01
42 1 0.01
43 15 0.20
44 6 0.08
45 17 0.23
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (42 bp):
TCACTTATCATTTGTCACTTGATCAGATAAGTATAGCACTTA
Found at i:8735086 original size:49 final size:49
Alignment explanation
Indices: 8735031--8735129 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
8735021 ACATATGGAA
* *
8735031 ATTCATAATTCATGTATATATCAATACAAAACATATACACTCAAAGTTT
1 ATTCATAATTCATGTATATATCAATACAAAACATAAACACTCAAAATTT
8735080 ATTCATAATTCATGTATATATCAATACAAAACATAAACACTCAAAATTT
1 ATTCATAATTCATGTATATATCAATACAAAACATAAACACTCAAAATTT
8735129 A
1 A
8735130 ATCACACGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.33
Consensus pattern (49 bp):
ATTCATAATTCATGTATATATCAATACAAAACATAAACACTCAAAATTT
Found at i:8738495 original size:20 final size:20
Alignment explanation
Indices: 8738467--8738560 Score: 111
Period size: 20 Copynumber: 4.7 Consensus size: 20
8738457 AATGCTATAT
* *
8738467 AGAGGCACCGTAGTTCAAA-C
1 AGAGACACCGAAG-TCAAATC
*
8738487 AGAGACACCGAAGTGAAATC
1 AGAGACACCGAAGTCAAATC
8738507 AGAGACACCGAAGTGCAAA-C
1 AGAGACACCGAAGT-CAAATC
* *
8738527 AGAGAAACCGAAGTGAAATC
1 AGAGACACCGAAGTCAAATC
8738547 AGAGACACCGAAGT
1 AGAGACACCGAAGT
8738561 GCAATCTCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 7 0.11
20 54 0.84
21 3 0.05
ACGTcount: A:0.44, C:0.21, G:0.26, T:0.10
Consensus pattern (20 bp):
AGAGACACCGAAGTCAAATC
Found at i:8738526 original size:40 final size:40
Alignment explanation
Indices: 8738467--8738564 Score: 160
Period size: 40 Copynumber: 2.5 Consensus size: 40
8738457 AATGCTATAT
* * * *
8738467 AGAGGCACCGTAGTTCAAACAGAGACACCGAAGTGAAATC
1 AGAGACACCGAAGTGCAAACAGAGAAACCGAAGTGAAATC
8738507 AGAGACACCGAAGTGCAAACAGAGAAACCGAAGTGAAATC
1 AGAGACACCGAAGTGCAAACAGAGAAACCGAAGTGAAATC
8738547 AGAGACACCGAAGTGCAA
1 AGAGACACCGAAGTGCAA
8738565 TCTCATACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.44, C:0.21, G:0.26, T:0.09
Consensus pattern (40 bp):
AGAGACACCGAAGTGCAAACAGAGAAACCGAAGTGAAATC
Found at i:8738561 original size:20 final size:20
Alignment explanation
Indices: 8738486--8738566 Score: 128
Period size: 20 Copynumber: 4.0 Consensus size: 20
8738476 GTAGTTCAAA
8738486 CAGAGACACCGAAGTGAAAT
1 CAGAGACACCGAAGTGAAAT
8738506 CAGAGACACCGAAGTGCAAA-
1 CAGAGACACCGAAGTG-AAAT
*
8738526 CAGAGAAACCGAAGTGAAAT
1 CAGAGACACCGAAGTGAAAT
*
8738546 CAGAGACACCGAAGTGCAAT
1 CAGAGACACCGAAGTGAAAT
8738566 C
1 C
8738567 TCATACAAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
19 3 0.05
20 50 0.89
21 3 0.05
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.09
Consensus pattern (20 bp):
CAGAGACACCGAAGTGAAAT
Found at i:8745777 original size:19 final size:18
Alignment explanation
Indices: 8745753--8745806 Score: 83
Period size: 17 Copynumber: 3.0 Consensus size: 18
8745743 ATTGATTTAT
8745753 TAATTTTTTTTAAAATTA
1 TAATTTTTTTTAAAATTA
*
8745771 CTAATTTATTTTAAAA-TA
1 -TAATTTTTTTTAAAATTA
8745789 TAATTTTTTTTAAAATTA
1 TAATTTTTTTTAAAATTA
8745807 ATATCGTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 14 0.44
18 4 0.12
19 14 0.44
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATTTTTTTTAAAATTA
Found at i:8752279 original size:9 final size:8
Alignment explanation
Indices: 8752247--8752276 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
8752237 TAAATATTAT
8752247 TTAAAATA
1 TTAAAATA
8752255 TTAAAATA
1 TTAAAATA
8752263 TTAAAATA
1 TTAAAATA
8752271 TTAAAA
1 TTAAAA
8752277 ATAGAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TTAAAATA
Found at i:8757459 original size:8 final size:7
Alignment explanation
Indices: 8757428--8757458 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
8757418 ATATTTTATC
8757428 TTTAATT
1 TTTAATT
8757435 TTTAATT
1 TTTAATT
8757442 TTTAATT
1 TTTAATT
8757449 TTATAATT
1 TT-TAATT
8757457 TT
1 TT
8757459 AAAATATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTAATT
Found at i:8757499 original size:19 final size:18
Alignment explanation
Indices: 8757459--8757502 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
8757449 TTATAATTTT
* *
8757459 AAAATATTAAACCATAAT
1 AAAATATTAAACAATAAC
*
8757477 AAAATATTAAAATAATAAC
1 AAAATATT-AAACAATAAC
8757496 AAAATAT
1 AAAATAT
8757503 AATATTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATATTAAACAATAAC
Found at i:8757872 original size:117 final size:117
Alignment explanation
Indices: 8757733--8757959 Score: 271
Period size: 117 Copynumber: 1.9 Consensus size: 117
8757723 ACTAGAACTT
* * * * * *
8757733 CTATCACACGCGTATATGTGTGGAAACCA-AAGATTTAGAATATAAATATGT-GTTTAACTAT-A
1 CTATCACACCCATATATGTGTGGAAACCACAA-ATTTAGAACACAAATATGTACTTTAA-AATCA
* *
8757795 GCATACAATAAACAATAAAATGTATGGTTTGAAACTAATTAATCATAAAGAAATC
64 -CATACAATAAACAATAAAACGTATGGTTTGAAACTAATTAATAATAAAGAAATC
* * * *
8757850 CTATCACACCCATATGTGTGTGGAAATCACAAATTTAGAACACAAATGTTTACTTTAAAATCACA
1 CTATCACACCCATATATGTGTGGAAACCACAAATTTAGAACACAAATATGTACTTTAAAATCACA
* * *
8757915 TACAATAAATAATGAAACGTATGGTTTGAAGCTAATTAATAATAA
66 TACAATAAACAATAAAACGTATGGTTTGAAACTAATTAATAATAA
8757960 TGATGAAATA
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
117 84 0.91
118 8 0.09
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (117 bp):
CTATCACACCCATATATGTGTGGAAACCACAAATTTAGAACACAAATATGTACTTTAAAATCACA
TACAATAAACAATAAAACGTATGGTTTGAAACTAATTAATAATAAAGAAATC
Found at i:8759092 original size:15 final size:15
Alignment explanation
Indices: 8759072--8759108 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8759062 AAATATTAAA
8759072 ATAATATTAAAATGT
1 ATAATATTAAAATGT
*
8759087 ATAATATTAATATGT
1 ATAATATTAAAATGT
8759102 AT-ATATT
1 ATAATATT
8759109 TTCTAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (15 bp):
ATAATATTAAAATGT
Found at i:8761818 original size:18 final size:19
Alignment explanation
Indices: 8761797--8761839 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
8761787 TAGAAATTCC
*
8761797 AAAATTTAT-ATTTTTTAA
1 AAAATTTATAAATTTTTAA
8761815 AAAA-TTATAAATTTTTAA
1 AAAATTTATAAATTTTTAA
8761833 AAAATTT
1 AAAATTT
8761840 CCAAAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 16 0.73
19 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATTTATAAATTTTTAA
Found at i:8761882 original size:7 final size:8
Alignment explanation
Indices: 8761861--8761886 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8761851 ATAAAGAAAG
8761861 TTAAAAAT
1 TTAAAAAT
8761869 TTAAAAAT
1 TTAAAAAT
8761877 TTAAAAAT
1 TTAAAAAT
8761885 TT
1 TT
8761887 TCTAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTAAAAAT
Found at i:8767686 original size:10 final size:10
Alignment explanation
Indices: 8767671--8767700 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
8767661 ATGCAAAATT
8767671 AAGAAAGAAA
1 AAGAAAGAAA
*
8767681 AAGAAAGAGA
1 AAGAAAGAAA
8767691 AAGAAAGAAA
1 AAGAAAGAAA
8767701 TAGAGAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:8767693 original size:16 final size:16
Alignment explanation
Indices: 8767672--8767715 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
8767662 TGCAAAATTA
8767672 AGAAAGAAA-AAGAAAG
1 AGAAAGAAAGAA-AAAG
*
8767688 AGAAAGAAAGAAATAG
1 AGAAAGAAAGAAAAAG
*
8767704 AGAAAGGAAGAA
1 AGAAAGAAAGAA
8767716 CCACACACGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 23 0.92
17 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.02
Consensus pattern (16 bp):
AGAAAGAAAGAAAAAG
Found at i:8768193 original size:13 final size:13
Alignment explanation
Indices: 8768151--8768193 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
8768141 AAATATTCAA
8768151 TGTGAAATTGAAT
1 TGTGAAATTGAAT
* *
8768164 TGTGTATATTCAA-
1 TGTG-AAATTGAAT
8768177 TGTGAAATTGAAT
1 TGTGAAATTGAAT
8768190 TGTG
1 TGTG
8768194 TTGTATTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 6 0.25
13 12 0.50
14 6 0.25
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (13 bp):
TGTGAAATTGAAT
Found at i:8768205 original size:26 final size:26
Alignment explanation
Indices: 8768143--8768194 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8768133 AAAAATTGAA
8768143 ATATTCAATGTGAAATTGAATTGTGT
1 ATATTCAATGTGAAATTGAATTGTGT
8768169 ATATTCAATGTGAAATTGAATTGTGT
1 ATATTCAATGTGAAATTGAATTGTGT
8768195 TGTATTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (26 bp):
ATATTCAATGTGAAATTGAATTGTGT
Found at i:8777926 original size:30 final size:30
Alignment explanation
Indices: 8777892--8777952 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
8777882 GGTGTACAAC
8777892 TTCTGTAGTATGTAGCGTTATTCACAATAG
1 TTCTGTAGTATGTAGCGTTATTCACAATAG
8777922 TTCTGTAGTATGTAGCGTTATTCACAATAG
1 TTCTGTAGTATGTAGCGTTATTCACAATAG
8777952 T
1 T
8777953 GAAATTCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (30 bp):
TTCTGTAGTATGTAGCGTTATTCACAATAG
Done.