Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold107
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: 2327068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 12 of 15
Found at i:1738487 original size:13 final size:13
Alignment explanation
Indices: 1738469--1738493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1738459 ACACACAGTA
1738469 TGTATCGATACAT
1 TGTATCGATACAT
1738482 TGTATCGATACA
1 TGTATCGATACA
1738494 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1738490 original size:32 final size:33
Alignment explanation
Indices: 1738449--1738516 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1738439 GTAGCCAAAC
**
1738449 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
1738481 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
1738514 TTG
1 TTG
1738517 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:1739850 original size:99 final size:99
Alignment explanation
Indices: 1739712--1739910 Score: 267
Period size: 99 Copynumber: 2.0 Consensus size: 99
1739702 AAAATTTTAT
* * *
1739712 TCATTGGGGATAATCCAACCTCATTCTTTCGAGAGGATACTCAAACCTCATTTTTAAACTTATAA
1 TCATTGAGGATAATCCAACCTCATTCTTTCAAGAGGATACTCAAACCCCATTTTTAAACTTATAA
* *
1739777 AAATTTAAATCTTATTTTTTTGCTTAAATTGTCA
66 AAATTTAAATCTTACTTTTTTGCTCAAATTGTCA
* * * *
1739811 TCATTGAGGATATTCCAATCC-CATTCTTTTTAAGA-GATACTCCAACCCCATTTTTAAACTTGT
1 TCATTGAGGATAATCCAA-CCTCATTC-TTTCAAGAGGATACTCAAACCCCATTTTTAAACTTAT
* *
1739874 CAAGATTTAAATCTTACTTTTTTGCTCAAATTGTCA
64 AAAAATTTAAATCTTACTTTTTTGCTCAAATTGTCA
1739910 T
1 T
1739911 TCTCGAGAAT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
99 79 0.91
100 8 0.09
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (99 bp):
TCATTGAGGATAATCCAACCTCATTCTTTCAAGAGGATACTCAAACCCCATTTTTAAACTTATAA
AAATTTAAATCTTACTTTTTTGCTCAAATTGTCA
Found at i:1739964 original size:99 final size:99
Alignment explanation
Indices: 1739747--1739951 Score: 252
Period size: 99 Copynumber: 2.1 Consensus size: 99
1739737 CTTTCGAGAG
* * * *
1739747 GATACTCAAACCTCATTTTTAAACTTATAAAAATTTAAATCTTATTTTTTTGCTTAAATTGTCAT
1 GATACTCCAACCCCATTTTTAAACTTATAAAAATTTAAATCTTACTTTTTTGCTCAAATTGTCAT
* * * * * *
1739812 CATTGAGGATATTCCAATCCCATTCTTTTTAAGA
66 CATCGAGAATACTCCAATCCAATTCCTTTGAAGA
* * *
1739846 GATACTCCAACCCCATTTTTAAACTTGTCAAGATTTAAATCTTACTTTTTTGCTCAAATTGTCAT
1 GATACTCCAACCCCATTTTTAAACTTATAAAAATTTAAATCTTACTTTTTTGCTCAAATTGTCA-
*
1739911 TC-TCGAGAATACTCCAA-CTCAATTCCTTTGAGGA
65 TCATCGAGAATACTCCAATC-CAATTCCTTTGAAGA
1739945 GATACTC
1 GATACTC
1739952 TAGTCTTGTT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
98 1 0.01
99 87 0.97
100 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (99 bp):
GATACTCCAACCCCATTTTTAAACTTATAAAAATTTAAATCTTACTTTTTTGCTCAAATTGTCAT
CATCGAGAATACTCCAATCCAATTCCTTTGAAGA
Found at i:1739987 original size:2 final size:2
Alignment explanation
Indices: 1739980--1740045 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
1739970 AAAAATTAAA
1739980 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1740022 TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC
1740046 GAATTTTGAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1743172 original size:15 final size:15
Alignment explanation
Indices: 1743117--1743175 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
1743107 TCAAATAATA
*
1743117 TAAT-ATTATTTTTT
1 TAATAATTATATTTT
*
1743131 TAATAATTATATTCT
1 TAATAATTATATTTT
* **
1743146 CAATAACCATATTTT
1 TAATAATTATATTTT
*
1743161 TAAAAATTATATTTT
1 TAATAATTATATTTT
1743176 AACGTAAAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
14 4 0.12
15 30 0.88
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATAATTATATTTT
Found at i:1743554 original size:21 final size:21
Alignment explanation
Indices: 1743510--1743557 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1743500 TTATTTAGAT
*
1743510 TAATAATAAAATTAATTATTA
1 TAATAATAAAATTAATAATTA
1743531 TAATAATAAAATTAA-AATTAA
1 TAATAATAAAATTAATAATT-A
1743552 TAATAA
1 TAATAA
1743558 AAATATGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATAATAAAATTAATAATTA
Found at i:1744367 original size:17 final size:16
Alignment explanation
Indices: 1744334--1744438 Score: 54
Period size: 17 Copynumber: 6.2 Consensus size: 16
1744324 GGATATTTAC
1744334 TATATTTAAATTTAAA
1 TATATTTAAATTTAAA
* *
1744350 TTTATTTAATTATTAAA
1 TATATTTAAAT-TTAAA
1744367 TATA-TT--ATTTAAA
1 TATATTTAAATTTAAA
*
1744380 TATTATTAATAAATTTATA
1 TA-TATT--TAAATTTAAA
* **
1744399 TTTAATTTAAAAAATAATA
1 TAT-ATTT-AAATTTAA-A
*
1744418 TTTATTTAATATTTAAA
1 TATATTTAA-ATTTAAA
1744435 TATA
1 TATA
1744439 CTAAATATAT
Statistics
Matches: 66, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
13 7 0.11
14 3 0.05
15 1 0.02
16 11 0.17
17 16 0.24
18 14 0.21
19 14 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATTTAAATTTAAA
Found at i:1744397 original size:23 final size:21
Alignment explanation
Indices: 1744346--1744436 Score: 62
Period size: 20 Copynumber: 4.1 Consensus size: 21
1744336 TATTTAAATT
*
1744346 TAAATTTATTTAATTATTAAA
1 TAAATTTATTTAAATATTAAA
*
1744367 TATA-TTATTTAAATATTATTAA
1 TAAATTTATTTAAATATTA--AA
*
1744389 TAAATTTATATTTAAT-TTAAAAAA
1 TAAATTTAT-TTAAATATT---AAA
1744413 TAATATTTATTT-AATATTTAAA
1 TAA-ATTTATTTAAATA-TTAAA
1744435 TA
1 TA
1744437 TACTAAATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
20 13 0.23
21 3 0.05
22 10 0.18
23 9 0.16
24 12 0.21
25 8 0.14
26 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAATTTATTTAAATATTAAA
Found at i:1744407 original size:30 final size:30
Alignment explanation
Indices: 1744334--1744409 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
1744324 GGATATTTAC
*
1744334 TATATTTAAATTTAAATTTATTTAATTATTA
1 TATATTT-AATTTAAATTTATTTAATAATTA
*
1744365 AATATATT-ATTTAAATATTA-TTAATAAATT-
1 TATAT-TTAATTTAAAT-TTATTTAAT-AATTA
1744395 TATATTTAATTTAAA
1 TATATTTAATTTAAA
1744410 AAATAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
29 2 0.05
30 24 0.63
31 10 0.26
32 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TATATTTAATTTAAATTTATTTAATAATTA
Found at i:1744431 original size:25 final size:24
Alignment explanation
Indices: 1744387--1744434 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
1744377 AAATATTATT
*
1744387 AATAAATTTATATTTAATTTAAAA
1 AATAAATTTATATTAAATTTAAAA
1744411 AATAATATTTAT-TTAATATTTAAA
1 AATAA-ATTTATATTAA-ATTTAAA
1744435 TATACTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATAAATTTATATTAAATTTAAAA
Found at i:1744745 original size:20 final size:17
Alignment explanation
Indices: 1744709--1744769 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 17
1744699 TAAGATAAAA
1744709 ATAATTAAAATAAATAT
1 ATAATTAAAATAAATAT
1744726 ATAATGTAAATATAAA-AT
1 ATAAT-TAAA-ATAAATAT
*
1744744 AT-ATTAAAAT--TTAT
1 ATAATTAAAATAAATAT
1744758 ATAATTAAAATA
1 ATAATTAAAATA
1744770 TTAATATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
14 4 0.11
15 10 0.26
16 4 0.11
17 7 0.18
18 8 0.21
19 5 0.13
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
ATAATTAAAATAAATAT
Found at i:1744770 original size:32 final size:32
Alignment explanation
Indices: 1744698--1744766 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
1744688 AACGATAAAC
1744698 GTAAGATA-AAAATAATTAAAATAAATATATAAT
1 GTAA-ATATAAAATAATTAAAAT-AATATATAAT
*
1744731 GTAAATATAAAATATATTAAAAT-TTATATAAT
1 GTAAATATAAAATA-ATTAAAATAATATATAAT
1744763 -TAAA
1 GTAAA
1744767 ATATTAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 4 0.12
32 11 0.33
33 10 0.30
34 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (32 bp):
GTAAATATAAAATAATTAAAATAATATATAAT
Found at i:1746822 original size:43 final size:42
Alignment explanation
Indices: 1746774--1746898 Score: 169
Period size: 43 Copynumber: 2.9 Consensus size: 42
1746764 AGTTTGCTAA
* *
1746774 CATTTGTAAATTGAAAACACCGCTAAGTTTACACTTTTAGTGG
1 CATTTGTAAATTGAAAACACCG-TAAGTTTAAACTTTTAGCGG
* **
1746817 CATTTGTAAATTGAAAACGCTATTAAGTTTAAACTTTTAGCGG
1 CATTTGTAAATTGAAAACAC-CGTAAGTTTAAACTTTTAGCGG
*
1746860 CATTTGTAAATTGAAAACACCAGTAAATTTAAACTTTTA
1 CATTTGTAAATTGAAAACACC-GTAAGTTTAAACTTTTA
1746899 ACGATTTTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (42 bp):
CATTTGTAAATTGAAAACACCGTAAGTTTAAACTTTTAGCGG
Found at i:1746929 original size:42 final size:44
Alignment explanation
Indices: 1746774--1746939 Score: 164
Period size: 43 Copynumber: 3.9 Consensus size: 44
1746764 AGTTTGCTAA
* * * **
1746774 CATTTGTAAATTGAAAACACC-GCTAAGTTTACACTTTTAGTGG
1 CATTTGTAAATTGAAAACACCAGTTAAATTTAAACTTTTAACGG
* * * *
1746817 CATTTGTAAATTGAAAACGCTA-TTAAGTTTAAACTTTTAGCGG
1 CATTTGTAAATTGAAAACACCAGTTAAATTTAAACTTTTAACGG
1746860 CATTTGTAAATTGAAAACACCAG-TAAATTTAAACTTTTAAC-G
1 CATTTGTAAATTGAAAACACCAGTTAAATTTAAACTTTTAACGG
* * * *
1746902 -ATTTTTATATTTATAAACACC-GTTAAATTTAAATTTTT
1 CATTTGTAAATTGA-AAACACCAGTTAAATTTAAACTTTT
1746940 GATGACATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
41 11 0.10
42 22 0.21
43 73 0.69
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (44 bp):
CATTTGTAAATTGAAAACACCAGTTAAATTTAAACTTTTAACGG
Found at i:1746951 original size:42 final size:42
Alignment explanation
Indices: 1746874--1746953 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
1746864 TGTAAATTGA
**
1746874 AAACACCAGTAAATTTAAACTTTTAACGATTTTTATATTTAT
1 AAACACCAGTAAATTTAAACTTTTAACGACATTTATATTTAT
* * *
1746916 AAACACC-GTTAAATTTAAATTTTTGATGACATTTATAT
1 AAACACCAG-TAAATTTAAACTTTTAACGACATTTATAT
1746954 GGATAAATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.03
42 31 0.97
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.42
Consensus pattern (42 bp):
AAACACCAGTAAATTTAAACTTTTAACGACATTTATATTTAT
Found at i:1746960 original size:42 final size:41
Alignment explanation
Indices: 1746874--1746965 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
1746864 TGTAAATTGA
** **
1746874 AAACACCAGTAAATTTAAACTTTTAACGATTTTTATATTTAT
1 AAACACC-GTAAATTTAAACTTTTAACGACATTTATATGGAT
* * *
1746916 AAACACCGTTAAATTTAAATTTTTGATGACATTTATATGGAT
1 AAACACCG-TAAATTTAAACTTTTAACGACATTTATATGGAT
*
1746958 AAATACCG
1 AAACACCG
1746966 CGAACAATGC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.02
42 40 0.98
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (41 bp):
AAACACCGTAAATTTAAACTTTTAACGACATTTATATGGAT
Found at i:1747570 original size:30 final size:32
Alignment explanation
Indices: 1747519--1747580 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
1747509 TTGGAGAGCC
1747519 TCATATCTTCGTCTTTCTTCTTCTTTTGTTTTT
1 TCATATCTTCGTCTTTCTTCTTCTTTT-TTTTT
1747552 TCATATCTTC-T-TTT-TTCTTCTTTTTTTTT
1 TCATATCTTCGTCTTTCTTCTTCTTTTTTTTT
1747581 CTTCTCCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 3 0.10
32 1 0.03
33 10 0.34
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.71
Consensus pattern (32 bp):
TCATATCTTCGTCTTTCTTCTTCTTTTTTTTT
Found at i:1756856 original size:22 final size:22
Alignment explanation
Indices: 1756812--1756862 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1756802 TAATATAATT
**
1756812 ATATAATATAAAAATAATTATA
1 ATATAATATAAAAATAAAAATA
1756834 ATATAATAT-AAAATAAAAAATA
1 ATATAATATAAAAAT-AAAAATA
1756856 ATATAAT
1 ATATAAT
1756863 TATTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATAATATAAAAATAAAAATA
Found at i:1756886 original size:27 final size:28
Alignment explanation
Indices: 1756799--1756903 Score: 103
Period size: 28 Copynumber: 3.7 Consensus size: 28
1756789 TATGATTTTG
1756799 ATATAATATAATTATAT-AATATAAAAATA
1 ATATAAT-T-ATTATATAAATATAAAAATA
*
1756828 ATTATAA-TATAATATAAA-ATAAAAAATA
1 A-TATAATTATTATATAAATAT-AAAAATA
*
1756856 ATATAATTATTATATAAATATATAAAT-
1 ATATAATTATTATATAAATATAAAAATA
1756883 ATATCAAATT-TTATATAAATA
1 ATAT--AATTATTATATAAATA
1756904 AATTATTAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
27 17 0.26
28 37 0.56
29 7 0.11
30 5 0.08
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
ATATAATTATTATATAAATATAAAAATA
Found at i:1756917 original size:47 final size:43
Alignment explanation
Indices: 1756851--1756975 Score: 103
Period size: 47 Copynumber: 2.7 Consensus size: 43
1756841 ATAAAATAAA
* * *
1756851 AAATAATATAATTATTATATAAATATATAAATATATCAAATTTTATAT
1 AAATAA-ATTATTAATATATAAATATATAAATAT-T-AAATATT-T-T
*
1756899 AAATAAATTATTAATATATTATAATTTATATAAATATTTAATATTTT
1 AAATAAATTATTAATATA-TA-AA--TATATAAATATTAAATATTTT
1756946 AAATAAAATTA-TAATATATAAA-A-ATAAATA
1 AAAT-AAATTATTAATATATAAATATATAAATA
1756976 AATATAATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 17
0.76 0.04 0.19
Matches are distributed among these distances:
41 7 0.10
42 1 0.01
45 2 0.03
46 2 0.03
47 22 0.32
48 15 0.22
49 7 0.10
50 1 0.01
51 11 0.16
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (43 bp):
AAATAAATTATTAATATATAAATATATAAATATTAAATATTTT
Found at i:1756946 original size:20 final size:20
Alignment explanation
Indices: 1756923--1756962 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1756913 TATATTATAA
*
1756923 TTTATATAAATATT-TAATAT
1 TTTAAATAAA-ATTATAATAT
1756943 TTTAAATAAAATTATAATAT
1 TTTAAATAAAATTATAATAT
1756963 ATAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTAAATAAAATTATAATAT
Found at i:1757150 original size:26 final size:25
Alignment explanation
Indices: 1757115--1757163 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
1757105 AGCTTATATT
*
1757115 ATATTTTTTAATTTTATTTTATAAAA
1 ATATTTTTTAA-TTTAATTTATAAAA
1757141 ATATTTTTTAATTTAATTTATAA
1 ATATTTTTTAATTTAATTTATAA
1757164 TAATTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
ATATTTTTTAATTTAATTTATAAAA
Found at i:1757373 original size:12 final size:12
Alignment explanation
Indices: 1757358--1757411 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
1757348 AAATTAAAAG
1757358 TAAATTTATTTT
1 TAAATTTATTTT
**
1757370 TAAA--TAAATT
1 TAAATTTATTTT
*
1757380 T-AATTTTTTCTT
1 TAAATTTATT-TT
1757392 TAAATTTATTTT
1 TAAATTTATTTT
1757404 TAAATTTA
1 TAAATTTA
1757412 ATATTTTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 2 0.06
10 5 0.16
11 1 0.03
12 17 0.53
13 7 0.22
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (12 bp):
TAAATTTATTTT
Found at i:1757410 original size:30 final size:28
Alignment explanation
Indices: 1757374--1757442 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 28
1757364 TATTTTTAAA
*
1757374 TAAATTTAAT-TTTTTCTTTAAATTTATTTT
1 TAAATTTAATATTTTTATTTAAA---ATTTT
1757404 TAAATTTAATATTTTTATTTAAAATTTT
1 TAAATTTAATATTTTTATTTAAAATTTT
1757432 TAAATATTAAT
1 TAAAT-TTAAT
1757443 GTAGAAGGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 10 0.28
29 5 0.14
30 10 0.28
31 11 0.31
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (28 bp):
TAAATTTAATATTTTTATTTAAAATTTT
Found at i:1757411 original size:18 final size:18
Alignment explanation
Indices: 1757358--1757426 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
1757348 AAATTAAAAG
1757358 TAAATTTATTTTTAAA--
1 TAAATTTATTTTTAAATT
**
1757374 TAAATTTAATTTTT-TCTT
1 TAAATTT-ATTTTTAAATT
1757392 TAAATTTATTTTTAAATT
1 TAAATTTATTTTTAAATT
1757410 TAATATTT-TTATTTAAA
1 TAA-ATTTATT-TTTAAA
1757427 ATTTTTAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 7 0.16
17 12 0.28
18 14 0.33
19 10 0.23
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (18 bp):
TAAATTTATTTTTAAATT
Found at i:1757416 original size:15 final size:15
Alignment explanation
Indices: 1757398--1757442 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
1757388 TCTTTAAATT
1757398 TATTTTTAAATTTAA
1 TATTTTTAAATTTAA
1757413 TATTTTT--ATTTAA
1 TATTTTTAAATTTAA
*
1757426 AATTTTTAAATATTAA
1 TATTTTTAAAT-TTAA
1757442 T
1 T
1757443 GTAGAAGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 12 0.48
15 9 0.36
16 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTTTAAATTTAA
Found at i:1758337 original size:14 final size:15
Alignment explanation
Indices: 1758314--1758365 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 15
1758304 ACATTCTATG
1758314 TTAAT-TTTTTAATT
1 TTAATATTTTTAATT
1758328 TTAATATTTTTAATTAAT
1 TTAATATTTTTAA-T--T
*
1758346 TTATTATTTTTAATT
1 TTAATATTTTTAATT
1758361 ATTAA
1 -TTAA
1758366 AATAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 5 0.16
15 8 0.26
16 4 0.13
17 1 0.03
18 13 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTTTAATT
Found at i:1758353 original size:18 final size:19
Alignment explanation
Indices: 1758322--1758361 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
1758312 TGTTAATTTT
1758322 TTAATTTTAATATTTTTAA
1 TTAATTTTAATATTTTTAA
*
1758341 TTAA-TTTATTATTTTTAA
1 TTAATTTTAATATTTTTAA
1758359 TTA
1 TTA
1758362 TTAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTAATTTTAATATTTTTAA
Found at i:1759258 original size:5 final size:5
Alignment explanation
Indices: 1759241--1759271 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
1759231 AAAAACTTTA
*
1759241 TTAAT TTATT TTAAT TTAAT TTAAT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT T
1759272 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TTAAT
Found at i:1765219 original size:19 final size:19
Alignment explanation
Indices: 1765195--1765256 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
1765185 TTTTGAATTT
1765195 CAAACAGTTTGTATCGATA
1 CAAACAGTTTGTATCGATA
** *
1765214 CAAACAGAAAATGTATCAATA
1 CAAACAG--TTTGTATCGATA
*
1765235 CATA-AGTGTTGTATCGATA
1 CAAACAGT-TTGTATCGATA
1765254 CAA
1 CAA
1765257 TGTATCGATA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 18 0.56
20 2 0.06
21 12 0.38
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (19 bp):
CAAACAGTTTGTATCGATA
Found at i:1765262 original size:13 final size:13
Alignment explanation
Indices: 1765244--1765268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1765234 ACATAAGTGT
1765244 TGTATCGATACAA
1 TGTATCGATACAA
1765257 TGTATCGATACA
1 TGTATCGATACA
1765269 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1765268 original size:32 final size:32
Alignment explanation
Indices: 1765223--1765295 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
1765213 ACAAACAGAA
*
1765223 AATGTATCAATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
1765255 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
1765287 AATATATCG
1 AATGTATCG
1765296 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:1765281 original size:19 final size:18
Alignment explanation
Indices: 1765225--1765287 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1765215 AAACAGAAAA
*
1765225 TGTATCAATACATAAGTGT
1 TGTATCGATACATAAGT-T
1765244 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
1765257 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1765276 TGTATCGATACA
1 TGTATCGATACA
1765288 ATATATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1765342 original size:21 final size:21
Alignment explanation
Indices: 1765312--1765353 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1765302 AGCTACTGCC
1765312 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
*
1765333 AAGGAGATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1765354 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:1765358 original size:13 final size:13
Alignment explanation
Indices: 1765340--1765365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1765330 ATTAAGGAGA
1765340 TGTATCGATACAT
1 TGTATCGATACAT
1765353 TGTATCGATACAT
1 TGTATCGATACAT
1765366 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1767224 original size:13 final size:13
Alignment explanation
Indices: 1767206--1767262 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1767196 TTCAACGATT
1767206 TGTATCGATACAA
1 TGTATCGATACAA
1767219 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
1767234 GTGTTGTATCGATATAA
1 ----TGTATCGATACAA
1767251 TGTATCGATACA
1 TGTATCGATACA
1767263 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1767243 original size:19 final size:18
Alignment explanation
Indices: 1767219--1767281 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1767209 ATCGATACAA
1767219 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1767238 TGTATCGAT--ATAA---
1 TGTATCGATACATAAGTT
1767251 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1767270 TGTATCGATACA
1 TGTATCGATACA
1767282 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 4 0.11
19 21 0.55
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1767246 original size:32 final size:32
Alignment explanation
Indices: 1767205--1767289 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
1767195 TTTCAACGAT
1767205 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* *
1767237 TTGTATCGATATAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
1767269 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
1767290 CTATGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:1767352 original size:13 final size:13
Alignment explanation
Indices: 1767334--1767358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1767324 ATTACTCAAA
1767334 TGTATCGATACAT
1 TGTATCGATACAT
1767347 TGTATCGATACA
1 TGTATCGATACA
1767359 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1768278 original size:20 final size:21
Alignment explanation
Indices: 1768226--1768278 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
1768216 CACCATGATA
*
1768226 ACAGCCCATGATTCATGCATTT
1 ACAG-CCATGTTTCATGCATTT
**
1768248 TGAGCCATGTTTCATGCATTT
1 ACAGCCATGTTTCATGCATTT
1768269 ACAG-CATGTT
1 ACAGCCATGTT
1768279 CAGCACCTCC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 6 0.23
21 18 0.69
22 2 0.08
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (21 bp):
ACAGCCATGTTTCATGCATTT
Found at i:1769205 original size:21 final size:21
Alignment explanation
Indices: 1769158--1769209 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
1769148 CAACTTTGAG
* *
1769158 GATTTATTCCACTCGGAAAAC
1 GATTTTTTCGACTCGGAAAAC
* *
1769179 GATTTTTTCGACTTGGAAAAT
1 GATTTTTTCGACTCGGAAAAC
1769200 GATTTTTTCG
1 GATTTTTTCG
1769210 GATTTTTAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
GATTTTTTCGACTCGGAAAAC
Found at i:1771389 original size:79 final size:79
Alignment explanation
Indices: 1771258--1771512 Score: 348
Period size: 79 Copynumber: 3.2 Consensus size: 79
1771248 TTTTCATCTC
* * * * * *** * *
1771258 GGGGATACTCCAACCTCAATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATATTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATAATCCAAC
* *
1771323 CCCGTCACTTCCGA
66 CCCGTTATTTCCGA
* *
1771337 GGGGATACTCCAACCCCGGCTTTATTCTTAAAATATTGATTTCTCACAATCGGGGATAATCCAAC
1 GGGGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATAATCCAAC
1771402 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
* * *
1771416 GGAGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCGCAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATAATCCAAC
*
1771481 CCCGTTATTTTCGA
66 CCCGTTATTTCCGA
1771495 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1771513 TTATTATCTC
Statistics
Matches: 155, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 155 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATAATCCAAC
CCCGTTATTTCCGA
Found at i:1771528 original size:79 final size:77
Alignment explanation
Indices: 1771304--1771541 Score: 323
Period size: 79 Copynumber: 3.0 Consensus size: 77
1771294 CAATTTTTCA
* * * *
1771304 CAATCGGGGATATTCCAACCCCGTCACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCTTAAA
1 CAATCGGGGATAATCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-GCTTTATTC-CAAA
*
1771369 ATATTGATTTCTCA
64 ATATTGATTTCTCG
*
1771383 CAATCGGGGATAATCCAACCCCGTTATTTCCGAGGAGATACTCCAACCCCGACTTTATTCCTAAA
1 CAATCGGGGATAATCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG-CTTTATTCC-AAA
1771448 ATATTGATTTCTCG
64 ATATTGATTTCTCG
* * *
1771462 CAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTTATTATCTCCAAA
1 CAATCGGGGATAATCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGCT-TTAT-TCCAAA
*
1771527 ATATTAAATTTCTCG
64 ATATT-GATTTCTCG
1771542 TCGGGAGATG
Statistics
Matches: 143, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
78 2 0.01
79 130 0.91
80 11 0.08
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (77 bp):
CAATCGGGGATAATCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGCTTTATTCCAAAAT
ATTGATTTCTCG
Found at i:1772645 original size:2 final size:2
Alignment explanation
Indices: 1772638--1772668 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1772628 CCATCTATTC
1772638 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1772669 CTTAATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1773922 original size:2 final size:2
Alignment explanation
Indices: 1773915--1773959 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1773905 TGAAATACAA
1773915 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
1773957 AT A
1 AT A
1773960 ACACATCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1775075 original size:21 final size:21
Alignment explanation
Indices: 1775051--1775101 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1775041 TGCTAATGGG
1775051 TAAAAGAGTAATAATATA-TTT
1 TAAAAGAGTAA-AATATATTTT
*
1775072 T-AAAGAGTAAAATGTATTTT
1 TAAAAGAGTAAAATATATTTT
*
1775092 TAAAAAAGTA
1 TAAAAGAGTA
1775102 TTATATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 13 0.50
21 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (21 bp):
TAAAAGAGTAAAATATATTTT
Found at i:1775095 original size:20 final size:20
Alignment explanation
Indices: 1775053--1775091 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1775043 CTAATGGGTA
1775053 AAAGAGTAATAATATATTTT
1 AAAGAGTAATAATATATTTT
*
1775073 AAAGAGTAA-AATGTATTTT
1 AAAGAGTAATAATATATTTT
1775092 TAAAAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
AAAGAGTAATAATATATTTT
Found at i:1775423 original size:21 final size:22
Alignment explanation
Indices: 1775381--1775426 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
1775371 ATATATTTTT
*
1775381 AATTTTATTTATAAAATTAAAA
1 AATTTTATTTATAAAATAAAAA
1775403 AATTTTATTTA-AAAATAAAAA
1 AATTTTATTTATAAAATAAAAA
1775424 AAT
1 AAT
1775427 GAATCCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTTATTTATAAAATAAAAA
Found at i:1775607 original size:21 final size:21
Alignment explanation
Indices: 1775578--1775619 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1775568 TGTTGTATTT
*
1775578 TTATTTAAAT-TTAATTATAAA
1 TTATATAAATATTAA-TATAAA
1775599 TTATATAAATATTAATATAAA
1 TTATATAAATATTAATATAAA
1775620 AATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATATAAATATTAATATAAA
Found at i:1775771 original size:16 final size:17
Alignment explanation
Indices: 1775750--1775781 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1775740 TCTATTAAAA
1775750 TTTTAAA-TATAATTTT
1 TTTTAAATTATAATTTT
1775766 TTTTAAATTATAATTT
1 TTTTAAATTATAATTT
1775782 AAATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAATTATAATTTT
Found at i:1776061 original size:15 final size:17
Alignment explanation
Indices: 1776043--1776078 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
1776033 TATTATTTTA
1776043 TTATTA-ATTTAAT-TT
1 TTATTATATTTAATGTT
1776058 TTA-TATATTTAATGTT
1 TTATTATATTTAATGTT
1776074 TTATT
1 TTATT
1776079 TTTATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.11
15 10 0.56
16 5 0.28
17 1 0.06
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATTATATTTAATGTT
Found at i:1776610 original size:19 final size:19
Alignment explanation
Indices: 1776580--1776616 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1776570 ATTAAAAAAT
1776580 AAAATTTAATAATTTAATTA
1 AAAATTTAATAA-TTAATTA
1776600 AAAATTT-ATAATTAATT
1 AAAATTTAATAATTAATT
1776617 TTTTATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATTTAATAATTAATTA
Found at i:1776841 original size:22 final size:22
Alignment explanation
Indices: 1776800--1776842 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1776790 AATTTTAAAA
*
1776800 ATATTTTTATATTACTATTTAT
1 ATATTTTTATATTACAATTTAT
1776822 ATATTTTTATAATTA-AATTTA
1 ATATTTTTAT-ATTACAATTTA
1776843 AATAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATATTACAATTTAT
Found at i:1776996 original size:35 final size:35
Alignment explanation
Indices: 1776952--1777103 Score: 98
Period size: 35 Copynumber: 4.1 Consensus size: 35
1776942 TAATAGAGCC
1776952 TTAACCTTAAACATAAGTTTTTTATTAATTTGATG
1 TTAACCTTAAACATAAGTTTTTTATTAATTTGATG
* * * * *
1776987 TTAATCTTAAACATAATTTTTTTGACATAAGTTT-TTT
1 TTAACCTTAAACATAAGTTTTTT-A-TTAA-TTTGATG
1777024 TAATAGAGCCTTAACCTTAAACATAAGTTTTTTATTAATTTGATG
1 T--TA-A-------CCTTAAACATAAGTTTTTTATTAATTTGATG
*
1777069 TTAATCTTAAACATAA--TTTTT-TTAATTTGA-G
1 TTAACCTTAAACATAAGTTTTTTATTAATTTGATG
1777100 TTAA
1 TTAA
1777104 ATCAAATAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 32
0.68 0.08 0.24
Matches are distributed among these distances:
31 5 0.05
32 9 0.10
33 5 0.05
35 32 0.35
36 1 0.01
37 5 0.05
38 3 0.03
39 2 0.02
40 1 0.01
42 1 0.01
43 2 0.02
44 3 0.03
45 5 0.05
46 1 0.01
47 17 0.18
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.49
Consensus pattern (35 bp):
TTAACCTTAAACATAAGTTTTTTATTAATTTGATG
Found at i:1777022 original size:82 final size:82
Alignment explanation
Indices: 1776925--1777091 Score: 334
Period size: 82 Copynumber: 2.0 Consensus size: 82
1776915 AAACCAGGCC
1776925 TTTGACATAAGTTTTTTTAATAGAGCCTTAACCTTAAACATAAGTTTTTTATTAATTTGATGTTA
1 TTTGACATAAGTTTTTTTAATAGAGCCTTAACCTTAAACATAAGTTTTTTATTAATTTGATGTTA
1776990 ATCTTAAACATAATTTT
66 ATCTTAAACATAATTTT
1777007 TTTGACATAAGTTTTTTTAATAGAGCCTTAACCTTAAACATAAGTTTTTTATTAATTTGATGTTA
1 TTTGACATAAGTTTTTTTAATAGAGCCTTAACCTTAAACATAAGTTTTTTATTAATTTGATGTTA
1777072 ATCTTAAACATAATTTT
66 ATCTTAAACATAATTTT
1777089 TTT
1 TTT
1777092 AATTTGAGTT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 85 1.00
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.49
Consensus pattern (82 bp):
TTTGACATAAGTTTTTTTAATAGAGCCTTAACCTTAAACATAAGTTTTTTATTAATTTGATGTTA
ATCTTAAACATAATTTT
Found at i:1777094 original size:32 final size:33
Alignment explanation
Indices: 1777011--1777103 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 33
1777001 AATTTTTTTG
*
1777011 ACATAAGTTTTT-TTAA-TAGAGCCTTAACCTTAA
1 ACATAAGTTTTTATTAATTTGAG--TTAACCTTAA
*
1777044 ACATAAGTTTTTTATTAATTTGATGTTAATCTTAA
1 ACATAAG-TTTTTATTAATTTGA-GTTAACCTTAA
1777079 ACATAA-TTTTT-TTAATTTGAGTTAA
1 ACATAAGTTTTTATTAATTTGAGTTAA
1777104 ATCAAATAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
31 5 0.09
32 9 0.17
33 12 0.22
34 5 0.09
35 19 0.35
36 3 0.06
37 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (33 bp):
ACATAAGTTTTTATTAATTTGAGTTAACCTTAA
Found at i:1778038 original size:19 final size:19
Alignment explanation
Indices: 1778001--1778038 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1777991 TGAACTTTGG
*
1778001 TTATTAAATAGTAAAAAAA
1 TTATTAAATAGGAAAAAAA
1778020 TTATTAAA-AGGAAACAAAA
1 TTATTAAATAGGAAA-AAAA
1778039 AAAAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (19 bp):
TTATTAAATAGGAAAAAAA
Found at i:1779162 original size:122 final size:122
Alignment explanation
Indices: 1778945--1779190 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 122
1778935 GCCACCTATG
1778945 TTGAAGGAGAAGCAATCAGCCACTCTGTCATGCCCATTTTTTAGCTAAAAAATGTCAAAATATTT
1 TTGAAGGAGAAGCAATCAGCCACTCTGTCATGCCCATTTTTTAGCTAAAAAATGTCAAAATATTT
1779010 ACTTAAGCTGTTATTACTGTAGGTGATATTTTTCATGCTTGATGCTATATTTTTATC
66 ACTTAAGCTGTTATTACTGTAGGTGATATTTTTCATGCTTGATGCTATATTTTTATC
1779067 TTGAAGGAGAAGCAATCAGCCACTCTGTCATGCCCATTTTTTAGCTAAAAAATGTCAAAATATTT
1 TTGAAGGAGAAGCAATCAGCCACTCTGTCATGCCCATTTTTTAGCTAAAAAATGTCAAAATATTT
*
1779132 ACTTAAGTTGTTATTACTGTAGGTGATATTTTTCATGCTTGATGCTATATTTTTATC
66 ACTTAAGCTGTTATTACTGTAGGTGATATTTTTCATGCTTGATGCTATATTTTTATC
1779189 TT
1 TT
1779191 TACGAATTAC
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (122 bp):
TTGAAGGAGAAGCAATCAGCCACTCTGTCATGCCCATTTTTTAGCTAAAAAATGTCAAAATATTT
ACTTAAGCTGTTATTACTGTAGGTGATATTTTTCATGCTTGATGCTATATTTTTATC
Found at i:1784349 original size:29 final size:30
Alignment explanation
Indices: 1784289--1784359 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 30
1784279 TTGTTCATTT
*
1784289 TATCGATACATTCTGGGTTTTACCCAGATG
1 TATCGATACATTCTAGGTTTTACCCAGATG
*
1784319 TATCGATACATTCTAGG-TTTACCTAGATG
1 TATCGATACATTCTAGGTTTTACCCAGATG
1784348 TATCGATACATT
1 TATCGATACATT
1784360 TGTCAATGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (30 bp):
TATCGATACATTCTAGGTTTTACCCAGATG
Found at i:1786830 original size:79 final size:80
Alignment explanation
Indices: 1786678--1786849 Score: 201
Period size: 79 Copynumber: 2.2 Consensus size: 80
1786668 TTTTCATCTC
* * * * * *
1786678 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACATCAATTTTTCATAATCGAGAATTCTCCAAT
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGAGAATACACCAAC
*
1786743 CTCGTTATTTC-CGA
66 CTCATTATTTCACGA
* *
1786757 GGGGATACTCCAACCCCGATTTTATTCTT-AAAACACCAATTTTTCACAATCGGGAATACACCGA
1 GGGGATACTCCAACCCCGATTTTATT-TTCAAAACACCAATTTTTCACAATCGAGAATACACCAA
1786821 CC-CTATTATTTCATCGA
65 CCTC-ATTATTTCA-CGA
1786838 --GGATACTCCAAC
1 GGGGATACTCCAAC
1786850 TTCATTATTT
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 74 0.93
80 2 0.03
81 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGAGAATACACCAAC
CTCATTATTTCACGA
Found at i:1786942 original size:51 final size:51
Alignment explanation
Indices: 1786866--1786975 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 51
1786856 ATTTCCAAGA
* * * ** *
1786866 GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCACGATCGG
1 GGATACTCAAACCCCGACTTTATTTCCAAAATATCAATTTTTCACAATCGG
* * *
1786917 GGATACTCAAACCTCGATTTTATTTCCAAAATATCAATTTTTCATAATCGG
1 GGATACTCAAACCCCGACTTTATTTCCAAAATATCAATTTTTCACAATCGG
1786968 GGATACTC
1 GGATACTC
1786976 CAATCTCGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (51 bp):
GGATACTCAAACCCCGACTTTATTTCCAAAATATCAATTTTTCACAATCGG
Found at i:1786999 original size:79 final size:79
Alignment explanation
Indices: 1786916--1787530 Score: 375
Period size: 79 Copynumber: 7.8 Consensus size: 79
1786906 TTCACGATCG
* * *
1786916 GGGATACTCAAACCTCGATTTTATTTCCAAAATATCAATTTTTCATAATCGGGGATACTCCAATC
1 GGGATACTCCAACCTCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
1786981 TCGTTATTTTCGAA
66 TCGTTATTTTCGAA
* * *
1786995 GGGATACTCCAACCTCGATTTTA-TTCGCAAAACACCAATTTTTCACAATCGGGGATACTTCAAC
1 GGGATACTCCAACCTCGATTTTATTTC-CAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
1787059 CTCGTT-TTTTCTGAG
65 CTCGTTATTTTC-GAA
* * * *
1787074 GGGATACTCCAACCCTTG-TTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGATACTCCAA-CCTCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
* * * *
1787138 TTTGATTTTATTTCCAA
65 CTCG-TTAT-TTTCGAA
* ** ** * * * * * * *
1787155 ---A-ACACCAA--T---TTTTCACAATCGGGGATAC-TCCAACCCTGTTAATTCATCAGAGATA
1 GGGATACTCCAACCTCGATTTT-A-TTTC--CAAAACAT-CAA--TTTTTCA-TAATCGGGGATA
* *
1787210 CTCCAACCCCGTTATTTTCGAG
58 CTCCAACCTCGTTATTTTCGAA
* *** * * ** * *
1787232 GGGATACTCCAACCCCGGCGTTATTTCTAAAATATTGATTTCTCACAATCAGGGG-TACTCCAAC
1 GGGATACTCCAACCTCGATTTTATTTCCAAAACATCAATTTTTCATAATC-GGGGATACTCCAAC
* * **
1787296 CCCATTATTTTCGCG
65 CTCGTTATTTTCGAA
* * ** * * * *
1787311 GGGATACTCCAACCCCAACCTTATTTCTAGAGCATCGATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCTCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
*
1787376 CCGTTATTTTCGAA
66 TCGTTATTTTCGAA
* ** *
1787390 GGGATACTCCAACCCCGATTTTATTTTTAAAACA-CTAA-TTTTCTATAATCAGGGATACTCCAA
1 GGGATACTCCAACCTCGATTTTATTTCCAAAACATC-AATTTTTC-ATAATCGGGGATACTCCAA
* *
1787453 -CTCTGTTAGTTCCG-A
64 CCTC-GTTATTTTCGAA
* * * * *
1787468 GGGAATACTCTAACCTCGATTTTATTTCCAGAACACCGATTTTCCATAATCGGGGATACTCCA
1 GGG-ATACTCCAACCTCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCA
1787531 GCCCCGTTGT
Statistics
Matches: 416, Mismatches: 87, Indels: 66
0.73 0.15 0.12
Matches are distributed among these distances:
72 4 0.01
73 1 0.00
74 3 0.01
76 6 0.01
77 11 0.03
78 32 0.08
79 318 0.76
80 20 0.05
81 8 0.02
82 7 0.02
83 1 0.00
84 2 0.00
85 1 0.00
86 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCTCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
TCGTTATTTTCGAA
Found at i:1787137 original size:51 final size:52
Alignment explanation
Indices: 1787073--1787191 Score: 206
Period size: 51 Copynumber: 2.3 Consensus size: 52
1787063 TTTTTTCTGA
*
1787073 GGGGATACTCCAACCCTTG-TTTTATTTCTAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCTTGATTTTATTTCCAAAACACCAATTTTTCACAATC
*
1787124 GGGGATACTCCAA-CTTTGATTTTATTTCCAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCTTGATTTTATTTCCAAAACACCAATTTTTCACAATC
1787175 GGGGATACTCCAACCCT
1 GGGGATACTCCAACCCT
1787192 GTTAATTCAT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
50 4 0.06
51 57 0.90
52 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCTTGATTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:1787237 original size:28 final size:29
Alignment explanation
Indices: 1787175--1787248 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
1787165 TTTCACAATC
*
1787175 GGGGATACTCCAACCCTGTTAATTCATCA
1 GGGGATACTCCAACCCCGTTAATTCATCA
* *
1787204 -GAGATACTCCAACCCCGTT-ATT-TTCGA
1 GGGGATACTCCAACCCCGTTAATTCATC-A
1787231 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1787249 GCGTTATTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 33 0.85
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGTTAATTCATCA
Found at i:1800977 original size:55 final size:54
Alignment explanation
Indices: 1800936--1801066 Score: 158
Period size: 55 Copynumber: 2.4 Consensus size: 54
1800926 TCTTTTCACC
* * *
1800936 TTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACCAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACCACTTCGTGGCA
* *
1800989 TTTTCCAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGC-TGGTGGCA
1 TTTT-CAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACCA-CTTCGTGGCA
** *
1801044 CCTTCAGTCCTCAAAGAGCAGGA
1 TTTTCAGTCCTCAAAGAACAGGA
1801067 TGCTTTTTCC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
53 4 0.06
54 18 0.26
55 47 0.68
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACCACTTCGTGGCA
Found at i:1801231 original size:123 final size:123
Alignment explanation
Indices: 1800935--1801411 Score: 542
Period size: 123 Copynumber: 4.0 Consensus size: 123
1800925 CTCTTTTCAC
* * **
1800935 CTTTTAGTCCTCAAAGAGCAGGACGCC---TTTC----AAAGCCCACACCAGTTGGTGGCATTTT
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
1800993 CCAGTCCTCAAAGAACAGGACG-----CCTTTCAAAGCCCACACAAGCTGGTGGCAC-
66 CTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * * *
1801045 C-TTCAGTCCTCAAAGAGCAGGATG-CTTTTTCCTTTCAAAGCCCACACAAGCTGGTGTCACCTT
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
1801108 C-AGTCCTCAAAGAGTAAGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
66 CTAGTCCTCAAAGAGCAGGACGC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
*
1801166 CTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
1801231 CTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAACCTACACAAGTTGGTGGCACT
66 CTAGTCCTCAAAGAGCAGGAC-GCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
1801290 -TTTCTAGTCCTCATAA-AGCAAGACGCCTTTTCT-TTTTAAAGCCCACACAAGTTGGTGGCACC
1 CTTT-TAGTCCTCA-AAGAGCAGGATGCCTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
1801352 TTCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTGCAAAGCCCATACAAGTTGGTGGCAC
64 TTCTAGTCCTCAAAGAGCAGGACGCTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCAC
1801412 CTACTAGTCC
Statistics
Matches: 311, Mismatches: 35, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
108 1 0.00
109 21 0.07
110 1 0.00
111 3 0.01
114 17 0.05
115 23 0.07
120 28 0.09
121 1 0.00
122 25 0.08
123 116 0.37
124 72 0.23
125 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (123 bp):
CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
CTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:1801236 original size:62 final size:61
Alignment explanation
Indices: 1800932--1801431 Score: 535
Period size: 61 Copynumber: 8.4 Consensus size: 61
1800922 CCTCTCTTTT
* * *
1800932 CACCTTTTAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACCAGTTGGTGG
1 CACCTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
** * * * *
1800987 CATTTTCCAGTCCTCAAAGAACAGGACG------CCTTTCAAAGCCCACACAAGCTGGTGG
1 CACCTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
1801042 CACCTTC-AGTCCTCAAAGAGCAGGATGCTTTTTCCTTTCAAAGCCCACACAAGCTGGTGT
1 CACCTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
1801102 CACCTTC-AGTCCTCAAAGAGTAAGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
1801162 CACTCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CAC-CTTCTAGTCCTCAAAGAGCAGGACG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
1801225 CACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAACCTACACAAGTTGGTGG
1 CACCTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
1801286 CACTTTTCTAGTCCTCATAA-AGCAAGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
1 CAC-CTTCTAGTCCTCA-AAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * ** *
1801348 CACCTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTGCAAAGCCCATACAAGTTGGTGG
1 CACCTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
1801409 CACCTACTAGTCCCCAAGGAGCA
1 CACCTTCTAGTCCTCAAAGAGCA
1801432 AGACCCATTT
Statistics
Matches: 383, Mismatches: 50, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
54 18 0.05
55 53 0.14
60 84 0.22
61 101 0.26
62 91 0.24
63 36 0.09
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (61 bp):
CACCTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:1808212 original size:21 final size:21
Alignment explanation
Indices: 1808183--1808227 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1808173 AAGTTTTTAT
*
1808183 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAAGTTCATTA
*
1808203 TTTTCATTAGCCAAGTTCTTTA
1 TTTTC-TTAGCCAAGTTCATTA
1808225 TTT
1 TTT
1808228 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAAGTTCATTA
Found at i:1808227 original size:22 final size:21
Alignment explanation
Indices: 1808172--1808227 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
1808162 ATGAATCATG
1808172 CAAGTT-TTTATTTTTCTTAGC
1 CAAGTTCTTTA-TTTTCTTAGC
* *
1808193 TAA-TTCATTATTTTCATTAGC
1 CAAGTTCTTTATTTTC-TTAGC
1808214 CAAGTTCTTTATTT
1 CAAGTTCTTTATTT
1808228 CAACTTGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (21 bp):
CAAGTTCTTTATTTTCTTAGC
Found at i:1810456 original size:13 final size:13
Alignment explanation
Indices: 1810438--1810463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1810428 CAATTTTTGG
1810438 TGTATCGATACAT
1 TGTATCGATACAT
1810451 TGTATCGATACAT
1 TGTATCGATACAT
1810464 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1810475 original size:32 final size:33
Alignment explanation
Indices: 1810418--1810481 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1810408 TACAAGCCAA
**
1810418 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1810451 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1810482 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1810488 original size:19 final size:18
Alignment explanation
Indices: 1810418--1810488 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
1810408 TACAAGCCAA
1810418 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
1810438 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
1810451 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1810470 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1810489 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1816537 original size:28 final size:27
Alignment explanation
Indices: 1816479--1816957 Score: 446
Period size: 28 Copynumber: 17.4 Consensus size: 27
1816469 CAAAGCCCAT
* *
1816479 AACTTTGTGGTATCCTTTT-AGTCCAC
1 AACTCTGTGGCATCCTTTTAAGTCCAC
*
1816505 AACTCCGTGGCATCCTTTTATAGTCCAC
1 AACTCTGTGGCATCCTTTTA-AGTCCAC
* *
1816533 AACTCTGTGGCACCCTTTTAAAGTCTAC
1 AACTCTGTGGCATCCTTTT-AAGTCCAC
* * *
1816561 AACTCCGTGGCATCCGTTTCAAGTCCAT
1 AACTCTGTGGCATCC-TTTTAAGTCCAC
*
1816589 AACTCTGTGGCATTCTTTTAAAGTCCAC
1 AACTCTGTGGCATCCTTTT-AAGTCCAC
1816617 AACT-TCGTGGCA-CTCTTTTAAGTCCAC
1 AACTCT-GTGGCATC-CTTTTAAGTCCAC
* * **
1816644 AACTCCGTGACATTTTTTTAAAGTCCAC
1 AACTCTGTGGCATCCTTTT-AAGTCCAC
* *
1816672 AACTCCGTGGCATCCTTTTAAGTCCAT
1 AACTCTGTGGCATCCTTTTAAGTCCAC
*** * *
1816699 AACTCTGTGGTGCCCTTTTAAATCCAT
1 AACTCTGTGGCATCCTTTTAAGTCCAC
*
1816726 AACT-TCGGGGCATCCGTTTTAAGTCCAC
1 AACTCT-GTGGCATCC-TTTTAAGTCCAC
*
1816754 AACTCTGTGGCAGTTCTTTTAAAGTCCAC
1 AACTCTGTGGCA-TCCTTTT-AAGTCCAC
* *
1816783 AACTCTGTGGCGTTCTTTTAAAGTCCAC
1 AACTCTGTGGCATCCTTTT-AAGTCCAC
* * *
1816811 AACTTTGTGGCACCCTTTTAAGTTCAC
1 AACTCTGTGGCATCCTTTTAAGTCCAC
* *
1816838 AACTCTGAGGCA-CTCTTTTAAAGTTCAC
1 AACTCTGTGGCATC-CTTTT-AAGTCCAC
* ***
1816866 CACTCTGTGGTGCCCTTTTAAGTCCAC
1 AACTCTGTGGCATCCTTTTAAGTCCAC
*
1816893 AACTCTGTGGCATCCTTTTAAGTCCAT
1 AACTCTGTGGCATCCTTTTAAGTCCAC
* * *
1816920 AACTCCGCGGCATCCTTTTAAGTACAC
1 AACTCTGTGGCATCCTTTTAAGTCCAC
*
1816947 AATCCCTGTGG
1 AA-CTCTGTGG
1816958 TAACACCCAT
Statistics
Matches: 372, Mismatches: 62, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
26 18 0.05
27 139 0.37
28 188 0.51
29 27 0.07
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.34
Consensus pattern (27 bp):
AACTCTGTGGCATCCTTTTAAGTCCAC
Found at i:1816665 original size:55 final size:55
Alignment explanation
Indices: 1816498--1816948 Score: 446
Period size: 55 Copynumber: 8.2 Consensus size: 55
1816488 GTATCCTTTT
**
1816498 AGTCCACAACTCCGTGGCATCCTTTTATAGTCCACAACTCTGTGGCACCCTTTTAA
1 AGTCCACAACTCCGTGGCATCCTTTTA-AGTCCACAACTCTGTGGCATTCTTTTAA
* * *
1816554 AGTCTACAACTCCGTGGCATCCGTTTCAAGTCCATAACTCTGTGGCATTCTTTTAA
1 AGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCTGTGGCATTCTTTTAA
* * * *
1816610 AGTCCACAACTTCGTGGCA-CTCTTTTAAGTCCACAACTCCGTGACATTTTTTTAA
1 AGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCTGTGGCATTCTTTTAA
* ****
1816665 AGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCTGTGGTGCCCTTTTAA
1 AGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATTCTTTTAA
* * *
1816720 A-TCCATAACTTCGGGGCATCCGTTTTAAGTCCACAACTCTGTGGCAGTTCTTTTAA
1 AGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCTGTGGCA-TTCTTTTAA
* * * * **
1816776 AGTCCACAACTCTGTGGCGTTCTTTTAAAGTCCACAACTTTGTGGCACCCTTTT-A
1 AGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATTCTTTTAA
* * * * * ****
1816831 AGTTCACAACTCTGAGGCA-CTCTTTTAAAGTTCACCACTCTGTGGTGCCCTTTT-A
1 AGTCCACAACTCCGTGGCATC-CTTTT-AAGTCCACAACTCTGTGGCATTCTTTTAA
* * * * *
1816886 AGTCCACAACTCTGTGGCATCCTTTTAAGTCCATAACTCCGCGGCATCCTTTT-A
1 AGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATTCTTTTAA
*
1816940 AGTACACAA
1 AGTCCACAA
1816949 TCCCTGTGGT
Statistics
Matches: 328, Mismatches: 58, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
54 45 0.14
55 163 0.50
56 83 0.25
57 37 0.11
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (55 bp):
AGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATTCTTTTAA
Found at i:1816859 original size:194 final size:192
Alignment explanation
Indices: 1816492--1816957 Score: 547
Period size: 194 Copynumber: 2.4 Consensus size: 192
1816482 TTTGTGGTAT
* * * * * * *
1816492 CCTTTT-AGTCCACAACTCCGTGGCATCCTTTTATAGTCCACAACTCTGTGGCACCCTTTTAAAG
1 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTA-AATCCATAACTCCGCGGCATCCTTTT-AAG
* * * *
1816556 TCTACAACTCCGTGGCATCCGTTTCAAGTCCATAACTCTGTGGCATTCTTTTAAAGTCCACAACT
64 TCCACAACTCTGTGGCATCCGTTTAAAGTCCACAACTCTGTGGCATTCTTTTAAAGTCCACAACT
* * * * *
1816621 TCGTGGCACTCTTTTAAGTCCACAACTCCGTGACATTTTTTTAAAGTCCACAACTCCGTGGCAT
129 TCGTGGCACCCTTTTAAGTCCACAACTCCGAGACACTCTTTTAAAGTCCACAACTCCGTGGCAC
* ** * *
1816685 CCTTTTAAGTCCATAACTCTGTGGTGCCCTTTTAAATCCATAACTTCGGGGCATCCGTTTTAAGT
1 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAATCCATAACTCCGCGGCATCC-TTTTAAGT
* * *
1816750 CCACAACTCTGTGGCAGTTCTTTTAAAGTCCACAACTCTGTGGCGTTCTTTTAAAGTCCACAACT
65 CCACAACTCTGTGGCA-TCCGTTTAAAGTCCACAACTCTGTGGCATTCTTTTAAAGTCCACAACT
* * * * * * * **
1816815 TTGTGGCACCCTTTTAAGTTCACAACTCTGAGGCACTCTTTTAAAGTTCACCACTCTGTGGTGC
129 TCGTGGCACCCTTTTAAGTCCACAACTCCGAGACACTCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
1816879 CCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCATAACTCCGCGGCATCCTTTTAAGTA
1 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAATCCATAACTCCGCGGCATCCTTTTAAGTC
*
1816944 CACAATCCCTGTGG
66 CACAA-CTCTGTGG
1816958 TAACACCCAT
Statistics
Matches: 228, Mismatches: 41, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
193 53 0.23
194 175 0.77
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (192 bp):
CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAATCCATAACTCCGCGGCATCCTTTTAAGTC
CACAACTCTGTGGCATCCGTTTAAAGTCCACAACTCTGTGGCATTCTTTTAAAGTCCACAACTTC
GTGGCACCCTTTTAAGTCCACAACTCCGAGACACTCTTTTAAAGTCCACAACTCCGTGGCAC
Found at i:1817051 original size:32 final size:32
Alignment explanation
Indices: 1816993--1817647 Score: 367
Period size: 32 Copynumber: 21.9 Consensus size: 32
1816983 TCAATGGAAT
* * * *
1816993 CATTTCAAAGTCCAAACAAGTCGGTGGCAACT
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* *
1817025 TATTTGAAAGCCCACACAAGTTGGTGGCAACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* ** *
1817057 CATTTCAAAACCCACACAAGTCAGTGGCAACT
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
*
1817089 CATTTGAAAGCCCACACAAGTTGGTGGCAACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
1817121 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* ** *
1817153 CATTTCAAAACCCACACAAGTCAGTGGC-ATC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* ** *
1817184 C-TTTCAAAGCCCA-A-GAGTCAGTGGCAACT
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* *** *
1817213 CTTTTCAAAG-CC-CACAAGTCAATGGC-ATC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
** *** *
1817242 C-TTTCAAAG-CC-CATGAGTCAATGGCAACT
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* * *
1817271 CTTTTCAAAG-CC-CACAAGTTAGTGGC-ATC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
**
1817300 C-TTTCAAAG-CC-CACAAGTCAGTGGC-ACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* * *
1817328 C-TTTCAAAGCCCATA-AA-TTAGTGGC-ACT
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
** *
1817356 C-TTTCAAAG-CC-CACAAGTCAGTGGC-A-T
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
** *
1817383 TTTTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* * *
1817415 CATTTCAAAACCCACACAAGTCGGTGGTAACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* **
1817447 CATTTCAAAGCTCACA-AA-TCAGTGGC-ACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
** *
1817476 C-TTTCAAAG-CC-CACAAGTCAGTGGC-ATC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* * *
1817504 C-TTTCAAAG-TC-CACAAGTCGGTGGC-ATC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* ** * *
1817532 CTTTTCAAAG-CC-CATGAGTCGGTGGCAACT
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* **
1817562 CTTTTCAAAG-CC-CACAAGTCAGTGGC-ACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* *
1817591 C-TTTCAAAG-CC-CACAAGTCGGTGGC-ACT
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* * *
1817619 CTTTTCAAAGCCCACATAAGTTAGTGGCA
1 CATTTCAAAGCCCACACAAGTTGGTGGCA
1817648 CCTTTTTTTT
Statistics
Matches: 524, Mismatches: 76, Indels: 46
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.01
27 8 0.02
28 171 0.33
29 54 0.10
30 94 0.18
31 17 0.03
32 177 0.34
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (32 bp):
CATTTCAAAGCCCACACAAGTTGGTGGCAACC
Found at i:1817205 original size:28 final size:28
Alignment explanation
Indices: 1816971--1817652 Score: 488
Period size: 28 Copynumber: 23.0 Consensus size: 28
1816961 CACCCATTTT
* * *
1816971 AAAGCCCACAAGTCAATGGAATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * ** *
1816999 AAAGTCCAAACAAGTCGGTGGCAACTTATTTG
1 AAAG-CC-CACAAGTCAGTGGC-A-TCCTTTC
** *
1817031 AAAGCCCACACAAGTTGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ATCC-TTTC
* * *
1817063 AAAACCCACACAAGTCAGTGGCAACTCATTTG
1 -AAAGCC-CACAAGTCAGTGGC-A-TCCTTTC
** *
1817095 AAAGCCCACACAAGTTGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ATCC-TTTC
** *
1817127 AAAGCCCACACAAGTTGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ATCC-TTTC
*
1817159 AAAACCCACACAAGTCAGTGGCATCCTTTC
1 -AAAGCC-CACAAGTCAGTGGCATCCTTTC
*
1817189 AAAGCCCA-AGAGTCAGTGGCAACTCTTTTC
1 AAAGCCCACA-AGTCAGTGGC-A-TCCTTTC
*
1817219 AAAGCCCACAAGTCAATGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
** * *
1817247 AAAGCCCATGAGTCAATGGCAACTCTTTTC
1 AAAGCCCACAAGTCAGTGGC-A-TCCTTTC
*
1817277 AAAGCCCACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
1817305 AAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
1817333 AAAGCCCATAAATTAGTGGCA-CTCTTTC
1 AAAGCCCACAAGTCAGTGGCATC-CTTTC
**
1817361 AAAGCCCACAAGTCAGTGGCATTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1817389 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ATCC-TTTC
* * * *
1817421 AAAACCCACACAAGTCGGTGGTAACCCATTTC
1 -AAAGCC-CACAAGTCAGTGG-CATCC-TTTC
* * *
1817453 AAAGCTCACAAATCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
1817481 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1817509 AAAGTCCACAAGTCGGTGGCATCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
** * *
1817538 AAAGCCCATGAGTCGGTGGCAACTCTTTTC
1 AAAGCCCACAAGTCAGTGGC-A-TCCTTTC
*
1817568 AAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1817596 AAAGCCCACAAGTCGGTGGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCCTTTC
*
1817625 AAAGCCCACATAAGTTAGTGGCA-CCTTT
1 AAAGCCCAC--AAGTCAGTGGCATCCTTT
1817653 TTTTTAGAAG
Statistics
Matches: 542, Mismatches: 82, Indels: 59
0.79 0.12 0.09
Matches are distributed among these distances:
27 2 0.00
28 197 0.36
29 57 0.11
30 105 0.19
31 26 0.05
32 145 0.27
33 10 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:1817652 original size:58 final size:59
Alignment explanation
Indices: 1816967--1817649 Score: 617
Period size: 58 Copynumber: 11.5 Consensus size: 59
1816957 GTAACACCCA
* * * * * *
1816967 TTTT-AAAGCCCAC-AAGTCAATGGAATCATTTCAAAGTCCAAACAAGTCGGTGGCAACT-
1 TTTTCAAAGCCCACAAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCAACTC
* ** *
1817025 TATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAACCCACACAAGTCAGTGGCAACTC
1 T-TTTCAAAGCCCACA-AAGTCAGTGGC-ACCC-TTTC-AAAGCC-CACAAGTCAGTGGCAACTC
* * ** ** *
1817090 ATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCC
1 TTTTCAAAGCCCACA-AAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGCAACTC
* * *
1817154 ATTTCAAAACCCACACAAGTCAGTGGCATCCTTTCAAAGCCCA-AGAGTCAGTGGCAACTC
1 TTTTCAAAGCCCACA-AAGTCAGTGGCACCCTTTCAAAGCCCACA-AGTCAGTGGCAACTC
* * ** *
1817214 TTTTCAAAGCCCAC-AAGTCAATGGCATCCTTTCAAAGCCCATGAGTCAATGGCAACTC
1 TTTTCAAAGCCCACAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTC
* *
1817272 TTTTCAAAGCCCAC-AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-AC-C
1 TTTTCAAAGCCCACAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTC
* * * * *
1817328 CTTTCAAAGCCCATAAA-TTAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGC-A-TT
1 TTTTCAAAGCCCACAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTC
* * * * *
1817384 TTTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGTAACCC
1 TTTTCAAAGCCCACA-AAGTCAGTGGC-ACCC-TTTC-AAAGCC-CACAAGTCAGTGGCAACTC
* *
1817448 ATTTCAAAGCTCACAAA-TCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-A-TC
1 TTTTCAAAGCCCACAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTC
* * * * ** *
1817504 CTTTCAAAGTCCAC-AAGTCGGTGGCATCCTTTTCAAAGCCCATGAGTCGGTGGCAACTC
1 TTTTCAAAGCCCACAAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCAACTC
*
1817563 TTTTCAAAGCCCAC-AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCGGTGGC-ACTC
1 TTTTCAAAGCCCACAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTC
*
1817620 TTTTCAAAGCCCACATAAGTTAGTGGCACC
1 TTTTCAAAGCCCACA-AAGTCAGTGGCACC
1817650 TTTTTTTTAG
Statistics
Matches: 529, Mismatches: 69, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
55 2 0.00
56 81 0.15
57 48 0.09
58 132 0.25
59 50 0.09
60 43 0.08
61 11 0.02
62 34 0.06
63 11 0.02
64 114 0.22
65 3 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (59 bp):
TTTTCAAAGCCCACAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTC
Found at i:1817818 original size:48 final size:48
Alignment explanation
Indices: 1817758--1817937 Score: 261
Period size: 48 Copynumber: 3.8 Consensus size: 48
1817748 GGCACCTTTA
*
1817758 TTAGCTTAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * *
1817806 TTAGCTCAATGTCGCTGGACTTGAATCAGCACATTATCCACTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* *
1817854 TTAGCTCAATGTCACTAGCCTTGAATCAACACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* ** **
1817902 TTAGCTCGATGTCGTTGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTG
1817938 GACACTCCTC
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (48 bp):
TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:1818637 original size:20 final size:20
Alignment explanation
Indices: 1818612--1818686 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
1818602 AAGTAGCCAG
1818612 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1818632 ATGTATCGATACATGTATAA
1 ATGTATCGATACATTTTTCA
*
1818652 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1818672 ATGTATCGATACATT
1 ATGTATCGATACATT
1818687 CTGTCTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1822742 original size:33 final size:33
Alignment explanation
Indices: 1822697--1822793 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 33
1822687 ATATAATATA
*
1822697 ATATAATGTAAATATTTAAATATTTTAAAATTT
1 ATATAATATAAATATTTAAATATTTTAAAATTT
*
1822730 ATATAATATAAAT-TATT-AATATATTAAAATTT
1 ATATAATATAAATAT-TTAAATATTTTAAAATTT
1822762 ATATAAATATAAAATATTTTAAATAATTTTAA
1 ATAT-AATAT-AAATA-TTTAAAT-ATTTTAA
1822794 TATAATAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
32 19 0.35
33 19 0.35
34 4 0.07
35 2 0.04
36 4 0.07
37 6 0.11
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (33 bp):
ATATAATATAAATATTTAAATATTTTAAAATTT
Found at i:1822757 original size:32 final size:32
Alignment explanation
Indices: 1822697--1822779 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 32
1822687 ATATAATATA
* *
1822697 ATATAATGTAAATATTTAAATATTTTAAAATTT
1 ATATAATATAAATA-TTAAATATATTAAAATTT
1822730 ATATAATATAAATTATT-AATATATTAAAATTT
1 ATATAATATAAA-TATTAAATATATTAAAATTT
1822762 ATATAAATATAAAATATT
1 ATAT-AATAT-AAATATT
1822780 TTAAATAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 18 0.40
33 22 0.49
34 5 0.11
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (32 bp):
ATATAATATAAATATTAAATATATTAAAATTT
Found at i:1822774 original size:17 final size:17
Alignment explanation
Indices: 1822722--1822776 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
1822712 TTAAATATTT
1822722 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
1822738 T-AAA-TTAT-TAATATA
1 TAAAATTTATATAA-ATA
1822753 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
1822771 TAAAAT
1 TAAAAT
1822777 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.15
15 6 0.18
16 2 0.06
17 9 0.27
18 7 0.21
19 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:1823132 original size:19 final size:20
Alignment explanation
Indices: 1823110--1823152 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1823100 ATACTTAATT
*
1823110 TTTAAAAA-TTTATTTTATA
1 TTTAAAAAGTATATTTTATA
*
1823129 TTTAAAAAGTATGTTTTATA
1 TTTAAAAAGTATATTTTATA
1823149 TTTA
1 TTTA
1823153 TATTCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTAAAAAGTATATTTTATA
Found at i:1823202 original size:17 final size:18
Alignment explanation
Indices: 1823173--1823227 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
1823163 TGAATCATAT
*
1823173 ATATTTAT-TAAATATAA
1 ATATTTATAAAAATATAA
1823190 ATATTTA-AAAAATA-AA
1 ATATTTATAAAAATATAA
1823206 A-ATTTATAAAACATAATAA
1 ATATTTATAAAA-AT-ATAA
1823225 ATA
1 ATA
1823228 AAAATTAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 5 0.16
16 7 0.23
17 14 0.45
18 1 0.03
19 3 0.10
20 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATATTTATAAAAATATAA
Found at i:1823204 original size:15 final size:17
Alignment explanation
Indices: 1823175--1823226 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 17
1823165 AATCATATAT
* * *
1823175 ATTTATTAAATATAAAT
1 ATTTATAAAACATAAAA
1823192 ATTTA-AAAA-ATAAAA
1 ATTTATAAAACATAAAA
1823207 ATTTATAAAACATAATAA
1 ATTTATAAAACATAA-AA
1823225 AT
1 AT
1823227 AAAAATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 10 0.33
16 7 0.23
17 9 0.30
18 4 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTTATAAAACATAAAA
Found at i:1826999 original size:17 final size:16
Alignment explanation
Indices: 1826978--1827011 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 16
1826968 TTTTGTTATA
1826978 AAAAATTAAAAATTAAAT
1 AAAAA-TAAAAA-TAAAT
1826996 AAAAATAAAAATAAAT
1 AAAAATAAAAATAAAT
1827012 TTTAATTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:1830519 original size:15 final size:15
Alignment explanation
Indices: 1830499--1830529 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1830489 AATGCCTCAT
1830499 ATAAGTAACTTTTAA
1 ATAAGTAACTTTTAA
1830514 ATAAGTAACTTTTAA
1 ATAAGTAACTTTTAA
1830529 A
1 A
1830530 ACAACCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
ATAAGTAACTTTTAA
Found at i:1832344 original size:17 final size:16
Alignment explanation
Indices: 1832289--1832349 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 16
1832279 TTTAAATATG
1832289 TAATAT-AAAAAAATT
1 TAATATAAAAAAAATT
*
1832304 AAAATATAAAATAAAATAT
1 -TAATATAAAA-AAAAT-T
1832323 T-ATATAAAAAATAATT
1 TAATATAAAAAA-AATT
1832339 TAATATTAAAA
1 TAATA-TAAAA
1832350 TTTATAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 9 0.24
17 17 0.46
18 10 0.27
19 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATATAAAAAAAATT
Found at i:1832408 original size:12 final size:12
Alignment explanation
Indices: 1832365--1832426 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 12
1832355 AAAATATATA
1832365 ATATTT-TAAAT
1 ATATTTATAAAT
*
1832376 ATAATTAT-AAT
1 ATATTTATAAAT
*
1832387 ATA--TAAAAAT
1 ATATTTATAAAT
1832397 ATATTTATAAAT
1 ATATTTATAAAT
1832409 ATA-TTATTAAAT
1 ATATTTA-TAAAT
*
1832421 TTATTT
1 ATATTT
1832427 TAATGAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 2 0.05
10 6 0.15
11 14 0.34
12 17 0.41
13 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTTATAAAT
Found at i:1832537 original size:15 final size:17
Alignment explanation
Indices: 1832510--1832554 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
1832500 TTTTTTAAAT
1832510 TTAAAA-AAT-AATATA
1 TTAAAATAATAAATATA
*
1832525 TT-AAAT-ATAAATATT
1 TTAAAATAATAAATATA
1832540 TTAAAATAATAAATA
1 TTAAAATAATAAATA
1832555 ATCCATCGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 5 0.20
15 9 0.36
16 4 0.16
17 7 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAATAATAAATATA
Found at i:1833440 original size:11 final size:11
Alignment explanation
Indices: 1833395--1833449 Score: 69
Period size: 11 Copynumber: 5.1 Consensus size: 11
1833385 AAAAATTATT
1833395 TTTAA-TTAAA
1 TTTAATTTAAA
1833405 TTTAATTTAAA
1 TTTAATTTAAA
* *
1833416 -ATAGATTCAAA
1 TTTA-ATTTAAA
1833427 TTTAATTTAAA
1 TTTAATTTAAA
1833438 TTTAATTTAAA
1 TTTAATTTAAA
1833449 T
1 T
1833450 AAAAAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
10 7 0.18
11 29 0.76
12 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:1833905 original size:22 final size:23
Alignment explanation
Indices: 1833864--1833916 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
1833854 ACAAATATAT
* * *
1833864 ATATTATTATTATTAATTAATTA
1 ATATTAATATTATGAATTAAATA
*
1833887 A-ATTAATATTATGAGTTAAATA
1 ATATTAATATTATGAATTAAATA
1833909 ATATTAAT
1 ATATTAAT
1833917 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
ATATTAATATTATGAATTAAATA
Found at i:1836504 original size:4 final size:4
Alignment explanation
Indices: 1836497--1836577 Score: 57
Period size: 4 Copynumber: 20.8 Consensus size: 4
1836487 GTTAGGTAAA
*
1836497 AAAG AAAG AAAG -AAG ATGAAG -AAG AAAG AAAG AAA- AAAA AAAG AAA-
1 AAAG AAAG AAAG AAAG A--AAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
* *
1836543 AAAT ATGAAG -AAG AAAG AAAG AAA- AAAA AAAG AAA
1 AAAG A--AAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1836578 AAATATGAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
3 18 0.28
4 41 0.64
6 5 0.08
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.04
Consensus pattern (4 bp):
AAAG
Found at i:1836523 original size:20 final size:19
Alignment explanation
Indices: 1836498--1836566 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
1836488 TTAGGTAAAA
1836498 AAGAAAGAAAGAAGATGAAG
1 AAGAAAGAAAGAA-ATGAAG
1836518 AAGAAAGAAAGAAA--AA-
1 AAGAAAGAAAGAAATGAAG
*
1836534 AA-AAAGAAAAAATATGAAG
1 AAGAAAGAAAGAA-ATGAAG
1836553 AAGAAAGAAAGAAA
1 AAGAAAGAAAGAAA
1836567 AAAAAAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 9 0.21
16 3 0.07
17 2 0.05
18 2 0.05
19 4 0.10
20 22 0.52
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (19 bp):
AAGAAAGAAAGAAATGAAG
Found at i:1836540 original size:35 final size:35
Alignment explanation
Indices: 1836494--1836586 Score: 159
Period size: 35 Copynumber: 2.7 Consensus size: 35
1836484 AAAGTTAGGT
* * *
1836494 AAAAAAGAAAGAAAGAAGATGAAGAAGAAAGAAAG
1 AAAAAAAAAAGAAAAAATATGAAGAAGAAAGAAAG
1836529 AAAAAAAAAAGAAAAAATATGAAGAAGAAAGAAAG
1 AAAAAAAAAAGAAAAAATATGAAGAAGAAAGAAAG
1836564 AAAAAAAAAAGAAAAAATATGAA
1 AAAAAAAAAAGAAAAAATATGAA
1836587 ATGAAGTAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (35 bp):
AAAAAAAAAAGAAAAAATATGAAGAAGAAAGAAAG
Found at i:1836577 original size:11 final size:11
Alignment explanation
Indices: 1836515--1836580 Score: 69
Period size: 11 Copynumber: 5.8 Consensus size: 11
1836505 AAAGAAGATG
* *
1836515 AAGAAGAAAGA
1 AAGAAAAAAAA
1836526 AAGAAAAAAAA
1 AAGAAAAAAAA
*
1836537 AAGAAAAAATATG
1 AAGAAAAAA-A-A
* *
1836550 AAGAAGAAAGA
1 AAGAAAAAAAA
1836561 AAGAAAAAAAA
1 AAGAAAAAAAA
1836572 AAGAAAAAA
1 AAGAAAAAA
1836581 TATGAAATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
11 36 0.80
12 1 0.02
13 8 0.18
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:1842563 original size:36 final size:35
Alignment explanation
Indices: 1842484--1842563 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
1842474 TCAAAATGAC
*
1842484 AAAA-AAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAAG
* *
1842518 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGAG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-AG
1842553 AACAACAAAAA
1 AA-AACAAAAA
1842564 TAAAAAAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
34 10 0.26
35 11 0.28
36 18 0.46
ACGTcount: A:0.72, C:0.10, G:0.12, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAAG
Found at i:1843935 original size:27 final size:27
Alignment explanation
Indices: 1843892--1845310 Score: 2343
Period size: 27 Copynumber: 52.0 Consensus size: 27
1843882 GTGGCATTTT
* *
1843892 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1843920 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1843947 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1843975 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844002 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1844029 CTTTTAAGTCCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844056 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844083 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1844111 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1844138 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1844165 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1844193 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844220 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1844248 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844275 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1844302 CTTTTAAGTCCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844329 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844356 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1844384 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844411 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1844438 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1844466 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844493 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1844521 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844548 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1844576 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844603 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1844630 CTTTTAAGTCCACAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1844658 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844685 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1844712 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844739 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1844766 CTTTTAAAACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844793 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1844820 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1844848 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844875 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1844903 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844930 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844957 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1844984 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1845011 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1845039 CTTTTAAGACTACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1845066 CTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1845093 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1845120 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1845147 CTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1845174 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1845202 CTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1845229 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1845256 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1845283 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1845310 C
1 C
1845311 ATTTCAAAGC
Statistics
Matches: 1302, Mismatches: 76, Indels: 27
0.93 0.05 0.02
Matches are distributed among these distances:
27 967 0.74
28 335 0.26
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1843995 original size:82 final size:81
Alignment explanation
Indices: 1843892--1845310 Score: 2343
Period size: 82 Copynumber: 17.3 Consensus size: 81
1843882 GTGGCATTTT
* * *
1843892 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
1843957 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* *
1843975 CTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1844040 ACAACTCCGTAGCACC
66 ACAACTCCGTGGCACC
*
1844056 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
1844121 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * *
1844138 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1844203 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
1844220 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1844285 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
*
1844302 CTTTTAAGTCCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1844367 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
*
1844384 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
1844449 ATAACTCCGTGGCATCT
66 ACAACTCCGTGGCA-CC
*
1844466 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1844531 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
1844548 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1844613 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
*
1844630 CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1844695 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * **
1844712 CTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1844777 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
1844793 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1844858 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
1844875 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1844940 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
1844957 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1845022 ACAACTCTGTGGCATCC
66 ACAACTCCGTGGCA-CC
* * **
1845039 CTTTTAAGACTACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATTCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1845104 ACAACTTCGTGGCACC
66 ACAACTCCGTGGCACC
* *
1845120 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1845185 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* *
1845202 CTTTTAAGACCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1845267 ACAACTCCGTGGCATC
66 ACAACTCCGTGGCACC
* *
1845283 CTTTTAAATCCACAACTCTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCACCC
1845311 ATTTCAAAGC
Statistics
Matches: 1255, Mismatches: 72, Indels: 20
0.93 0.05 0.01
Matches are distributed among these distances:
81 416 0.33
82 694 0.55
83 145 0.12
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:1845348 original size:32 final size:32
Alignment explanation
Indices: 1845293--1845670 Score: 596
Period size: 32 Copynumber: 11.8 Consensus size: 32
1845283 CTTTTAAATC
* *
1845293 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1845324 CACAAGTCGGTGGCAACCCATTTCAAAGGCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1845356 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1845388 CACAAGTCGGTGGCAACCCATTTCAAAGCTCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1845420 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1845452 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1845484 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1845516 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1845548 CACAAGTCGGTGGCAACTCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1845580 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1845612 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** ** *
1845644 TGCAAGTTAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
1845671 TCACCATTTT
Statistics
Matches: 321, Mismatches: 25, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
31 12 0.04
32 309 0.96
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1846921 original size:4 final size:4
Alignment explanation
Indices: 1846914--1846992 Score: 57
Period size: 4 Copynumber: 20.8 Consensus size: 4
1846904 GTTAGGTAAA
1846914 AAAG AAAG AAAG -AAG ATGAAG -AAG AAAG AAAG AAA- AAA- AAAG AAA-
1 AAAG AAAG AAAG AAAG A--AAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
*
1846959 AAAT ATGAAG -AAG AAAG AAAG AAA- AAA- AAAG AAA
1 AAAG A--AAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1846993 AAATATGAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
3 24 0.38
4 35 0.55
6 5 0.08
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (4 bp):
AAAG
Found at i:1846940 original size:20 final size:19
Alignment explanation
Indices: 1846915--1846982 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
1846905 TTAGGTAAAA
1846915 AAGAAAGAAAGAAGATGAAG
1 AAGAAAGAAAGAA-ATGAAG
1846935 AAGAAAGAAAG-AA--AA-
1 AAGAAAGAAAGAAATGAAG
*
1846950 AA-AAAGAAAAAATATGAAG
1 AAGAAAGAAAGAA-ATGAAG
1846969 AAGAAAGAAAGAAA
1 AAGAAAGAAAGAAA
1846983 AAAAAAGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
14 7 0.17
15 3 0.08
16 3 0.08
18 3 0.08
19 4 0.10
20 20 0.50
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (19 bp):
AAGAAAGAAAGAAATGAAG
Found at i:1846956 original size:34 final size:34
Alignment explanation
Indices: 1846911--1847001 Score: 155
Period size: 34 Copynumber: 2.6 Consensus size: 34
1846901 AAAGTTAGGT
* *
1846911 AAAAAAGAAAGAAAGAAGATGAAGAAGAAAGAAAG
1 AAAAAA-AAAGAAAAAATATGAAGAAGAAAGAAAG
1846946 AAAAAAAAAGAAAAAATATGAAGAAGAAAGAAAG
1 AAAAAAAAAGAAAAAATATGAAGAAGAAAGAAAG
1846980 AAAAAAAAAGAAAAAATATGAA
1 AAAAAAAAAGAAAAAATATGAA
1847002 ATGGAGTGGC
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
34 48 0.89
35 6 0.11
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (34 bp):
AAAAAAAAAGAAAAAATATGAAGAAGAAAGAAAG
Found at i:1847002 original size:10 final size:10
Alignment explanation
Indices: 1846932--1846995 Score: 65
Period size: 10 Copynumber: 5.9 Consensus size: 10
1846922 AAAGAAGATG
*
1846932 AAGAAGAAAGA
1 AAGAA-AAAAA
1846943 AAGAAAAAAA
1 AAGAAAAAAA
1846953 AAGAAAAAATA
1 AAGAAAAAA-A
*
1846964 TGAAGAAGAAAGA
1 --AAGAA-AAAAA
1846977 AAGAAAAAAA
1 AAGAAAAAAA
1846987 AAGAAAAAA
1 AAGAAAAAA
1846996 TATGAAATGG
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 26 0.57
11 11 0.24
13 6 0.13
14 3 0.07
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:1854823 original size:20 final size:20
Alignment explanation
Indices: 1854800--1854846 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
1854790 GGAGGTACTG
1854800 AACATG-TCATAAATGCATGA
1 AACATGCTCA-AAATGCATGA
1854820 AACATAGCTCAAAATGCATGA
1 AACAT-GCTCAAAATGCATGA
*
1854841 ATCATG
1 AACATG
1854847 GGCTGTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (20 bp):
AACATGCTCAAAATGCATGA
Found at i:1855026 original size:467 final size:467
Alignment explanation
Indices: 1854148--1855089 Score: 1767
Period size: 467 Copynumber: 2.0 Consensus size: 467
1854138 TGATTCCAGA
*
1854148 CCTGATTTACTAAATTTACACCAAGATTAAAGTGTCAATTCGATAAAAAAGCTTAAATCCAAGCT
1 CCTGGTTTACTAAATTTACACCAAGATTAAAGTGTCAATTCGATAAAAAAGCTTAAATCCAAGCT
**
1854213 AATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGAGGTGTTTGAAAATCTGTTTTGATGC
66 AATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGAGGTGTTTGAAAATCAATTTTGATGC
*
1854278 AAACAAGCATGATGATCATGCAAGAACATGATAAACAACATTCATGGAGGTGCTGAACATGTCAT
131 AAACAAGCATGATGATCATGCAAGAACATGATAAACAACATTCATGGAGGTACTGAACATGTCAT
*
1854343 AAATGCATGAAGCATAGCTCAAAATGCATGAATCATGGGCTGTTAACATGATGGAGATGAATATG
196 AAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTAACATGATGGAGATGAATATG
* **
1854408 GCATTTTAGGTACACAAATGACTTTAAATCATTAAAATCATCACAATAATCCTAAAACTATTACA
261 GCATTTTAGGTACACAAATGACTTTAAATCATTAAAACCATCACAATAATCCTAAAACTACCACA
*
1854473 TCCAAAGCCACAATCATGCATTATGATCCTAAGAAGGTCATGGAAACATGTTAGGATTACTAAAA
326 TCCAAAGCCACAATCATGCATTATGATCCTAAGAAGGTCATGGAAACATGTTAGGATCACTAAAA
1854538 TGATGAAGAACACATAAACAGAAAAGGAAAGTGTAAAAGTGCAGAAAATATACCAACACAAAGAA
391 TGATGAAGAACACATAAACAGAAAAGGAAAGTGTAAAAGTGCAGAAAATATACCAACACAAAGAA
1854603 CAATGCTGATTT
456 CAATGCTGATTT
* * *
1854615 CTTGGTTTACTAAATTTACCCCAAGATTGAAGTGTCAATTCGATAAAAAAGCTTAAATCCAAGCT
1 CCTGGTTTACTAAATTTACACCAAGATTAAAGTGTCAATTCGATAAAAAAGCTTAAATCCAAGCT
1854680 AATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGAGGTGTTTGAAAATCAATTTTGATGC
66 AATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGAGGTGTTTGAAAATCAATTTTGATGC
1854745 AAACAAGCATGATGATCATGCAAGAACATGATAAACAACATTCATGGAGGTACTGAACATGTCAT
131 AAACAAGCATGATGATCATGCAAGAACATGATAAACAACATTCATGGAGGTACTGAACATGTCAT
1854810 AAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTAACATGATGGAGATGAATATG
196 AAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTAACATGATGGAGATGAATATG
1854875 GCATTTTAGGTACACAAATGACTTTAAATCATTAAAACCATCACAATAATCCTAAAACTACCACA
261 GCATTTTAGGTACACAAATGACTTTAAATCATTAAAACCATCACAATAATCCTAAAACTACCACA
*
1854940 TCCAAAGCCACAATCATGCATTATGATCCTAGGAAGGTCATGGAAACATGTTAGGATCACTAAAA
326 TCCAAAGCCACAATCATGCATTATGATCCTAAGAAGGTCATGGAAACATGTTAGGATCACTAAAA
1855005 TGATGAAGAACACATAAACAGAAAAGGAAAGTGTAAAAGTGCAGAAAATATACCAACACAAAGAA
391 TGATGAAGAACACATAAACAGAAAAGGAAAGTGTAAAAGTGCAGAAAATATACCAACACAAAGAA
1855070 CAATGCTGATTT
456 CAATGCTGATTT
1855082 CCTGGTTT
1 CCTGGTTT
1855090 GGAGAGACAA
Statistics
Matches: 461, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
467 461 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.26
Consensus pattern (467 bp):
CCTGGTTTACTAAATTTACACCAAGATTAAAGTGTCAATTCGATAAAAAAGCTTAAATCCAAGCT
AATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGAGGTGTTTGAAAATCAATTTTGATGC
AAACAAGCATGATGATCATGCAAGAACATGATAAACAACATTCATGGAGGTACTGAACATGTCAT
AAATGCATGAAACATAGCTCAAAATGCATGAATCATGGGCTGTTAACATGATGGAGATGAATATG
GCATTTTAGGTACACAAATGACTTTAAATCATTAAAACCATCACAATAATCCTAAAACTACCACA
TCCAAAGCCACAATCATGCATTATGATCCTAAGAAGGTCATGGAAACATGTTAGGATCACTAAAA
TGATGAAGAACACATAAACAGAAAAGGAAAGTGTAAAAGTGCAGAAAATATACCAACACAAAGAA
CAATGCTGATTT
Found at i:1860572 original size:22 final size:21
Alignment explanation
Indices: 1860554--1860596 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1860544 AGAAGCAATG
*
1860554 GCAACAGCAACCAGCAGCAAGA
1 GCAACAACAA-CAGCAGCAAGA
*
1860576 GCAACAACAACAGTAGCAAGA
1 GCAACAACAACAGCAGCAAGA
1860597 AACGAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.49, C:0.28, G:0.21, T:0.02
Consensus pattern (21 bp):
GCAACAACAACAGCAGCAAGA
Found at i:1860675 original size:28 final size:28
Alignment explanation
Indices: 1860644--1860699 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1860634 AACAACAAGT
*
1860644 GAGGAAAGAAGAA-CAACAAGCAAAGAAA
1 GAGGAAACAAGAAGCAA-AAGCAAAGAAA
*
1860672 GAGGAAACAATAAGCAAAAGCAAAGAAA
1 GAGGAAACAAGAAGCAAAAGCAAAGAAA
1860700 AAACTTACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.64, C:0.11, G:0.23, T:0.02
Consensus pattern (28 bp):
GAGGAAACAAGAAGCAAAAGCAAAGAAA
Found at i:1860686 original size:22 final size:21
Alignment explanation
Indices: 1860647--1860698 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
1860637 AACAAGTGAG
1860647 GAAAGAAGAACAACAAGCAAA
1 GAAAGAAGAACAACAAGCAAA
* *
1860668 GAAAGAGGAAACAATAAGCAAAA
1 GAAAGAAG-AACAACAAGC-AAA
1860691 GCAAAGAA
1 G-AAAGAA
1860699 AAAACTTACG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.28
22 9 0.36
23 4 0.16
24 5 0.20
ACGTcount: A:0.65, C:0.12, G:0.21, T:0.02
Consensus pattern (21 bp):
GAAAGAAGAACAACAAGCAAA
Found at i:1862316 original size:156 final size:156
Alignment explanation
Indices: 1861929--1863312 Score: 1273
Period size: 156 Copynumber: 8.9 Consensus size: 156
1861919 AACCAAGTTC
* * * * * * *
1861929 TAGGTTATCACCAGGTCCGTTTTTATGCTGAAAGTGCGTATTTAGGATAGGTTCACCCCTTTTAT
1 TAGGTTATCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTTT
* * * * * * *
1861994 AGTCCTTTTTAAGTCATTTGGGGATATC-GAGATACTTTCACATCGAAGGTATCCCCTAGGGGTA
66 AGTCCTTTTTAAGTCCTTTAGGGATACCAG-GATACTTTCACGTCGAAGGTATCCCTTAAGGGCA
* * *
1862058 TTTTTTTAATTTTTTAAAAATCGAGTCT
130 TTTTTGTAATTTCTT-AGAATCGAGTCT
* *** * ** *
1862086 TAGGTTACCATTAGGTCCGCGATTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCATTTTTT
1 TAGGTTATCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTTT
* * *
1862151 AGTCCTTTTTAAGTCCTTTA-GGAGTACCAGGATACCTTCACGTCAAAGGTATCCCTTAAGGGTA
66 AGTCCTTTTTAAGTCCTTTAGGGA-TACCAGGATACTTTCACGTCGAAGGTATCCCTTAAGGGCA
* * * *
1862215 TTTTTGTAATTTCATAGAACCAAGTCC
130 TTTTTGTAATTTCTTAGAATCGAGTCT
* * * *
1862242 TAGGTTATCACCGGGTTCGCGTTTATGCCAAAAGTGGGCATTTAGGATAGGTTCACCCCTTTTTT
1 TAGGTTATCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTTT
* * * * * * *
1862307 AGTCATTTTTAAGTCTTTTAGGGGTACCGGGATACTTTCATGTCGAAGGTATCCCCTAAAGGCAT
66 AGTCCTTTTTAAGTCCTTTAGGGATACCAGGATACTTTCACGTCGAAGGTATCCCTTAAGGGCAT
*
1862372 TTTTGTAATTTCTTAGAATCGAGTCC
131 TTTTGTAATTTCTTAGAATCGAGTCT
* * ** * * * * * *
1862398 TAGGTTGTCACCGGGTCCAATTTTATACCAAATGTGAGTATTTAGGATAGGTTCGCCCCTTTTAT
1 TAGGTTATCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTTT
* * * * * *
1862463 AATCC-TTTTAAATCTTTTA-GGATTA-CTGGATATTTTCACGTCGAAGGTA-----TAAAGGCA
66 AGTCCTTTTTAAGTCCTTTAGGGA-TACCAGGATACTTTCACGTCGAAGGTATCCCTTAAGGGCA
* *
1862520 TTTTCGTAATTT-TTCAAAATCGAGTCT
130 TTTTTGTAATTTCTT-AGAATCGAGTCT
* * * * *
1862547 TAGGTTATCACCAGG-TCTACTTTTATGTCGAATGTGGGTATTTAGGATAGGTTCACCCCTTTTA
1 TAGGTTATCACCGGGTTC-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTT
* * * *
1862611 TAGTCCTTTTTAAGTCATTTAGGGATACCAAGATACTTTCACGTCGAAGGTATCCCCTAGGGGCA
65 TAGTCCTTTTTAAGTCCTTTAGGGATACCAGGATACTTTCACGTCGAAGGTATCCCTTAAGGGCA
*
1862676 TTTTTGTAATTTCTTAAAATCGAGTCT
130 TTTTTGTAATTTCTTAGAATCGAGTCT
** ** * *
1862703 TAGGTTATCATTGGG-TCAGCGATTATGCCGAAGGTGGGTATTTAGAATAGGTTCACCCTTTTTT
1 TAGGTTATCACCGGGTTC-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTT
* *** * *
1862767 TAGTCCTTTTTAAGCCCTTTA-GGAGTATTGGGATACTTTCACATCGAAGGTAT-CCTATAGGGG
65 TAGTCCTTTTTAAGTCCTTTAGGGA-TACCAGGATACTTTCACGTCGAAGGTATCCCT-TAAGGG
*
1862830 TATTTTTGTAATTTCTTAGAAAT-GAGTCT
128 CATTTTTGTAATTTCTTAG-AATCGAGTCT
* * * * * * *
1862859 TA-GTTATCACCGGATCCACGTTTATGCCAAAGGTGGGTATTTAGAATAGGTTCACCTCTTTTTT
1 TAGGTTATCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACC-CCTTTTT
** * * * *
1862923 TAGTTTTTTTTAAGTTCTTTAGGGATACTAGGATACTTTCATGTCGAAGGTATCCCTTTAGGAGC
65 TAGTCCTTTTTAAGTCCTTTAGGGATACCAGGATACTTTCACGTCGAAGGTATCCCTTAAGG-GC
* *
1862988 ATTTTTATAATTTCTTAGAACCGAGTCT
129 ATTTTTGTAATTTCTTAGAATCGAGTCT
* *** * * * * *
1863016 TAGGTTGTCACTAAGTTTGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTTACCCATTTTAT
1 TAGGTTATCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTTT
* ** * * *
1863081 AGTCCTTTTTAAGTCCTTTAGGGTTACTGGGATACTTTCACCTCGAAAGTATACCTATAAGGGCA
66 AGTCCTTTTTAAGTCCTTTAGGGATACCAGGATACTTTCACGTCGAAGGTATCCCT-TAAGGGCA
** * *
1863146 TTTTCATAATTT-TTAAAATCGAGTCA
130 TTTTTGTAATTTCTTAGAATCGAGTCT
* * *
1863172 TAGGTTATCACCGGG-TCTGTTTTTATGCCGAAGGTAGGTATTTATGATAGGTTCACCCCTTTTT
1 TAGGTTATCACCGGGTTC-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTT
* ** * * * * * *
1863236 ATAATCCTTTTTAAGTTTTTTAAGGATATC-GGGTAC-TTCTATGTTGAAGGTATCTCTT-AGAG
65 -TAGTCCTTTTTAAGTCCTTTAGGGATACCAGGATACTTTC-ACGTCGAAGGTATCCCTTAAG-G
*
1863298 GCATTTTCGTAATTT
127 GCATTTTTGTAATTT
1863313 TTATAGAACT
Statistics
Matches: 1011, Mismatches: 186, Indels: 62
0.80 0.15 0.05
Matches are distributed among these distances:
148 3 0.00
149 87 0.09
150 14 0.01
151 24 0.02
154 25 0.02
155 85 0.08
156 483 0.48
157 244 0.24
158 46 0.05
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (156 bp):
TAGGTTATCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTTT
AGTCCTTTTTAAGTCCTTTAGGGATACCAGGATACTTTCACGTCGAAGGTATCCCTTAAGGGCAT
TTTTGTAATTTCTTAGAATCGAGTCT
Found at i:1862755 original size:461 final size:461
Alignment explanation
Indices: 1861966--1863312 Score: 1385
Period size: 461 Copynumber: 2.9 Consensus size: 461
1861956 CTGAAAGTGC
* * * * *
1861966 GTATTTAGGATAGGTTCACC-CCTTTTATAG-TCCTTTTTAAGTCATTTGGGGATA-TCGAGATA
1 GTATTTAGAATAGGTTCACCTCCTTTTATAGATCCTTTTAAATTC-TTTAGGGATACTAG-GATA
* * * * **
1862028 CTTTCACATCGAAGGTATCCCCT-AGGGGTATTTTTTTAATTTTTTAAAAATCGAGTCTTAGGTT
64 CTTTCACGTCGAAGGTA----CTAAAGAGCATTTTCATAA-TTTTT-AAAATCGAGTCTTAGGTT
* * * ** *
1862092 ACCATTAGGTCCGCGATTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCCATTTTTTAGTCCT
123 ATCACTAGGTCTGCTTTTATG-CGAAGGTGGGTATTTAGGATAGGTTCACCCATTTTATAGTCCT
* * * *
1862157 TTTTAAGTCCTTTA-GGAGTACCAGGATACCTTCACGTCAAAGGTATCCCTTAAGGGTATTTTTG
187 TTTTAAGTCCTTTAGGGA-TACCAGGATACTTTCACGTCGAAGGTATCCCATAAGGGCATTTTTG
* * * * * * * *
1862221 TAATTTCATAGAACCAAGTCCTAGGTTATCACCGGGTTCGCGTTTATGCCAAAAGTGGGCATTTA
251 TAATTTCTTAAAATCGAGTCATAGGTTATCACCGGG-TCGCGTTTATGCCGAAGGTGGGTATTTA
* *
1862286 GGATAGGTTCACCCCTTTTTTAGTCATTTTTAAGTCTTTTAGGGGTACCGGGATACTTTCATGTC
315 -GATAGGTTCACCCCTTTTTTAGTCCTTTTTAAGTCTTTTAGGGGTATCGGGATACTTTCATGTC
* * * *
1862351 GAAGGTATCCCCTAAAGGCATTTTTGTAATTTCTTAG-AATCGAGTCCTAGGTTGTCACCGGGTC
379 GAAGGTATCCCATAGAGGCATTTTTGTAATTTCTTAGAAAT-GAGTCCTA-GTTATCACCGGATC
* *
1862415 CAATTTTATACCAAATGTGA
442 CAAGTTTATACCAAAGGTGA
* *
1862435 GTATTTAGGATAGGTTCGCC-CCTTTTATA-ATCCTTTTAAA-TCTTTTA-GGATTACT-GGATA
1 GTATTTAGAATAGGTTCACCTCCTTTTATAGATCCTTTTAAATTC-TTTAGGGA-TACTAGGATA
* *
1862495 TTTTCACGTCGAAGGTA-TAAAG-GCATTTTCGTAATTTTTCAAAATCGAGTCTTAGGTTATCAC
64 CTTTCACGTCGAAGGTACTAAAGAGCATTTTCATAATTTTT-AAAATCGAGTCTTAGGTTATCAC
* * * *
1862558 CAGGTCTACTTTTATGTCGAATGTGGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTA
128 TAGGTCTGCTTTTATG-CGAAGGTGGGTATTTAGGATAGGTTCACCCATTTTATAGTCCTTTTTA
* * * *
1862623 AGTCATTTAGGGATACCAAGATACTTTCACGTCGAAGGTATCCCCTAGGGGCATTTTTGTAATTT
192 AGTCCTTTAGGGATACCAGGATACTTTCACGTCGAAGGTATCCCATAAGGGCATTTTTGTAATTT
* ** *
1862688 CTTAAAATCGAGTCTTAGGTTATCATTGGGTCAGCGATTATGCCGAAGGTGGGTATTTAGAATAG
257 CTTAAAATCGAGTCATAGGTTATCACCGGGTC-GCGTTTATGCCGAAGGTGGGTATTTAG-ATAG
* * * * * **
1862753 GTTCACCCTTTTTTTAGTCCTTTTTAAGCCCTTTAGGAGTATTGGGATACTTTCACATCGAAGGT
320 GTTCACCCCTTTTTTAGTCCTTTTTAAGTCTTTTAGGGGTATCGGGATACTTTCATGTCGAAGGT
* * * * *
1862818 ATCCTATAGGGGTATTTTTGTAATTTCTTAGAAATGAGTCTTAGTTATCACCGGATCCACGTTTA
385 ATCCCATAGAGGCATTTTTGTAATTTCTTAGAAATGAGTCCTAGTTATCACCGGATCCAAGTTTA
* *
1862883 TGCCAAAGGTGG
450 TACCAAAGGTGA
* * * ** *
1862895 GTATTTAGAATAGGTTCACCTCTTTTTTTAGTTTTTTTTAAGTTCTTTAGGGATACTAGGATACT
1 GTATTTAGAATAGGTTCACCTCCTTTTATAGATCCTTTTAAATTCTTTAGGGATACTAGGATACT
* * * * * * *
1862960 TTCATGTCGAAGGTATCCCTTTAGGAGCATTTTTATAATTTCTTAGAACCGAGTCTTAGGTTGTC
66 TTCACGTCGAAGGTA---C-TAAAGAGCATTTTCATAATTT-TTAAAATCGAGTCTTAGGTTATC
* * *
1863025 ACTAAGTTTGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTTACCCATTTTATAGTCCTTTT
126 ACTAGGTCTGCTTTTATGC-GAAGGTGGGTATTTAGGATAGGTTCACCCATTTTATAGTCCTTTT
* ** * * * **
1863090 TAAGTCCTTTAGGGTTACTGGGATACTTTCACCTCGAAAGTATACCTATAAGGGCATTTTCATAA
190 TAAGTCCTTTAGGGATACCAGGATACTTTCACGTCGAAGGTAT-CCCATAAGGGCATTTTTGTAA
** *
1863155 TTT-TTAAAATCGAGTCATAGGTTATCACCGGGTCTGTTTTTATGCCGAAGGTAGGTATTTATGA
254 TTTCTTAAAATCGAGTCATAGGTTATCACCGGGTC-GCGTTTATGCCGAAGGTGGGTATTTA-GA
* * * * *
1863219 TAGGTTCACCCCTTTTTATAATCCTTTTTAAGTTTTTTAAGGATATCGGG-TAC-TTCTATGTTG
317 TAGGTTCACCCCTTTTT-TAGTCCTTTTTAAGTCTTTTAGGGGTATCGGGATACTTTC-ATGTCG
* * *
1863282 AAGGTATCTCTTAGAGGCATTTTCGTAATTT
380 AAGGTATCCCATAGAGGCATTTTTGTAATTT
1863313 TTATAGAACT
Statistics
Matches: 729, Mismatches: 124, Indels: 50
0.81 0.14 0.06
Matches are distributed among these distances:
460 48 0.07
461 281 0.39
462 31 0.04
463 27 0.04
467 22 0.03
468 15 0.02
469 259 0.36
470 46 0.06
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (461 bp):
GTATTTAGAATAGGTTCACCTCCTTTTATAGATCCTTTTAAATTCTTTAGGGATACTAGGATACT
TTCACGTCGAAGGTACTAAAGAGCATTTTCATAATTTTTAAAATCGAGTCTTAGGTTATCACTAG
GTCTGCTTTTATGCGAAGGTGGGTATTTAGGATAGGTTCACCCATTTTATAGTCCTTTTTAAGTC
CTTTAGGGATACCAGGATACTTTCACGTCGAAGGTATCCCATAAGGGCATTTTTGTAATTTCTTA
AAATCGAGTCATAGGTTATCACCGGGTCGCGTTTATGCCGAAGGTGGGTATTTAGATAGGTTCAC
CCCTTTTTTAGTCCTTTTTAAGTCTTTTAGGGGTATCGGGATACTTTCATGTCGAAGGTATCCCA
TAGAGGCATTTTTGTAATTTCTTAGAAATGAGTCCTAGTTATCACCGGATCCAAGTTTATACCAA
AGGTGA
Found at i:1864646 original size:13 final size:13
Alignment explanation
Indices: 1864613--1864663 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
1864603 AAATACCCAG
1864613 ATGTATCGATACA
1 ATGTATCGATACA
1864626 ATGT-TCGATACA
1 ATGTATCGATACA
* *
1864638 TTATATCGATACA
1 ATGTATCGATACA
1864651 ATGTATCGATACA
1 ATGTATCGATACA
1864664 TGGGTTACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 10 0.30
13 23 0.70
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1864650 original size:25 final size:26
Alignment explanation
Indices: 1864616--1864664 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
1864606 TACCCAGATG
1864616 TATCGATACAATGT-TCGATACATTA
1 TATCGATACAATGTATCGATACATTA
1864641 TATCGATACAATGTATCGATACAT
1 TATCGATACAATGTATCGATACAT
1864665 GGGTTACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (26 bp):
TATCGATACAATGTATCGATACATTA
Found at i:1869206 original size:51 final size:51
Alignment explanation
Indices: 1869141--1869372 Score: 274
Period size: 51 Copynumber: 4.6 Consensus size: 51
1869131 TAAGTTTCTC
* * * *
1869141 AATTTTTCATAATCGGGGATACTCCAGCCCCGGTTTTA-TTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACT
* * *
1869192 AATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCGAAATAC-
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACT
* * *
1869242 AATTTTCCACAATTGGGGATACTCGAACCCC-AGTTTTA-TTTCTAAAACACC
1 AATTTTCCACAATCGGGGATACTCCAACCCCGA-TTTTATTTTC-AAAACACT
* * *
1869293 AATTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACT
* *
1869344 AATTTTTCACAATCGAGGATACTCCAACC
1 AATTTTCCACAATCGGGGATACTCCAACC
1869373 TCGTTATTTC
Statistics
Matches: 152, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
49 5 0.03
50 38 0.25
51 100 0.66
52 9 0.06
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACT
Found at i:1869302 original size:101 final size:101
Alignment explanation
Indices: 1869140--1869372 Score: 349
Period size: 101 Copynumber: 2.3 Consensus size: 101
1869130 TTAAGTTTCT
* * * * *
1869140 CAATTTTTCATAATCGGGGATACTCCAGCCCCGGTTTTATTTCTAAAACACTAATTTTCCACAAT
1 CAATTTTTCACAATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAAT
* *
1869205 CGGGGATACTCCAACTCCGATTTTATTTTCGAAATA
66 CGGGGATACTCCAACTCCGATTTTATTTTCAAAACA
* * *
1869241 CAATTTTCCACAATTGGGGATACTCGAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAAT
1 CAATTTTTCACAATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAAT
*
1869306 CGGGGATATTCCAACTCCGATTTTATTTTCAAAACA
66 CGGGGATACTCCAACTCCGATTTTATTTTCAAAACA
*
1869342 CTAATTTTTCACAATCGAGGATACTCCAACC
1 C-AATTTTTCACAATCGGGGATACTCCAACC
1869373 TCGTTATTTC
Statistics
Matches: 116, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 91 0.78
102 25 0.22
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (101 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAAT
CGGGGATACTCCAACTCCGATTTTATTTTCAAAACA
Found at i:1869400 original size:28 final size:29
Alignment explanation
Indices: 1869360--1869432 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
1869350 TCACAATCGA
* ** *
1869360 GGATACTCCAACCTCGTTA-TTTCTTCTG
1 GGATACTCCAACCCCGTTACTTTCGACGG
*
1869388 GGATACTCCAACCCCGTTACTTTCGAGGG
1 GGATACTCCAACCCCGTTACTTTCGACGG
1869417 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1869433 GCTTTATTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.27
Consensus pattern (29 bp):
GGATACTCCAACCCCGTTACTTTCGACGG
Found at i:1870364 original size:13 final size:13
Alignment explanation
Indices: 1870346--1870370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1870336 CATAAAATGT
1870346 TGTATCGATACAA
1 TGTATCGATACAA
1870359 TGTATCGATACA
1 TGTATCGATACA
1870371 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1870489 original size:52 final size:52
Alignment explanation
Indices: 1870433--1870557 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
1870423 CACTGATCTT
*
1870433 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1870485 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1870537 TGTAACGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1870558 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Done.