Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 75 of 129
Found at i:11846782 original size:57 final size:56
Alignment explanation
Indices: 11846718--11847158 Score: 403
Period size: 57 Copynumber: 7.6 Consensus size: 56
11846708 TTGTGCAGAA
* * *
11846718 AAAATTGATACTTTCGACTTTTTCCCAAAATATTTTTTAGAAATTTTAATCTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTT-GAAACTTTAATTTCAAGG
* *
11846775 AAAATTGATACTTTCAACTTTTTCCCAAAATATCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTGAAACTTTAATTTCAAGG
* * * * *
11846831 AAAATTGATACTTTCAACTTTTTCTCAAAA-ACCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCCAAAATA--TTTTTTGAAACTTTAATTTCAAGG
* *
11846888 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACCTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCCC-AAAATATTTTTTG-AAACTTTAATTTCAAGG
* *
11846946 AAAATTGATACTTTCAACTTTTCCCCCAAAAATATTTTTTTTTGTGGAAAGC-TTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTT-TCCC-AAAATA----TTTTT-T-GAAA-CTTTAATTTCAAGG
* * * * * *
11847010 AAAATTGATACTTTCAAC-TTTTCCTTAAAATCTTTTTTTTTTTGAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTTCC-CAAAA-----TATTTTTTGAAACTTTAATTTCAAGG
* * * * *
11847071 AAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTAAA----AATTTCGAGA
1 AAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTGAAACTTTAATTTCAAGG
11847123 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTT
1 AAAATTGATACTTTCAACTTTTTCC-C-AAAATATTT
11847159 ATTTTTGAAA
Statistics
Matches: 322, Mismatches: 39, Indels: 50
0.78 0.09 0.12
Matches are distributed among these distances:
51 5 0.02
52 23 0.07
53 9 0.03
55 1 0.00
56 54 0.17
57 86 0.27
58 37 0.11
59 11 0.03
61 36 0.11
62 12 0.04
63 13 0.04
64 32 0.10
65 2 0.01
67 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTGAAACTTTAATTTCAAGG
Found at i:11846909 original size:113 final size:114
Alignment explanation
Indices: 11846718--11847158 Score: 427
Period size: 113 Copynumber: 3.8 Consensus size: 114
11846708 TTGTGCAGAA
* * * * *
11846718 AAAATTGATACTTTCGACTTTTTCCCAAAATA-TTTTTTAGAAATTTTAATCTCAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTTAGAAAATTTATTTTCAAGAAAAATTG
*
11846782 ATACTTTCAACTTTTTCC-CAAAATATCTTTTGAAACTTTAATTTCGAGG
66 ATACTTTCAAC-TTTTCCTCAAAATATTTTTTGAAACTTTAATTTCGAGG
* * *
11846831 AAAATTGATACTTTCAACTTTTTCTCAAAA-ACCTTTTTT-GAAAATTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTTCCCAAAATA-TTTTTTTAGAAAATTTATTTTCAAGAAAAATT
*
11846894 GATACTTTCAACTTTTTCC-CAAAAATATTTTTTGAAAACCTTAATTTCGAGG
65 GATACTTTCAAC-TTTTCCTC-AAAATATTTTTTG-AAACTTTAATTTCGAGG
* * ** *
11846946 AAAATTGATACTTTCAACTTTTCCCCCAAAAATATTTTTTTTTGTGGAAAGCTTATTTTCAAGGA
1 AAAATTGATACTTTCAACTTTT-TCCC-AAAATA---TTTTTT-TAGAAAATTTATTTTCAAGAA
* * * * ** *
11847011 AAATTGATACTTTCAACTTTTCCTTAAAATCTTTTTTTTTTTGAAAATTTATTTTTAAAG
60 AAATTGATACTTTCAACTTTTCCTCAAAA-----TATTTTTTGAAACTTTAATTTCGAGG
* * *
11847071 AAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTT--AAAA---A-TTTCGAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTTAGAAAATTTATTTTCAAGAAAAATTG
11847130 ATACTTTCAACTTTTCCTCAAAAATATTT
66 ATACTTTCAACTTTTCCTC-AAAATATTT
11847159 ATTTTTGAAA
Statistics
Matches: 277, Mismatches: 33, Indels: 40
0.79 0.09 0.11
Matches are distributed among these distances:
109 4 0.01
112 1 0.00
113 98 0.35
114 23 0.08
115 38 0.14
116 2 0.01
117 7 0.03
118 1 0.00
119 1 0.00
120 11 0.04
121 11 0.04
122 32 0.12
123 6 0.02
124 1 0.00
125 33 0.12
126 8 0.03
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (114 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTTAGAAAATTTATTTTCAAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAATATTTTTTGAAACTTTAATTTCGAGG
Found at i:11847175 original size:16 final size:16
Alignment explanation
Indices: 11847150--11847180 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11847140 CTTTTCCTCA
11847150 AAAATATTTATTTTTG
1 AAAATATTTATTTTTG
*
11847166 AAAATTTTTATTTTT
1 AAAATATTTATTTTT
11847181 TGTAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
AAAATATTTATTTTTG
Found at i:11847180 original size:17 final size:17
Alignment explanation
Indices: 11847150--11847187 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
11847140 CTTTTCCTCA
11847150 AAAATATTTATTTTTG-
1 AAAATATTTATTTTTGT
*
11847166 AAAATTTTTATTTTTTGT
1 AAAATATTTA-TTTTTGT
11847184 AAAA
1 AAAA
11847188 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 6 0.32
18 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
AAAATATTTATTTTTGT
Found at i:11847196 original size:5 final size:5
Alignment explanation
Indices: 11847183--11847214 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11847173 TTATTTTTTG
11847183 TAAAA -AAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA
11847215 TACTCCTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:11857018 original size:31 final size:28
Alignment explanation
Indices: 11856963--11857023 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
11856953 AAAAAAGGAT
* *
11856963 AAATAATAATAAAAATACAAAATATAAA
1 AAATAATAACAAAAATAAAAAATATAAA
11856991 AAATAATAACAAAAATAAATATGAATATAAA
1 AAATAATAACAAAAATAAA-A--AATATAAA
11857022 AA
1 AA
11857024 GAAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 17 0.61
29 1 0.04
31 10 0.36
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (28 bp):
AAATAATAACAAAAATAAAAAATATAAA
Found at i:11858199 original size:13 final size:13
Alignment explanation
Indices: 11858183--11858220 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
11858173 AATTACAGAG
11858183 AAAAAAAAATAGT
1 AAAAAAAAATAGT
11858196 AAAAAAAAA-AGT
1 AAAAAAAAATAGT
11858208 AAAGGAAAAAATA
1 AAA--AAAAAATA
11858221 CATGGAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.27
13 9 0.41
14 6 0.27
15 1 0.05
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (13 bp):
AAAAAAAAATAGT
Found at i:11863680 original size:3 final size:3
Alignment explanation
Indices: 11863674--11863724 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
11863664 CTTTTTTTAA
* *
11863674 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT -AT AAT -AT AAT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
11863721 AAT A
1 AAT A
11863725 TTAAACCGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.85
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:11864391 original size:17 final size:17
Alignment explanation
Indices: 11864380--11864517 Score: 77
Period size: 17 Copynumber: 7.8 Consensus size: 17
11864370 ATTCATATTT
11864380 GTAAGAAATTCAAGTTC
1 GTAAGAAATTCAAGTTC
11864397 GTAAGAAATTCAAAGGTTC
1 GTAAGAAATTC-AA-GTTC
* *
11864416 ATAAGAAATT-TAGATTC
1 GTAAGAAATTCAAG-TTC
*
11864433 GCAAGAAATTCAAAGATTC
1 GTAAGAAATTC-AAG-TTC
* *
11864452 GTAAAAAATT-TAGATT-
1 GTAAGAAATTCAAG-TTC
*
11864468 -TAAAAAAACTTCAAAGATTC
1 GT-AAGAAA-TTC-AAG-TTC
* *
11864488 GTAAGAGATTCAGGTTC
1 GTAAGAAATTCAAGTTC
*
11864505 GCAAGAAATTCAA
1 GTAAGAAATTCAA
11864518 ATTCACAAAA
Statistics
Matches: 95, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
15 1 0.01
16 7 0.07
17 43 0.45
18 4 0.04
19 35 0.37
20 4 0.04
21 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (17 bp):
GTAAGAAATTCAAGTTC
Found at i:11864420 original size:19 final size:17
Alignment explanation
Indices: 11864381--11864425 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
11864371 TTCATATTTG
*
11864381 TAAGAAATTCAAGTTCG
1 TAAGAAATTCAAGTTCA
11864398 TAAGAAATTCAAAGGTTCA
1 TAAGAAATTC-AA-GTTCA
11864417 TAAGAAATT
1 TAAGAAATT
11864426 TAGATTCGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 10 0.40
18 2 0.08
19 13 0.52
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (17 bp):
TAAGAAATTCAAGTTCA
Found at i:11864439 original size:36 final size:36
Alignment explanation
Indices: 11864380--11864518 Score: 147
Period size: 36 Copynumber: 3.9 Consensus size: 36
11864370 ATTCATATTT
* *
11864380 GTAAGAAATTCA-AGTTCGTAAGAAATTCAAAGGTTC
1 GTAAGAAATTCAGA-TTCGCAAGAAATTCAAAGATTC
* *
11864416 ATAAGAAATTTAGATTCGCAAGAAATTCAAAGATTC
1 GTAAGAAATTCAGATTCGCAAGAAATTCAAAGATTC
* * ** *
11864452 GTAAAAAATTTAGATT-TAAAAAAACTTCAAAGATTC
1 GTAAGAAATTCAGATTCGCAAGAAA-TTCAAAGATTC
* *
11864488 GTAAGAGATTCAGGTTCGCAAGAAATTCAAA
1 GTAAGAAATTCAGATTCGCAAGAAATTCAAA
11864519 TTCACAAAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
35 5 0.06
36 73 0.87
37 6 0.07
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (36 bp):
GTAAGAAATTCAGATTCGCAAGAAATTCAAAGATTC
Found at i:11864530 original size:17 final size:17
Alignment explanation
Indices: 11864510--11864548 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11864500 GGTTCGCAAG
11864510 AAATTCAAATTCACAAA
1 AAATTCAAATTCACAAA
** *
11864527 AAATTCAGGTTTACAAA
1 AAATTCAAATTCACAAA
11864544 AAATT
1 AAATT
11864549 TAGATTTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (17 bp):
AAATTCAAATTCACAAA
Found at i:11864545 original size:72 final size:72
Alignment explanation
Indices: 11864405--11864546 Score: 180
Period size: 72 Copynumber: 2.0 Consensus size: 72
11864395 TCGTAAGAAA
* * ** *
11864405 TTCAAAGGTTCATAAGAAATTTAGATTCGCAAGAAATTCAAAGATTCGTAAAAAATTTAGATTTA
1 TTCAAAGATTCATAAGAAATTCAGATTCGCAAGAAATTCAAAGATTCACAAAAAATTCAGATTTA
11864470 AAAAAAC
66 AAAAAAC
* * * *
11864477 TTCAAAGATTCGTAAGAGATTCAGGTTCGCAAGAAATTC-AA-ATTCACAAAAAATTCAGGTTTA
1 TTCAAAGATTCATAAGAAATTCAGATTCGCAAGAAATTCAAAGATTCACAAAAAATTCAGATTTA
11864540 CAAAAAA
66 -AAAAAA
11864547 TTTAGATTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
70 18 0.30
71 8 0.13
72 34 0.57
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.27
Consensus pattern (72 bp):
TTCAAAGATTCATAAGAAATTCAGATTCGCAAGAAATTCAAAGATTCACAAAAAATTCAGATTTA
AAAAAAC
Found at i:11864595 original size:17 final size:17
Alignment explanation
Indices: 11864573--11864605 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11864563 CTTTAAAGAT
11864573 TCGCAA-AAGATTTAGGC
1 TCGCAAGAA-ATTTAGGC
11864590 TCGCAAGAAATTTAGG
1 TCGCAAGAAATTTAGG
11864606 TTCATAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (17 bp):
TCGCAAGAAATTTAGGC
Found at i:11869430 original size:4 final size:4
Alignment explanation
Indices: 11869421--11869446 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11869411 TTCATTTGTT
11869421 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
11869447 GACCAATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:11874034 original size:10 final size:10
Alignment explanation
Indices: 11874019--11874051 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11874009 AACAAAATGG
11874019 TATAATATAA
1 TATAATATAA
11874029 TATAATATAA
1 TATAATATAA
11874039 TATTAA-ATAA
1 TA-TAATATAA
11874049 TAT
1 TAT
11874052 TAAATCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.05
10 18 0.82
11 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TATAATATAA
Found at i:11874039 original size:15 final size:15
Alignment explanation
Indices: 11874019--11874069 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
11874009 AACAAAATGG
11874019 TATAATA-TAATATAA
1 TATAATATTAA-ATAA
11874034 TATAATATTAAATAA
1 TATAATATTAAATAA
*
11874049 TATTAA-ATCAAA-AA
1 TA-TAATATTAAATAA
11874063 TATAATA
1 TATAATA
11874070 AAATAAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.09
14 5 0.16
15 18 0.56
16 6 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAATATTAAATAA
Found at i:11877944 original size:16 final size:16
Alignment explanation
Indices: 11877923--11877956 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11877913 TAAATGCATT
11877923 TTATTTATTATTACAA
1 TTATTTATTATTACAA
* *
11877939 TTATTTTTTTTTACAA
1 TTATTTATTATTACAA
11877955 TT
1 TT
11877957 CCTAAAGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTATTATTACAA
Found at i:11890101 original size:27 final size:27
Alignment explanation
Indices: 11890062--11890113 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
11890052 CACATTCCAA
*
11890062 CAAAAGTCAAAATG-TGTAAGAAAAGG
1 CAAAAGTCAAAATGTTGTAAAAAAAGG
*
11890088 CAAAATGTTAAAATGTTGTAAAAAAA
1 CAAAA-GTCAAAATGTTGTAAAAAAA
11890114 AAAGATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 8 0.36
28 9 0.41
ACGTcount: A:0.56, C:0.06, G:0.17, T:0.21
Consensus pattern (27 bp):
CAAAAGTCAAAATGTTGTAAAAAAAGG
Found at i:11891948 original size:57 final size:55
Alignment explanation
Indices: 11891812--11891963 Score: 144
Period size: 57 Copynumber: 2.7 Consensus size: 55
11891802 ATTTTCTTTT
* * * *
11891812 AGTTATCTTTAGTGGTGATATCCAAAATCATTTGCATTTTCTCTATGATGATACCTA
1 AGTT-TCTTTAGTGGTGATATCC-AAATTATTTGCATTTTCTCGATGACGACACCTA
** * * *
11891869 AGTTTCCTTCGGTGGTGGTATCCAAAGTTATTTGCATTTTCTCGATGGCGACATCC-G
1 AGTTT-CTTTAGTGGTGATATCCAAA-TTATTTGCATTTTCTCGATGACGACA-CCTA
*
11891926 AGTTCTCTTTAGTAGTGATATCCAAATTCATTTGCATT
1 AGTT-TCTTTAGTGGTGATATCCAAATT-ATTTGCATT
11891964 CACTCAAAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
56 6 0.08
57 68 0.88
58 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (55 bp):
AGTTTCTTTAGTGGTGATATCCAAATTATTTGCATTTTCTCGATGACGACACCTA
Found at i:11892399 original size:30 final size:30
Alignment explanation
Indices: 11892359--11892424 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
11892349 ATTGAAAAGT
*
11892359 AAAAATCCAAAAGAAA-AAAATC-AAAAATA
1 AAAAATCCAAAA-AAATAAAATCTAAAAAAA
*
11892388 AAAAATCCCAAAAAAATCAAATCTAAAAAAA
1 AAAAAT-CCAAAAAAATAAAATCTAAAAAAA
11892419 AAAAAT
1 AAAAAT
11892425 TTTTGAGGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 9 0.28
30 11 0.34
31 12 0.38
ACGTcount: A:0.74, C:0.12, G:0.02, T:0.12
Consensus pattern (30 bp):
AAAAATCCAAAAAAATAAAATCTAAAAAAA
Found at i:11892424 original size:15 final size:15
Alignment explanation
Indices: 11892359--11892424 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
11892349 ATTGAAAAGT
*
11892359 AAAAATCCAAAAGAA
1 AAAAATCCAAAAAAA
*
11892374 AAAAAT-CAAAAATA
1 AAAAATCCAAAAAAA
11892388 AAAAATCCCAAAAAAA
1 AAAAAT-CCAAAAAAA
** *
11892404 TCAAATCTAAAAAAA
1 AAAAATCCAAAAAAA
11892419 AAAAAT
1 AAAAAT
11892425 TTTTGAGGTC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 12 0.29
15 18 0.44
16 11 0.27
ACGTcount: A:0.74, C:0.12, G:0.02, T:0.12
Consensus pattern (15 bp):
AAAAATCCAAAAAAA
Found at i:11899325 original size:18 final size:18
Alignment explanation
Indices: 11899302--11899608 Score: 176
Period size: 18 Copynumber: 18.6 Consensus size: 18
11899292 AATTTTACTT
11899302 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
*
11899320 ATAAATAA-ATAATATT-
1 ATAAATAATATTATATTA
* *
11899336 AT--ATTATAATATATTA
1 ATAAATAATATTATATTA
*
11899352 ATAAATAATATTATATGA
1 ATAAATAATATTATATTA
11899370 ATAAATAATA-TACTATTA
1 ATAAATAATATTA-TATTA
11899388 AT--AT-A-A-TATATTA
1 ATAAATAATATTATATTA
11899401 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
* *
11899419 ATAAATAATA-CACTGTTA
1 ATAAATAATATTA-TATTA
*
11899437 ATATAAT-ATATTA-ATAA
1 ATA-AATAATATTATATTA
* *
11899454 AT-AATATTATTATATCA
1 ATAAATAATATTATATTA
11899471 ATAAATAATA-TA-A-TA
1 ATAAATAATATTATATTA
*
11899486 ATAAATATTATTA-ATT-
1 ATAAATAATATTATATTA
*
11899502 -TAATTAATA--ACTA-TA
1 ATAAATAATATTA-TATTA
11899517 AT-AA-AA-A-TATATTA
1 ATAAATAATATTATATTA
*
11899531 ATAAAT-A-A-TATACT-
1 ATAAATAATATTATATTA
* *
11899545 ACAAAT-ATAATATATTA
1 ATAAATAATATTATATTA
* *
11899562 ATAAATATTATTA-ATAA
1 ATAAATAATATTATATTA
* *
11899579 ATAATATATTAATATATTA
1 ATAA-ATAATATTATATTA
11899598 ATAAATAATAT
1 ATAAATAATAT
11899609 AAAGAATCAT
Statistics
Matches: 225, Mismatches: 32, Indels: 64
0.70 0.10 0.20
Matches are distributed among these distances:
13 11 0.05
14 20 0.09
15 41 0.18
16 22 0.10
17 35 0.16
18 85 0.38
19 11 0.05
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:11899347 original size:8 final size:7
Alignment explanation
Indices: 11899306--11899609 Score: 103
Period size: 8 Copynumber: 42.1 Consensus size: 7
11899296 TTACTTATAA
11899306 ATAATAT
1 ATAATAT
11899313 -T-ATAT
1 ATAATAT
*
11899318 -TAATAA
1 ATAATAT
11899324 ATAAATAAT
1 AT-AAT-AT
*
11899333 ATTATATT
1 ATAATA-T
11899341 ATAATAT
1 ATAATAT
*
11899348 ATTAATAA
1 A-TAATAT
11899356 ATAATAT
1 ATAATAT
11899363 -T-ATAT
1 ATAATAT
* *
11899368 -GAATAA
1 ATAATAT
11899374 ATAATAT
1 ATAATAT
*
11899381 ACTATTAAT
1 A-TAAT-AT
11899390 ATAATAT
1 ATAATAT
*
11899397 ATTAATAA
1 A-TAATAT
11899405 ATAATAT
1 ATAATAT
11899412 -T-ATAT
1 ATAATAT
*
11899417 -TAATAA
1 ATAATAT
*
11899423 ATAATAC
1 ATAATAT
**
11899430 ACTGTTAAT
1 A-TAAT-AT
11899439 ATAATAT
1 ATAATAT
*
11899446 ATTAATAA
1 A-TAATAT
11899454 ATAATAT
1 ATAATAT
*
11899461 -TATTAT
1 ATAATAT
*
11899467 ATCAATAA
1 AT-AATAT
11899475 ATAATAT
1 ATAATAT
*
11899482 AATAATAA
1 -ATAATAT
*
11899490 ATATTAT
1 ATAATAT
*
11899497 -TAATTT
1 ATAATAT
11899503 AATTAATAACT
1 -A-TAAT-A-T
11899514 ATAATA-
1 ATAATAT
*
11899520 AAAATAT
1 ATAATAT
*
11899527 ATTAATAA
1 A-TAATAT
11899535 ATAATAT
1 ATAATAT
*
11899542 ACTACAAAT
1 A-TA-ATAT
11899551 ATAATAT
1 ATAATAT
*
11899558 ATTAATAA
1 A-TAATAT
*
11899566 ATATTAT
1 ATAATAT
*
11899573 -TAATAA
1 ATAATAT
11899579 ATAATAT
1 ATAATAT
11899586 ATTAATAT
1 A-TAATAT
*
11899594 ATTAATAA
1 A-TAATAT
11899602 ATAATAT
1 ATAATAT
11899609 A
1 A
11899610 AAGAATCATA
Statistics
Matches: 219, Mismatches: 47, Indels: 62
0.67 0.14 0.19
Matches are distributed among these distances:
5 14 0.06
6 30 0.14
7 73 0.33
8 80 0.37
9 20 0.09
10 1 0.00
11 1 0.00
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (7 bp):
ATAATAT
Found at i:11899404 original size:31 final size:30
Alignment explanation
Indices: 11899323--11899594 Score: 161
Period size: 33 Copynumber: 8.8 Consensus size: 30
11899313 TATATTAATA
*
11899323 AATAAATAATAT-TA-TATTATAATATATT
1 AATAAATAATATATATTAATATAATATATT
* *
11899351 AATAAATAATATTATATGAATAAATAATATACT
1 AATAAATAATA-TATATTAAT--ATAATATATT
* * *
11899384 ATTAATATAATATATTAATAAATAATATTATATT
1 AATAA-ATAATATA-T-ATTAAT-ATAATATATT
* *
11899418 AATAAATAATACACTGTTAATATAATATATT
1 AATAAATAATATA-TATTAATATAATATATT
*
11899449 AATAAATAATAT-TATT-ATATCAATA-AAT
1 AATAAATAATATATATTAATAT-AATATATT
* *
11899477 AATATAATAATAAATATTATTAATTTAAT-TAAT
1 AATA-AATAAT--ATA-TATTAATATAATATATT
* *
11899510 AACTATAATAAAAATATATTAATAAATAATATACT
1 AA-TA-AAT-AATATATATTAAT--ATAATATATT
*
11899545 -ACAAAT-ATAATATATTAATA-AATATTATT
1 AATAAATAAT-ATATATTAATATAATA-TATT
11899574 AATAAAT-A-ATATATTAATATA
1 AATAAATAATATATATTAATATA
11899595 TTAATAAATA
Statistics
Matches: 195, Mismatches: 24, Indels: 49
0.73 0.09 0.18
Matches are distributed among these distances:
28 36 0.18
29 19 0.10
30 9 0.05
31 34 0.17
32 14 0.07
33 39 0.20
34 34 0.17
35 10 0.05
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
AATAAATAATATATATTAATATAATATATT
Found at i:11899412 original size:49 final size:49
Alignment explanation
Indices: 11899302--11899592 Score: 288
Period size: 49 Copynumber: 6.1 Consensus size: 49
11899292 AATTTTACTT
*
11899302 ATAAATAATATTATATTAATAAATAA-ATAATATTATATTATAATATATTA
1 ATAAATAATATTATATTAATAAATAATATACTATTA-A-TATAATATATTA
*
11899352 ATAAATAATATTATATGAATAAATAATATACTATTAATATAATATATTA
1 ATAAATAATATTATATTAATAAATAATATACTATTAATATAATATATTA
* *
11899401 ATAAATAATATTATATTAATAAATAATACACTGTTAATATAATATATTA
1 ATAAATAATATTATATTAATAAATAATATACTATTAATATAATATATTA
11899450 ATAAATAATATTATTATATCAATAAATAATATA--A-TAATA-AATATTATTA
1 ATAAATAATATTA-TAT-T-AATAAATAATATACTATTAATATAATA-TATTA
* * * *
11899499 ATTTAATTAATA--ACTA-TAATAAA-AATATATTAATAA-ATAATATACT-
1 A--TAAATAATATTA-TATTAATAAATAATATACTATTAATATAATATATTA
* * * *
11899545 ACAAAT-ATAATATATTAATAAAT-AT-TATTAATAA-ATAATATATTA
1 ATAAATAATATTATATTAATAAATAATATACTATTAATATAATATATTA
11899590 ATA
1 ATA
11899593 TATTAATAAA
Statistics
Matches: 211, Mismatches: 14, Indels: 37
0.81 0.05 0.14
Matches are distributed among these distances:
43 3 0.01
44 23 0.11
45 18 0.09
46 7 0.03
47 6 0.03
48 11 0.05
49 85 0.40
50 29 0.14
51 17 0.08
52 12 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (49 bp):
ATAAATAATATTATATTAATAAATAATATACTATTAATATAATATATTA
Found at i:11899473 original size:21 final size:21
Alignment explanation
Indices: 11899442--11899608 Score: 66
Period size: 21 Copynumber: 7.9 Consensus size: 21
11899432 TGTTAATATA
*
11899442 ATATATTAATAAATAATATTA
1 ATATATCAATAAATAATATTA
*
11899463 TTATATCAATAAATAATA-TA
1 ATATATCAATAAATAATATTA
* *
11899483 ATA-ATAAATATTATTAATTTAATTA
1 ATATATCAATA--AATAA--T-ATTA
*
11899508 ATAACTAT-AATAAAAATATATTA
1 AT-A-TATCAATAAATA-ATATTA
* * *
11899531 ATAAAT-AATATACTACAAATATA
1 ATATATCAATA-AATA-ATAT-TA
* *
11899554 ATATATTAATAAATATTATT-
1 ATATATCAATAAATAATATTA
11899574 A-ATA--AAT-AAT-ATATTA
1 ATATATCAATAAATAATATTA
*
11899590 ATATATTAATAAATAATAT
1 ATATATCAATAAATAATAT
11899609 AAAGAATCAT
Statistics
Matches: 110, Mismatches: 17, Indels: 38
0.67 0.10 0.23
Matches are distributed among these distances:
15 4 0.04
16 4 0.04
17 6 0.05
19 12 0.11
20 8 0.07
21 31 0.28
22 8 0.07
23 17 0.15
24 6 0.05
25 6 0.05
26 2 0.02
27 4 0.04
28 2 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATATCAATAAATAATATTA
Found at i:11899488 original size:67 final size:63
Alignment explanation
Indices: 11899313--11899610 Score: 189
Period size: 67 Copynumber: 4.6 Consensus size: 63
11899303 TAAATAATAT
* * *
11899313 TATATTAATAAATAA-AT-A-ATATT-ATATTATAATATATTAATAAATAAT-A-TT-ATATGAA
1 TATACTAATAAATAATATAATATATTAATA-AATAATATAATAATAAATAATAATTTAATAT-AA
*
11899371 TA-AATAATATACTATTAATATAATATATTAATAAATAATATTATATTAATAAATAATACACTGT
1 TATACTAATA-A--A-TAATATAATATATTAATAAATAATA-TA-A-TAATAAATAATA-A-T-T
11899435 TAATATAA
56 TAATATAA
* * *
11899443 TATATTAATAAATAATATTATTATATCAATAAATAATATAATAATAAATATTATTAATTTAAT-T
1 TATACTAATAAATAATA-TAATATATTAATAAATAATATAATAATAAATA--A-TAATTTAATAT
11899507 AA
62 AA
*
11899509 TA-ACT-AT-AATAA-A-AATATATTAATAAATAATATACTACA-AATATAAT-ATATTAATA-A
1 TATACTAATAAATAATATAATATATTAATAAATAATATAATA-ATAA-ATAATAAT-TTAATATA
11899566 A
63 A
*
11899567 TATTATTAATAAATAATATATTAATATATTAATAAATAATATAA
1 TA-TACTAATAAAT-A-ATA-TAATATATTAATAAATAATATAA
11899611 AGAATCATAA
Statistics
Matches: 193, Mismatches: 12, Indels: 61
0.73 0.05 0.23
Matches are distributed among these distances:
57 8 0.04
58 13 0.07
59 1 0.01
60 26 0.13
61 9 0.05
62 6 0.03
63 7 0.04
64 14 0.07
65 8 0.04
66 5 0.03
67 46 0.24
68 2 0.01
69 10 0.05
70 21 0.11
72 7 0.04
73 10 0.05
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (63 bp):
TATACTAATAAATAATATAATATATTAATAAATAATATAATAATAAATAATAATTTAATATAA
Found at i:11899531 original size:27 final size:26
Alignment explanation
Indices: 11899501--11899609 Score: 80
Period size: 26 Copynumber: 4.0 Consensus size: 26
11899491 TATTATTAAT
11899501 TTAATTAATAACTATAATAAAAATATA
1 TTAATTAATAA-TATAATAAAAATATA
* * *
11899528 TTAATAAATAATATACTACAAATATA
1 TTAATTAATAATATAATAAAAATATA
* *
11899554 ATATATTAATAAATATTATTAATAAATA-A
1 TTA-ATTAAT-AATA-TAATAA-AAATATA
11899583 -TATATTAAT-ATATTAATAAATAATATA
1 TTA-ATTAATAATA-TAATAAA-AATATA
11899610 AAGAATCATA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.01
26 28 0.41
27 16 0.24
28 13 0.19
29 5 0.07
30 5 0.07
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (26 bp):
TTAATTAATAATATAATAAAAATATA
Found at i:11899550 original size:26 final size:27
Alignment explanation
Indices: 11899501--11899592 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 27
11899491 TATTATTAAT
*
11899501 TTAATTAATAACTATAATAAAAATATA
1 TTAATAAATAACTATAATAAAAATATA
*
11899528 TTAATAAATAA-TATACTACAAATATAATATA
1 TTAATAAATAACTATA--A-TAA-A-AATATA
*
11899559 TTAATAAAT-ATTATTAATAAATAATATA
1 TTAATAAATAACTA-TAATAAA-AATATA
11899587 TTAATA
1 TTAATA
11899593 TATTAATAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
26 4 0.07
27 10 0.18
28 15 0.27
29 4 0.07
30 3 0.05
31 17 0.31
32 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (27 bp):
TTAATAAATAACTATAATAAAAATATA
Found at i:11899555 original size:23 final size:22
Alignment explanation
Indices: 11899303--11899610 Score: 127
Period size: 23 Copynumber: 13.5 Consensus size: 22
11899293 ATTTTACTTA
* *
11899303 TAAATAATATTATATTA-ATAAA
1 TAAATAATATAATAATATAT-AA
* *
11899325 TAAATAATATTATATTATAATATA
1 TAAATAATATAATAATAT-ATA-A
* *
11899349 TTAATAA-ATAATATTATATGAA
1 TAAATAATATAATAATATAT-AA
11899371 TAAATAATATACTATTAATATAATATA
1 TAAATAATATA--A-TAATAT-ATA-A
* *
11899398 TTAATAA-ATAATATTATATTAA
1 TAAATAATATAATAATATA-TAA
* * **
11899420 TAAATAATACACTGTTAATATAA
1 TAAATAATATAATAAT-ATATAA
* * *
11899443 TATATTAAT-AAATAATAT-TAT
1 TA-AATAATATAATAATATATAA
*
11899464 TATATCAATA-AATAATATAATAA
1 TAAAT-AATATAATAATAT-ATAA
*
11899487 TAAAT-AT-TATTAAT-T-TAA
1 TAAATAATATAATAATATATAA
*
11899505 TTAATAACTATAATAAAAATATATTAA
1 TAAATAA-TATAAT---AATATA-TAA
* *
11899532 TAAATAATATACTACAAATATAA
1 TAAATAATATAATA-ATATATAA
* *
11899555 TATATTAATA-AATATTAT-TAA
1 TA-AATAATATAATAATATATAA
*
11899576 TAAATAATATATTAATATATTAA
1 TAAATAATATAATAATATA-TAA
11899599 TAAATAATATAA
1 TAAATAATATAA
11899611 AGAATCATAA
Statistics
Matches: 219, Mismatches: 34, Indels: 65
0.69 0.11 0.20
Matches are distributed among these distances:
18 7 0.03
19 1 0.00
20 9 0.04
21 36 0.16
22 38 0.17
23 63 0.29
24 31 0.14
25 2 0.01
26 14 0.06
27 18 0.08
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (22 bp):
TAAATAATATAATAATATATAA
Found at i:11899661 original size:32 final size:33
Alignment explanation
Indices: 11899620--11899685 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
11899610 AAGAATCATA
* *
11899620 AATAGTTTT-ATTTTAAGTATTTTATATTAAAAT
1 AATAGTTTTAATTTTAAATATTAT-TATTAAAAT
11899653 AATA-TTTTAATTTTAAATATTATTATTAAAAT
1 AATAGTTTTAATTTTAAATATTATTATTAAAAT
11899685 A
1 A
11899686 TAATTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (33 bp):
AATAGTTTTAATTTTAAATATTATTATTAAAAT
Found at i:11899666 original size:33 final size:32
Alignment explanation
Indices: 11899620--11899719 Score: 91
Period size: 32 Copynumber: 3.1 Consensus size: 32
11899610 AAGAATCATA
* *
11899620 AATAGTTTTATTTTAAGTATTTTATATTAAAAT
1 AATAGTTTTATTTTAAATATTAT-TATTAAAAT
11899653 AATA-TTTTAATTTTAAATATTATTATTAAAAT
1 AATAGTTTT-ATTTTAAATATTATTATTAAAAT
* **
11899685 -ATAATTATT-TTTT-AATATTAATTATTTTAAT
1 AATAGTT-TTATTTTAAATATT-ATTATTAAAAT
11899716 AATA
1 AATA
11899720 AATAAATTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
30 6 0.10
31 16 0.28
32 18 0.31
33 18 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (32 bp):
AATAGTTTTATTTTAAATATTATTATTAAAAT
Found at i:11899693 original size:17 final size:17
Alignment explanation
Indices: 11899671--11899719 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
11899661 AATTTTAAAT
11899671 ATTATTATTAAAATA-TA
1 ATTATT-TTAAAATATTA
**
11899688 ATTATTTTTTAATATTA
1 ATTATTTTAAAATATTA
11899705 ATTATTTTAATAATA
1 ATTATTTTAA-AATA
11899720 AATAAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 6 0.23
17 16 0.62
18 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTTAAAATATTA
Found at i:11899874 original size:14 final size:14
Alignment explanation
Indices: 11899855--11899897 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
11899845 AAAATATAAA
11899855 TATTTTTTAGAAAT
1 TATTTTTTAGAAAT
* *
11899869 TATTTTTCAAAAAT
1 TATTTTTTAGAAAT
11899883 TATTTTTTACGAAAT
1 TATTTTTTA-GAAAT
11899898 AAACGGAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (14 bp):
TATTTTTTAGAAAT
Found at i:11906142 original size:14 final size:14
Alignment explanation
Indices: 11906119--11906153 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
11906109 ATTTGTGTAA
11906119 TTTT-TTATTTTTC
1 TTTTATTATTTTTC
11906132 TTTTATTA-TTTTC
1 TTTTATTATTTTTC
11906145 TTTTATTAT
1 TTTTATTAT
11906154 AACTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTATTATTTTTC
Found at i:11906329 original size:21 final size:21
Alignment explanation
Indices: 11906291--11906344 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
11906281 TATAAGTAAG
11906291 ATTTGAT-AA-TTTTGATAAC
1 ATTTGATAAATTTTTGATAAC
* *
11906310 TTTTGATAAATTTTTTATAAC
1 ATTTGATAAATTTTTGATAAC
*
11906331 ATTCGATACAATTT
1 ATTTGATA-AATTT
11906345 AGTTAACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 15 0.54
22 5 0.18
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTGATAAATTTTTGATAAC
Found at i:11906446 original size:36 final size:35
Alignment explanation
Indices: 11906406--11906473 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
11906396 TTGATAAAAT
*
11906406 TTTGGTAATCTCT-TGATGTAATTTTAGTAATTAATC
1 TTTGGTAAT-T-TATGATATAATTTTAGTAATTAATC
*
11906442 TTTGGTAATTTATGATATACTTTTAGTAATTA
1 TTTGGTAATTTATGATATAATTTTAGTAATTA
11906474 TTAATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 1 0.03
35 19 0.66
36 9 0.31
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.51
Consensus pattern (35 bp):
TTTGGTAATTTATGATATAATTTTAGTAATTAATC
Found at i:11906839 original size:22 final size:22
Alignment explanation
Indices: 11906781--11907468 Score: 164
Period size: 22 Copynumber: 30.9 Consensus size: 22
11906771 TGTTATCAGC
**
11906781 GATTTACTACTAAGCTATCAAT
1 GATTTACTACTAAATTATCAAT
* *
11906803 GATATACTTCTAAATTATCAAT
1 GATTTACTACTAAATTATCAAT
* * *
11906825 AATTTACTACTAAATTAGCATT
1 GATTTACTACTAAATTATCAAT
* *
11906847 GATTTACTACTAATTTATGAAT
1 GATTTACTACTAAATTATCAAT
* * * *
11906869 AATTTACTATTAAGTTATGAAT
1 GATTTACTACTAAATTATCAAT
* * **
11906891 GATTTATTACTAAATTGTTGAT
1 GATTTACTACTAAATTATCAAT
* *
11906913 GATTTACTACTAAGTTA-CTGAT
1 GATTTACTACTAAATTATC-AAT
**
11906935 GATTTGTTA-TAAAGTTAT-AAT
1 GATTTACTACTAAA-TTATCAAT
* * * * *
11906956 TATTT-TTATGTGAATTTATCGAT
1 GATTTACTA-CT-AAATTATCAAT
*
11906979 GATCTACTAC-AAAGTTATCAAT
1 GATTTACTACTAAA-TTATCAAT
* * ** *
11907001 GATTAACTAATTTATTACTAAAT
1 GATTTACTACTAAATTA-TCAAT
* * * ** * *
11907024 TATTAGTAATTTACTACTACAATATAAA
1 GATT--T-A-CTACTA-AATTAT-CAAT
*
11907052 AATTTAC-ATCTAAATTATCAAT
1 GATTTACTA-CTAAATTATCAAT
* * * * *
11907074 AATTAACTATTATATTAT-TAT
1 GATTTACTACTAAATTATCAAT
* * * *
11907095 GCCTTTACTATTATATTATCATT
1 G-ATTTACTACTAAATTATCAAT
* * * * *
11907118 GATTTATTACTTACTTTTTAAT
1 GATTTACTACTAAATTATCAAT
*
11907140 TATTTACTA-TAAAATTATCACA-
1 GATTTACTACT-AAATTATCA-AT
* * *
11907162 GATTTATTACTAAATTAACCAT
1 GATTTACTACTAAATTATCAAT
* * * *
11907184 GATTCATTA-TCAAGTTATCATT
1 GATTTACTACT-AAATTATCAAT
* * *
11907206 AATTTA-TATTAAATTATCCAT
1 GATTTACTACTAAATTATCAAT
* * * **
11907227 AATTTACTATTAAATTTTTTAT
1 GATTTACTACTAAATTATCAAT
* *
11907249 GATTAACTACTACTAAGTTAT-ATT
1 GATT---TACTACTAAATTATCAAT
** *
11907273 GATTTACTTA-TATGTTTTCAAT
1 GATTTAC-TACTAAATTATCAAT
* * * * *
11907295 AACTAACTATTAAATTATCATT
1 GATTTACTACTAAATTATCAAT
* * **
11907317 GATTTATTATTAAATTATTTAT
1 GATTTACTACTAAATTATCAAT
11907339 GATTTACTACTAAATTTATCAAT
1 GATTTACTACTAAA-TTATCAAT
* * * *
11907362 TAATTACTACTAAACTA-AAACT
1 GATTTACTACTAAATTATCAA-T
* * *
11907384 AATTTACT-TTAAATTATCACT
1 GATTTACTACTAAATTATCAAT
* * * *
11907405 AATTTACTATTAAGTTATCATT
1 GATTTACTACTAAATTATCAAT
* * *
11907427 GATTTATTATTAAATTATTAAT
1 GATTTACTACTAAATTATCAAT
* *
11907449 GATTAACTACTAAGTTATCA
1 GATTTACTACTAAATTATCA
11907469 CATAATTTTT
Statistics
Matches: 475, Mismatches: 153, Indels: 76
0.67 0.22 0.11
Matches are distributed among these distances:
20 3 0.01
21 60 0.13
22 334 0.70
23 42 0.09
24 10 0.02
25 12 0.03
26 2 0.00
27 4 0.01
28 8 0.02
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (22 bp):
GATTTACTACTAAATTATCAAT
Found at i:11907481 original size:44 final size:44
Alignment explanation
Indices: 11907340--11907483 Score: 107
Period size: 44 Copynumber: 3.3 Consensus size: 44
11907330 ATTATTTATG
* * ** *
11907340 ATTTACTACTAAATTTATCAATTAATT-ACTACTAAACTA-AAACTA
1 ATTTATTATTAAA-TTATCAA-TAATTAACTACTAAGTTATCAA-TA
* * * * * *
11907385 ATTTACT-TTAAATTATCACTAATTTACTATTAAGTTATCATTG
1 ATTTATTATTAAATTATCAATAATTAACTACTAAGTTATCAATA
* *
11907428 ATTTATTATTAAATTATTAATGATTAACTACTAAGTTATCACATA
1 ATTTATTATTAAATTATCAATAATTAACTACTAAGTTATCA-ATA
11907473 ATTT-TTATTAA
1 ATTTATTATTAA
11907484 CTTCGCATTG
Statistics
Matches: 79, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
42 5 0.06
43 22 0.28
44 40 0.51
45 12 0.15
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (44 bp):
ATTTATTATTAAATTATCAATAATTAACTACTAAGTTATCAATA
Found at i:11907755 original size:22 final size:22
Alignment explanation
Indices: 11907730--11907806 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
11907720 CAAGTATAAA
*
11907730 AAGTTATCAATAATTGATAATT
1 AAGTTATCAATAATTGATAACT
* * * *
11907752 AAGTTATCACTTATTTATTACT
1 AAGTTATCAATAATTGATAACT
* * *
11907774 AAGTTATCAATGATTTATTACT
1 AAGTTATCAATAATTGATAACT
*
11907796 AAATTATCAAT
1 AAGTTATCAAT
11907807 TATTTACTCC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (22 bp):
AAGTTATCAATAATTGATAACT
Found at i:11907811 original size:22 final size:22
Alignment explanation
Indices: 11907755--11907812 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
11907745 GATAATTAAG
* *
11907755 TTATCACTTATTTATTACTAAG
1 TTATCAATTATTTATTACTAAA
*
11907777 TTATCAATGATTTATTACTAAA
1 TTATCAATTATTTATTACTAAA
11907799 TTATCAATTATTTA
1 TTATCAATTATTTA
11907813 CTCCTAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.50
Consensus pattern (22 bp):
TTATCAATTATTTATTACTAAA
Found at i:11907819 original size:22 final size:22
Alignment explanation
Indices: 11907755--11907835 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 22
11907745 GATAATTAAG
* * *
11907755 TTATCACTTATTTATTACTAAG
1 TTATCAATTATTTACTACTAAA
* *
11907777 TTATCAATGATTTATTACTAAA
1 TTATCAATTATTTACTACTAAA
* *
11907799 TTATCAATTATTTACTCCTAAT
1 TTATCAATTATTTACTACTAAA
* *
11907821 TTATGAATAATTTAC
1 TTATCAATTATTTAC
11907836 CTTTAAGTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (22 bp):
TTATCAATTATTTACTACTAAA
Found at i:11907846 original size:22 final size:22
Alignment explanation
Indices: 11907821--11907877 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
11907811 TACTCCTAAT
*
11907821 TTATGAATAATTTACCTTTAAG
1 TTATGAATAATTTACCATTAAG
* *
11907843 TTATGAATGATTTATCATTAAG
1 TTATGAATAATTTACCATTAAG
*
11907865 TTATAAATAATTT
1 TTATGAATAATTT
11907878 CTATTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (22 bp):
TTATGAATAATTTACCATTAAG
Found at i:11908049 original size:22 final size:21
Alignment explanation
Indices: 11907988--11908085 Score: 76
Period size: 22 Copynumber: 4.7 Consensus size: 21
11907978 AATGGTTAAC
*
11907988 TAATTTACTACTAAATTA-TAC
1 TAATTTACTACT-AATTATTAG
*
11908009 TAATTTACAACTAAGTTATTAG
1 TAATTTACTACTAA-TTATTAG
*
11908031 TAATTTACTATTACATTATTAG
1 TAATTTACTACTA-ATTATTAG
* * * *
11908053 TGATTTATTGCTAA--ATTAT
1 TAATTTACTACTAATTATTAG
*
11908072 TAATTTATTACTAA
1 TAATTTACTACTAA
11908086 ACTATCAATG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 16 0.25
20 2 0.03
21 15 0.24
22 29 0.46
23 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (21 bp):
TAATTTACTACTAATTATTAG
Found at i:11908070 original size:19 final size:19
Alignment explanation
Indices: 11908048--11908086 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11908038 CTATTACATT
* *
11908048 ATTAGTGATTTATTGCTAA
1 ATTAGTAATTTATTACTAA
*
11908067 ATTATTAATTTATTACTAA
1 ATTAGTAATTTATTACTAA
11908086 A
1 A
11908087 CTATCAATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (19 bp):
ATTAGTAATTTATTACTAA
Found at i:11910010 original size:57 final size:58
Alignment explanation
Indices: 11909940--11910215 Score: 294
Period size: 57 Copynumber: 4.7 Consensus size: 58
11909930 TTTGTACATA
* * *
11909940 AAAAATTGATACTTTTAACTTTTTCTC-AAAATA-TTTTTTAAAAATTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAA-CTTAATTTCGAG
** * **
11909997 AAAAATTGATACTTTCAACTTTTTAGCAAAAATTTATTTTTTTTGAAAACTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAA--TA-TTTTTTTGAAAACTTAATTTCGAG
* * * *
11910058 GAAAATTGATACTTTCAAC-TTTTCCCCAAAATACTTTTTTG-AAACTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAAC-TTAATTTCGAG
* *
11910115 AAAATTTGATACTTTCAACTTTTTCTCAAAAATCTATTTTTTTGAAAACTT-ATTT-GTAA
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAA--TATTTTTTTGAAAACTTAATTTCG-AG
*
11910174 AGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 A-AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT
11910216 TCTTGAAATT
Statistics
Matches: 183, Mismatches: 24, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
56 4 0.02
57 56 0.31
58 26 0.14
59 6 0.03
60 51 0.28
61 30 0.16
62 10 0.05
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAACTTAATTTCGAG
Found at i:11910215 original size:118 final size:118
Alignment explanation
Indices: 11909941--11910215 Score: 417
Period size: 118 Copynumber: 2.3 Consensus size: 118
11909931 TTGTACATAA
* * * *
11909941 AAAATTGATACTTTTAACTTTTTCTCAAAATATTTTTTAAAAATTTTAATTTCGAGAAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTAAAACTTTAATTTCGAGAAAAATTGA
* * *
11910006 TACTTTCAACTTTTTAGCAAAAATTTATTTTTTTTGAAAACTTATTTTTAAGG
66 TACTTTCAACTTTTTAGCAAAAATCTATTTTTTTTGAAAACTTATTTGTAAAG
* * * *
11910059 AAAATTGATACTTTCAACTTTTCCCCAAAATACTTTTTTGAAACTTTAATTTCGAGAAAATTTGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTAAAACTTTAATTTCGAGAAAAATTGA
**
11910124 TACTTTCAACTTTTTCTCAAAAATCTA-TTTTTTTGAAAACTTATTTGTAAAG
66 TACTTTCAACTTTTTAGCAAAAATCTATTTTTTTTGAAAACTTATTTGTAAAG
11910176 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTT
11910216 TCTTGAAATT
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
117 48 0.34
118 93 0.66
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTAAAACTTTAATTTCGAGAAAAATTGA
TACTTTCAACTTTTTAGCAAAAATCTATTTTTTTTGAAAACTTATTTGTAAAG
Found at i:11910228 original size:60 final size:59
Alignment explanation
Indices: 11909998--11910223 Score: 244
Period size: 60 Copynumber: 3.8 Consensus size: 59
11909988 AATTTCGAGA
*** *
11909998 AAAATTGATACTTTCAACTTTTTAGCAAAAATTTATTTTTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTT-TTTTTTTTGAAAACTTA-TTTTAAAG
* ** * **
11910059 AAAATTGATACTTTCAACTTTTCC-CCAAAA--TACTTTTTTG-AAACTTTAATTTCGAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTTGAAAAC-TTATTTTAAAG
* * *
11910115 AAAATTTGATACTTTCAACTTTTTCTCAAAAATCTATTTTTTTGAAAACTTATTTGTAAAG
1 AAAA-TTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTTGAAAACTTATTT-TAAAG
11910176 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTCTTGAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTT-TTGAAA
11910224 TTATTATTTT
Statistics
Matches: 138, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
56 12 0.09
57 29 0.21
58 6 0.04
60 46 0.33
61 39 0.28
62 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTTGAAAACTTATTTTAAAG
Found at i:11911876 original size:18 final size:19
Alignment explanation
Indices: 11911853--11911891 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11911843 GTATTGATTA
11911853 TTGATTG-AAGTTGATAAT
1 TTGATTGTAAGTTGATAAT
* *
11911871 TTGATTGTATGTTTATAAT
1 TTGATTGTAAGTTGATAAT
11911890 TT
1 TT
11911892 TTTATAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (19 bp):
TTGATTGTAAGTTGATAAT
Found at i:11912541 original size:16 final size:15
Alignment explanation
Indices: 11912514--11912545 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
11912504 GTATATGAAT
11912514 TAATTAATAAATTTA
1 TAATTAATAAATTTA
11912529 TAATTATATAAATTTA
1 TAATTA-ATAAATTTA
11912545 T
1 T
11912546 TTATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTAATAAATTTA
Found at i:11912711 original size:23 final size:22
Alignment explanation
Indices: 11912673--11912741 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
11912663 AGTACAAAAT
*
11912673 AAATT-AACAAAATGAAAACAA
1 AAATTAAAGAAAATGAAAACAA
*
11912694 AAATGTCGAA-AAAATGAAAACAA
1 AAAT-T-AAAGAAAATGAAAACAA
*
11912717 AAATTAAAGAAAATCAAAACAA
1 AAATTAAAGAAAATGAAAACAA
11912739 AAA
1 AAA
11912742 AAAAAGGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.14
22 17 0.40
23 17 0.40
24 2 0.05
ACGTcount: A:0.71, C:0.09, G:0.07, T:0.13
Consensus pattern (22 bp):
AAATTAAAGAAAATGAAAACAA
Found at i:11912747 original size:22 final size:22
Alignment explanation
Indices: 11912704--11912747 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11912694 AAATGTCGAA
* **
11912704 AAAATGAAAACAAAAATTAAAG
1 AAAATCAAAACAAAAAAAAAAG
11912726 AAAATCAAAACAAAAAAAAAAG
1 AAAATCAAAACAAAAAAAAAAG
11912748 GTAAAAATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.09
Consensus pattern (22 bp):
AAAATCAAAACAAAAAAAAAAG
Found at i:11914543 original size:21 final size:21
Alignment explanation
Indices: 11914504--11914548 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11914494 ACCAAATAAG
*
11914504 ATAGGCTTAATGTACAAAAAA
1 ATAGGCTTAATATACAAAAAA
*
11914525 ATAGGCTTATATATA-AAAAGA
1 ATAGGCTTA-ATATACAAAAAA
11914546 ATA
1 ATA
11914549 ATGAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (21 bp):
ATAGGCTTAATATACAAAAAA
Found at i:11915081 original size:114 final size:114
Alignment explanation
Indices: 11914881--11915110 Score: 381
Period size: 114 Copynumber: 2.0 Consensus size: 114
11914871 TCGAAATATA
* * *
11914881 CAAATAATTGGATAAAAAGGCCTCCGGACATTAGCTATCCATCCAGCTAGAATAACAATGGCTTC
1 CAAATAATTGGATAAAAAGGCCACAGGACATTAGCTATCCATCCAGCAAGAATAACAATGGCTTC
11914946 TTCCTTACGAAATTTATTCTTCTTTTTCCTCTACATTATTCCCATCTCC
66 TTCCTTACGAAATTTATTCTTCTTTTTCCTCTACATTATTCCCATCTCC
*
11914995 CAAATAATTGGATAAAAAGGCCACTAGG-CATTAGCTATCCATCCAGCAAGCATAACAATGGCTT
1 CAAATAATTGGATAAAAAGGCCAC-AGGACATTAGCTATCCATCCAGCAAGAATAACAATGGCTT
* * *
11915059 CTTCTTTCCGAAATTTATTCTTCTTTTTCCTCTCCATTATTCCCATCTCC
65 CTTCCTTACGAAATTTATTCTTCTTTTTCCTCTACATTATTCCCATCTCC
11915109 CA
1 CA
11915111 TCAACTCCAA
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
114 106 0.98
115 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (114 bp):
CAAATAATTGGATAAAAAGGCCACAGGACATTAGCTATCCATCCAGCAAGAATAACAATGGCTTC
TTCCTTACGAAATTTATTCTTCTTTTTCCTCTACATTATTCCCATCTCC
Found at i:11918560 original size:5 final size:5
Alignment explanation
Indices: 11918550--11918604 Score: 67
Period size: 5 Copynumber: 10.8 Consensus size: 5
11918540 TCAAAAGTCT
* *
11918550 TTTTA TTTTA TTTTA TTTTGT TTTTA TTTT- TTTAA TTTTA TTTTA TGTTTA
1 TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA
11918601 TTTT
1 TTTT
11918605 CAGTTTTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
4 3 0.07
5 31 0.72
6 9 0.21
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:11918600 original size:11 final size:10
Alignment explanation
Indices: 11918550--11918604 Score: 67
Period size: 11 Copynumber: 5.4 Consensus size: 10
11918540 TCAAAAGTCT
11918550 TTTTATTTTA
1 TTTTATTTTA
*
11918560 TTTTATTTTGT
1 TTTTATTTT-A
11918571 TTTTATTTT-
1 TTTTATTTTA
*
11918580 TTTAATTTTA
1 TTTTATTTTA
11918590 TTTTATGTTTA
1 TTTTAT-TTTA
11918601 TTTT
1 TTTT
11918605 CAGTTTTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.21
10 14 0.36
11 17 0.44
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:11919090 original size:13 final size:13
Alignment explanation
Indices: 11919073--11919112 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
11919063 TTTTAAAAAA
11919073 ATTTTTGCATGAT
1 ATTTTTGCATGAT
**
11919086 -TTTTTTTATGAT
1 ATTTTTGCATGAT
11919098 ATTTTTGCATGAT
1 ATTTTTGCATGAT
11919111 AT
1 AT
11919113 CATAATGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (13 bp):
ATTTTTGCATGAT
Found at i:11919589 original size:26 final size:26
Alignment explanation
Indices: 11919541--11919595 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
11919531 TAATCCCAAT
*
11919541 GATTTAGAATGAATTCTTGGGATTTG
1 GATTTAGAATGAATTCTTGGGATGTG
* * *
11919567 GATTTAGAATGAGTTTTTTGGATGTG
1 GATTTAGAATGAATTCTTGGGATGTG
11919593 GAT
1 GAT
11919596 AATTAAACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.02, G:0.29, T:0.44
Consensus pattern (26 bp):
GATTTAGAATGAATTCTTGGGATGTG
Found at i:11920490 original size:6 final size:6
Alignment explanation
Indices: 11920475--11920536 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
11920465 TTTCATTTCA
*
11920475 TTTTAT TTTTACT TTTAAT TTTTA- -TTTA- TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* *
11920521 TTTTAA GTTTAT TTTT
1 TTTTAT TTTTAT TTTT
11920537 TGTAAACACT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 34 0.72
7 5 0.11
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:11920496 original size:12 final size:11
Alignment explanation
Indices: 11920459--11920535 Score: 50
Period size: 12 Copynumber: 6.8 Consensus size: 11
11920449 CCAAAAGTGT
* *
11920459 TTTTACTTTCA
1 TTTTATTTTAA
* *
11920470 TTTCATTTTAT
1 TTTTATTTTAA
11920481 TTTTACTTTTAA
1 TTTTA-TTTTAA
11920493 TTTT-TATTT-A
1 TTTTAT-TTTAA
*
11920503 TTTTATTTTTAT
1 TTTTA-TTTTAA
11920515 TTTTATTTTTAA
1 TTTTA-TTTTAA
*
11920527 GTTTATTTT
1 TTTTATTTT
11920536 TTGTAAACAC
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
10 6 0.12
11 21 0.40
12 25 0.48
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.74
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:11925305 original size:12 final size:12
Alignment explanation
Indices: 11925290--11925329 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
11925280 TTTATTATAC
*
11925290 TTTTACATTATT
1 TTTTACATGATT
*
11925302 TTTTA-ATGATA
1 TTTTACATGATT
11925313 TTTTACATGATT
1 TTTTACATGATT
11925325 TTTTA
1 TTTTA
11925330 TGATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (12 bp):
TTTTACATGATT
Found at i:11925332 original size:22 final size:22
Alignment explanation
Indices: 11925255--11925462 Score: 106
Period size: 23 Copynumber: 9.2 Consensus size: 22
11925245 TATGTTGTGA
*
11925255 TTTTTATGATATTTTGCATGAT
1 TTTTTATGATATTTTACATGAT
* *
11925277 ATTTTTATTATACTTTTACATTAT
1 -TTTTTATGATA-TTTTACATGAT
11925301 TTTTTAATGATATTTTACATGAT
1 TTTTT-ATGATATTTTACATGAT
*
11925324 TTTTTATGATTTTATTATTGCATGAT
1 TTTTTATGA---TATT-TTACATGAT
* * * *
11925350 TTAATTCTGATAATATTGCATGAT
1 TT-TTTATGAT-ATTTTACATGAT
* * *
11925374 TTTTT-TAACACTATTACATGATT
1 TTTTTATGATA-TTTTACATGA-T
* *
11925397 TTTTTAT-ATATTTTTCAT-AA
1 TTTTTATGATATTTTACATGAT
* * *
11925417 ATTTTATGATTTTTTTCAT--T
1 TTTTTATGATATTTTACATGAT
*
11925437 ATTTTATG--ATTTTACATGAT
1 TTTTTATGATATTTTACATGAT
11925457 ATTTTT
1 -TTTTT
11925463 CATAACTTTT
Statistics
Matches: 147, Mismatches: 23, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
18 7 0.05
20 15 0.10
21 16 0.11
22 21 0.14
23 40 0.27
24 27 0.18
25 6 0.04
26 10 0.07
27 5 0.03
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTTTATGATATTTTACATGAT
Found at i:11925440 original size:20 final size:21
Alignment explanation
Indices: 11925398--11925449 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
11925388 TACATGATTT
*
11925398 TTTTAT-ATATTTTTCATAAA
1 TTTTATGATTTTTTTCATAAA
*
11925418 TTTTATGATTTTTTTCAT-TA
1 TTTTATGATTTTTTTCATAAA
11925438 TTTTATGATTTT
1 TTTTATGATTTT
11925450 ACATGATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTATGATTTTTTTCATAAA
Found at i:11925456 original size:30 final size:34
Alignment explanation
Indices: 11925387--11925466 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 34
11925377 TTTAACACTA
11925387 TTACATGATTTTTTT-ATATATTTTTCATAAATT
1 TTACATGATTTTTTTCATATATTTTTCATAAATT
*
11925420 TT--ATGATTTTTTTCAT-TA-TTTT-AT-GATT
1 TTACATGATTTTTTTCATATATTTTTCATAAATT
*
11925448 TTACATGATATTTTTCATA
1 TTACATGATTTTTTTCATA
11925467 ACTTTTTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
28 5 0.12
29 2 0.05
30 17 0.41
31 13 0.32
32 2 0.05
33 2 0.05
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (34 bp):
TTACATGATTTTTTTCATATATTTTTCATAAATT
Found at i:11926351 original size:19 final size:17
Alignment explanation
Indices: 11926314--11926348 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
11926304 TTTTTCCTTC
11926314 TTTTATTATTTAAAAAA
1 TTTTATTATTTAAAAAA
11926331 TTTTCATTATTTAAAAAA
1 TTTT-ATTATTTAAAAAA
11926349 ATTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTATTATTTAAAAAA
Found at i:11928337 original size:37 final size:38
Alignment explanation
Indices: 11928296--11928394 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
11928286 GAAAAGTTCT
* * *
11928296 AGAGATTCACATC-TAAGAGTCATATATTTACATTTGA
1 AGAGATTCACATCTTAAAAGTCATAAATTCACATTTGA
** * *
11928333 AGAGATTTGCATCTTAAAAGTAAAAAATTCACATTTGA
1 AGAGATTCACATCTTAAAAGTCATAAATTCACATTTGA
*
11928371 ATAGATTCACATCTTAAAAGTCAT
1 AGAGATTCACATCTTAAAAGTCAT
11928395 TTGAAAATTT
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
37 11 0.22
38 38 0.78
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (38 bp):
AGAGATTCACATCTTAAAAGTCATAAATTCACATTTGA
Found at i:11928447 original size:21 final size:22
Alignment explanation
Indices: 11928421--11928489 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 22
11928411 TTCATATCAA
* * *
11928421 AGATTCACATTTGAA-GGTTAT
1 AGATTCACATGTCAAGGGTTAG
*
11928442 AGATTCACACGTCAAGGGTTAG
1 AGATTCACATGTCAAGGGTTAG
* *
11928464 AGATTCACA--TCAAAGGTTCG
1 AGATTCACATGTCAAGGGTTAG
11928484 AGATTC
1 AGATTC
11928490 TTATCAAGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
20 15 0.37
21 12 0.29
22 14 0.34
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (22 bp):
AGATTCACATGTCAAGGGTTAG
Found at i:11928476 original size:20 final size:20
Alignment explanation
Indices: 11928436--11928501 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
11928426 CACATTTGAA
*
11928436 GGTTATAGATTCACACGTCAAG
1 GGTTAGAGATTCACA--TCAAG
*
11928458 GGTTAGAGATTCACATCAAA
1 GGTTAGAGATTCACATCAAG
* **
11928478 GGTTCGAGATTCTTATCAAG
1 GGTTAGAGATTCACATCAAG
11928498 GGTT
1 GGTT
11928502 CACAACGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 24 0.63
22 14 0.37
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (20 bp):
GGTTAGAGATTCACATCAAG
Found at i:11928586 original size:39 final size:39
Alignment explanation
Indices: 11928536--11928618 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
11928526 AAGGTTTGCG
* * *
11928536 AAAAGGGTTTCAAAGATTCCCAAAAGTTCAAAGATTCAC
1 AAAATGGTTTCAAAGATTCCCAAAAGTTAAAAAATTCAC
** *
11928575 AAAATGGTTTCAAAGATTCGTAAAAGTTAAAAAATTTAC
1 AAAATGGTTTCAAAGATTCCCAAAAGTTAAAAAATTCAC
11928614 AAAAT
1 AAAAT
11928619 TTCAAGATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (39 bp):
AAAATGGTTTCAAAGATTCCCAAAAGTTAAAAAATTCAC
Found at i:11928588 original size:21 final size:21
Alignment explanation
Indices: 11928508--11928593 Score: 81
Period size: 18 Copynumber: 4.2 Consensus size: 21
11928498 GGTTCACAAC
*
11928508 GATTCAC-AAATGTTTTCAAA
1 GATTCACAAAATGGTTTCAAA
* ** *
11928528 GGTTTGCGAAAAGGGTTTCAAA
1 GATTCAC-AAAATGGTTTCAAA
*
11928550 GATTCCCAAAA--G-TTCAAA
1 GATTCACAAAATGGTTTCAAA
11928568 GATTCACAAAATGGTTTCAAA
1 GATTCACAAAATGGTTTCAAA
11928589 GATTC
1 GATTC
11928594 GTAAAAGTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
18 16 0.31
19 1 0.02
20 5 0.10
21 15 0.29
22 15 0.29
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (21 bp):
GATTCACAAAATGGTTTCAAA
Found at i:11928599 original size:21 final size:20
Alignment explanation
Indices: 11928508--11928593 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 20
11928498 GGTTCACAAC
* *
11928508 GATTCACAAATGTTTTCAAA
1 GATTCACAAAAGGTTTCAAA
* **
11928528 GGTTTGCGAAAAGGGTTTCAAA
1 GATTCAC-AAAA-GGTTTCAAA
*
11928550 GATTCCCAAAA-G-TTCAAA
1 GATTCACAAAAGGTTTCAAA
11928568 GATTCACAAAATGGTTTCAAA
1 GATTCACAAAA-GGTTTCAAA
11928589 GATTC
1 GATTC
11928594 GTAAAAGTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
18 16 0.31
19 1 0.02
20 5 0.10
21 18 0.35
22 12 0.23
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (20 bp):
GATTCACAAAAGGTTTCAAA
Found at i:11928676 original size:39 final size:39
Alignment explanation
Indices: 11928633--11928754 Score: 136
Period size: 40 Copynumber: 3.1 Consensus size: 39
11928623 AGATATAGAG
* *
11928633 AAGGGTTTCAAAGATTTGTAGAAGTTCAAAAATTTGCAA
1 AAGGGTTTCAAAGATTTGTAAAAATTCAAAAATTTGCAA
* * *
11928672 AAGGGTTTCAAAGATTTGTAAAATATTCTAAGATTCGCAA
1 AAGGGTTTCAAAGATTTGTAAAA-ATTCAAAAATTTGCAA
** * **
11928712 AAAAGTTTCAACGATTTACAAAAAATTCAAAAATTTGCAA
1 AAGGGTTTCAAAGATTT-GTAAAAATTCAAAAATTTGCAA
11928752 AAG
1 AAG
11928755 ACTAAAAAAT
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
39 22 0.33
40 41 0.61
41 4 0.06
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.30
Consensus pattern (39 bp):
AAGGGTTTCAAAGATTTGTAAAAATTCAAAAATTTGCAA
Found at i:11928694 original size:21 final size:21
Alignment explanation
Indices: 11928633--11928694 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
11928623 AGATATAGAG
*
11928633 AAGGGTTTCAAAGATTTGTAG
1 AAGGGTTTCAAAGATTTGTAA
* *
11928654 AA--G-TTCAAAAATTTGCAA
1 AAGGGTTTCAAAGATTTGTAA
11928672 AAGGGTTTCAAAGATTTGTAA
1 AAGGGTTTCAAAGATTTGTAA
11928693 AA
1 AA
11928695 TATTCTAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 14 0.42
19 1 0.03
20 1 0.03
21 17 0.52
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (21 bp):
AAGGGTTTCAAAGATTTGTAA
Found at i:11929309 original size:32 final size:31
Alignment explanation
Indices: 11929264--11929347 Score: 107
Period size: 32 Copynumber: 2.7 Consensus size: 31
11929254 TCAAATGATG
* *
11929264 CCACATTATTAATAAGGTGAATAAAATAATA
1 CCACCTTATTAATAAGGTAAATAAAATAATA
* *
11929295 CCACCTTAATTAATAAGGTAAATCAAATGATA
1 CCACCTT-ATTAATAAGGTAAATAAAATAATA
*
11929327 CCACCTTATTAATGA-GTAAAT
1 CCACCTTATTAATAAGGTAAAT
11929348 TTTAAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
30 6 0.13
31 13 0.28
32 28 0.60
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (31 bp):
CCACCTTATTAATAAGGTAAATAAAATAATA
Found at i:11937963 original size:18 final size:19
Alignment explanation
Indices: 11937939--11937984 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
11937929 TATAATAGAA
11937939 GAAAATCAAATTTCTTCCT
1 GAAAATCAAATTTCTTCCT
11937958 -AAAATCAAATTTCTTCCT
1 GAAAATCAAATTTCTTCCT
11937976 GAAAA-CAAA
1 GAAAATCAAA
11937985 AGAGTGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (19 bp):
GAAAATCAAATTTCTTCCT
Found at i:11941723 original size:21 final size:23
Alignment explanation
Indices: 11941683--11941730 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
11941673 ATAGAAACAA
11941683 AAAATTAAAGATAAAACAAAAT-
1 AAAATTAAAGATAAAACAAAATG
* *
11941705 AAAATTATA-ATAAACCAAAATG
1 AAAATTAAAGATAAAACAAAATG
11941727 AAAA
1 AAAA
11941731 AATGAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAATTAAAGATAAAACAAAATG
Found at i:11942384 original size:26 final size:26
Alignment explanation
Indices: 11942347--11942412 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
11942337 AAAGTCTATG
* * *
11942347 TCAATGAACAATATATAAGCTCTAAA
1 TCAATGAGCAATACACAAGCTCTAAA
*
11942373 TCAGTGAGCAATACACAAGCTCTAAA
1 TCAATGAGCAATACACAAGCTCTAAA
*
11942399 TCAATGAGGAATAC
1 TCAATGAGCAATAC
11942413 TCAAATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (26 bp):
TCAATGAGCAATACACAAGCTCTAAA
Found at i:11946821 original size:21 final size:21
Alignment explanation
Indices: 11946797--11946860 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
11946787 AACCTAAGCA
11946797 AATATATACAAAATTTTACCC
1 AATATATACAAAATTTTACCC
*
11946818 AATACATACAAAATTTTACACCC
1 AATATATACAAAATTTT--ACCC
* *
11946841 AATATATGCCAAATTTTACC
1 AATATATACAAAATTTTACC
11946861 TGAGCAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 19 0.51
23 18 0.49
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (21 bp):
AATATATACAAAATTTTACCC
Found at i:11946844 original size:23 final size:23
Alignment explanation
Indices: 11946797--11946859 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
11946787 AACCTAAGCA
11946797 AATATATACAAAATTTT--ACCC
1 AATATATACAAAATTTTACACCC
*
11946818 AATACATACAAAATTTTACACCC
1 AATATATACAAAATTTTACACCC
* *
11946841 AATATATGCCAAATTTTAC
1 AATATATACAAAATTTTAC
11946860 CTGAGCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 16 0.44
23 20 0.56
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (23 bp):
AATATATACAAAATTTTACACCC
Found at i:11947392 original size:17 final size:17
Alignment explanation
Indices: 11947370--11947416 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
11947360 TTGTATAAAT
11947370 TATAAAATATAAATGAA
1 TATAAAATATAAATGAA
* *
11947387 TATAAAAAATTAAATTAA
1 TATAAAATA-TAAATGAA
11947405 TA-AAAATATAAA
1 TATAAAATATAAA
11947417 ATATTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 4 0.15
17 13 0.50
18 9 0.35
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
TATAAAATATAAATGAA
Found at i:11947400 original size:18 final size:18
Alignment explanation
Indices: 11947373--11947410 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11947363 TATAAATTAT
11947373 AAAATATAAATGAATATAA
1 AAAATATAAATGAATA-AA
*
11947392 AAAAT-TAAATTAATAAA
1 AAAATATAAATGAATAAA
11947409 AA
1 AA
11947411 TATAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAATATAAATGAATAAA
Found at i:11952054 original size:24 final size:24
Alignment explanation
Indices: 11952022--11952068 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
11952012 GATGACTTAT
*
11952022 ATAGTGGGAGTATTAGGTTTTTAC
1 ATAGTGGGAGCATTAGGTTTTTAC
11952046 ATAGTGGGAGCATTAGGTTTTTA
1 ATAGTGGGAGCATTAGGTTTTTA
11952069 ACTTCATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.40
Consensus pattern (24 bp):
ATAGTGGGAGCATTAGGTTTTTAC
Found at i:11952404 original size:58 final size:58
Alignment explanation
Indices: 11952334--11952449 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
11952324 GCTATATAAG
*
11952334 TATGCATTGGATTAAGATGAATGATGACATTATTGCAGTCCAATCGATTGCCAATGGA
1 TATGCATTGGATTAAGATGAATGATGACATTATTGCAGTCCAATCCATTGCCAATGGA
11952392 TATGCATTGGATTAAGATGAATGATGACATTATTGCAGTCCAATCCATTGCCAATGGA
1 TATGCATTGGATTAAGATGAATGATGACATTATTGCAGTCCAATCCATTGCCAATGGA
11952450 CTTACAAGGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (58 bp):
TATGCATTGGATTAAGATGAATGATGACATTATTGCAGTCCAATCCATTGCCAATGGA
Found at i:11965665 original size:36 final size:37
Alignment explanation
Indices: 11965592--11965665 Score: 98
Period size: 35 Copynumber: 2.0 Consensus size: 37
11965582 ACTAATTTTG
*
11965592 TTAATTTAATATAAAAATAAATTTTATTATTACATAA
1 TTAATTTAATATAAAAATAAATCTTATTATTACATAA
* *
11965629 TTAA-TTAAT-TATAAATAAATCTTATTAGTTATATAA
1 TTAATTTAATATAAAAATAAATCTTATTA-TTACATAA
11965665 T
1 T
11965666 AAACTAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 16 0.48
36 13 0.39
37 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
TTAATTTAATATAAAAATAAATCTTATTATTACATAA
Found at i:11965699 original size:33 final size:33
Alignment explanation
Indices: 11965639--11965701 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
11965629 TTAATTAATT
11965639 ATAAATAAATCTTATTAGTTATATAATAAACTA
1 ATAAATAAATCTTATTAGTTATATAATAAACTA
* *
11965672 ATAAATAAATTTTAATTATTTAT-TAATAAA
1 ATAAATAAATCTT-ATTAGTTATATAATAAA
11965702 ACTATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 19 0.70
34 8 0.30
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (33 bp):
ATAAATAAATCTTATTAGTTATATAATAAACTA
Found at i:11967331 original size:17 final size:19
Alignment explanation
Indices: 11967295--11967334 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
11967285 TTATGATCAT
11967295 ATTTTTAAAATAATTATTTA
1 ATTTTTAAAAT-ATTATTTA
11967315 ATTTTTAAAAT-TT-TTTA
1 ATTTTTAAAATATTATTTA
11967332 ATT
1 ATT
11967335 AATCATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 2 0.10
20 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTAAAATATTATTTA
Found at i:11967336 original size:21 final size:21
Alignment explanation
Indices: 11967295--11967348 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
11967285 TTATGATCAT
* *
11967295 ATTTTTAAAA-TAATTATTTA
1 ATTTTTAAAATTTATTAATTA
*
11967315 ATTTTTAAAATTTTTTAATTA
1 ATTTTTAAAATTTATTAATTA
**
11967336 ATCATTAAAATTT
1 ATTTTTAAAATTT
11967349 GAATAAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTAAAATTTATTAATTA
Found at i:11972636 original size:23 final size:23
Alignment explanation
Indices: 11972597--11972641 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11972587 ATACAATTAG
*
11972597 AAAAAAAATTCACAAAA-ATTTT
1 AAAAAAAATTAACAAAACATTTT
*
11972619 AAAAAAGAATTAAGAAAACATTT
1 AAAAAA-AATTAACAAAACATTT
11972642 AGAAATCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.24
Consensus pattern (23 bp):
AAAAAAAATTAACAAAACATTTT
Found at i:11974749 original size:27 final size:27
Alignment explanation
Indices: 11974704--11974757 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11974694 CATCCCCTTG
* *
11974704 CTTAATTGGTTTGCAATGCATGTATAT
1 CTTAATTGGTTGGCAATGCATATATAT
11974731 CTTAATTGGTTGG-ACATGCATATATAT
1 CTTAATTGGTTGGCA-ATGCATATATAT
11974758 TAGTACTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.43
Consensus pattern (27 bp):
CTTAATTGGTTGGCAATGCATATATAT
Found at i:11980123 original size:19 final size:20
Alignment explanation
Indices: 11980089--11980130 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
11980079 GTTAAAATGA
*
11980089 AATAGTTATAAATTTTAAGT
1 AATAGTTATAAATTTTAAAT
*
11980109 AATAG-TATTAATTTTAAAT
1 AATAGTTATAAATTTTAAAT
11980128 AAT
1 AAT
11980131 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
AATAGTTATAAATTTTAAAT
Found at i:11980784 original size:21 final size:21
Alignment explanation
Indices: 11980730--11980794 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
11980720 ATTATAAAAA
11980730 AAATATAATAAAAAATTATGTATGT
1 AAATATAATAAAAAA--A-GT-TGT
*
11980755 -CATAT-ATAAAAAAAGTTGT
1 AAATATAATAAAAAAAGTTGT
*
11980774 AAATATAATAAAAAAATTTGT
1 AAATATAATAAAAAAAGTTGT
11980795 GCATCTCACA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.09
20 6 0.17
21 14 0.40
23 8 0.23
24 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (21 bp):
AAATATAATAAAAAAAGTTGT
Found at i:11982357 original size:21 final size:21
Alignment explanation
Indices: 11982318--11982357 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11982308 AAAGTGGCAA
* *
11982318 AGAAATCTGAATATAAAAAAG
1 AGAAATCTGAAAAGAAAAAAG
*
11982339 AGAAATCTGAAAAGCAAAA
1 AGAAATCTGAAAAGAAAAA
11982358 GAGTAGGCAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.07, G:0.15, T:0.15
Consensus pattern (21 bp):
AGAAATCTGAAAAGAAAAAAG
Found at i:11984081 original size:21 final size:21
Alignment explanation
Indices: 11984056--11984099 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11984046 TGTTAATGTG
* *
11984056 TTAAATTTTTAATTTTAATAA
1 TTAAAATTTAAATTTTAATAA
*
11984077 TTAAAATTTAAATTTTGATAA
1 TTAAAATTTAAATTTTAATAA
11984098 TT
1 TT
11984100 TTAATACCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTAAAATTTAAATTTTAATAA
Found at i:11984112 original size:30 final size:28
Alignment explanation
Indices: 11984056--11984112 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
11984046 TGTTAATGTG
*
11984056 TTAAATTTTTAATTTTAATAATTAAAAT
1 TTAAATTTTTAATTTTAATAACTAAAAT
*
11984084 TTAAATTTTGATAATTTTAATACCTAAAA
1 TTAAATTTT--TAATTTTAATAACTAAAA
11984113 AAAATATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.36
30 16 0.64
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (28 bp):
TTAAATTTTTAATTTTAATAACTAAAAT
Found at i:11985850 original size:16 final size:18
Alignment explanation
Indices: 11985831--11985878 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 18
11985821 AAAAAATTTG
11985831 AAATTAAAAA-TTAA-AA
1 AAATTAAAAATTTAATAA
11985847 AAATTAAAAATTTAATAA
1 AAATTAAAAATTTAATAA
*
11985865 AAATCCAAAAATTT
1 AAAT-TAAAAATTT
11985879 TCAATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 10 0.36
17 4 0.14
18 6 0.21
19 8 0.29
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATTAAAAATTTAATAA
Found at i:11985861 original size:24 final size:24
Alignment explanation
Indices: 11985813--11985858 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
11985803 AACATTCTAG
**
11985813 AAAATTAAAAAAAATTTGAAATTA
1 AAAATTAAAAAAAATTAAAAATTA
11985837 AAAATT-AAAAAAATTAAAAATT
1 AAAATTAAAAAAAATTAAAAATT
11985859 TAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATTAAAAAAAATTAAAAATTA
Found at i:11986125 original size:9 final size:9
Alignment explanation
Indices: 11986113--11986234 Score: 73
Period size: 10 Copynumber: 12.6 Consensus size: 9
11986103 CAAAATTTTG
11986113 TTTTAAATT
1 TTTTAAATT
**
11986122 TTTTGGATT
1 TTTTAAATT
**
11986131 TTTTGGATT
1 TTTTAAATT
11986140 TTTTAAAATT
1 TTTT-AAATT
**
11986150 TTTTACCTTT
1 TTTTA-AATT
11986160 TTTTAAATTT
1 TTTTAAA-TT
11986170 TTTTACAATT
1 TTTTA-AATT
11986180 TTTTAAACTT
1 TTTTAAA-TT
**
11986190 TTTTGATTTTT
1 TTTT-A-AATT
*
11986201 TTTTTAATT
1 TTTTAAATT
*
11986210 TTGTAAAATT
1 TT-TTAAATT
11986220 TTTTAAATT
1 TTTTAAATT
11986229 CTTTTA
1 -TTTTA
11986235 GAAATTTTAG
Statistics
Matches: 88, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
9 33 0.38
10 46 0.52
11 9 0.10
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.66
Consensus pattern (9 bp):
TTTTAAATT
Found at i:11986142 original size:10 final size:9
Alignment explanation
Indices: 11986119--11986143 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11986109 TTTGTTTTAA
11986119 ATTTTTTGG
1 ATTTTTTGG
11986128 ATTTTTTGG
1 ATTTTTTGG
11986137 ATTTTTT
1 ATTTTTT
11986144 AAAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (9 bp):
ATTTTTTGG
Found at i:11986150 original size:10 final size:10
Alignment explanation
Indices: 11986137--11986242 Score: 79
Period size: 10 Copynumber: 10.5 Consensus size: 10
11986127 GATTTTTTGG
11986137 ATTTTTTAAA
1 ATTTTTTAAA
**
11986147 ATTTTTTACC
1 ATTTTTTAAA
*
11986157 TTTTTTTAAA
1 ATTTTTTAAA
* *
11986167 TTTTTTTACA
1 ATTTTTTAAA
11986177 ATTTTTTAAA
1 ATTTTTTAAA
* * *
11986187 CTTTTTTGAT
1 ATTTTTTAAA
* **
11986197 TTTTTTTTTA
1 ATTTTTTAAA
*
11986207 ATTTTGTAAA
1 ATTTTTTAAA
11986217 ATTTTTT-AA
1 ATTTTTTAAA
11986226 ATTCTTTTAGAA
1 ATT-TTTTA-AA
11986238 ATTTT
1 ATTTT
11986243 AGAATTTTAA
Statistics
Matches: 73, Mismatches: 20, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
9 5 0.07
10 61 0.84
11 2 0.03
12 5 0.07
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:11986172 original size:30 final size:29
Alignment explanation
Indices: 11986138--11986242 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 29
11986128 ATTTTTTGGA
*
11986138 TTTTTTAAAATTTTTTACCTTTTTTTAAAT
1 TTTTTTAAAATTTTTTAAC-TTTTTTAAAT
* * *
11986168 TTTTTTACAATTTTTTAAACTTTTTTGATT
1 TTTTTTAAAATTTTTT-AACTTTTTTAAAT
** * *
11986198 TTTTTTTTAATTTTGTAAAATTTTTTAAAT
1 TTTTTTAAAATTTT-TTAACTTTTTTAAAT
*
11986228 TCTTTTAGAAATTTT
1 TTTTTTA-AAATTTT
11986243 AGAATTTTAA
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
30 50 0.85
31 9 0.15
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.66
Consensus pattern (29 bp):
TTTTTTAAAATTTTTTAACTTTTTTAAAT
Found at i:11989670 original size:22 final size:22
Alignment explanation
Indices: 11989645--11989689 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11989635 CACATAGCTA
11989645 TTTTCAACTTTTTC-ACTTTTTT
1 TTTTCAACTTTTTCTA-TTTTTT
**
11989667 TTTTCATTTTTTTCTATTTTTT
1 TTTTCAACTTTTTCTATTTTTT
11989689 T
1 T
11989690 CTTCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCAACTTTTTCTATTTTTT
Found at i:11989698 original size:22 final size:22
Alignment explanation
Indices: 11989653--11989699 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11989643 TATTTTCAAC
*
11989653 TTTTTCACTTTTTTTTTTCATT
1 TTTTTCACTTTTTTTCTTCATT
11989675 TTTTTCTA-TTTTTTTCTTC-TT
1 TTTTTC-ACTTTTTTTCTTCATT
11989696 TTTT
1 TTTT
11989700 GCACCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTCACTTTTTTTCTTCATT
Found at i:11998242 original size:27 final size:24
Alignment explanation
Indices: 11998173--11998234 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
11998163 TTACTAAGGG
11998173 AATTTTTTTGTAAAATTATCAATT
1 AATTTTTTTGTAAAATTATCAATT
11998197 AATTTTTTTGTAAAATTATCAATT
1 AATTTTTTTGTAAAATTATCAATT
11998221 AATTTTTTT-TAAAA
1 AATTTTTTTGTAAAA
11998235 AATATTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.13
24 33 0.87
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (24 bp):
AATTTTTTTGTAAAATTATCAATT
Found at i:11999780 original size:33 final size:33
Alignment explanation
Indices: 11999708--11999807 Score: 157
Period size: 33 Copynumber: 3.0 Consensus size: 33
11999698 TAAAAATGTC
*
11999708 CTTTTTTAATTAGTAAACAATATAATTACTTTTTTA
1 CTTTTTTAATTAATAAA-AATAT-ATTAC-TTTTTA
11999744 CTTTTTTAATTAATAAAAATATATTACTTTTTA
1 CTTTTTTAATTAATAAAAATATATTACTTTTTA
11999777 CTTTTTTAATTAATAAAAATA-ATTACTTTTT
1 CTTTTTTAATTAATAAAAATATATTACTTTTT
11999808 TACTCTAATT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
32 10 0.16
33 27 0.43
34 5 0.08
35 5 0.08
36 16 0.25
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (33 bp):
CTTTTTTAATTAATAAAAATATATTACTTTTTA
Found at i:12000989 original size:11 final size:11
Alignment explanation
Indices: 12000962--12001016 Score: 53
Period size: 10 Copynumber: 5.3 Consensus size: 11
12000952 AAATTTTTAT
*
12000962 TTATATATATA
1 TTATATATAAA
*
12000973 -TATATATGAA
1 TTATATATAAA
12000983 TTATATATAAA
1 TTATATATAAA
* *
12000994 TTA-ATTTACA
1 TTATATATAAA
12001004 -TATATATAAA
1 TTATATATAAA
12001014 TTA
1 TTA
12001017 AAAATAAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
9 2 0.06
10 18 0.53
11 14 0.41
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (11 bp):
TTATATATAAA
Found at i:12001553 original size:2 final size:2
Alignment explanation
Indices: 12001546--12001570 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12001536 TTAGCCGGCA
12001546 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
12001571 AACTAATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12009223 original size:41 final size:41
Alignment explanation
Indices: 12009178--12009261 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
12009168 GTCTTATATA
* * *
12009178 TTGTACAGCATAGTTTTCTCTTTGCAATTACTATAGATCTT
1 TTGTACAACATAGTTTTCTCCTTACAATTACTATAGATCTT
*
12009219 TTGTACAACATAGTTTTTTCCTTACAATTACTATAGATCTT
1 TTGTACAACATAGTTTTCTCCTTACAATTACTATAGATCTT
12009260 TT
1 TT
12009262 AAGAAGCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (41 bp):
TTGTACAACATAGTTTTCTCCTTACAATTACTATAGATCTT
Found at i:12010273 original size:7 final size:7
Alignment explanation
Indices: 12010263--12010291 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
12010253 TTCTTTCAGC
12010263 TTTCATA
1 TTTCATA
12010270 TTTCATA
1 TTTCATA
12010277 TTTCATA
1 TTTCATA
12010284 TTTCATA
1 TTTCATA
12010291 T
1 T
12010292 CTGTTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTCATA
Found at i:12013049 original size:31 final size:31
Alignment explanation
Indices: 12013008--12013068 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
12012998 GCCTAGTACG
12013008 AGTAAAAATTTTATTACTT-AATGGTTTTGGA
1 AGTAAAAATTTTATTA-TTCAATGGTTTTGGA
*
12013039 AGTAAGAATTTTATTATTCAATGGTTTTGG
1 AGTAAAAATTTTATTATTCAATGGTTTTGG
12013069 TCTCTTCCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (31 bp):
AGTAAAAATTTTATTATTCAATGGTTTTGGA
Found at i:12014843 original size:29 final size:28
Alignment explanation
Indices: 12014811--12014868 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
12014801 TAAATTATTT
12014811 TTTATTACAAATTAAAA-TATAAAAACTTA
1 TTTATTA-AAA-TAAAAGTATAAAAACTTA
* *
12014840 TTTATTATAATAAAAGTATAAAAATTTA
1 TTTATTAAAATAAAAGTATAAAAACTTA
12014868 T
1 T
12014869 ATAAAAGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.19
28 14 0.54
29 7 0.27
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (28 bp):
TTTATTAAAATAAAAGTATAAAAACTTA
Found at i:12014872 original size:20 final size:21
Alignment explanation
Indices: 12014844--12014882 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
12014834 AACTTATTTA
*
12014844 TTATAATAAAAGTATAAAAAT
1 TTATAATAAAAGTACAAAAAT
12014865 TTAT-ATAAAAGTACAAAA
1 TTATAATAAAAGTACAAAA
12014883 TAATTTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (21 bp):
TTATAATAAAAGTACAAAAAT
Found at i:12018851 original size:29 final size:31
Alignment explanation
Indices: 12018819--12018882 Score: 96
Period size: 29 Copynumber: 2.1 Consensus size: 31
12018809 TAAAATAAAA
* *
12018819 TTTATATTTTTA-TTATATTTAAAT-AATTT
1 TTTATATTTTAATTTATATTCAAATAAATTT
12018848 TTTATATTTTAATTTATATTCAAATAAATTT
1 TTTATATTTTAATTTATATTCAAATAAATTT
12018879 TTTA
1 TTTA
12018883 AATGAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 11 0.35
30 11 0.35
31 9 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTATATTTTAATTTATATTCAAATAAATTT
Found at i:12018973 original size:30 final size:29
Alignment explanation
Indices: 12018919--12019020 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 29
12018909 TATTTTTAGG
*
12018919 TATAAATTAAAATTTTAAAGATTTATTTAAA
1 TATAAATTAAAA--TTAAAAATTTATTTAAA
12018950 TATAAATTAAAGATTAAAAATTTATTT-AA
1 TATAAATTAAA-ATTAAAAATTTATTTAAA
* * *
12018979 TAAAAATTAAAATTAAAAAATTATTGAAA
1 TATAAATTAAAATTAAAAATTTATTTAAA
12019008 T-TAACA-TAAAATT
1 TATAA-ATTAAAATT
12019021 TTATTTTATT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
28 22 0.35
29 16 0.25
30 13 0.21
31 11 0.17
32 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (29 bp):
TATAAATTAAAATTAAAAATTTATTTAAA
Found at i:12018997 original size:29 final size:29
Alignment explanation
Indices: 12018922--12019008 Score: 104
Period size: 29 Copynumber: 2.9 Consensus size: 29
12018912 TTTTAGGTAT
* *
12018922 AAATTAAAATTTTAAAGATTTATTTAAATAT
1 AAATTAAAA--TTAAAAATTTATTTAAATAA
12018953 AAATTAAAGATTAAAAATTTATTT-AATAA
1 AAATTAAA-ATTAAAAATTTATTTAAATAA
* *
12018982 AAATTAAAATTAAAAAATTATTGAAAT
1 AAATTAAAATTAAAAATTTATTTAAAT
12019009 TAACATAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.26
29 15 0.30
30 13 0.26
31 8 0.16
32 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
AAATTAAAATTAAAAATTTATTTAAATAA
Found at i:12020250 original size:3 final size:3
Alignment explanation
Indices: 12020242--12020266 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12020232 GTTTTCCTTG
12020242 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
12020267 AAATTTGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:12024132 original size:15 final size:15
Alignment explanation
Indices: 12024112--12024144 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
12024102 TCAAATATGT
12024112 GAAGGCACATTTTCA
1 GAAGGCACATTTTCA
*
12024127 GAAGGCGCATTTTCA
1 GAAGGCACATTTTCA
12024142 GAA
1 GAA
12024145 ATGTTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (15 bp):
GAAGGCACATTTTCA
Found at i:12027865 original size:20 final size:23
Alignment explanation
Indices: 12027837--12027882 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
12027827 AAAATTTCAA
12027837 ATTAAAAAA-TATT-TATAA-AT
1 ATTAAAAAATTATTGTATAATAT
*
12027857 ATTATAAAATTATTGTATAATAT
1 ATTAAAAAATTATTGTATAATAT
12027880 ATT
1 ATT
12027883 TCAACATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 4 0.18
22 5 0.23
23 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTAAAAAATTATTGTATAATAT
Found at i:12027865 original size:21 final size:22
Alignment explanation
Indices: 12027837--12027882 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
12027827 AAAATTTCAA
12027837 ATTAAAAAATATT-TATAA-AT
1 ATTAAAAAATATTGTATAATAT
*
12027857 ATTATAAAATTATTGTATAATAT
1 ATTA-AAAAATATTGTATAATAT
12027880 ATT
1 ATT
12027883 TCAACATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 5 0.23
23 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTAAAAAATATTGTATAATAT
Found at i:12028330 original size:27 final size:27
Alignment explanation
Indices: 12028298--12028350 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
12028288 CATAAGTTTA
12028298 AAAGTGTATTAATGAA-AAATAGTTTTT
1 AAAGTGTATTAAT-AAGAAATAGTTTTT
12028325 AAAGTGTATTAATAAGAAATAGTTTT
1 AAAGTGTATTAATAAGAAATAGTTTT
12028351 AATTTAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (27 bp):
AAAGTGTATTAATAAGAAATAGTTTTT
Done.