Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009460.1 Hibiscus syriacus cultivar Beakdansim tig00113722_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2853300
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 14
Found at i:3106 original size:16 final size:16
Alignment explanation
Indices: 3082--3115 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3072 TATCGCCGAC
*
3082 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
3098 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
3114 CG
1 CG
3116 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:10392 original size:19 final size:19
Alignment explanation
Indices: 10347--10398 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
10337 AATGTGCCTT
* *
10347 TAGTATCGGTACTGACCCC
1 TAGTATCGATACCGACCCC
*
10366 TGAGTATCGATACCGAGCCC
1 T-AGTATCGATACCGACCCC
*
10386 TAGTATCAATACC
1 TAGTATCGATACC
10399 ATTTTTAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (19 bp):
TAGTATCGATACCGACCCC
Found at i:13773 original size:68 final size:68
Alignment explanation
Indices: 13701--14059 Score: 431
Period size: 68 Copynumber: 5.3 Consensus size: 68
13691 TATTTTTTTA
* * *
13701 GTCACTTATATATTATCTAATTTATATTTTGGTCGCTCGATTATTATTTAGGATAAATTACTTAT
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAGGATAAACTACTTAT
13766 TTG
66 TTG
* * * * * *
13769 GTCACTTATATATTATCTAATTTACGTTTTGATCACTTGACTATTATTTA-GAGTAAACAACCTA
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAGGA-TAAACTACTTA
*
13833 TTTA
65 TTTG
* * * *
13837 GTCACTTGTATATTTTTTAATTTATGTTTTGGTCACTCGATTATTATTTTAGG-TAAACTACATA
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTA-TTTAGGATAAACTACTTA
13901 TTTG
65 TTTG
* * * * *
13905 GTCACTTATATATTATCAAATTTATGTTTTGGTTACTCGACTATTATTTAGGGTAAACTACCTAT
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAGGATAAACTACTTAT
13970 TTG
66 TTG
* * * * * *
13973 GTCACTTAAATATTTTCTTATTTTTATTTTGGTCACTCGATTATTATTTAGGGTAAACTA-TCTA
1 GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAGGATAAACTACT-TA
14037 TTTG
65 TTTG
14041 GTCAC-T-TATATTATCTAAT
1 GTCACTTATATATTATCTAAT
14060 ATAATTCATA
Statistics
Matches: 247, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
66 10 0.04
67 9 0.04
68 223 0.90
69 4 0.02
70 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (68 bp):
GTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTATTTAGGATAAACTACTTAT
TTG
Found at i:13927 original size:136 final size:134
Alignment explanation
Indices: 13697--14051 Score: 496
Period size: 136 Copynumber: 2.6 Consensus size: 134
13687 AAATTATTTT
* * * *
13697 TTTAGTCACTTATATATTATCTAATTTATATTTTGGTCGCTCGATTATTATTTAGGATAAATTAC
1 TTTAGTCACTTATATATTTTTTAATTTATATTTTGGTCACTCGATTATTATTTAGG-TAAACTAC
* *
13762 TTATTTGGTCACTTATATATTATCTAATTTACGTTTTGATCACTTGACTATTATTTAGAGTAAAC
65 -TATTTGGTCACTTATATATTATCAAATTTACGTTTTGATCACTCGACTATTATTTAGAGTAAAC
13827 AACCTA
129 AACCTA
* *
13833 TTTAGTCACTTGTATATTTTTTAATTTATGTTTTGGTCACTCGATTATTATTTTAGGTAAACTAC
1 TTTAGTCACTTATATATTTTTTAATTTATATTTTGGTCACTCGATTATTA-TTTAGGTAAACTAC
* * * *
13898 ATATTTGGTCACTTATATATTATCAAATTTATGTTTTGGTTACTCGACTATTATTTAGGGTAAAC
65 -TATTTGGTCACTTATATATTATCAAATTTACGTTTTGATCACTCGACTATTATTTAGAGTAAAC
*
13963 TACCTA
129 AACCTA
* * *
13969 TTTGGTCACTTAAATATTTTCTT-ATTTTTATTTTGGTCACTCGATTATTATTTAGGGTAAACTA
1 TTTAGTCACTTATATATTTT-TTAATTTATATTTTGGTCACTCGATTATTATTTA-GGTAAACTA
14033 TCTATTTGGTCACTTATAT
64 -CTATTTGGTCACTTATAT
14052 TATCTAATAT
Statistics
Matches: 196, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
135 4 0.02
136 183 0.93
137 9 0.05
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.49
Consensus pattern (134 bp):
TTTAGTCACTTATATATTTTTTAATTTATATTTTGGTCACTCGATTATTATTTAGGTAAACTACT
ATTTGGTCACTTATATATTATCAAATTTACGTTTTGATCACTCGACTATTATTTAGAGTAAACAA
CCTA
Found at i:16927 original size:36 final size:35
Alignment explanation
Indices: 16853--17028 Score: 208
Period size: 36 Copynumber: 4.9 Consensus size: 35
16843 AGATGAACAA
* ** * * *
16853 TTGAATCGAAAGTACTAACGCTTCTTTCCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
* * * *
16888 TTGAATCGAAAGTGTCGGTGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTACGTTC-AC
16924 TTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
16959 TTTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
1 -TTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
* * *
16995 TTTGAATCGAAAGTGCTGATGCTTTCTTTCGTTC
1 -TTGAATCGAAAGTGCCGATGCTTCCTTACGTTC
17029 TTCTTATTCA
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
35 26 0.21
36 97 0.79
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.37
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTACGTTCAC
Found at i:21962 original size:16 final size:16
Alignment explanation
Indices: 21941--21974 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
21931 ACGATCATAT
21941 AATTTATCACTGAAGA
1 AATTTATCACTGAAGA
21957 AATTTATCACTGAAGA
1 AATTTATCACTGAAGA
21973 AA
1 AA
21975 GTAATGCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (16 bp):
AATTTATCACTGAAGA
Found at i:33504 original size:6 final size:7
Alignment explanation
Indices: 33486--33558 Score: 51
Period size: 7 Copynumber: 10.1 Consensus size: 7
33476 AACAAAAAGG
33486 GAAAAAA
1 GAAAAAA
33493 GAAAAAA
1 GAAAAAA
33500 GAAAAGAA
1 GAAAA-AA
33508 GCAAAAAA
1 G-AAAAAA
33516 GGAAAAAA
1 -GAAAAAA
* *
33524 -CAAGAA
1 GAAAAAA
*
33530 CAAAAAA
1 GAAAAAA
*
33537 GAAAGAA
1 GAAAAAA
*
33544 CAAAAATA
1 GAAAAA-A
33552 -AAAAAA
1 GAAAAAA
33558 G
1 G
33559 GGGACAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
6 5 0.10
7 30 0.58
8 12 0.23
9 5 0.10
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.01
Consensus pattern (7 bp):
GAAAAAA
Found at i:34197 original size:22 final size:22
Alignment explanation
Indices: 34169--34219 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
34159 CCACATCAAT
*
34169 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACAAAA
*
34191 CCTTTGAGCATCAAATGCAAAA
1 CCTTTGAGCATCAAATACAAAA
34213 CCTTTGA
1 CCTTTGA
34220 CCAAACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACAAAA
Found at i:35277 original size:106 final size:105
Alignment explanation
Indices: 35150--36547 Score: 2006
Period size: 106 Copynumber: 13.5 Consensus size: 105
35140 ATATCGTGCC
* * * * * *
35150 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
** * **
35215 GGTTCAAGAGCCAATTTCAAGTTCACAGTGAAGGATATTGG
66 ATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
35256 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCGATAAAC-A------
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
35314 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
35354 ACTCCAGGCAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCGATAAAC-A------
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
35412 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
35452 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCGAT--A-AA--T--A
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
35510 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
35550 ACTCCAGGCAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCGATAAAC-A------
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
35608 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
35648 ACTCAAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
35713 AATTTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGG
66 -ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
35754 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
35819 AATTTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGG
66 -ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
35860 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
35925 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 -ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
35966 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTC-C
* *
36031 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
36072 ACTCCTGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * * *
36137 AATTTCAGAGCCAATTTCAAATTCCCAGCGAATGATATTGG
66 -ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
36178 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTC-C
*
36243 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 CATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
36284 ACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTC-C
* * *
36349 AATTTCAGAGCCAATTTCAACTTTACAGCGAAGGATATTGG
65 CATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
36390 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
36455 AATGTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 -ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
36496 ACTCCAGACAACGAAAGTTTAACTTCACGACGAAGGGGCAGCTGATTGTCAA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
36548 CAAAATTTCT
Statistics
Matches: 1205, Mismatches: 69, Indels: 36
0.92 0.05 0.03
Matches are distributed among these distances:
96 2 0.00
98 359 0.30
99 4 0.00
100 2 0.00
105 3 0.00
106 833 0.69
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:36734 original size:25 final size:28
Alignment explanation
Indices: 36684--36739 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
36674 TGACTTAATA
*
36684 TATTAATATATTAATATTTCATTTTTAT
1 TATTAATATATTAATACTTCATTTTTAT
36712 TATTAATATATT-ATACTT-ATTTTATAT
1 TATTAATATATTAATACTTCATTTT-TAT
36739 T
1 T
36740 TTTTTCCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 5 0.19
27 9 0.35
28 12 0.46
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TATTAATATATTAATACTTCATTTTTAT
Found at i:40106 original size:14 final size:14
Alignment explanation
Indices: 40087--40126 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
40077 TGAAAAACGG
40087 AATGAGAATGTCGA
1 AATGAGAATGTCGA
40101 AATGAGAATGTCGA
1 AATGAGAATGTCGA
40115 AATGAGAATGTC
1 AATGAGAATGTC
40127 TTCATTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.23
Consensus pattern (14 bp):
AATGAGAATGTCGA
Found at i:40453 original size:21 final size:21
Alignment explanation
Indices: 40428--40469 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
40418 TTACACTGAT
40428 TTAAATTA-AATATTTCATTTC
1 TTAAATTACAATATTT-ATTTC
40449 TTAAATTATCAATATTTATTT
1 TTAAATTA-CAATATTTATTT
40470 ATATAAGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAAATTACAATATTTATTTC
Found at i:41478 original size:9 final size:9
Alignment explanation
Indices: 41464--41493 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
41454 AAAATTGATT
41464 AATTAATCA
1 AATTAATCA
41473 AATTAATCAA
1 AATTAATC-A
41483 AATTAATCA
1 AATTAATCA
41492 AA
1 AA
41494 ATTATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (9 bp):
AATTAATCA
Found at i:41487 original size:10 final size:10
Alignment explanation
Indices: 41464--41497 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
41454 AAAATTGATT
41464 AATTAATC-A
1 AATTAATCAA
41473 AATTAATCAA
1 AATTAATCAA
41483 AATTAATCAA
1 AATTAATCAA
41493 AATTA
1 AATTA
41498 TTAAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (10 bp):
AATTAATCAA
Found at i:41503 original size:19 final size:20
Alignment explanation
Indices: 41452--41504 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
41442 TTAATTTGAT
*
41452 TCAAAATTGATT--AATTAA
1 TCAAAATTAATTAAAATTAA
*
41470 TC-AAATTAATCAAAATTAA
1 TCAAAATTAATTAAAATTAA
41489 TCAAAATT-ATTAAAAT
1 TCAAAATTAATTAAAAT
41505 ATTTAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 7 0.24
18 2 0.07
19 15 0.52
20 5 0.17
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (20 bp):
TCAAAATTAATTAAAATTAA
Found at i:41614 original size:7 final size:7
Alignment explanation
Indices: 41604--41635 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
41594 AAAATATTAG
*
41604 ATATTTA
1 ATATATA
41611 ATATATA
1 ATATATA
41618 ATATATA
1 ATATATA
41625 ATATATA
1 ATATATA
41632 ATAT
1 ATAT
41636 TTATATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
ATATATA
Found at i:41620 original size:21 final size:20
Alignment explanation
Indices: 41596--41645 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
41586 AATAAATCAA
*
41596 AATATTAGATATTTAATATAT
1 AATATTA-ATATATAATATAT
*
41617 AATATATAATATATAATATTT
1 AATAT-TAATATATAATATAT
41638 ATATATTA
1 A-ATATTA
41646 TTTATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
AATATTAATATATAATATAT
Found at i:41621 original size:14 final size:14
Alignment explanation
Indices: 41604--41643 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
41594 AAAATATTAG
41604 ATATTTAATATATA
1 ATATTTAATATATA
*
41618 ATATATAATATATA
1 ATATTTAATATATA
41632 ATATTT-ATATAT
1 ATATTTAATATAT
41644 TATTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTTAATATATA
Found at i:45334 original size:30 final size:31
Alignment explanation
Indices: 45300--45359 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
45290 ACATTCGCTC
* *
45300 CCTGAAATTTT-ATAAGTCAAGTTCACCCCT
1 CCTGAAATTTTAAAAAGTCAAATTCACCCCT
*
45330 CCTGAAATTTTAAAAATTCAAATTCACCCC
1 CCTGAAATTTTAAAAAGTCAAATTCACCCC
45360 ATAACATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.32
Consensus pattern (31 bp):
CCTGAAATTTTAAAAAGTCAAATTCACCCCT
Found at i:47873 original size:39 final size:39
Alignment explanation
Indices: 47811--47890 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 39
47801 TTAATTTTTC
** * *
47811 TTAATATTTTATTTTAGACTCAACCGAAAATATTAAAAA
1 TTAATATTTTAAATTACACTCAACCAAAAATATTAAAAA
* * *
47850 TTAATATTTTAAATTACATTCAACTAAAAATATTATAAA
1 TTAATATTTTAAATTACACTCAACCAAAAATATTAAAAA
47889 TT
1 TT
47891 TTATAATATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (39 bp):
TTAATATTTTAAATTACACTCAACCAAAAATATTAAAAA
Found at i:51569 original size:21 final size:21
Alignment explanation
Indices: 51543--51586 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
51533 TAGAGACCAA
51543 GACATCGTCTTTGCCAACCGT
1 GACATCGTCTTTGCCAACCGT
51564 GACATCGTCTTTGCCAACCGT
1 GACATCGTCTTTGCCAACCGT
51585 GA
1 GA
51587 TGTGCCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.27
Consensus pattern (21 bp):
GACATCGTCTTTGCCAACCGT
Found at i:58557 original size:53 final size:52
Alignment explanation
Indices: 58459--58561 Score: 143
Period size: 53 Copynumber: 2.0 Consensus size: 52
58449 ATGGTAAAAC
* * *
58459 TATTTTGTTATAAATTGATATGTTAGTGACCGTTTTATTACAAATCGATAGT
1 TATTTTGTTACAAATTGATATGTTAGTAACCATTTTATTACAAATCGATAGT
* **
58511 TATTTTGTTACAAATTGATAATGTTAGTAATCATTTTATTGTAAATCGATA
1 TATTTTGTTACAAATTGAT-ATGTTAGTAACCATTTTATTACAAATCGATA
58562 ACGTTAATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 18 0.41
53 26 0.59
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.47
Consensus pattern (52 bp):
TATTTTGTTACAAATTGATATGTTAGTAACCATTTTATTACAAATCGATAGT
Found at i:61686 original size:27 final size:28
Alignment explanation
Indices: 61636--61693 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
61626 AAGGGTGCAC
61636 AAAAAATCCGAATATCCGATTTTGCGAA
1 AAAAAATCCGAATATCCGATTTTGCGAA
* *
61664 AAAAATATCCGAA-ATCGGA-TTTGGGAA
1 AAAAA-ATCCGAATATCCGATTTTGCGAA
61691 AAA
1 AAA
61694 CCGGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 10 0.37
28 10 0.37
29 7 0.26
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (28 bp):
AAAAAATCCGAATATCCGATTTTGCGAA
Found at i:64136 original size:21 final size:21
Alignment explanation
Indices: 64112--64151 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
64102 TTTATTTTAT
64112 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
64133 AACTTTATTTCAATTATCG
1 AACTTTATTTCAATTATCG
64152 AACTTGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:64199 original size:33 final size:33
Alignment explanation
Indices: 64138--64244 Score: 164
Period size: 33 Copynumber: 3.3 Consensus size: 33
64128 TCGTAAACTT
64138 TATTTCAA-TTATCGAACTT-GAAGTTTTTAAG
1 TATTTCAATTTATCGAACTTGGAAGTTTTTAAG
*
64169 TATTTGAATTTATCGAACTTGGAAGTTTTTAAG
1 TATTTCAATTTATCGAACTTGGAAGTTTTTAAG
* * *
64202 TATTTGAATTTATCAAACTTGGAAGTATTTAAG
1 TATTTCAATTTATCGAACTTGGAAGTTTTTAAG
64235 TATTTCAATT
1 TATTTCAATT
64245 ATGTTGAGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 7 0.10
32 11 0.16
33 52 0.74
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (33 bp):
TATTTCAATTTATCGAACTTGGAAGTTTTTAAG
Found at i:64273 original size:13 final size:13
Alignment explanation
Indices: 64230--64284 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
64220 TTGGAAGTAT
64230 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
64243 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
64257 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
64270 TTAAGTATTTGAA
1 TTAAGTATTTCAA
64283 TT
1 TT
64285 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:64506 original size:21 final size:21
Alignment explanation
Indices: 64480--64536 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
64470 TGGAGCGTGG
*
64480 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
64501 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
64522 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
64537 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:64755 original size:15 final size:15
Alignment explanation
Indices: 64703--64755 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
64693 ATCTGGAATA
64703 TTAAAATCGGTTTTT
1 TTAAAATCGGTTTTT
* *
64718 TTATAACCGGTTTTT
1 TTAAAATCGGTTTTT
*
64733 TAAAAAAATCGGTTTTT
1 T--TAAAATCGGTTTTT
64750 TTAAAA
1 TTAAAA
64756 CCGAAACCGG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 18 0.60
17 12 0.40
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (15 bp):
TTAAAATCGGTTTTT
Found at i:93105 original size:23 final size:23
Alignment explanation
Indices: 93072--93115 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
93062 GAGTTGAGGG
93072 TCTACGCGGTCATTCGGGACAAT
1 TCTACGCGGTCATTCGGGACAAT
* *
93095 TCTACGTGGTCCTTCGGGACA
1 TCTACGCGGTCATTCGGGACA
93116 TATATGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
TCTACGCGGTCATTCGGGACAAT
Found at i:93374 original size:23 final size:23
Alignment explanation
Indices: 93341--93384 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
93331 GAGTCGAGGG
93341 TCTACGCGGTCCTTCGGGACAAT
1 TCTACGCGGTCCTTCGGGACAAT
*
93364 TCTACGTGGTCCTTCGGGACA
1 TCTACGCGGTCCTTCGGGACA
93385 TATATGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (23 bp):
TCTACGCGGTCCTTCGGGACAAT
Found at i:93403 original size:269 final size:269
Alignment explanation
Indices: 92919--93458 Score: 1044
Period size: 269 Copynumber: 2.0 Consensus size: 269
92909 GTGACATGAA
92919 TTACATGAAAGTAAACTACGTGATTATATGCACATGTGATATGTGATCATAAGAGCAATGATATG
1 TTACATGAAAGTAAACTACGTGATTATATGCACATGTGATATGTGATCATAAGAGCAATGATATG
92984 AGTACATGAATATAAGAAGCATAAGAAAAATTCACATGTTATATGATACGAGAGCTATAGGTATA
66 AGTACATGAATATAAGAAGCATAAGAAAAATTCACATGTTATATGATACGAGAGCTATAGGTATA
*
93049 GTTGGCATGCCAAGAGTTGAGGGTCTACGCGGTCATTCGGGACAATTCTACGTGGTCCTTCGGGA
131 GTTGGCATGCCAAGAGTCGAGGGTCTACGCGGTCATTCGGGACAATTCTACGTGGTCCTTCGGGA
*
93114 CATATATGTAATTCCGTGGAACATGTATGTGGTACTTCGGTACACTTATTTGGTCTATTGTATTA
196 CATATATGTAATTCCGTGGAACATGTATGTGGTACTTCGGTACACTTATTTGGTCCATTGTATTA
93179 TGTATATGG
261 TGTATATGG
93188 TTACATGAAAGTAAACTACGTGATTATATGCACATGTGATATGTGATCATAAGAGCAATGATATG
1 TTACATGAAAGTAAACTACGTGATTATATGCACATGTGATATGTGATCATAAGAGCAATGATATG
93253 AGTACATGAATATAAGAAGCATAAGAAAAATTCACATGTTATATGATACGAGAGCTATAGGTATA
66 AGTACATGAATATAAGAAGCATAAGAAAAATTCACATGTTATATGATACGAGAGCTATAGGTATA
*
93318 GTTGGCATGCCAAGAGTCGAGGGTCTACGCGGTCCTTCGGGACAATTCTACGTGGTCCTTCGGGA
131 GTTGGCATGCCAAGAGTCGAGGGTCTACGCGGTCATTCGGGACAATTCTACGTGGTCCTTCGGGA
*
93383 CATATATGTAATTTCGTGGAACATGTATGTGGTACTTCGGTACACTTATTTGGTCCATTGTATTA
196 CATATATGTAATTCCGTGGAACATGTATGTGGTACTTCGGTACACTTATTTGGTCCATTGTATTA
93448 TGTATATGG
261 TGTATATGG
93457 TT
1 TT
93459 CTTAAGGAGT
Statistics
Matches: 267, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
269 267 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (269 bp):
TTACATGAAAGTAAACTACGTGATTATATGCACATGTGATATGTGATCATAAGAGCAATGATATG
AGTACATGAATATAAGAAGCATAAGAAAAATTCACATGTTATATGATACGAGAGCTATAGGTATA
GTTGGCATGCCAAGAGTCGAGGGTCTACGCGGTCATTCGGGACAATTCTACGTGGTCCTTCGGGA
CATATATGTAATTCCGTGGAACATGTATGTGGTACTTCGGTACACTTATTTGGTCCATTGTATTA
TGTATATGG
Found at i:94236 original size:20 final size:21
Alignment explanation
Indices: 94211--94249 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
94201 AGCAGGACTG
*
94211 TAGCA-GGGTATTGGTACCTA
1 TAGCAGGGGTATTGATACCTA
94231 TAGCAGGGGTATTGATACC
1 TAGCAGGGGTATTGATACC
94250 CCTGAAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (21 bp):
TAGCAGGGGTATTGATACCTA
Found at i:94822 original size:55 final size:55
Alignment explanation
Indices: 94737--94856 Score: 179
Period size: 55 Copynumber: 2.2 Consensus size: 55
94727 AGGGTCCCCA
* * *
94737 AAAAATAGGGACCTCGAAATCGAGTATATCTATCAGTTGTTATCATTAAG-AAGCAT
1 AAAAATA-GGACCTCGAAATCGAGTATATCTATAAGTTATTACCATT-AGCAAGCAT
*
94793 AAAAATAGGAGCTCGAAATCGAGTATATCTATAAGTTATTACCATTAGCAAGCAT
1 AAAAATAGGACCTCGAAATCGAGTATATCTATAAGTTATTACCATTAGCAAGCAT
94848 AAAAATAGG
1 AAAAATAGG
94857 GTCTCCGAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
54 2 0.03
55 50 0.85
56 7 0.12
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.27
Consensus pattern (55 bp):
AAAAATAGGACCTCGAAATCGAGTATATCTATAAGTTATTACCATTAGCAAGCAT
Found at i:97622 original size:12 final size:12
Alignment explanation
Indices: 97607--97631 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97597 TACATGTTCC
97607 AATTCTAAATAA
1 AATTCTAAATAA
97619 AATTCTAAATAA
1 AATTCTAAATAA
97631 A
1 A
97632 GTATACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTCTAAATAA
Found at i:98756 original size:15 final size:15
Alignment explanation
Indices: 98736--98766 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
98726 GCGCGAGGTG
98736 CTAGAGTGAACTGGA
1 CTAGAGTGAACTGGA
98751 CTAGAGTGAACTGGA
1 CTAGAGTGAACTGGA
98766 C
1 C
98767 ACAAATTTGT
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:0.32, C:0.16, G:0.32, T:0.19
Consensus pattern (15 bp):
CTAGAGTGAACTGGA
Found at i:99801 original size:31 final size:32
Alignment explanation
Indices: 99764--99846 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
99754 GGTTTTATAA
* * *
99764 ACTATAAAATACTTTTTAAATTT-ATTTAATT
1 ACTATAAAATAATTATTAAATTTGATTGAATT
*
99795 ATTATAAAATAATTATTAAATTTGATTGAATT
1 ACTATAAAATAATTATTAAATTTGATTGAATT
*
99827 ACTATAAATTAATTATTAAA
1 ACTATAAAATAATTATTAAA
99847 ATTCGTATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
31 20 0.44
32 25 0.56
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (32 bp):
ACTATAAAATAATTATTAAATTTGATTGAATT
Found at i:102252 original size:18 final size:18
Alignment explanation
Indices: 102229--102266 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
102219 GTTGCTTTAC
*
102229 TTAGATATTATTTGA-ATT
1 TTAGATACT-TTTGATATT
102247 TTAGATACTTTTGATATT
1 TTAGATACTTTTGATATT
102265 TT
1 TT
102267 TATTTAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (18 bp):
TTAGATACTTTTGATATT
Found at i:103454 original size:21 final size:21
Alignment explanation
Indices: 103403--103455 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
103393 ATTATGACTA
103403 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
103424 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
103445 TCGCAATGCGA
1 TCGCAATGCGA
103456 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:103491 original size:21 final size:21
Alignment explanation
Indices: 103445--103538 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
103435 TTTTCCCAAT
* *
103445 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTAGAAAA
*
103465 TCGCAATGCGAATTTTGAAAA
1 TCGCAATGCGAATTTAGAAAA
* * *
103486 TTGCAATGTGAATTTGGAAAA
1 TCGCAATGCGAATTTAGAAAA
103507 TCGCAATGCGAATTTAGAAAA
1 TCGCAATGCGAATTTAGAAAA
*
103528 TCGCAACGCGA
1 TCGCAATGCGA
103539 TACTGACTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
20 12 0.19
21 51 0.81
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAATTTAGAAAA
Found at i:103552 original size:20 final size:20
Alignment explanation
Indices: 103527--103641 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
103517 AATTTAGAAA
103527 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
103547 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
103568 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
103588 TTCGCAACTCGATACTTAAT
1 ATCGCAACGCGATACTGACT
* *
103608 TTCGCAACGCAATACTGACT
1 ATCGCAACGCGATACTGACT
* *
103628 TTCGCAACGAGATA
1 ATCGCAACGCGATA
103642 ATACATAATC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.03
20 59 0.76
21 15 0.19
22 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:103569 original size:41 final size:41
Alignment explanation
Indices: 103524--103661 Score: 179
Period size: 41 Copynumber: 3.4 Consensus size: 41
103514 GCGAATTTAG
*
103524 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
103565 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
** * *
103605 AATTTCGCAACGCAATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
103646 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
103662 TTTCAAAGCG
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 33 0.41
41 47 0.59
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:103858 original size:22 final size:21
Alignment explanation
Indices: 103830--103878 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
103820 CTCTCTCACC
103830 CATCTCCGACGAAATCCGTCCT
1 CATCTCCGACGAAATCCGT-CT
*
103852 CATCTCCGGCGAAATCCGTCT
1 CATCTCCGACGAAATCCGTCT
103873 -ATCTCC
1 CATCTCC
103879 ATCTCTCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 6 0.23
21 2 0.08
22 18 0.69
ACGTcount: A:0.20, C:0.41, G:0.14, T:0.24
Consensus pattern (21 bp):
CATCTCCGACGAAATCCGTCT
Found at i:104192 original size:20 final size:20
Alignment explanation
Indices: 104134--104183 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
104124 TTTATTCTCT
* **
104134 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
104154 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
*
104174 TGTTGCGATT
1 CGTTGCGATT
104184 TTTATTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.26, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:104383 original size:25 final size:24
Alignment explanation
Indices: 104329--104383 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
104319 TGTTTATTAT
* *
104329 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
104353 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
104379 TGTTT
1 TGTTT
104384 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:105538 original size:18 final size:18
Alignment explanation
Indices: 105512--105559 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
105502 TCCACTTCGG
105512 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
105530 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
105548 GAGCCATCACCT
1 GAGCCATCACCT
105560 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:106119 original size:20 final size:20
Alignment explanation
Indices: 106094--106135 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
106084 TAGTTTACTT
106094 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
106114 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
106134 TC
1 TC
106136 ACAATGCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:106148 original size:19 final size:20
Alignment explanation
Indices: 106105--106160 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
106095 CGCAACACGA
*
106105 AAATGACTATCGCAACGCGG
1 AAATGACTATCACAACGCGG
* *
106125 AAATGGCTATCACAATGC-G
1 AAATGACTATCACAACGCGG
**
106144 AAATGAAAATCACAACG
1 AAATGACTATCACAACG
106161 ACAAAATCAC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (20 bp):
AAATGACTATCACAACGCGG
Found at i:106175 original size:33 final size:33
Alignment explanation
Indices: 106133--106226 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
106123 GGAAATGGCT
*
106133 ATCACAATGCGAAATGAAAATCACAACGACAAA
1 ATCACAATGCGAAATGAAAATCGCAACGACAAA
* *
106166 ATCACAATGCGAAATGAAAATCGCAATGATAAA
1 ATCACAATGCGAAATGAAAATCGCAACGACAAA
* *
106199 ATCGCAACGCGAAATGAAAATCGCAACG
1 ATCACAATGCGAAATGAAAATCGCAACG
106227 CGAAATGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.50, C:0.20, G:0.16, T:0.14
Consensus pattern (33 bp):
ATCACAATGCGAAATGAAAATCGCAACGACAAA
Found at i:106187 original size:19 final size:19
Alignment explanation
Indices: 106163--106248 Score: 110
Period size: 19 Copynumber: 4.8 Consensus size: 19
106153 TCACAACGAC
*
106163 AAAATCACAATGCGAAATG
1 AAAATCGCAATGCGAAATG
106182 AAAATCGCAAT--G--AT-
1 AAAATCGCAATGCGAAATG
*
106196 AAAATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATG
*
106215 AAAATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATG
106234 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
106249 TTTGTGTTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.17
15 2 0.03
16 1 0.02
17 1 0.02
18 2 0.03
19 43 0.73
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.14
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:106314 original size:14 final size:14
Alignment explanation
Indices: 106260--106318 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
106250 TTGTGTTTCG
*
106260 CGTTGCAATTTTGT
1 CGTTGCGATTTTGT
*
106274 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
106291 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
106307 CGTTGCGATTTT
1 CGTTGCGATTTT
106319 CATTTCGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 17 0.46
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:106332 original size:33 final size:33
Alignment explanation
Indices: 106255--106334 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
106245 GCGATTTGTG
* *
106255 TTTCGCGTTGCAATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
106288 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
106321 TTTCGTATTGCGAT
1 TTTCGCATTGCGAT
106335 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:106353 original size:20 final size:20
Alignment explanation
Indices: 106328--106393 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
106318 TCATTTCGTA
*
106328 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
106348 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
106368 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTCCGCG
106388 TTGCGA
1 TTGCGA
106394 AAGTAAGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:106404 original size:20 final size:19
Alignment explanation
Indices: 106318--106416 Score: 90
Period size: 20 Copynumber: 5.0 Consensus size: 19
106308 GTTGCGATTT
** *
106318 TCATTTCGTATTGCGATAG
1 TCATTTCGCGTTGCGAAAG
* *
106337 CCATTTCCGCGTTGCGATAG
1 TCATTT-CGCGTTGCGAAAG
*
106357 TCATTTCCGCGTTGCGATAG
1 TCATTT-CGCGTTGCGAAAG
106377 TCATTTTCGCGTTGCGAAAG
1 TCA-TTTCGCGTTGCGAAAG
* *
106397 TAAGTTTCGTGTTGCGAAAG
1 TCA-TTTCGCGTTGCGAAAG
106417 CAAACTATTC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
19 5 0.07
20 62 0.89
21 3 0.04
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.35
Consensus pattern (19 bp):
TCATTTCGCGTTGCGAAAG
Found at i:106411 original size:40 final size:39
Alignment explanation
Indices: 106320--106413 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 39
106310 TGCGATTTTC
* * *
106320 ATTTCGTATTGCGATAGCCATTTCCGCGTTGCGATAGTC
1 ATTTCGTGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
* * *
106359 ATTTCCGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTA
1 ATTT-CGTGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
106399 AGTTTCGTGTTGCGA
1 A-TTTCGTGTTGCGA
106414 AAGCAAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 4 0.09
40 39 0.85
41 3 0.07
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (39 bp):
ATTTCGTGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
Found at i:108172 original size:14 final size:14
Alignment explanation
Indices: 108138--108176 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
108128 TTGATTGTTT
108138 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
108152 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
108166 TGTTGATTTGT
1 AATTGATTTGT
108177 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:108335 original size:19 final size:17
Alignment explanation
Indices: 108312--108361 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 17
108302 TATCGCGACG
108312 AGAAAATCGCAATGCGAA
1 AGAAAATCGCAATGCG-A
108330 ATGAAAATCGCAA--CG-
1 A-GAAAATCGCAATGCGA
108345 AGAAAATCGCAATGCGA
1 AGAAAATCGCAATGCGA
108362 TTTTCATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 11 0.39
15 1 0.04
16 2 0.07
17 2 0.07
18 1 0.04
19 11 0.39
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (17 bp):
AGAAAATCGCAATGCGA
Found at i:108349 original size:14 final size:14
Alignment explanation
Indices: 108303--108356 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
108293 GAAACTGACT
*
108303 ATCGCGACGAGAAA
1 ATCGCAACGAGAAA
108317 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
108336 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
108350 ATCGCAA
1 ATCGCAA
108357 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 17 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.32
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:108654 original size:20 final size:20
Alignment explanation
Indices: 108640--108714 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
108630 TGCGATTTTT
108640 AGAATCTCGTTGCGAAAGTC
1 AGAATCTCGTTGCGAAAGTC
108660 AGAATCTCGTTGCGAAAGTC
1 AGAATCTCGTTGCGAAAGTC
*
108680 AGAATCGCGTTGCGAAAGTC
1 AGAATCTCGTTGCGAAAGTC
* *
108700 AGTATCGCGTTGCGA
1 AGAATCTCGTTGCGA
108715 TTTTGTATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (20 bp):
AGAATCTCGTTGCGAAAGTC
Found at i:108756 original size:20 final size:20
Alignment explanation
Indices: 108647--108755 Score: 112
Period size: 20 Copynumber: 5.4 Consensus size: 20
108637 TTTAGAATCT
* *
108647 CGTTGCGAAAGTCAGAATCT
1 CGTTGCGAAAGTCAGTATCG
*
108667 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
108687 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
** * *
108707 CGTTGCGATTTTGT-ATTATCT
1 CGTTGCGA--AAGTCAGTATCG
*
108728 CGTTGCGATAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
*
108748 CATTGCGA
1 CGTTGCGA
108756 TTTTCCAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
19 3 0.04
20 58 0.76
21 13 0.17
22 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGTATCG
Found at i:108775 original size:41 final size:42
Alignment explanation
Indices: 108684--108777 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 42
108674 AAAGTCAGAA
* * ** *
108684 TCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATC
1 TCGC-TTGCGATAGTCAGTATCGCATTGCGATTTTCCATAATC
108727 TCG-TTGCGATAGTCAGTATCGCATTGCGATTTTCCA-AAT-
1 TCGCTTGCGATAGTCAGTATCGCATTGCGATTTTCCATAATC
108766 TCGCATTGCGAT
1 TCGC-TTGCGAT
108778 TTACTTATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
39 3 0.07
40 2 0.05
41 36 0.82
43 3 0.07
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TCGCTTGCGATAGTCAGTATCGCATTGCGATTTTCCATAATC
Found at i:108789 original size:20 final size:21
Alignment explanation
Indices: 108745--108792 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
108735 ATAGTCAGTA
*
108745 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
108766 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
108786 TCGCATT
1 TCGCATT
108793 ACGAATTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:109012 original size:12 final size:12
Alignment explanation
Indices: 108993--109026 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
108983 CTCTCCGGCG
108993 ACATCCGTTCCT
1 ACATCCGTTCCT
*
109005 ATATCCGTTCCT
1 ACATCCGTTCCT
109017 ACATCC-TTCC
1 ACATCCGTTCC
109027 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:109608 original size:24 final size:24
Alignment explanation
Indices: 109581--109634 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
109571 GTATTCGAAA
*
109581 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
109605 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
109629 TTTGAT
1 TTTGAT
109635 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:109827 original size:12 final size:12
Alignment explanation
Indices: 109810--109845 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
109800 TATAATCCTA
109810 AAGAAGAAAAAG
1 AAGAAGAAAAAG
109822 AAGAAGAAAAAG
1 AAGAAGAAAAAG
109834 AAGAAGAAAAAG
1 AAGAAGAAAAAG
109846 TCCCCGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAG
Found at i:112097 original size:19 final size:18
Alignment explanation
Indices: 112075--112205 Score: 88
Period size: 19 Copynumber: 7.7 Consensus size: 18
112065 GGAAATTACT
112075 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
112094 ATCGCAA-CG--A-GATA
1 ATCGCAAGCGAAATGAAA
112108 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
112127 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
*
112141 ATCGTAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
112160 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
112174 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
112193 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
112206 TTTAGTTTCG
Statistics
Matches: 86, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
14 26 0.30
15 5 0.06
16 6 0.07
17 6 0.07
18 5 0.06
19 38 0.44
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:112117 original size:33 final size:33
Alignment explanation
Indices: 112075--112201 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
112065 GGAAATTACT
*
112075 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
112108 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
112141 ATCGTAACGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
112174 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
112202 CGAATTTAGT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:112223 original size:19 final size:19
Alignment explanation
Indices: 112201--112243 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
112191 AAATCGCAAC
*
112201 GCGA-ATTTAGTTTCGCGTT
1 GCGATATTTA-TTTCGCATT
*
112220 GCGATTTTTATTTCGCATT
1 GCGATATTTATTTCGCATT
112239 GCGAT
1 GCGAT
112244 TCTCTAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (19 bp):
GCGATATTTATTTCGCATT
Found at i:112244 original size:19 final size:19
Alignment explanation
Indices: 112206--112309 Score: 68
Period size: 19 Copynumber: 5.9 Consensus size: 19
112196 GCAACGCGAA
*
112206 TTTAGTTTCGCGTTGCGATT
1 TTTA-TTTCGCATTGCGATT
112226 TTTATTTCGCATTGCGATT
1 TTTATTTCGCATTGCGATT
*
112245 CTCTA----G--TTGCGATT
1 -TTTATTTCGCATTGCGATT
*
112259 TTCATTTCGCATTGCGA--
1 TTTATTTCGCATTGCGATT
*
112276 -TTATCTCG--TTGCGATT
1 TTTATTTCGCATTGCGATT
*
112292 TTCATTTCGCATTGCGAT
1 TTTATTTCGCATTGCGAT
112310 AGTAATTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 25
0.66 0.08 0.26
Matches are distributed among these distances:
13 2 0.03
14 14 0.22
16 7 0.11
17 7 0.11
19 27 0.42
20 7 0.11
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.47
Consensus pattern (19 bp):
TTTATTTCGCATTGCGATT
Found at i:112259 original size:33 final size:33
Alignment explanation
Indices: 112217--112309 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
112207 TTAGTTTCGC
* *
112217 GTTGCGATTTTTATTTCGCATTGCGATTCTCTA
1 GTTGCGATTTTCATTTCGCATTGCGATTATCTA
*
112250 GTTGCGATTTTCATTTCGCATTGCGATTATCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTATCTA
112283 GTTGCGATTTTCATTTCGCATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGAT
112310 AGTAATTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.46
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTATCTA
Found at i:112435 original size:14 final size:15
Alignment explanation
Indices: 112416--112452 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
112406 CATCAATTAA
112416 ACAAATCAAC-TTTT
1 ACAAATCAACATTTT
112430 ACAAATC-ACATTTT
1 ACAAATCAACATTTT
112444 ACAAATCAA
1 ACAAATCAA
112453 TTAAACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.86
15 1 0.05
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
ACAAATCAACATTTT
Found at i:113875 original size:42 final size:42
Alignment explanation
Indices: 113829--113921 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
113819 CCTCTTCAAC
* * * *
113829 AATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGG
1 AATGACAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGG
* * *
113871 AATGATAGGGGCCTCTTCAACGATAGGAGTGGACTCTTGAGG
1 AATGACAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGG
*
113913 GATGACAGG
1 AATGACAGG
113922 CGAGTCGGGC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.25, C:0.17, G:0.38, T:0.20
Consensus pattern (42 bp):
AATGACAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGG
Found at i:114313 original size:91 final size:90
Alignment explanation
Indices: 114139--114323 Score: 273
Period size: 91 Copynumber: 2.0 Consensus size: 90
114129 ATTTCAAACT
*
114139 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
*
114204 AGAATTGGCTGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
**
114232 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCGTAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
114296 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
114323 T
1 T
114324 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 41 0.48
93 19 0.22
95 25 0.29
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:116041 original size:20 final size:20
Alignment explanation
Indices: 116016--116053 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
116006 TCTTTTGGTT
116016 GAAATGAAAATCGCAACGCG
1 GAAATGAAAATCGCAACGCG
**
116036 GAAATGACTATCGCAACG
1 GAAATGAAAATCGCAACG
116054 AGAGAATCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (20 bp):
GAAATGAAAATCGCAACGCG
Found at i:116064 original size:14 final size:14
Alignment explanation
Indices: 116045--116133 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
116035 GGAAATGACT
116045 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
116059 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
*
116076 CTATCGCAATGAGAGA
1 --ATCGCAACGAGAGA
*
116092 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
116111 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
116125 ATCGCAACG
1 ATCGCAACG
116134 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 26 0.44
15 1 0.02
16 7 0.12
17 7 0.12
18 1 0.02
19 17 0.29
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:116078 original size:33 final size:33
Alignment explanation
Indices: 116024--116150 Score: 200
Period size: 33 Copynumber: 3.8 Consensus size: 33
116014 TTGAAATGAA
**
116024 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGAG
** *
116058 AATCGCAACGCGAAATGACTATCGCAATGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
116091 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
116124 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
116151 TGCGATTTTG
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 78 0.88
34 11 0.12
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:116751 original size:20 final size:20
Alignment explanation
Indices: 116726--116837 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
116716 GCTATGTAAA
116726 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
116746 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
116766 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* ** *
116787 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATGTAAGTAT
* * *
116807 TCGCATTACGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
116827 TCGCATTGCGA
1 TCGCATTGCGA
116838 ATTATGAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.04
20 58 0.73
21 18 0.23
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:116796 original size:41 final size:40
Alignment explanation
Indices: 116744--116837 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 40
116734 CGATAGTAAG
* * *
116744 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTACGATTTACCT
* *
116784 AATTCGCATTGCGATTTACTTAATCGCATTACGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTACGATTTACCT
116825 ATTCGCATTGCGA
1 ATTCGCATTGCGA
116838 ATTATGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 13 0.27
41 35 0.73
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTACGATTTACCT
Found at i:116850 original size:41 final size:41
Alignment explanation
Indices: 116718--116887 Score: 118
Period size: 41 Copynumber: 4.2 Consensus size: 41
116708 TGAATGGCGC
*
116718 TATGTAAATCGCATTGCGA--TA-GTAAGATTCGCATTGCGATT
1 TATG-AAATCGCATTGCGATTTACGT-A-ATTCGCATTGCGAAT
* * * * * *
116759 TACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATT
1 TATGAAATCGCATTGCGATTTACGTAATTCGCATTGCGAAT
* *
116800 TACT-TAATCGCATTACGATTTACGT-ATTCGCATTGCGAAT
1 TA-TGAAATCGCATTGCGATTTACGTAATTCGCATTGCGAAT
** * * *
116840 TATGAAAATCGCAACGCGA-ATACGTAAATCGCAATGCGAAT
1 TATG-AAATCGCATTGCGATTTACGTAATTCGCATTGCGAAT
*
116881 TAGGAAA
1 TATGAAA
116888 ATTGCATTAC
Statistics
Matches: 103, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
39 1 0.01
40 36 0.35
41 63 0.61
42 2 0.02
43 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (41 bp):
TATGAAATCGCATTGCGATTTACGTAATTCGCATTGCGAAT
Found at i:116858 original size:21 final size:21
Alignment explanation
Indices: 116834--116889 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
116824 TATTCGCATT
*
116834 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
116855 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
116875 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
116890 TGCATTACGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:116870 original size:61 final size:61
Alignment explanation
Indices: 116746--116872 Score: 141
Period size: 61 Copynumber: 2.1 Consensus size: 61
116736 ATAGTAAGAT
* * * * ** * *
116746 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAA
1 TCGCATTACGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAA
*
116807 TCGCATTACGATTTACGTATTCGCATTGCGAATTAT-GAAAATCGCAACGCGA-ATACGTAAA
1 TCGCATTACGATTTACGTATTCGCATTGCG-ATTATCCAAAATCGCAACGCGATATAC-TAAA
116868 TCGCA
1 TCGCA
116873 ATGCGAATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 3 0.05
61 48 0.87
62 4 0.07
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (61 bp):
TCGCATTACGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAA
Found at i:133359 original size:13 final size:13
Alignment explanation
Indices: 133343--133390 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
133333 CAAACTCACT
*
133343 TTTTTAACAATAA
1 TTTTAAACAATAA
133356 TTTTAAACAATTCAA
1 TTTTAAACAA-T-AA
*
133371 TTTTAAACAATAC
1 TTTTAAACAATAA
133384 TTTTAAA
1 TTTTAAA
133391 AGTTCGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 17 0.55
14 2 0.06
15 12 0.39
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTTAAACAATAA
Found at i:135908 original size:20 final size:20
Alignment explanation
Indices: 135885--135933 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
135875 TAAGTCATTA
135885 TTTTTATTAAATAAAAATAT
1 TTTTTATTAAATAAAAATAT
*
135905 TTTTTATTGAATAAAAATAT
1 TTTTTATTAAATAAAAATAT
135925 TTTTTATTA
1 TTTTTATTA
135934 TTATTTTGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTTATTAAATAAAAATAT
Found at i:136865 original size:2 final size:2
Alignment explanation
Indices: 136860--136888 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
136850 TGGAATTTCA
136860 AT AT 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 AT AT A
136889 CATTGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:146234 original size:43 final size:43
Alignment explanation
Indices: 146173--146261 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
146163 AAAGAGCGCG
146173 CAAGGGATTACGGAGCCTAAAACTAAGCCCCCTCGCCCTTGAA
1 CAAGGGATTACGGAGCCTAAAACTAAGCCCCCTCGCCCTTGAA
*
146216 CAAGGGATTACGGAGCCTAAAACTAAGCCCCCTCGTCCTTGAA
1 CAAGGGATTACGGAGCCTAAAACTAAGCCCCCTCGCCCTTGAA
146259 CAA
1 CAA
146262 TACCTTGTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.17
Consensus pattern (43 bp):
CAAGGGATTACGGAGCCTAAAACTAAGCCCCCTCGCCCTTGAA
Found at i:147708 original size:37 final size:36
Alignment explanation
Indices: 147633--147708 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
147623 TTTTTATATT
*
147633 TTTAATTTTATAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTATAAAAAAATTATATAAATATTATCAA
* *
147669 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTATAAA-AAAATTATATAAATATTAT-CAA
147706 TTT
1 TTT
147709 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (36 bp):
TTTAATTTTATAAAAAAATTATATAAATATTATCAA
Found at i:148526 original size:18 final size:18
Alignment explanation
Indices: 148505--148547 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
148495 ACTCCTTGTT
148505 GGTCTTGCAAATCAAGTA
1 GGTCTTGCAAATCAAGTA
148523 GGTCTTGCAAATCAAGTA
1 GGTCTTGCAAATCAAGTA
148541 GGTCTTG
1 GGTCTTG
148548 AAAGACTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (18 bp):
GGTCTTGCAAATCAAGTA
Found at i:151259 original size:18 final size:18
Alignment explanation
Indices: 151220--151260 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
151210 GGTAGACCTC
*
151220 GAAAAAACAGACGAGATA
1 GAAAAAAAAGACGAGATA
151238 -AAAAAAAAGACGGAGA-A
1 GAAAAAAAAGAC-GAGATA
151255 GAAAAA
1 GAAAAA
151261 GAACGTAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.68, C:0.07, G:0.22, T:0.02
Consensus pattern (18 bp):
GAAAAAAAAGACGAGATA
Found at i:158311 original size:65 final size:63
Alignment explanation
Indices: 158197--158386 Score: 197
Period size: 64 Copynumber: 3.0 Consensus size: 63
158187 TGCACTAGTT
* ** ** * *
158197 CATGCATCGATGCACTCTTAATTAAATTG-AATTTCGAATGTATTTAGTGCACCGATGCACAAGC
1 CATGCATCGATGCAC-CCTAATTATTTTGAAACATCGAATGCA-TTAGTGCACCGATGCACAAGA
*
158261 CATGCATCGATGCACCCCTGAA-TATTTTGAAACATCGAATGCATTCAGTGCATCGATGCACAAG
1 CATGCATCGATGCA-CCCT-AATTATTTTGAAACATCGAATGCATT-AGTGCACCGATGCACAAG
158325 A
63 A
* * *
158326 CATGCATTGATGCACCCTAATTATTTTGAAACATTGAA-GCAGATTTGTGCACCGATGCACA
1 CATGCATCGATGCACCCTAATTATTTTGAAACATCGAATGC--ATTAGTGCACCGATGCACA
158387 CCCCAGTGTA
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
63 4 0.04
64 57 0.53
65 46 0.43
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (63 bp):
CATGCATCGATGCACCCTAATTATTTTGAAACATCGAATGCATTAGTGCACCGATGCACAAGA
Found at i:159975 original size:20 final size:22
Alignment explanation
Indices: 159950--159989 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
159940 AGTCGTATAT
159950 AGCCG-TTGGGGA-TATTTTGG
1 AGCCGTTTGGGGATTATTTTGG
159970 AGCCGTTTGGGGATTATTTT
1 AGCCGTTTGGGGATTATTTT
159990 TCTATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.15, C:0.10, G:0.35, T:0.40
Consensus pattern (22 bp):
AGCCGTTTGGGGATTATTTTGG
Found at i:160179 original size:10 final size:10
Alignment explanation
Indices: 160164--160203 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
160154 TGAGCATCGG
*
160164 TACTGTTTAT
1 TACTGTTCAT
160174 TACTGTTCAT
1 TACTGTTCAT
*
160184 TATTGTTCAT
1 TACTGTTCAT
*
160194 TACTATTCAT
1 TACTGTTCAT
160204 AAAAACATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.55
Consensus pattern (10 bp):
TACTGTTCAT
Found at i:168370 original size:31 final size:33
Alignment explanation
Indices: 168264--168398 Score: 204
Period size: 33 Copynumber: 4.2 Consensus size: 33
168254 CTAAACCCAA
168264 ACCCGACCCGAATATCACACTTAAAAAACCCCG
1 ACCCGACCCGAATATCACACTTAAAAAACCCCG
*
168297 ACCCGACTCGAATATCACACTTAAAAAACCCCG
1 ACCCGACCCGAATATCACACTTAAAAAACCCCG
***
168330 ACCCGACCCGAATATCACACTT-AAAAAGTTCG
1 ACCCGACCCGAATATCACACTTAAAAAACCCCG
*
168362 A-CCGACCCGAATATCACACTT-AAAAAGCCCG
1 ACCCGACCCGAATATCACACTTAAAAAACCCCG
168393 ACCCGA
1 ACCCGA
168399 ACAAAATAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
31 29 0.31
32 12 0.13
33 53 0.56
ACGTcount: A:0.39, C:0.36, G:0.11, T:0.14
Consensus pattern (33 bp):
ACCCGACCCGAATATCACACTTAAAAAACCCCG
Found at i:178085 original size:24 final size:23
Alignment explanation
Indices: 178054--178098 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
178044 GTGTTTTGAG
178054 AATTTGAAGTTTAAGGATTTAGA
1 AATTTGAAGTTTAAGGATTTAGA
* *
178077 AATTATGAATTTTTAGGATTTA
1 AATT-TGAAGTTTAAGGATTTA
178099 AAAAAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (23 bp):
AATTTGAAGTTTAAGGATTTAGA
Found at i:179523 original size:71 final size:69
Alignment explanation
Indices: 179458--179887 Score: 296
Period size: 76 Copynumber: 5.9 Consensus size: 69
179448 ATTTTTGTCC
** *
179458 ATTATATATATATAG-TTTGAAATCATTTTGAAAATTATATAATATATGAGTTTTTTTAAATA-T
1 ATTATATATATATAGTTTTGAAAT-ATTTTGAAAATTATATAATATAT-AGTTTTTGAAAACATT
179521 TTTGAAA
64 TTTG-AA
* * *
179528 ATTATATAATATATGGGTTTTTTAAATATTTTGAAAA-TATATAATAGATAGTTTTTGAAAACAT
1 ATTATAT-ATATAT-AG-TTTTGAAATATTTTGAAAATTATATAATATATAGTTTTTGAAAACAT
179592 TTTTGAA
63 TTTTGAA
* * * * * *
179599 AATATATATTATATTGTTTTGAATTTTTTTAAAAATATATATAATATATAGTTTTTAAAAACATT
1 ATTATATA-TATATAGTTTTGAAATATTTTGAAAAT-TATATAATATATAGTTTTTGAAAACATT
179664 TTTGAAAA
64 TTTG--AA
* * *
179672 ACATATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAG-TTTTGAAAA
1 A-TTATATA-TATATAGTTTTG-AAA-TA-TTTTGAAAAT-TATATAATATATAGTTTTTGAAAA
* *
179736 TTAGTTTTTAAA
60 -CA-TTTTTGAA
* *
179748 ATATATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAG-TTTTGAAAA
1 AT-TATATA-TATATAGTTTTG-AAA-TA-TTTTGAAAAT-TATATAATATATAGTTTTTGAAAA
* *
179812 TTAGTTTTTAAAA
60 -CA-TTTTT-GAA
* * * * *
179825 ATATATATATTATATAGTTTTAAAAATTATTTTTTAAAAATATATATTATAT-GGTTTTGAAAA
1 AT-TATATA-TATATAGTTTT-GAAA-TA-TTTTGAAAATTATATAATATATAGTTTTTGAAAA
179888 TTATTTTTTA
Statistics
Matches: 314, Mismatches: 26, Indels: 34
0.84 0.07 0.09
Matches are distributed among these distances:
69 15 0.05
70 9 0.03
71 60 0.19
72 17 0.05
73 13 0.04
74 26 0.08
75 3 0.01
76 103 0.33
77 63 0.20
78 5 0.02
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.49
Consensus pattern (69 bp):
ATTATATATATATAGTTTTGAAATATTTTGAAAATTATATAATATATAGTTTTTGAAAACATTTT
TGAA
Found at i:179526 original size:37 final size:36
Alignment explanation
Indices: 179458--179806 Score: 209
Period size: 38 Copynumber: 9.6 Consensus size: 36
179448 ATTTTTGTCC
*
179458 ATTATAT-ATATATAG---TTTGAAATCATTTTGAAA
1 ATTATATAATATATAGTTTTTTTAAAT-ATTTTGAAA
179491 ATTATATAATATATGAGTTTTTTTAAATATTTTGAAA
1 ATTATATAATATAT-AGTTTTTTTAAATATTTTGAAA
* *
179528 ATTATATAATATATGGGTTTTTTAAATATTTTGAAA
1 ATTATATAATATATAGTTTTTTTAAATATTTTGAAA
* ** *
179564 A-TATATAATAGATAGTTTTTGAAAACATTTTTGAAA
1 ATTATATAATATATAGTTTTTTTAAATA-TTTTGAAA
* * * *
179600 A-TATAT-AT-TATA-TTGTTTTGAATTTTTTTAAAA
1 ATTATATAATATATAGTT-TTTTTAAATATTTTGAAA
** *
179633 ATATATATAATATATAGTTTTTAAAAACATTTTTGAAAA
1 AT-TATATAATATATAGTTTTTTTAAATA-TTTTG-AAA
* * ** *
179672 ACATATATATTATATAG-TTTTGAAAATTAGTTTTTAAA
1 A-TTATATAATATATAGTTTTTTTAAA-TA-TTTTGAAA
* ** *
179710 ATATATATATTATATAG-TTTTGAAAATTAGTTTTTAAA
1 AT-TATATAATATATAGTTTTTTTAAA-TA-TTTTGAAA
* ** *
179748 ATATATATATTATATAG-TTTTGAAAATTAGTTTTTAAA
1 AT-TATATAATATATAGTTTTTTTAAA-TA-TTTTGAAA
*
179786 ATATATATATTATATAGTTTT
1 AT-TATATAATATATAGTTTT
179807 GAAAATTAGT
Statistics
Matches: 269, Mismatches: 29, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
33 17 0.06
34 14 0.05
35 29 0.11
36 37 0.14
37 32 0.12
38 115 0.43
39 25 0.09
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (36 bp):
ATTATATAATATATAGTTTTTTTAAATATTTTGAAA
Found at i:179569 original size:35 final size:36
Alignment explanation
Indices: 179477--179647 Score: 163
Period size: 36 Copynumber: 4.8 Consensus size: 36
179467 ATATAGTTTG
*
179477 AAATCATTTTGAAAATTATATAATATATGAGTTTTTTT
1 AAAT-ATTTTGAAAATTATATAATATATG-GGTTTTTT
179515 AAATATTTTGAAAATTATATAATATATGGGTTTTTT
1 AAATATTTTGAAAATTATATAATATATGGGTTTTTT
* * *
179551 AAATATTTTGAAAA-TATATAATAGAT-AGTTTTTGA
1 AAATATTTTGAAAATTATATAATATATGGGTTTTT-T
* * * *
179586 AAACATTTTTGAAAA-TATATATTATAT-TG-TTTTG
1 AAATA-TTTTGAAAATTATATAATATATGGGTTTTTT
* * *
179620 AATTTTTTTAAAAATATATATAATATAT
1 AAATATTTTGAAAAT-TATATAATATAT
179648 AGTTTTTAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
33 8 0.07
34 8 0.07
35 30 0.26
36 41 0.36
37 24 0.21
38 4 0.03
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (36 bp):
AAATATTTTGAAAATTATATAATATATGGGTTTTTT
Found at i:179722 original size:38 final size:38
Alignment explanation
Indices: 179624--179923 Score: 428
Period size: 38 Copynumber: 7.9 Consensus size: 38
179614 GTTTTGAATT
* * **
179624 TTTTTAAAAATATATATAATATATAGTTTTTAAAAACA-
1 TTTTT-AAAATATATATATTATATAGTTTTGAAAATTAG
*
179662 TTTTTGAAAAACATATATATTATATAGTTTTGAAAATTAG
1 TTTTT--AAAATATATATATTATATAGTTTTGAAAATTAG
179702 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG
1 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG
179740 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG
1 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG
179778 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG
1 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG
* *
179816 TTTTTAAAAATATATATATTATATAGTTTTAAAAATTAT
1 TTTTT-AAAATATATATATTATATAGTTTTGAAAATTAG
*
179855 TTTTTAAAA-ATATATATTATATGGTTTTGAAAATTA-
1 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG
* * * *
179891 TTTTTTAAA-ACATATATTGTATAGTTTTAAAAA
1 TTTTTAAAATATATATATTATATAGTTTTGAAAA
179924 AATGTTTTAA
Statistics
Matches: 244, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
36 28 0.11
37 25 0.10
38 122 0.50
39 64 0.26
40 5 0.02
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.49
Consensus pattern (38 bp):
TTTTTAAAATATATATATTATATAGTTTTGAAAATTAG
Found at i:179926 original size:114 final size:110
Alignment explanation
Indices: 179460--179923 Score: 427
Period size: 115 Copynumber: 4.2 Consensus size: 110
179450 TTTTGTCCAT
* * * *
179460 TATATATATATAG-TTTG-AAATCA-TTTTGAAAAT-TATATAATATATGAGTTTTTTTAAA-TA
1 TATAT-TATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATAT-AG--TTTTAAAATTA
* * * * ** * *
179520 -TTTTGAAAATTATATAATATATGGGTTTTTTAAA-TA-TTTTGAAAATA
62 TTTTTTAAAAATATATATTATAT-AGTTTTGAAAATTATTTTTAAAAACA
* * * * *
179567 TATAATAGATAGTTTTTGAAAA-CA-TTTTTGAAAATATATA--TTATATTGTTTT-GAA-T-TT
1 TATATTATATAG-TTTTGAAAATTAGTTTTT-AAAATATATATATTATATAGTTTTAAAATTATT
* **
179625 TTTTAAAAATATATATAATATATAGTTTTTAAAAACATTTTTGAAAAACATA
64 TTTTAAAAATATATAT--TATATAGTTTTGAAAATTATTTTT-AAAAAC--A
*
179677 TATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTGAAAATTAGTT
1 TATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTT-AAAATTATTT
*
179742 TTTAAAATATATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATA
65 TTTAAAA-ATATATATTATATAGTTTTGAAAATTA-TTTTTAAAA-ACA
179791 TATATTATATAGTTTTGAAAATTAGTTTTTAAAAATATATATATTATATAGTTTTAAAAATTATT
1 TATATTATATAGTTTTGAAAATTAGTTTTT-AAAATATATATATTATATAGTTTT-AAAATTATT
* *
179856 TTTTAAAAATATATATTATATGGTTTTGAAAATTATTTTTTAAAACA
64 TTTTAAAAATATATATTATATAGTTTTGAAAATTATTTTTAAAAACA
* *
179903 TATATTGTATAGTTTTAAAAA
1 TATATTATATAGTTTTGAAAA
179924 AATGTTTTAA
Statistics
Matches: 301, Mismatches: 31, Indels: 45
0.80 0.08 0.12
Matches are distributed among these distances:
104 17 0.06
105 13 0.04
106 12 0.04
107 9 0.03
108 19 0.06
109 17 0.06
110 26 0.09
111 5 0.02
112 32 0.11
113 8 0.03
114 59 0.20
115 61 0.20
116 15 0.05
117 8 0.03
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (110 bp):
TATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTAAAATTATTTT
TTAAAAATATATATTATATAGTTTTGAAAATTATTTTTAAAAACA
Found at i:179972 original size:12 final size:12
Alignment explanation
Indices: 179934--179973 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
179924 AATGTTTTAA
179934 ATTTATTTATCT
1 ATTTATTTATCT
* *
179946 ATCTATCTATCT
1 ATTTATTTATCT
*
179958 ATTTATTTATTT
1 ATTTATTTATCT
179970 ATTT
1 ATTT
179974 TATTATTGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTATTTATCT
Found at i:180903 original size:19 final size:20
Alignment explanation
Indices: 180879--180917 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
180869 TTTAGAGAGA
* *
180879 GAGAGAGATATGA-GGAAAT
1 GAGAGAAATAAGAGGGAAAT
180898 GAGAGAAATAAGAGGGAAAT
1 GAGAGAAATAAGAGGGAAAT
180918 AGACTTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.36, T:0.13
Consensus pattern (20 bp):
GAGAGAAATAAGAGGGAAAT
Found at i:181081 original size:2 final size:2
Alignment explanation
Indices: 181074--181116 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
181064 GATCCTTGTT
181074 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
181116 T
1 T
181117 TTGTGAATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:181395 original size:35 final size:33
Alignment explanation
Indices: 181349--181431 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 33
181339 ATTTGTTTCC
181349 TTTATTTTATTTTTCTTTATCATTTTTTATTCCTTA
1 TTTA-TTTATTTTTCTTTA--ATTTTTTATTCCTTA
* * *
181385 TTTATTTATTTCCTTGTTTAATTTTTTATTCTTTT
1 TTTATTTATTT--TTCTTTAATTTTTTATTCCTTA
*
181420 TTTCTTTATTTT
1 TTTATTTATTTT
181432 GATTTGTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
33 1 0.02
35 30 0.73
36 4 0.10
37 6 0.15
ACGTcount: A:0.14, C:0.10, G:0.01, T:0.75
Consensus pattern (33 bp):
TTTATTTATTTTTCTTTAATTTTTTATTCCTTA
Found at i:181467 original size:26 final size:24
Alignment explanation
Indices: 181417--181468 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
181407 TTTTTATTCT
*
181417 TTTTTTCTTTATTTTGATTTGTTA
1 TTTTTTCTTTATTTTGATTTATTA
181441 TTTTTTCATTTAATATTTG-TTTATTA
1 TTTTTTC-TTT-AT-TTTGATTTATTA
181467 TT
1 TT
181469 ACTATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 7 0.29
25 3 0.12
26 10 0.42
27 4 0.17
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTTTTCTTTATTTTGATTTATTA
Found at i:184027 original size:95 final size:96
Alignment explanation
Indices: 183909--184108 Score: 287
Period size: 95 Copynumber: 2.1 Consensus size: 96
183899 AGATTATAAT
* * * *
183909 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCT-AGAGCAATTGGTTAAACGCCCTGGCTTT
1 ATTATATATATACAATAAAGCTTGAGCTGTCACTCTAAG-GCAATTGGCTAAACGCCCCGGCTTT
* *
183973 ATGGATAATATTCAACTAGCCTGATAAAGGTA
65 ATGGATAAGATTCAACTAACCTGATAAAGGTA
184005 ATTATAT-TATACAATAAAGCTTGAGCTGTCACTCTAAGGCAATTGGCTAAACGCCCCGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGCTGTCACTCTAAGGCAATTGGCTAAACGCCCCGGCTTTA
* * *
184069 TGGATAAGATTTAGCTAACCTGATAAAGGTG
66 TGGATAAGATTCAACTAACCTGATAAAGGTA
*
184100 TTTATATAT
1 ATTATATAT
184109 TAAGCTGTCC
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
95 82 0.89
96 10 0.11
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (96 bp):
ATTATATATATACAATAAAGCTTGAGCTGTCACTCTAAGGCAATTGGCTAAACGCCCCGGCTTTA
TGGATAAGATTCAACTAACCTGATAAAGGTA
Found at i:185580 original size:84 final size:82
Alignment explanation
Indices: 185316--186961 Score: 1529
Period size: 84 Copynumber: 19.9 Consensus size: 82
185306 GCTCAAGGCC
* *
185316 AGAAGGGCTATCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
1 AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* *
185381 TAGCATAGCTTAAGTCG
66 CAGCATAACTTAAGTCG
* * * ** * *
185398 AGAAGGGCTATCTGCCA-AAAGACCTCCGAGTTCGATTATACTCAGCTTCGAGGGCACATCATTT
1 AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTT
* * * *
185462 GCAGAATAACTCAAGGCT
65 GCAGCATAACTTAAGTCG
* *
185480 AGAAGGGTTATATGCCAACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATT
1 AGAAGGGTTATCTGCC-AC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * *
185545 TGTAGTATAGCTTAATTCG
64 TGCAGCATAACTTAAGTCG
* * ** * *
185564 AGAAGGGTTATCTG-C-CAAAGACCCTCGAGTTCGACTACGTTCAGCTTTGAGGGCACATTATTT
1 AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTT
* * * *
185627 GCAACATAACTCAAGGCT
65 GCAGCATAACTTAAGTCG
* * * * *
185645 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTTAGTTCTAAGGCATATCATT
1 AGAAGGGTTATCTGCCA-C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
185710 TACAGCATAACTTAAGTCG
64 TGCAGCATAACTTAAGTCG
*
185729 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCC-A-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
185794 TGCAGTATAACTTAAGTCG
64 TGCAGCATAACTTAAGTCG
* * * * * *
185813 AGAAGGGTTATCTG-C-CAAAGACCCTCGAGTTCGACTATGCTCAGCTTCGAGGGCAAATTATTT
1 AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTT
* * * * *
185876 ACAACATAACTCAAGGCT
65 GCAGCATAACTTAAGTCG
* * * * * * * ** *
185894 AGAAGGGTTATCTGTCACCTAAAGACCTTCAATTTTGACTATGCTCAGCTCTAAGGTATGTAATT
1 AGAAGGGTTATCTGCCA-C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
185959 TGCAGCATAAATTAAGTCG
64 TGCAGCATAACTTAAGTCG
* * * *
185978 AAAAGGGTTATTTGCCAACCAAAGACATTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATT
1 AGAAGGGTTATCTGCC-A-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
186043 TGCAGCATAGCTTAAGTCG
64 TGCAGCATAACTTAAGTCG
* * * * * *
186062 AGAAGGGTTATATG-C-CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGTGCACATCATTT
1 AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG-GCACATCATTT
* ** * * *
186125 ACAATATAACTCAAGGCT
65 GCAGCATAACTTAAGTCG
* *
186143 AGAAGGGTTATTTGTCATCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCA-C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
**
186208 TATAGCATAACTTAAGTCG
64 TGCAGCATAACTTAAGTCG
* * ** * * * * *
186227 AAAAGGGTTATCTG-C-CAAAGACCATCGAGTTTAATTACACTCAGCTTCGAGGGCACATTATTT
1 AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTT
* * * *
186290 ACAGCATAACTCAAGGCT
65 GCAGCATAACTTAAGTCG
* * * * *
186308 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTTGACTAAGCTCAGCTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGCCA-CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * * *
186373 TACAGCATAACTCAAGGCT
64 TGCAGCATAACTTAAGTCG
* * * * * **
186392 AGAAGGGTTATCTGTCATAAAAAAACCTTCGAGTTTGACTACGCTCAGCTCCAAGACATGTCATT
1 AGAAGGGTTATCTG-C-CACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
186457 TGCAGCATAACTTAAGTCG
64 TGCAGCATAACTTAAGTCG
* * * * * * * *
186476 AGAAGGGCTATCTGCCA-AAATACCTCCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTT
1 AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTT
* * * *
186540 GCAGAATAACTCAAGGCT
65 GCAGCATAACTTAAGTCG
* * *
186558 ATAAGGGTTATATGCCAACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATT
1 AGAAGGGTTATCTGCC-AC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
186623 TGTAGTATAACTTAAGTCG
64 TGCAGCATAACTTAAGTCG
* * * * * * *
186642 AGAAGGGCTATCTG--GCAAAGACCTTCGAGTTCGATTACACTCGGCTCAAAGGCACCAACATTT
1 AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTT
*
186705 GCAGCATAACTTAAGTTG
65 GCAGCATAACTTAAGTCG
* * * *
186723 AGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGATTACGCTCATCTCCAAAGCACATCATT
1 AGAAGGGTTATCTGCC-A-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
186788 TGCAGCATAGCTTAAGTCG
64 TGCAGCATAACTTAAGTCG
** * ** * *
186807 AGAAGGACTATCTG-C-CAAAGACCTTCGAGTTCGATTATACTCAGCTCAAAGGCACCATCATCT
1 AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTT
* *
186870 GCAGCATAGCTTAAGTCA
65 GCAGCATAACTTAAGTCG
* ** * *
186888 AGAAGGGTTATCTTTCTTCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCTAGGCACCATCATT
1 AGAAGGGTTATC-TGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATT
186953 TGCAGCATA
64 TGCAGCATA
186962 GCTCAAAGCA
Statistics
Matches: 1273, Mismatches: 251, Indels: 78
0.79 0.16 0.05
Matches are distributed among these distances:
80 174 0.14
81 270 0.21
82 102 0.08
83 8 0.01
84 521 0.41
85 197 0.15
86 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (82 bp):
AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
CAGCATAACTTAAGTCG
Found at i:185678 original size:165 final size:164
Alignment explanation
Indices: 185294--186983 Score: 1366
Period size: 165 Copynumber: 10.2 Consensus size: 164
185284 TAAACAAACT
* * * *
185294 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCACC-AAGACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
** * *
185358 TCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGA-CC
66 TCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-AAAGACCC
* *
185422 TCCGAGTTCGATTATACTCAGCTTCGAGGGCACATC
130 T-CGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* * *
185458 ATTTGCAGAATAACTCAAGGCTAGAAGGGTTATATGCCAACTAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
* ** * * *
185523 CTCAGCTCCAAGACACATCATTTGTAGTATAGCTTAATTCGAGAAGGGTTATCTGCCAAAGACCC
65 CTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
** * *
185588 TCGAGTTCGACTACGTTCAGCTTTGAGGGCACATT
130 TCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* *
185623 ATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACG
* * * *
185688 CTTAGTTCTAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
65 CTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG----CCAAAG
* * * * *
185753 ACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
126 ACCCTCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* * * * * *
185791 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCCTCGAGTTCGACTATGC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * * * * * * *
185853 TCAGCTTCGAGGGCAAATTATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCTAAAG
66 TCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG---CC-AAAG
* * * * ** * * * ** *
185918 ACCTTCAATTTTGACTATGCTCAGC-TCTAAGGTATGTA
126 ACCCTCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* * * * * * *
185956 ATTTGCAGCATAAATTAAGTCGAAAAGGGTTATTTGCCAACCAAAGACATTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
* * * *
186021 CTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATATGCCAAAGACCC
65 CTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
* *
186086 TCGAGTTCGATTACACTCAGCTTCGAGTGCACATC
130 TCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* ** * * *
186121 ATTTACAATATAACTCAAGGCTAGAAGGGTTATTTGTCATCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCA-CCAAAGACCTTCGAGTTCGACTACG
* * *
186186 CTCAGCTCCAAGGCACATCATTTATAGCATAACTTAAGTCGAAAAGGGTTATCTGCCAAAGACCA
65 CTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
** * *
186251 TCGAGTTTAATTACACTCAGCTTCGAGGGCACATT
130 TCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* * * *
186286 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTTGACTAAGC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * * * * * *
186351 TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCATAAAAAA
66 TCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG-C---CAAAG
* * * * * * **
186416 ACCTTCGAGTTTGACTACGCTCAGC-TCCAAGACATGTC
126 ACCCTCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* * * * * * * *
186454 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCA--AAATACCTCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * * * * * * * * *
186517 TCAGCTTCGAGGGAACATCATTTGCAGAATAACTCAAGGCTATAAGGGTTATATGCCAACTAAAG
66 TCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--C-AAAG
* * * * *
186582 ACCTTCGAGTTCGACTACGCTCAGC-TCCAAGACACATC
126 ACCCTCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* * * * * * * * *
186620 ATTTGTAGTATAACTTAAGTCGAGAAGGGCTATCTG---GCAAAGACCTTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * * * * *
186682 TCGGCTCAAAGGCACCAACATTTGCAGCATAACTTAAGTTGAGAAGGGTTATCTTCCAACCAAAG
66 TCAGCTCCAAGGCA-CATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATC-T---GCCAAAG
* * * * * **
186747 ACCTTCGAGTTCGATTACGCTCATC-TCCAAAGCACATC
126 ACCCTCGAGTTCGACTACACTCAGCTTCGAGGGCACATC
* * * * ** * **
186785 ATTTGCAGCATAGCTTAAGTCGAGAAGGACTATCTG---CCAAAGACCTTCGAGTTCGATTATAC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * * * * *
186847 TCAGCTCAAAGGCACCATCATCTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTTTCTTCAAAGA
66 TCAGCTCCAAGGCA-CATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATC-TGC--CAAAGA
* * * * *
186912 CCTTTGAGTTCGACTACGCTCAGCTCCTA-GGCACCATC
127 CCCTCGAGTTCGACTACACTCAGCTTCGAGGGCA-CATC
* * *
186950 ATTTGCAGCATAGCTCAAAGCAAGAAGGGGTTAT
1 ATTTGCAGCATAACTCAAGGCTAGAA-GGGTTAT
186984 ATGTCAATAA
Statistics
Matches: 1275, Mismatches: 217, Indels: 66
0.82 0.14 0.04
Matches are distributed among these distances:
162 1 0.00
164 149 0.12
165 699 0.55
166 227 0.18
168 119 0.09
169 80 0.06
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (164 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCT
CGAGTTCGACTACACTCAGCTTCGAGGGCACATC
Found at i:186978 original size:249 final size:249
Alignment explanation
Indices: 185294--186983 Score: 1669
Period size: 249 Copynumber: 6.8 Consensus size: 249
185284 TAAACAAACT
* * * * *
185294 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCACCAAGACCTTCGAGTTCGACTACGCT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCA--AAGACCTTCGAGTTCGACTACGCT
* * * * * * *
185359 CAGC-TCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAAGA
64 CAGCTTCGAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGA
* * ** * * * * * *
185420 CCTCCGAGTTCGATTATACTCAGCTTCGAGGGCACATCATTTGCAGAATAACTCAAGGCTAGAAG
129 CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAG
* * *
185485 GGTTATATGCCAACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATC
193 GGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * *
185542 ATTTGTAGTATAGCTTAATTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
* * * *
185607 GCTTTGAGGGCACATTATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
66 GCTTCGAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
* * * * * *
185672 TTCGAGTTCGACTACGCTTAGTTCTAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGT
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGT
*
185737 TATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
196 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
185791 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGACTATGCTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * * *
185856 GCTTCGAGGGCAAATTATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCTAAAGACC
66 GCTTCGAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
* * * * * * ** * *
185921 TTCAATTTTGACTATGCTCAGCTCTAAGGTATGTAATTTGCAGCATAAATTAAGTCGAA-AAGGG
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC-AAGAAGGG
* * *
185985 TTATTTGCCAACCAAAGACATTCGAGTTCGACTACGCTCAGCTCTAAGGCACATC
195 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
186040 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATATGCCAAAGACCCTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
* ** * *
186105 GCTTCG-AGTGCACATCATTTACAATATAACTCAAGGCTAGAAGGGTTATTTGTCATCAAAAGAC
66 GCTTCGAAG-GCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
**
186169 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTATAGCATAACTTAAGTCGAA-AAGG
130 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC-AAGAAGG
* ** * * * * *
186233 GTTATCTG----CCAAAGACCATCGAGTTTAATTACACTCAGCTTCGAGGGCACATT
194 GTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * *
186286 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTTGACTAAGC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCTTCGAGTTCGACTACGC
* * ** *
186351 TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCATAAAAAA
63 TCAGCTTCGAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAG
* * ** *
186416 ACCTTCGAGTTTGACTACGCTCAGCTCCAAGACATGTCATTTGCAGCATAACTTAAGTCGAGAAG
128 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAG
* * * * * * * *
186481 GGCTATCTGCC-A--AAATACCTCCGAGTTCGATTACACTCAGCTTCGAGGGAACATC
193 GGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * *
186536 ATTTGCAGAATAACTCAAGGCTATAAGGGTTATATGCCAACTAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C--C-AAAGACCTTCGAGTTCGACTACG
* * * * * * * * *
186601 CTCAGC-TCCAAGACACATCATTTGTAGTATAACTTAAGTCGAGAAGGGCTATCTG---GC-AAA
62 CTCAGCTTCGAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAA
* * * * * **
186661 GACCTTCGAGTTCGATTACACTCGGCTCAAAGGCACCAACATTTGCAGCATAACTTAAGTTGAGA
127 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGCATAACTTAAGTCAAGA
* * * *
186726 AGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGATTACGCTCATCTCCAAAGCACATC
191 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
** * **
186785 ATTTGCAGCATAGCTTAAGTCGAGAAGGACTATCTGCCAAAGACCTTCGAGTTCGATTATACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * * * * **
186850 GC-TCAAAGGCACCATCATCTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTTTCTTC-AAAGAC
66 GCTTCGAAGGCA-CATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
* * * *
186913 CTTTGAGTTCGACTACGCTCAGCTCCTAGGCACCATCATTTGCAGCATAGCTCAAAG-CAAGAAG
130 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGCATAACT-TAAGTCAAGAA-
186977 GGGTTAT
192 GGGTTAT
186984 ATGTCAATAA
Statistics
Matches: 1210, Mismatches: 204, Indels: 54
0.82 0.14 0.04
Matches are distributed among these distances:
245 58 0.05
246 131 0.11
247 74 0.06
248 36 0.03
249 713 0.59
250 171 0.14
251 27 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (249 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
GCTTCGAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGT
TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:187620 original size:35 final size:35
Alignment explanation
Indices: 187561--187978 Score: 143
Period size: 37 Copynumber: 11.1 Consensus size: 35
187551 ATATAGAGAG
**
187561 TTTG-AAATCATTTTGAAAATTATATAATATATGGGTT
1 TTTGAAAAT-ATTTTGAAAA-TATATAATATAT-AATT
*
187598 TTT-TAAATATTTTGAAAATATATAATATATAATT
1 TTTGAAAATATTTTGAAAATATATAATATATAATT
* *
187632 TTTGAAAACATTTTTGAAAATATAT-AT-TATATTGT
1 TTTGAAAATA-TTTTGAAAATATATAATATATAAT-T
* * *
187667 TTTGAAAACTTTTTTTTAAAAAATATATATAATATATAGTT
1 TTTGAAAA---TATTTT--GAAA-ATATATAATATATAATT
* ** * * *
187708 TTT-TATTTTTTTTGAAAA-ACATATATATTATATAGT
1 TTTGAAAATATTTTGAAAATATATA-ATA-TATA-ATT
* * *
187744 TTTGAAAATTAGTTTTAAAAAATATATATTATAT-AGT
1 TTTGAAAA-TA-TTTT-GAAAATATATAATATATAATT
* *
187781 TTTGAAAATTAGTTTTTAAAATATAT-ATATTATATAGT
1 TTTGAAAA-TA-TTTTGAAAATATATAATA-TATA-ATT
* *
187819 TTTGAAAATTAGTTTTTAAACTATATATATATATTATATAGT
1 TTTGAAAA-TA-TTTTGAAA--ATATATA-ATA-TATA-ATT
* *
187861 TTTGAAAATTAGTTTTTAAAAATATATATATATTATATAGT
1 TTTGAAAA-TA--TTTTGAAAATATATA-ATA-TATA-ATT
* * **
187902 TTTGAAAATTATTTTTTAAAAATATATATTATAT-GGT
1 TTTGAAAA-TA--TTTTGAAAATATATAATATATAATT
* * *
187939 TTTGAAAATTATTTTTTAAAAATATATATTATATGATT
1 TTTGAAAA-TA--TTTTGAAAATATATAATATATAATT
187977 TT
1 TT
187979 GAATTTTTTT
Statistics
Matches: 320, Mismatches: 32, Indels: 57
0.78 0.08 0.14
Matches are distributed among these distances:
33 4 0.01
34 14 0.04
35 36 0.11
36 40 0.12
37 73 0.23
38 27 0.08
39 13 0.04
40 21 0.07
41 57 0.18
42 28 0.09
43 7 0.02
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (35 bp):
TTTGAAAATATTTTGAAAATATATAATATATAATT
Found at i:187968 original size:37 final size:37
Alignment explanation
Indices: 187607--188015 Score: 410
Period size: 37 Copynumber: 10.9 Consensus size: 37
187597 TTTTTAAATA
* * * *
187607 TTTTGAAAATATATAATATATAATTTTTGAAAA-CA-T
1 TTTTAAAAATATATATTATAT-AGTTTTGAAAATTATT
* *
187643 TTTTGAAAATATATATTATATTGTTTTGAAAACTT-TT
1 TTTTAAAAATATATATTATATAGTTTTGAAAA-TTATT
**
187680 TTTTAAAAAATATATATAATATATAGTTTT--TTATT-TT
1 TTTT-AAAAATATATAT--TATATAGTTTTGAAAATTATT
*
187717 TTTTGAAAAACATATATATTATATAGTTTTGAAAATTAGT
1 TTTT--AAAA-ATATATATTATATAGTTTTGAAAATTATT
* *
187757 TTTAAAAAATATATATTATATAGTTTTGAAAATTAGT
1 TTTTAAAAATATATATTATATAGTTTTGAAAATTATT
187794 TTTTAAAATATATATATTATATAGTTTTGAAAATTAGTT
1 TTTTAAAA-ATATATATTATATAGTTTTGAAAATTA-TT
*
187833 TTTAAACTATATATATATATTATATAGTTTTGAAAATTAGTT
1 TTTTAA--A-A-ATATATATTATATAGTTTTGAAAATTA-TT
*
187875 TTTAAAAATATATATATATTATATAGTTTTGAAAATTATT
1 TTT-TAAA-A-ATATATATTATATAGTTTTGAAAATTATT
*
187915 TTTTAAAAATATATATTATATGGTTTTGAAAATTATT
1 TTTTAAAAATATATATTATATAGTTTTGAAAATTATT
187952 TTTTAAAAATATATATTATAT-GATTTTG--AATT-TT
1 TTTTAAAAATATATATTATATAG-TTTTGAAAATTATT
* * *
187986 TTTT--AAACATATATTGTATAGTTTTAAAAA
1 TTTTAAAAATATATATTATATAGTTTTGAAAA
188016 ATGTTTTTAA
Statistics
Matches: 332, Mismatches: 20, Indels: 44
0.84 0.05 0.11
Matches are distributed among these distances:
32 17 0.05
33 1 0.00
34 8 0.02
35 13 0.04
36 21 0.06
37 114 0.34
38 49 0.15
39 20 0.06
40 19 0.06
41 32 0.10
42 35 0.11
43 3 0.01
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (37 bp):
TTTTAAAAATATATATTATATAGTTTTGAAAATTATT
Found at i:188034 original size:4 final size:4
Alignment explanation
Indices: 188025--188076 Score: 63
Period size: 4 Copynumber: 13.0 Consensus size: 4
188015 AATGTTTTTA
*
188025 ATTT ATTT ATCT ATTT ATTT ATTT -TATT ATTT -TATT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT AT-TT ATTT ATTT ATTT
188073 ATTT
1 ATTT
188077 TATTATTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 2 0.05
4 38 0.90
5 2 0.05
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:188041 original size:8 final size:7
Alignment explanation
Indices: 188027--188083 Score: 55
Period size: 8 Copynumber: 7.7 Consensus size: 7
188017 TGTTTTTAAT
188027 TTATTTA
1 TTATTTA
188034 TCTATTTA
1 T-TATTTA
188042 TTTATTTTA
1 -TTA-TTTA
188051 TTATTTTA
1 TTA-TTTA
188059 TTATTTA
1 TTATTTA
188066 TTTATTTA
1 -TTATTTA
188074 -T-TTTA
1 TTATTTA
188079 TTATT
1 TTATT
188084 GTTTGTTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
5 4 0.09
6 2 0.05
7 7 0.16
8 26 0.59
9 5 0.11
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:188054 original size:158 final size:157
Alignment explanation
Indices: 187612--187999 Score: 428
Period size: 158 Copynumber: 2.5 Consensus size: 157
187602 AAATATTTTG
* * * * *
187612 AAAATATATAATATATAATTTTTGAAAA-CA-TTTTTGAAA-ATATATATTATATTGTTTTGAAA
1 AAAATATATATTATAT-AGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTG-AA
* * * * * ** * * *
187674 ACTT-TTTTTTAAA--AAATATATATAATATATAGTTTT--TTATT-TTTTTTGAAAA-ACATAT
64 A-TTAGTTTTTAAACTATATATATATATTAAAAAGTTTTGAAAATTAGTTTTTAAAAATATATAT
187732 ATATTATATAGTTTTGAAAATTAGTTTTAA
128 ATATTATATAGTTTTGAAAATTAGTTTTAA
187762 AAAATATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTGAAAA
1 AAAATATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTG-AAA
* *
187827 TTAGTTTTTAAACTATATATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAATATATATAT
65 TTAGTTTTTAAACTATATATATATATTAAAAAGTTTTGAAAATTAGTTTTTAAAAATATATATAT
* *
187892 ATTATATAGTTTTGAAAATTATTTTTTA
130 ATTATATAGTTTTGAAAATTAGTTTTAA
* *
187920 AAAATATATATTATATGGTTTTGAAAATTATTTTTTAAAA-ATATATATTATAT-GATTTTG-AA
1 AAAATATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAG-TTTTGAAA
*
187982 TT-TTTTTTAAAC-ATATAT
65 TTAGTTTTTAAACTATATAT
188000 TGTATAGTTT
Statistics
Matches: 209, Mismatches: 18, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
149 10 0.05
150 16 0.08
151 10 0.05
152 31 0.15
153 6 0.03
154 30 0.14
155 4 0.02
156 4 0.02
157 27 0.13
158 71 0.34
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.50
Consensus pattern (157 bp):
AAAATATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATATTATATAGTTTTGAAAT
TAGTTTTTAAACTATATATATATATTAAAAAGTTTTGAAAATTAGTTTTTAAAAATATATATATA
TTATATAGTTTTGAAAATTAGTTTTAA
Found at i:188062 original size:28 final size:29
Alignment explanation
Indices: 188026--188083 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
188016 ATGTTTTTAA
188026 TTTATTTATCTATTTATTTATTTTATTAT
1 TTTATTTATCTATTTATTTATTTTATTAT
*
188055 TTTA-TTATTTATTTATTTATTTTATTAT
1 TTTATTTATCTATTTATTTATTTTATTAT
188083 T
1 T
188084 GTTTGTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTATTTATCTATTTATTTATTTTATTAT
Found at i:188083 original size:20 final size:20
Alignment explanation
Indices: 188025--188083 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
188015 AATGTTTTTA
*
188025 ATTTATTTA-TCTATTTATTT
1 ATTTATTTATTTTA-TTATTT
188045 ATTT-TATTATTTTATTATTT
1 ATTTAT-TTATTTTATTATTT
188065 ATTTATTTATTTTATTATT
1 ATTTATTTATTTTATTATT
188084 GTTTGTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 1 0.03
20 30 0.86
21 4 0.11
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
ATTTATTTATTTTATTATTT
Found at i:189491 original size:30 final size:30
Alignment explanation
Indices: 189455--189517 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
189445 TCATTTTTTA
189455 TTTC-TTTTATTTATT-TATTTATTTCCTTAT
1 TTTCTTTTTATTTATTCT-TTTA-TTCCTTAT
* *
189485 TTTCTTTTTTTTTATTCTTTTATTCTTTAT
1 TTTCTTTTTATTTATTCTTTTATTCCTTAT
189515 TTT
1 TTT
189518 GATTTGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 14 0.48
31 14 0.48
32 1 0.03
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.78
Consensus pattern (30 bp):
TTTCTTTTTATTTATTCTTTTATTCCTTAT
Found at i:189652 original size:19 final size:19
Alignment explanation
Indices: 189624--189667 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
189614 AAAGGTGAGT
* *
189624 AATTTGAATTGAATTTTTA
1 AATTTCAATTGAAATTTTA
*
189643 AATTTCAATTTAAATTTTA
1 AATTTCAATTGAAATTTTA
*
189662 ATTTTC
1 AATTTC
189668 GCGAATAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
AATTTCAATTGAAATTTTA
Found at i:194633 original size:12 final size:12
Alignment explanation
Indices: 194616--194640 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
194606 AGTACTTCTG
194616 TTCAAAATTAAA
1 TTCAAAATTAAA
194628 TTCAAAATTAAA
1 TTCAAAATTAAA
194640 T
1 T
194641 ATTAAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TTCAAAATTAAA
Found at i:196752 original size:22 final size:23
Alignment explanation
Indices: 196724--196766 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
196714 AAAAAAATGT
196724 GTGACCTAAAATA-TTATAAAGC
1 GTGACCTAAAATAGTTATAAAGC
196746 GTGACCTAAAATAGTTATAAA
1 GTGACCTAAAATAGTTATAAA
196767 AAACATAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (23 bp):
GTGACCTAAAATAGTTATAAAGC
Found at i:213351 original size:22 final size:19
Alignment explanation
Indices: 213298--213374 Score: 57
Period size: 19 Copynumber: 3.8 Consensus size: 19
213288 ATAATGCTCG
213298 AATGGTACCGATACCCCCC
1 AATGGTACCGATACCCCCC
**
213317 -ATAGGTATTGATACCCCCATGC
1 AAT-GGTACCGATACCCCC---C
*
213339 AATGGTACCGATACCCCTC
1 AATGGTACCGATACCCCCC
* *
213358 AGGTGGTATCGATACCC
1 A-ATGGTACCGATACCC
213375 TAAGGCATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
18 2 0.04
19 15 0.33
20 13 0.29
22 13 0.29
23 2 0.04
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (19 bp):
AATGGTACCGATACCCCCC
Found at i:215383 original size:15 final size:15
Alignment explanation
Indices: 215361--215398 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
215351 CTTGAAAGTA
215361 AAATCAAAGATTTAC
1 AAATCAAAGATTTAC
*
215376 ATATCAAAGATTTAC
1 AAATCAAAGATTTAC
215391 AAATCAAA
1 AAATCAAA
215399 CTAGAAGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.26
Consensus pattern (15 bp):
AAATCAAAGATTTAC
Found at i:219210 original size:23 final size:22
Alignment explanation
Indices: 219180--219256 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 22
219170 TATCGATACC
*
219180 TATCGATACCTCATTTGAAAAGG
1 TATCGATACCTC-TTTGAATAGG
* **
219203 TATCGATACC-CCTACAATAGG
1 TATCGATACCTCTTTGAATAGG
*
219224 TATCGATACCATCTTTGAATGGG
1 TATCGATACC-TCTTTGAATAGG
219247 TATCGATACC
1 TATCGATACC
219257 CCCTGATGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.36
22 1 0.02
23 27 0.61
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (22 bp):
TATCGATACCTCTTTGAATAGG
Done.