Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005979.1 Hibiscus syriacus cultivar Beakdansim tig00014055_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: 185263
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:2713 original size:14 final size:14
Alignment explanation
Indices: 2690--2719 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2680 AAATGAATGC
*
2690 AACTCGATTTTCGT
1 AACTCAATTTTCGT
2704 AACTCAATTTTCGT
1 AACTCAATTTTCGT
2718 AA
1 AA
2720 AATTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (14 bp):
AACTCAATTTTCGT
Found at i:9343 original size:12 final size:12
Alignment explanation
Indices: 9322--9355 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9312 ACCACATTTC
*
9322 CAATACCAAACA
1 CAATATCAAACA
9334 CAATATCAAACA
1 CAATATCAAACA
*
9346 CAATCTCAAA
1 CAATATCAAA
9356 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:9508 original size:24 final size:24
Alignment explanation
Indices: 9481--9534 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
9471 GTATTCGAAA
9481 TTTGATCCTGGTCAATACCCAGAC
1 TTTGATCCTGGTCAATACCCAGAC
* * *
9505 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCCTGGTCAATACCCAGAC
9529 TTTGAT
1 TTTGAT
9535 GATGTGATAG
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:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (24 bp):
TTTGATCCTGGTCAATACCCAGAC
Found at i:11796 original size:6 final size:6
Alignment explanation
Indices: 11785--11819 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
11775 AAACAAAAGG
* *
11785 AAATCA AAATCA AAATCG CAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
11820 CCAATCACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:11809 original size:18 final size:18
Alignment explanation
Indices: 11786--11826 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
11776 AACAAAAGGA
*
11786 AATCAAAATCAAAATCGC
1 AATCAAAATCAAAATCCC
11804 AATCAAAATCAAAATCCC
1 AATCAAAATCAAAATCCC
11822 AATCA
1 AATCA
11827 CAACCGGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (18 bp):
AATCAAAATCAAAATCCC
Found at i:12159 original size:20 final size:20
Alignment explanation
Indices: 12111--12220 Score: 139
Period size: 20 Copynumber: 5.5 Consensus size: 20
12101 ATGTTGCGAT
* *
12111 CAACGCGAAAGTCAACTTCA
1 CAACGCGAAAGTCAAATTCG
*
12131 CAACACGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
* * *
12151 CAATGCGAAAGACAAATTTG
1 CAACGCGAAAGTCAAATTCG
*
12171 CAACGCGAAAGACAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
12191 CAACGCGATAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
12211 CAACCCGAAA
1 CAACGCGAAA
12221 TCGCAAACCG
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 77 1.00
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.15
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:12360 original size:25 final size:25
Alignment explanation
Indices: 12322--12371 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
12312 AAAATAATTA
*
12322 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
12347 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
12372 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:12778 original size:18 final size:18
Alignment explanation
Indices: 12757--12793 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12747 GTAATTGGAG
12757 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
12775 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
12793 T
1 T
12794 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:12800 original size:24 final size:24
Alignment explanation
Indices: 12749--12801 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
12739 TTTCATATGT
* * *
12749 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
12773 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
12797 AATTT
1 AATTT
12802 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:13112 original size:35 final size:35
Alignment explanation
Indices: 13037--13112 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 35
13027 AATAATAACA
* **
13037 AAAATAATAAGTCCGAAATGCTTTTGAGTACCACC
1 AAAATCATAAGTCCGAAATGCTTCCGAGTACCACC
* * *
13072 CAAATCATAAGTTCGAAATGCTTCCGA-TACTCATC
1 AAAATCATAAGTCCGAAATGCTTCCGAGTAC-CACC
13107 AAAATC
1 AAAATC
13113 CAAAGCTCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
34 3 0.09
35 30 0.91
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (35 bp):
AAAATCATAAGTCCGAAATGCTTCCGAGTACCACC
Found at i:13187 original size:38 final size:39
Alignment explanation
Indices: 13104--13189 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
13094 TCCGATACTC
*
13104 ATCAAAATCCAAAGCTCATATAGTGTCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATAGTGCCAAGCAAAAGGAA
* *
13143 ATCAAAATCCAAATCTCATATGGTGCCAAGC-AAAGGAA
1 ATCAAAATCCAAAGCTCATATAGTGCCAAGCAAAAGGAA
13181 ATCAAAATC
1 ATCAAAATC
13190 TATAACTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 16 0.36
39 28 0.64
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.19
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATAGTGCCAAGCAAAAGGAA
Found at i:13640 original size:60 final size:61
Alignment explanation
Indices: 13489--13628 Score: 165
Period size: 66 Copynumber: 2.2 Consensus size: 61
13479 TTTTAGAAAC
* * *
13489 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATA
1 AACAAATCAACTTTTACAAATAAATT----AATC-AAAAAATAAATCTTATTTACAAATCAAATA
13554 A
61 A
* ** *
13555 AACAAATCAACTTTTACAAATAAATTAATCAAAAAATAAATCTTATTTCCTCATC-AATTA
1 AACAAATCAACTTTTACAAATAAATTAATCAAAAAATAAATCTTATTTACAAATCAAATAA
13615 AACAAATCAACTTT
1 AACAAATCAACTTT
13629 CAATATAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
60 18 0.27
61 21 0.31
62 3 0.04
66 25 0.37
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.30
Consensus pattern (61 bp):
AACAAATCAACTTTTACAAATAAATTAATCAAAAAATAAATCTTATTTACAAATCAAATAA
Found at i:15021 original size:21 final size:21
Alignment explanation
Indices: 14997--15095 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
14987 GCGGGCAGGA
*
14997 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
15018 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* * *
15039 CTTCTTCG-ATGATGAGAGGGC
1 CCTCTT-GAACGATGAGAGGGG
* *
15060 CCTCTTGAACGAT-AGGAAGCG
1 CCTCTTGAACGATGA-GAGGGG
*
15081 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
15096 TAGGTGCATC
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.03
21 56 0.93
22 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:15093 original size:42 final size:42
Alignment explanation
Indices: 14997--15095 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
14987 GCGGGCAGGA
* * * * * *
14997 CCTCTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGACAGGGCCCTCTTGAACGATAGGAAGCG
* *
15039 CTTCTTCG-ATGATGAGAGGGCCCTCTTGAACGATAGGAAGCG
1 CCTCTT-GAATGATGACAGGGCCCTCTTGAACGATAGGAAGCG
15081 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
15096 TAGGTGCATC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.23
Consensus pattern (42 bp):
CCTCTTGAATGATGACAGGGCCCTCTTGAACGATAGGAAGCG
Found at i:17592 original size:22 final size:22
Alignment explanation
Indices: 17557--17626 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
17547 GATGGAGATA
*
17557 GACGGATTTTGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
*
17579 GATGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
* * *
17601 GACGGATTTCGTTGGAGATTGG
1 GACGGATTTCGTCGGAAATGGG
17623 GACG
1 GACG
17627 AATATCGCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.21, C:0.10, G:0.41, T:0.27
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:17782 original size:20 final size:20
Alignment explanation
Indices: 17757--17817 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
17747 GCGTAAAAAC
17757 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
17777 ATTTGAC-TTCTGTGTTGCG-
1 ATTTGACTTTC-GCGTTGCGA
17796 ATTT-ACATATTCGCGTTGCGA
1 ATTTGAC-T-TTCGCGTTGCGA
17817 A
1 A
17818 ATTGGAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.06
19 7 0.21
20 21 0.62
21 4 0.12
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:17853 original size:20 final size:21
Alignment explanation
Indices: 17804--17857 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
17794 CGATTTACAT
17804 ATTCGCGTTGCGAAATTGGAA
1 ATTCGCGTTGCGAAATTGGAA
* *
17825 ACTAG-GTTGCGAAATT-GAA
1 ATTCGCGTTGCGAAATTGGAA
17844 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
17858 TTTGTTGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 6 0.21
20 19 0.68
21 3 0.11
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (21 bp):
ATTCGCGTTGCGAAATTGGAA
Found at i:17970 original size:2 final size:2
Alignment explanation
Indices: 17965--18249 Score: 124
Period size: 2 Copynumber: 144.0 Consensus size: 2
17955 TTTATTTACT
*
17965 TA TA TA TA TA TA TA TA TA TGA T- TA TA CTA TA TA GTT TA TA T-
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA -TA TA TA -TA TA TA TA
* *
18006 TA T- TA TA TA T- TA TA TA CT- TA TA TA TG TA -A T- TG TA TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
18043 TA TA TA T- TA TA GTT TT TA TA TA TA CT- TA TGC TA TA TA GTT TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA T-A TA TA TA -TA TA
* * *
18085 TA TA TA TA CT- TA TGC TA TA TA GTT TA TA TA TA TA TG TA TA TA
1 TA TA TA TA -TA TA T-A TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * *
18127 -A TT TA TA TA CTT TA TA GTT TA TA TA GTT TA TA TA T- TT TA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA
18168 T- TA TA TA TA TA TA TA TA TA CT- TA TA TA CT- TA TA T- 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
* *
18208 TA CTA -A TA TA TA TA TT TA TA TA TA T- TA TA TA CA TA TA T- TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18248 TA
1 TA
18250 AGTATAATGT
Statistics
Matches: 216, Mismatches: 30, Indels: 74
0.68 0.09 0.23
Matches are distributed among these distances:
1 20 0.09
2 176 0.81
3 20 0.09
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (2 bp):
TA
Found at i:18013 original size:32 final size:34
Alignment explanation
Indices: 17967--18222 Score: 91
Period size: 35 Copynumber: 7.5 Consensus size: 34
17957 TATTTACTTA
17967 TATATATATATATATATGATTATAC-TATATAGTT
1 TATATATATATATATATGA-TATACTTATATAGTT
*
18001 TATAT-TAT-TATATATTATATACTTATATATGTAAT
1 TATATATATATATATATGATATACTTATATA-GT--T
* **
18036 TGTATAT-TATATAT-T-ATAGTTTTTATATA-TACT
1 TATATATATATATATATGATA-TACTTATATAGT--T
* *
18069 TATGCTATATAGTTTATAT-ATATACTTATGCTATATAGTT
1 TAT-ATATATA-TATATATGATATAC---T--TATATAGTT
* *
18109 TATATATATATGTATAT-A-AT--TTATATACTT
1 TATATATATATATATATGATATACTTATATAGTT
* *
18139 TATAGT-T-TATATAGT-TTATATA-TTTTATA-TT
1 TATA-TATATATATA-TATGATATACTTATATAGTT
* *
18170 ATATATATATATATATACTTATATACTTATAT--TA
1 -TATATATATATATATA-TGATATACTTATATAGTT
18204 TATATACTAATATATATAT
1 TATATA-T-ATATATATAT
18223 TTATATATAT
Statistics
Matches: 175, Mismatches: 17, Indels: 60
0.69 0.07 0.24
Matches are distributed among these distances:
29 6 0.03
30 15 0.09
31 11 0.06
32 27 0.15
33 22 0.13
34 21 0.12
35 31 0.18
36 11 0.06
37 6 0.03
38 7 0.04
39 7 0.04
40 4 0.02
41 6 0.03
42 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (34 bp):
TATATATATATATATATGATATACTTATATAGTT
Found at i:18077 original size:13 final size:13
Alignment explanation
Indices: 18061--18105 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
18051 ATAGTTTTTA
18061 TATATACTTATGC
1 TATATACTTATGC
* *
18074 TATATAGTTTAT-A
1 TATATA-CTTATGC
18087 TATATACTTATGC
1 TATATACTTATGC
18100 TATATA
1 TATATA
18106 GTTTATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (13 bp):
TATATACTTATGC
Found at i:18137 original size:114 final size:110
Alignment explanation
Indices: 17947--18232 Score: 259
Period size: 114 Copynumber: 2.5 Consensus size: 110
17937 TTTCTCTTAA
* *
17947 ATATATAGTTTATTTACTTATATATATATATATATATGA-TTATACTATATAG-TT-TATAT-TA
1 ATATATA-TATATATACTTATATAT-T-TATATATAT-ACTTAT-CTATATAGTTTATATATATA
*
18008 TTATATATTATATACTTATATA-TGTA-ATTGTATATTATATATTATAGTT-T
61 TTATATATTATATACTT-TATAGTGTATATAGTATA-TATATATTATA-TTAT
* *
18058 TTATATATACT-TATGC-TATATAGTTTATATATATACTTATGCTATATAGTTTATATATATATG
1 ATATATATA-TATATACTTATATA-TTTATATATATACTTAT-CTATATAGTTTATATATATAT-
* * *
18121 TATATAATTTATATACTTTATAGTTTATATAGTTTATATATTTTATATTAT
62 TATAT-A-TTATATACTTTATAGTGTATATAGTATATATATATTATATTAT
* *
18172 ATATATATATATATACTTATATACTTATATTATATATACTAATATATATA-TTTATATATAT
1 ATATATATATATATACTTATATA-TT-TA-TATATATACTTATCTATATAGTTTATATATAT
18233 TATATACATA
Statistics
Matches: 145, Mismatches: 14, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
107 1 0.01
108 21 0.14
109 9 0.06
110 10 0.07
111 10 0.07
112 5 0.03
113 8 0.06
114 36 0.25
115 25 0.17
116 8 0.06
117 12 0.08
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (110 bp):
ATATATATATATATACTTATATATTTATATATATACTTATCTATATAGTTTATATATATATTATA
TATTATATACTTTATAGTGTATATAGTATATATATATTATATTAT
Found at i:18185 original size:60 final size:60
Alignment explanation
Indices: 17970--18249 Score: 178
Period size: 59 Copynumber: 4.7 Consensus size: 60
17960 TTACTTATAT
* * * *
17970 ATATATATATATATGATTATACTATATAGTTTATATTA-TTATATATTATATACTTATATAT-GT
1 ATATATATATTTAT-ATTATA-TATATA-TATATA-TACTTATATACT-TATA-TTATATATACT
18033 A
60 A
* * * *
18034 AT-TGTATATTATATATTATAGT-T-TTTATATATACTTATGCTA-TATAGTTTATATATATACT
1 ATATATATATT-TATATTATA-TATATATATATATACTTAT-ATACT-TA-TAT-TATATATACT
*
18095 T
60 A
* * *
18096 ATGCTATATAGTTTATA-TATATATGTATATA-AT--TTATATACTTTATAGTT-TATATAGT-
1 AT-ATATATA-TTTATATTATATATATATATATATACTTATATAC-TTATA-TTATATATACTA
*
18154 TTATATAT-TTTATATTATATATATATATATATACTTATATACTTATATTATATATACTA
1 ATATATATATTTATATTATATATATATATATATACTTATATACTTATATTATATATACTA
*
18213 ATATATATATTTATA-TATAT-TATATACATATA-TTATA
1 ATATATATATTTATATTATATATATATATATATACTTATA
18250 AGTATAATGT
Statistics
Matches: 175, Mismatches: 20, Indels: 49
0.72 0.08 0.20
Matches are distributed among these distances:
55 6 0.03
56 13 0.07
57 14 0.08
58 24 0.14
59 29 0.17
60 24 0.14
61 18 0.10
62 6 0.03
63 20 0.11
64 19 0.11
65 2 0.01
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (60 bp):
ATATATATATTTATATTATATATATATATATATACTTATATACTTATATTATATATACTA
Found at i:18192 original size:43 final size:44
Alignment explanation
Indices: 18083--18238 Score: 130
Period size: 45 Copynumber: 3.6 Consensus size: 44
18073 CTATATAGTT
*
18083 TATATATATACT-TATGC-TATATAGTTTATATATATATGTATATA
1 TATATATATACTATATACTTATATAGTTTATATATAT-T-TATATA
* * *
18127 -ATTTATATACTTTATAGTTTATATAGTTTATATAT-TTTATATTA
1 TATATATATACTATATA-CTTATATAGTTTATATATATTTATA-TA
* *
18171 TATATATATA-TATATACTTATATA-CTTATATTATATATACTAATA
1 TATATATATACTATATACTTATATAGTTTATA-TATATTTA-T-ATA
*
18216 TATATATTTA-TATATA-TTATATA
1 TATATATATACTATATACTTATATA
18239 CATATATTAT
Statistics
Matches: 94, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
42 5 0.05
43 24 0.26
44 21 0.22
45 27 0.29
46 17 0.18
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (44 bp):
TATATATATACTATATACTTATATAGTTTATATATATTTATATA
Found at i:18244 original size:37 final size:37
Alignment explanation
Indices: 17964--18245 Score: 121
Period size: 39 Copynumber: 7.6 Consensus size: 37
17954 GTTTATTTAC
* *
17964 TTATATATATATATATATATGATTATACT-ATATAGTTTAT
1 TTATATATAT-TATATACAT-A-TATACTAATATA-TATAT
* * *
18004 ATTATTATATATTATATACTTATATATGTAAT-TGTATAT
1 -TTA-TATATATTATATACATATATA-CTAATATATATAT
* * *
18043 TATATATTATAGTT-T-T-TATATATACTTATGCTATATAGT
1 T-TATA-TATA-TTATATACATATATACTAAT-ATATATA-T
* * *
18082 TTATATATA-TACTTATGC-TATATAGTTTATATATATAT
1 TTATATATATTA--TATACATATATA-CTAATATATATAT
* * *
18120 GTATATA-ATTTATATAC-T-T-TA-TAGTTTATATAGT
1 TTATATATA-TTATATACATATATACTAATATATATA-T
* * *
18154 TTATATATTTTATAT-TATATATA-T-ATATATATAC
1 TTATATATATTATATACATATATACTAATATATATAT
* *
18188 TTATATA-CTTATAT-TATATATACTAATATATATAT
1 TTATATATATTATATACATATATACTAATATATATAT
18223 TTATATATATTATATACATATAT
1 TTATATATATTATATACATATAT
18246 TATAAGTATA
Statistics
Matches: 187, Mismatches: 28, Indels: 56
0.69 0.10 0.21
Matches are distributed among these distances:
33 22 0.12
34 22 0.12
35 27 0.14
36 13 0.07
37 22 0.12
38 21 0.11
39 32 0.17
40 9 0.05
41 12 0.06
42 7 0.04
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (37 bp):
TTATATATATTATATACATATATACTAATATATATAT
Found at i:22513 original size:13 final size:13
Alignment explanation
Indices: 22495--22549 Score: 83
Period size: 13 Copynumber: 4.2 Consensus size: 13
22485 TGCGTCATAA
*
22495 ATTTATGACGCAC
1 ATTTATGACGCGC
*
22508 ATTTATGACACGC
1 ATTTATGACGCGC
22521 ATTTATGACGCGC
1 ATTTATGACGCGC
*
22534 ATTTATGACGCTC
1 ATTTATGACGCGC
22547 ATT
1 ATT
22550 GCGCGTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:22710 original size:2 final size:2
Alignment explanation
Indices: 22703--22736 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
22693 GTATGTCGTA
22703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22737 GATTGACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29462 original size:2 final size:2
Alignment explanation
Indices: 29457--29481 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29447 AATGAAGTAA
29457 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
29482 AATAAGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31820 original size:3 final size:3
Alignment explanation
Indices: 31812--31903 Score: 53
Period size: 3 Copynumber: 30.3 Consensus size: 3
31802 AATTATTTTT
* * * * *
31812 TAA TAA TAA TAA TAA TAA T-A TTA TTA TTA TTA TTA TAA TAA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * *
31857 AAA AAA TAA TACGA TAT TAA TAA TAA TAA TAA T-T TAA AAA TAA TAA
1 TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
31903 T
1 T
31904 TTAAAAAGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
2 3 0.04
3 67 0.89
4 2 0.03
5 3 0.04
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:31898 original size:14 final size:14
Alignment explanation
Indices: 31881--31910 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31871 TATTAATAAT
31881 AATAATAATTTAAA
1 AATAATAATTTAAA
31895 AATAATAATTTAAA
1 AATAATAATTTAAA
31909 AA
1 AA
31911 GAAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAATAATTTAAA
Found at i:32203 original size:45 final size:45
Alignment explanation
Indices: 32139--32674 Score: 847
Period size: 45 Copynumber: 11.8 Consensus size: 45
32129 TAAAATCTCA
* * * ** *
32139 TTTGAAAACATCCTGCACTGGAGGTCTTATGGATGACTCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
32184 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCTGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * *
32229 TTTGAAAACATCATGCATTGAAGGTCTTACAGATGATCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
32274 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
32320 TTTGAATAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAA-AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
32366 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGATCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
32411 TTTGAAAACATCATGCACTGAAGGTCTTATAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
*
32457 TTTGAATAACATCATGCACTGAAGGGCATACAGATGACCCGAAGGTT
1 TTTGAA-AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
*
32504 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
* *
32550 TTTGAAAATATCATGCACTGAAGGGCTTACAGATGACCCGAAGAT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
32595 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
32640 TTTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATG
32675 TGGGAAATAG
Statistics
Matches: 457, Mismatches: 30, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
45 277 0.61
46 100 0.22
47 80 0.18
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:32388 original size:137 final size:136
Alignment explanation
Indices: 32139--32674 Score: 878
Period size: 137 Copynumber: 3.9 Consensus size: 136
32129 TAAAATCTCA
* * * * *
32139 TTTGAAAACATCCTGCACTGGAGGTCTTATGGATGACTCGAAGG-TTTTGAAAACATCATGCACT
1 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTTGAAAACATCATGCACT
* * * *
32203 GAAGGGCTTATAGATGACCTGAAGGTTTTGAAAACATCATGCATTGAAGGTCTTACAGATGATCC
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGATCC
32268 GAAGGT
131 GAAGGT
32274 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTTGAATAACATCATGCAC
1 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTTGAA-AACATCATGCAC
32339 TGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGATC
65 TGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGATC
32404 CGAAGGT
130 CGAAGGT
*
32411 TTTGAAAACATCATGCACTGAAGGTCTTATAGATGACCCGAAGGTTTTTGAATAACATCATGCAC
1 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTTGAA-AACATCATGCAC
* * *
32476 TGAAGGGCATACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGAC
65 TGAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAT
32541 CCGAAGGTT
129 CCGAAGG-T
* * *
32550 TTTGAAAATATCATGCACTGAAGGGCTTACAGATGACCCGAA-GATTTTGAAAACATCATGCACT
1 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTTGAAAACATCATGCACT
32614 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
32675 TGGGAAATAG
Statistics
Matches: 378, Mismatches: 19, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
135 39 0.10
136 42 0.11
137 206 0.54
138 51 0.13
139 40 0.11
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (136 bp):
TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTTGAAAACATCATGCACT
GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGATCC
GAAGGT
Found at i:33391 original size:22 final size:22
Alignment explanation
Indices: 33336--33393 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
33326 AATAAAGTTT
*
33336 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
33358 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
33380 TCATCTTTGAAGAG
1 TCATCTTTGAAGAG
33394 TGTAGAAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:33897 original size:55 final size:55
Alignment explanation
Indices: 33757--33969 Score: 276
Period size: 55 Copynumber: 4.0 Consensus size: 55
33747 TAATCACTGG
**
33757 TTCGTAAAATATTTGACAACACATTCATCCAGT--TGTGGCTTCTGTACAGATGT
1 TTCGTAAAATATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGTACAGATGT
* *
33810 TTCG-AAAACATTTGACAACATATTCATCCTTTCCTGTGGCTTCTGTACAGATGT
1 TTCGTAAAATATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGTACAGATGT
* *
33864 TTCGTAAAATATTTGACAACATATTCATCCTTTCTTGTGGCTTCT-TCACAGATG-
1 TTCGTAAAATATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGT-ACAGATGT
* * * * *
33918 TTCATAAAATATTTGACAA-ACATTCATCATTTTCTGTGGTTTCTGCACAGAT
1 TTCGTAAAATATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGTACAGAT
33970 TTCTGGTCAG
Statistics
Matches: 142, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
52 24 0.17
53 30 0.21
54 43 0.30
55 45 0.32
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (55 bp):
TTCGTAAAATATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGTACAGATGT
Found at i:35683 original size:43 final size:43
Alignment explanation
Indices: 35615--35744 Score: 179
Period size: 43 Copynumber: 3.0 Consensus size: 43
35605 CTTTTAAAGT
** *
35615 AGATGTGCAAGAACTGAATAATGATCGGTTGGAGGAATTGATG
1 AGATGTGCAAGAACTGAATGGTGATCGGTTGGAGAAATTGATG
* *
35658 AGATATGCAAGAACTGAATGGTGATCGGTTGTAGAAATTGATG
1 AGATGTGCAAGAACTGAATGGTGATCGGTTGGAGAAATTGATG
* * * *
35701 AAATGTACAAGAACTAAATGGTGATCGGTTGGAGCAATTGATG
1 AGATGTGCAAGAACTGAATGGTGATCGGTTGGAGAAATTGATG
35744 A
1 A
35745 ATAGATTTGG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (43 bp):
AGATGTGCAAGAACTGAATGGTGATCGGTTGGAGAAATTGATG
Found at i:37251 original size:135 final size:135
Alignment explanation
Indices: 37009--37280 Score: 454
Period size: 135 Copynumber: 2.0 Consensus size: 135
36999 TTCAGCTTTA
*
37009 TTGACATTAGTCTTCATTGGACTAATTAAACAGTTCAACCCATCACAATGTCTTTGACTTGACAA
1 TTGACATTAGCCTTCATTGGACTAATTAAACAGTTCAACCCATCACAATGTCTTTGACTTGACAA
* *
37074 TCACAGTGGAGCAAACACCGAACTGCCAAATACCCAATCAAGGTCATGCTTTGAATATATGACTC
66 TCACAGTGGAGCAAACACCGAACTGCCAAATACCCAATCAAGGTCACGCTTTGAATATATAACTC
37139 TTTTT
131 TTTTT
* ** *
37144 TTGACATTAGCCTTCATTGGACTAATTAGATGGTTCAACTCATCACAATGTCTTTGACTTGACAA
1 TTGACATTAGCCTTCATTGGACTAATTAAACAGTTCAACCCATCACAATGTCTTTGACTTGACAA
* * *
37209 TCATAGTGGAGTAAACACCGAACTGCCAAATACCCGATCAAGGTCACGCTTTGAATATATAACTC
66 TCACAGTGGAGCAAACACCGAACTGCCAAATACCCAATCAAGGTCACGCTTTGAATATATAACTC
37274 TTTTT
131 TTTTT
37279 TT
1 TT
37281 TTTTACTTTT
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 127 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (135 bp):
TTGACATTAGCCTTCATTGGACTAATTAAACAGTTCAACCCATCACAATGTCTTTGACTTGACAA
TCACAGTGGAGCAAACACCGAACTGCCAAATACCCAATCAAGGTCACGCTTTGAATATATAACTC
TTTTT
Found at i:41741 original size:17 final size:18
Alignment explanation
Indices: 41713--41749 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
41703 ATTAATATAT
41713 AAGGATATAAAAATAATA
1 AAGGATATAAAAATAATA
41731 AAGGATA-AAAAATAATA
1 AAGGATATAAAAATAATA
41748 AA
1 AA
41750 AATTGAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (18 bp):
AAGGATATAAAAATAATA
Found at i:42487 original size:158 final size:155
Alignment explanation
Indices: 42288--42695 Score: 368
Period size: 158 Copynumber: 2.6 Consensus size: 155
42278 ATAGATCATA
* * * * *
42288 AATAAAATATTTATTTA--TTTAAAACATCAGAAAATGACATCTAGTTGCTTTAAGACTGCCCTT
1 AATAAAATATTTATTTATTTTTAAAATACCAGAATAGGACATCTAGTT-ATTTAAGACTGCCCTT
* ** * *
42351 TCTTAATGTTTGAAAAATAAATAAATATTAAAAATAATAATTTTCCTAAGAAAATAATTTAA-AT
65 TCTTAATGTTT-AAAAATAAATAAATATTAAAAAGAAT-ATAAT--GAA-AAAATAA-TGAAGAT
* * * * *
42415 A-AAACA-ATATGTAT-TTTTTGT-TTTTTAT
124 ATAAACATATATATATATATATATATATTTAT
* * *
42443 AAGTAAGATATTTATTTATTTTTAAAATACCAGAATAGGACATCTAGTTATATTAAGTCTGCCAT
1 AA-TAAAATATTTATTTATTTTTAAAATACCAGAATAGGACATCTAGTTAT-TTAAGACTGCC-C
*
42508 TTTCTT--TGGTATTAAAAATAAATAAATATTAAGAAGAATATAATGAAAAAATAATGAAGTATA
63 TTTCTTAAT-GT-TTAAAAATAAATAAATATTAAAAAGAATATAATGAAAAAATAATGAAG-ATA
* *
42571 TATATATATATATATATATATATATATTTA-
125 TAAACATATATATATATATATATATATTTAT
* * *
42601 AATAACATATTTATTTATTTTTTAAAATACCAGAATAGGACGTCTAGTTATTTTAAGACCGCCCT
1 AATAAAATATTTATTTA-TTTTTAAAATACCAGAATAGGACATCTAGTTA-TTTAAGACTGCCCT
* * *
42666 TTCTTAATATATAAAAATAAATAAACATTA
64 TTCTTAATGTTTAAAAATAAATAAATATTA
42696 TTATTTAATC
Statistics
Matches: 207, Mismatches: 29, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
153 3 0.01
154 7 0.03
155 7 0.03
156 17 0.08
157 50 0.24
158 108 0.52
159 15 0.07
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (155 bp):
AATAAAATATTTATTTATTTTTAAAATACCAGAATAGGACATCTAGTTATTTAAGACTGCCCTTT
CTTAATGTTTAAAAATAAATAAATATTAAAAAGAATATAATGAAAAAATAATGAAGATATAAACA
TATATATATATATATATATATTTAT
Found at i:42572 original size:2 final size:2
Alignment explanation
Indices: 42567--42597 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42557 AATAATGAAG
42567 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42598 TTAAATAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42869 original size:15 final size:15
Alignment explanation
Indices: 42833--42869 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
42823 ATTAAAGTGC
42833 AAAATAT-AAAAATT
1 AAAATATCAAAAATT
*
42847 AACA-ATCAAAAATT
1 AAAATATCAAAAATT
42861 AAAATATCA
1 AAAATATCA
42870 GTGATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 2 0.11
14 13 0.68
15 4 0.21
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATATCAAAAATT
Found at i:45192 original size:26 final size:26
Alignment explanation
Indices: 45152--45231 Score: 151
Period size: 26 Copynumber: 3.1 Consensus size: 26
45142 AGATCTAACA
45152 TCACTTTTCACAGAACGCGCGATCAT
1 TCACTTTTCACAGAACGCGCGATCAT
*
45178 TCACTTTTCATAGAACGCGCGATCAT
1 TCACTTTTCACAGAACGCGCGATCAT
45204 TCACTTTTCACAGAACGCGCGATCAT
1 TCACTTTTCACAGAACGCGCGATCAT
45230 TC
1 TC
45232 TACGTGAGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (26 bp):
TCACTTTTCACAGAACGCGCGATCAT
Found at i:48140 original size:18 final size:18
Alignment explanation
Indices: 48096--48142 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
48086 CGTTTGATTA
*
48096 AGAGAATATAAGATTATC
1 AGAGAATAAAAGATTATC
*
48114 AGTGGGAATAAAAGATTATC
1 A--GAGAATAAAAGATTATC
48134 AGAGAATAA
1 AGAGAATAA
48143 GATTACTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.33
20 16 0.67
ACGTcount: A:0.51, C:0.04, G:0.21, T:0.23
Consensus pattern (18 bp):
AGAGAATAAAAGATTATC
Found at i:49459 original size:60 final size:60
Alignment explanation
Indices: 49348--49463 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
49338 TATATAATAT
* * * * ** *
49348 ATCTTTAAATTATGATTTTATTTTAATTTGATATTTTAAACTTTAATATATTTTATGTCA
1 ATCTGTAAACTATAATTTTATTTTAAATTGATACCTTAAACTTTAAGATATTTTATGTCA
*
49408 ATCTGTAAACTATAATTTTATTTTAAATTGAT-CCTTAAATTTTCAAGATATTTTAT
1 ATCTGTAAACTATAATTTTATTTTAAATTGATACCTTAAACTTT-AAGATATTTTAT
49464 ATTAATCTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 8 0.17
60 39 0.83
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.53
Consensus pattern (60 bp):
ATCTGTAAACTATAATTTTATTTTAAATTGATACCTTAAACTTTAAGATATTTTATGTCA
Found at i:54903 original size:23 final size:23
Alignment explanation
Indices: 54877--54936 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
54867 ATCAAGTACA
*
54877 ATAACATATTAGGTACCGCTTAT
1 ATAACATAATAGGTACCGCTTAT
* *
54900 ATAATATAATAGGTAGCGCTTAT
1 ATAACATAATAGGTACCGCTTAT
* *
54923 ATAATAAAATAGGT
1 ATAACATAATAGGT
54937 TAATTACTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTACCGCTTAT
Found at i:55004 original size:87 final size:87
Alignment explanation
Indices: 54858--55023 Score: 278
Period size: 87 Copynumber: 1.9 Consensus size: 87
54848 TCATTTAACC
*
54858 GGAAACATTATCAAGTACAATAACATATTAGGTACCGCTTATATAATATAATAGGTAGCGCTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATATAATAGGTAGCGCTTAT
54923 ATAATAAAATAGGTTAATTACT
66 ATAATAAAATAGGTTAATTACT
* * *
54945 GGAAACATTATCAAGCACAATAACATATTAGGTTCCGCTTATATAATGTAATTGGTAGCGCTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATATAATAGGTAGCGCTTAT
**
55010 ATAATGTAATAGGT
66 ATAATAAAATAGGT
55024 AACACTTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (87 bp):
GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATATAATAGGTAGCGCTTAT
ATAATAAAATAGGTTAATTACT
Found at i:55006 original size:23 final size:23
Alignment explanation
Indices: 54980--55046 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
54970 TATTAGGTTC
* *
54980 CGCTTATATAATGTAATTGGTAG
1 CGCTTATATAATGTAATAGGTAA
55003 CGCTTATATAATGTAATAGGTAA
1 CGCTTATATAATGTAATAGGTAA
* **
55026 CACTTATATAATAAAATAGGT
1 CGCTTATATAATGTAATAGGT
55047 TAATTACTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (23 bp):
CGCTTATATAATGTAATAGGTAA
Found at i:55086 original size:110 final size:110
Alignment explanation
Indices: 54877--55133 Score: 388
Period size: 110 Copynumber: 2.3 Consensus size: 110
54867 ATCAAGTACA
* * * * *
54877 ATAACATATTAGGTACCGCTTATATAATATAATAGGTAGCGCTTATATAATAAAATAGGTTAATT
1 ATAACGTAATAGGTAGCGCTTATATAATATAATAGGTAACACTTATATAATAAAATAGGTTAATT
*
54942 ACTGGAAACATTATCAAGCACAATAACATATTAGGTTCCGCTTAT
66 ACTGGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTAT
* * *
54987 ATAATGTAATTGGTAGCGCTTATATAATGTAATAGGTAACACTTATATAATAAAATAGGTTAATT
1 ATAACGTAATAGGTAGCGCTTATATAATATAATAGGTAACACTTATATAATAAAATAGGTTAATT
*
55052 ACTGGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTAT
66 ACTGGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTAT
** * *
55097 ATAACGTAATAGGTAGCATTTATATATTAAAATAGGT
1 ATAACGTAATAGGTAGCGCTTATATAATATAATAGGT
55134 TAATTACTTA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
110 130 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (110 bp):
ATAACGTAATAGGTAGCGCTTATATAATATAATAGGTAACACTTATATAATAAAATAGGTTAATT
ACTGGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTAT
Found at i:55100 original size:23 final size:23
Alignment explanation
Indices: 55074--55122 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
55064 ATCAAGCACA
* *
55074 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCACTTAT
* *
55097 ATAACGTAATAGGTAGCATTTAT
1 ATAACATAATAGGTAGCACTTAT
55120 ATA
1 ATA
55123 TTAAAATAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCACTTAT
Found at i:55826 original size:111 final size:111
Alignment explanation
Indices: 55522--56223 Score: 1073
Period size: 111 Copynumber: 6.3 Consensus size: 111
55512 GCCTATAAAA
* * *
55522 TATCGAT-ACTTTATAAAAAGGTATCGATATTTTACAATATAACAGGTAAAAATATGACAAAACC
1 TATCGATCATTTTATAAAAAGG-ATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACC
* * *
55586 AATTTCATTATGACAAAACCGGTAAAATTTACTTGATATGTTGAAAG
65 AGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAG
55633 TATCGATCATTTTATAAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACC
1 TATCGATCATTTTAT-AAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACC
55698 AGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAG
65 AGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAG
* * * *
55745 TATCGATCCTTTTATAAAAATGATAGACATTTTACAATATAACAGGTAAAAATATGACAAAACCA
1 TATCGATCATTTTATAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCA
* *
55810 GTTTCATTCTGACAAAAACAGTAAAATTTACCTGATATGTTGAAAG
66 GTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAG
* * * *
55856 TATCGATCCTTTTTATAAAAAGGATCGATACTTTACAATATAATAGGTAAAAATATGACAAAATC
1 TATCGAT-CATTTTATAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACC
* * *
55921 AGTTTCATTATGACAAAAACGATAAAATTTATCTGATATGTTAAAAG
65 AGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAG
* **
55968 TATCGATCATTTTATGAAAATAATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCA
1 TATCGATCATTTTATAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCA
* * *
56033 GTTTCATTATGATAAAAAGGGTAAAATTTACCTAATATGTTGAAAG
66 GTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAG
* * *
56079 TGTCGATCATTTTATAAAAATGATAGATATTTTACAATATAACAGGTAAAAATATGACAAAACCA
1 TATCGATCATTTTATAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCA
* *
56144 GTTTCATTATGACAAAACCGGTAGAATTTACCTGATATGTTGAAAG
66 GTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAG
* *
56190 TATAGATACTTTTTATAAAAAGGATAGATACTTT
1 TATCGAT-CATTTTATAAAAAGGATAGATACTTT
56224 TTATAAAAAG
Statistics
Matches: 536, Mismatches: 51, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
111 303 0.57
112 226 0.42
113 7 0.01
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (111 bp):
TATCGATCATTTTATAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCA
GTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAG
Found at i:55910 original size:223 final size:222
Alignment explanation
Indices: 55522--56224 Score: 1075
Period size: 223 Copynumber: 3.1 Consensus size: 222
55512 GCCTATAAAA
* *
55522 TATCGATAC-TTTATAAAAAGGTATCGATATTTTACAATATAACAGGTAAAAATATGACAAAACC
1 TATCGATCCTTTTATAAAAAGG-ATAGATATTTTACAATATAACAGGTAAAAATATGACAAAACC
* * *
55586 AATTTCATTATGACAAAACCGGTAAAATTTACTTGATATGTTGAAAGTATCGATCATTTTATAAA
65 AGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTAT-AA
55651 AAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAA
129 AAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAA
55716 ACGGTAAAATTTACCTGATATGTTGAAAG
194 ACGGTAAAATTTACCTGATATGTTGAAAG
* *
55745 TATCGATCCTTTTATAAAAATGATAGACATTTTACAATATAACAGGTAAAAATATGACAAAACCA
1 TATCGATCCTTTTATAAAAAGGATAGATATTTTACAATATAACAGGTAAAAATATGACAAAACCA
* * *
55810 GTTTCATTCTGACAAAAACAGTAAAATTTACCTGATATGTTGAAAGTATCGATCCTTTTTATAAA
66 GTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGAT-CATTTTATAAA
* * *
55875 AAGGATCGATACTTTACAATATAATAGGTAAAAATATGACAAAATCAGTTTCATTATGACAAAAA
130 AAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAA
* * *
55940 CGATAAAATTTATCTGATATGTTAAAAG
195 CGGTAAAATTTACCTGATATGTTGAAAG
* * ** *
55968 TATCGATCATTTTATGAAAATAATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCA
1 TATCGATCCTTTTATAAAAAGGATAGATATTTTACAATATAACAGGTAAAAATATGACAAAACCA
* * * *
56033 GTTTCATTATGATAAAAAGGGTAAAATTTACCTAATATGTTGAAAGTGTCGATCATTTTATAAAA
66 GTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTATAAAA
* * *
56098 ATGATAGATATTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACC
131 AGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAAC
*
56163 GGTAGAATTTACCTGATATGTTGAAAG
196 GGTAAAATTTACCTGATATGTTGAAAG
* *
56190 TATAGATACTTTTTATAAAAAGGATAGATACTTTT
1 TATCGAT-CCTTTTATAAAAAGGATAGATA-TTTT
56225 TATAAAAAGG
Statistics
Matches: 432, Mismatches: 44, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
222 99 0.23
223 312 0.72
224 21 0.05
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (222 bp):
TATCGATCCTTTTATAAAAAGGATAGATATTTTACAATATAACAGGTAAAAATATGACAAAACCA
GTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTATAAAA
AGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAAC
GGTAAAATTTACCTGATATGTTGAAAG
Found at i:56216 original size:22 final size:22
Alignment explanation
Indices: 56186--56252 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
56176 TGATATGTTG
*
56186 AAAGTATAGATACTTTTTATAA
1 AAAGGATAGATACTTTTTATAA
56208 AAAGGATAGATACTTTTTATAA
1 AAAGGATAGATACTTTTTATAA
* *
56230 AAAGGATCGATACTTTTTTTAA
1 AAAGGATAGATACTTTTTATAA
56252 A
1 A
56253 GTTATGTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (22 bp):
AAAGGATAGATACTTTTTATAA
Found at i:56794 original size:72 final size:73
Alignment explanation
Indices: 56708--56852 Score: 240
Period size: 72 Copynumber: 2.0 Consensus size: 73
56698 AAAATGTATC
* *
56708 GATATTTTACAATATAACA-GATAAAAATATGACAAAACCAGTTTCATTATGACAAAAA-AGTAA
1 GATACTTTACAATATAACATG-TAAAAATATGACAAAACCAATTTCATTATGACAAAAACAGTAA
56771 AATTTACCT
65 AATTTACCT
*
56780 GATACTTTACAATATAAGATGTAAAAATATGACAAAACCAATTTCATTATGACAAAAACAGTAAA
1 GATACTTTACAATATAACATGTAAAAATATGACAAAACCAATTTCATTATGACAAAAACAGTAAA
56845 ATTTACCT
66 ATTTACCT
56853 AATATGTTGA
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
72 53 0.78
73 15 0.22
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (73 bp):
GATACTTTACAATATAACATGTAAAAATATGACAAAACCAATTTCATTATGACAAAAACAGTAAA
ATTTACCT
Found at i:56925 original size:111 final size:111
Alignment explanation
Indices: 56781--57107 Score: 496
Period size: 111 Copynumber: 2.9 Consensus size: 111
56771 AATTTACCTG
* *
56781 ATACTTTACAATATAAGATGTAAAAATATGACAAAACCAATTTCATTATGACAAAAACAGTAAAA
1 ATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAACAGTAAAA
56846 TTTACCTAATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATAA
66 TTTACCTAATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATAA
* **
56892 ATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTATGAAAAAAAGGGTAAAA
1 ATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAACAGTAAAA
* *
56957 TTTACCTGATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATAT
66 TTTACCTAATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATAA
* * *
57003 ATACTTTACAATATAACAGGTAAAAATATGACAAAACCGGTTTCATTATGAC--AAACCGATAAA
1 ATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAACAG-TAAA
* ** *
57066 ATTTACATAATATGTTGAAAGTATAAATACTTTTTATAAAAA
65 ATTTACCTAATATGTTGAAAGTATCGAT-CCTTTTATAAAAA
57108 AGATTGATAC
Statistics
Matches: 197, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
109 4 0.02
110 28 0.14
111 165 0.84
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (111 bp):
ATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAACAGTAAAA
TTTACCTAATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATAA
Found at i:57109 original size:23 final size:22
Alignment explanation
Indices: 57083--57127 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
57073 TAATATGTTG
57083 AAAGTATAAATACTTTTTATAAA
1 AAAG-ATAAATACTTTTTATAAA
** *
57106 AAAGATTGATACTTTTTTTAAA
1 AAAGATAAATACTTTTTATAAA
57128 GTTATGTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (22 bp):
AAAGATAAATACTTTTTATAAA
Found at i:57719 original size:111 final size:109
Alignment explanation
Indices: 57525--57922 Score: 582
Period size: 109 Copynumber: 3.6 Consensus size: 109
57515 TAGCGCCTAT
* * * *
57525 AAAGTATCGATACTTTATAAAAATGTATCGATATTTTACAATATAACATGTAAAAATATGACAAA
1 AAAGTATCGATCCTTTATAAAAATG-ATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
* * *
57590 ACCAATTTCATTATGACAAAACCGGTAAAATTTACTTGATATGTTG
65 ATCAGTTTCATTATGACAAAAACGGTAAAATTTAC-TGATATGTTG
*
57636 AAAGTATCGATCCTTTTATAAAAATGATAGATACTTTACAATATAACAGGTAAAAATATAACAAA
1 AAAGTATCGATCC-TTTATAAAAATGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
* *
57701 ATCAGTTTCATTATGACAAAAATGGTAAAATTTAGCTAATATGTTG
65 ATCAGTTTCATTATGACAAAAACGGTAAAATTTA-CTGATATGTTG
* *
57747 AAAGTATCGATCCTTTA-ATAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAA
1 AAAGTATCGATCCTTTATAAAAATGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAA
57811 TCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
66 TCAGTTTCATTATGACAAAAACGGTAAAATTTA-CTGATATGTTG
* * * *
57856 AAAGTATCGATCCTTTTATAAAAAAAGATATATATTTTACAATATAACAAGTAAAAATATGACAA
1 AAAGTATCGATCC-TTTAT-AAAAATGATAGATACTTTACAATATAACAGGTAAAAATATGACAA
57921 AA
64 AA
57923 CTAGTTTATT
Statistics
Matches: 261, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
109 99 0.38
110 8 0.03
111 99 0.38
112 55 0.21
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (109 bp):
AAAGTATCGATCCTTTATAAAAATGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAA
TCAGTTTCATTATGACAAAAACGGTAAAATTTACTGATATGTTG
Found at i:57941 original size:220 final size:222
Alignment explanation
Indices: 57525--57941 Score: 635
Period size: 220 Copynumber: 1.9 Consensus size: 222
57515 TAGCGCCTAT
* * * *
57525 AAAGTATCGATACTTTATAAAAATGTATCGATATTTTACAATATAACATGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
* *
57590 ACCAATTTCATTATGACAAAACCGGTAAAATTTACTTGATATGTTGAAAGTATCGATCCTTTTAT
66 ACCAATTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCCTTTTAT
* * *
57655 AAAAATGATAGATACTTTACAATATAACAGGTAAAAATATAACAAAATCAGTTTCATTATGACAA
131 AAAAAAGATAGATACTTTACAATATAACAAGTAAAAATATAACAAAATCAGTTTCATTACGACAA
57720 AAATGGTAAAATTTAGCTAATATGTTG
196 AAATGGTAAAATTTAGCTAATATGTTG
* *
57747 AAAGTATCGATCCTTTA-ATAAA-GGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
* *
57810 ATCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCCTTTTAT
66 ACCAATTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCCTTTTAT
* * * *
57875 AAAAAAAGATATATATTTTACAATATAACAAGTAAAAATATGACAAAA-CTAGTTT-ATTCCGAC
131 -AAAAAAGATAGATACTTTACAATATAACAAGTAAAAATATAACAAAATC-AGTTTCATTACGAC
57938 AAAA
194 AAAA
57942 TAACTTTTTT
Statistics
Matches: 176, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
220 109 0.62
221 51 0.29
222 16 0.09
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (222 bp):
AAAGTATCGATACTTTATAAAAATGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
ACCAATTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCCTTTTAT
AAAAAAGATAGATACTTTACAATATAACAAGTAAAAATATAACAAAATCAGTTTCATTACGACAA
AAATGGTAAAATTTAGCTAATATGTTG
Found at i:58664 original size:111 final size:111
Alignment explanation
Indices: 58380--58863 Score: 679
Period size: 111 Copynumber: 4.3 Consensus size: 111
58370 TAGCGCCTAT
* * * *
58380 AAAGTATCGATAC-TTTATAAAAATGTATCGATATTTTACAATATAACAGGTAAAAATATGACAA
1 AAAGTATCGATCCTTTTATAAAAA-GGATAGATACTTTACAATATAACAGGTAAAAATATGACAA
* * *
58444 AACCAGTTTTATTATGACAAAAAATGGTAAAATTTACCTGATATGTTG
65 AACCAGTTTCATTATGAC-AAAAAGGGTAAAATTTACCTAATATGTTG
* *
58492 AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTACAATATAACAGGTAAAAATATGACAA
1 AAAGTATCGATC-CTTTTATAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAA
58557 AACCAGTTTCATTATGA-ATAAAAGGGTAAAATTTACCTAATATGTTG
65 AACCAGTTTCATTATGACA-AAAAGGGTAAAATTTACCTAATATGTTG
* *
58604 AAAGTATCGATCCTTTTATAAAAAGGATAGATACTTTACAATATAACATGTAAAAATATGAAAAA
1 AAAGTATCGATCCTTTTATAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
*
58669 ACCAGTTTCATTATGAC-AAAAGCGGTAAAATTTACCTGATATGTTG
66 ACCAGTTTCATTATGACAAAAAG-GGTAAAATTTACCTAATATGTTG
* * *
58715 AAAGTATCGATTCGTTTATAAAAAGGATAAATACTTTACAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATCCTTTTATAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
* * **
58780 ATCAATTTCATTATGACAAAACCGGTAAAATTTACCTAATATGTTG
66 ACCAGTTTCATTATGACAAAAAGGGTAAAATTTACCTAATATGTTG
* * *
58826 AAAGTATTGATACTTTTTATAAAAAAGATCA-ATACTTT
1 AAAGTATCGAT-CCTTTTATAAAAAGGAT-AGATACTTT
58864 TTTTAAAGTT
Statistics
Matches: 337, Mismatches: 27, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
110 5 0.01
111 195 0.58
112 72 0.21
113 55 0.16
114 10 0.03
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (111 bp):
AAAGTATCGATCCTTTTATAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
ACCAGTTTCATTATGACAAAAAGGGTAAAATTTACCTAATATGTTG
Found at i:63218 original size:8 final size:8
Alignment explanation
Indices: 63205--63245 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
63195 CTCATTTTCA
63205 GAGAATTT
1 GAGAATTT
63213 GAGAATTT
1 GAGAATTT
*
63221 -AGAGTTT
1 GAGAATTT
*
63228 GGGAATTT
1 GAGAATTT
63236 GAGAATTT
1 GAGAATTT
63244 GA
1 GA
63246 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:63546 original size:128 final size:128
Alignment explanation
Indices: 63318--64071 Score: 1262
Period size: 128 Copynumber: 5.9 Consensus size: 128
63308 ATCGGAGTAT
63318 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
63383 TTGCCCTATTATGTAACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
* *
63446 TATTCACATGAAGGCGCGTTCCCGGTGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
63511 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*** * * *
63574 -AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTATAGAATATGTTATC
1 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
**
63638 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCAC
65 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
63702 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTTAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
63767 TTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATAAGTACCTATTATTTCAC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
63829 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
63894 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*** * * * *
63957 -AGGGGACATGAAGGCGCATTCCCGGGGGTGCGCCTTCCATTATTTTGTCATAGAATATGTTATC
1 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
64021 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
65 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
64072 AATCAGGTAA
Statistics
Matches: 587, Mismatches: 35, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
127 124 0.21
128 462 0.79
129 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
Found at i:63778 original size:256 final size:256
Alignment explanation
Indices: 63322--64071 Score: 1254
Period size: 255 Copynumber: 2.9 Consensus size: 256
63312 GAGTATTATT
63322 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
1 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
*
63387 CCTATTATGTAACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
66 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
* *
63452 CATGAAGGCGCGTTCCCGGTGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCC
131 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCC
*
63517 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC-AGGG
196 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA-GG
* * * *
63578 GACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTATAGAATATGTTATCATTGC
1 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
**
63643 CCTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCA
66 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
*
63708 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTTAGAGAATATGTTATCATTGCCC
131 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCC
* **
63773 TATTATGTCACTCATGTCCCTC-GGGACACTAGATATATAAGTACCTATTATTTCACTATT
196 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGG
*
63833 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGC
1 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
* ***
63898 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC-AGGGG
66 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA-TTC
* * * *
63962 ACATGAAGGCGCATTCCCGGGGGTGCGCCTTCCATTATTTTGTCATAGAATATGTTATCATTGCC
130 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCC
64027 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
195 CTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
64072 AATCAGGTAA
Statistics
Matches: 460, Mismatches: 31, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
254 1 0.00
255 231 0.50
256 228 0.50
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (256 bp):
CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCC
TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGG
Found at i:64026 original size:383 final size:384
Alignment explanation
Indices: 63318--64071 Score: 1420
Period size: 383 Copynumber: 2.0 Consensus size: 384
63308 ATCGGAGTAT
63318 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
63383 TTGCCCTATTATGTAACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA
66 TTGCCCTATTATGTAACTCATGTCCCTCGGGGACACTAGATATATAAGTACCTATTATTTCACTA
*
63448 TTCACATGAAGGCGCGTTCCCGGTGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATT
131 TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATT
63513 GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGG
196 GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGG
* *
63578 GACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTATAGAATATGTTATCATTGC
261 GACATGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTATCATTGC
*
63643 CCTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCAC
326 CCTATTATGTCACTCATGTCCCTCGGGGACACCAGATATATCAGTACCTATTATTTCAC
*
63702 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTTAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
63767 TTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATAAGTACCTATTATTTCACTA
66 TTGCCCTATTATGTAACTCATGTCCCTCGGGGACACTAGATATATAAGTACCTATTATTTCACTA
63831 TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATT
131 TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATT
63896 GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGG
196 GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGG
*
63961 GACATGAAGGCGCATTCCCGGGGGTGCGCCTTCCATTATTTTGTCATAGAATATGTTATCATTGC
261 GACATGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTATCATTGC
*
64026 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
326 CCTATTATGTCACTCATGTCCCTCGGGGACACCAGATATATCAGTA
64072 AATCAGGTAA
Statistics
Matches: 361, Mismatches: 9, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
383 270 0.75
384 91 0.25
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (384 bp):
TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
TTGCCCTATTATGTAACTCATGTCCCTCGGGGACACTAGATATATAAGTACCTATTATTTCACTA
TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATT
GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGG
GACATGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTATCATTGC
CCTATTATGTCACTCATGTCCCTCGGGGACACCAGATATATCAGTACCTATTATTTCAC
Found at i:64533 original size:33 final size:34
Alignment explanation
Indices: 64472--64571 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
64462 AAATTTAATG
*
64472 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
64506 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
64539 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
64572 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:65122 original size:21 final size:20
Alignment explanation
Indices: 65095--65164 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
65085 GGTATAAAAC
*
65095 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
65115 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
65136 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
65157 CCCTGCGG
1 -CCTGCGG
65165 AGATGGCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:65194 original size:21 final size:21
Alignment explanation
Indices: 65168--65215 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
65158 CCTGCGGAGA
*
65168 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
65189 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
65210 GGGCAT
1 TGGCAT
65216 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:67042 original size:33 final size:33
Alignment explanation
Indices: 66969--67043 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
66959 TATTATTTTA
* * * *
66969 ATAAAAAT-ATAATATTTACATAATATATTAAT
1 ATAAAAATAATAATATTTACAAAAAATAATAAC
67001 ATAAAAATAATAACTATTTA-AAAAAATAATAAC
1 ATAAAAATAATAA-TATTTACAAAAAATAATAAC
67034 ATAAAAATAA
1 ATAAAAATAA
67044 ATTTCTTACA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 8 0.22
33 23 0.62
34 6 0.16
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (33 bp):
ATAAAAATAATAATATTTACAAAAAATAATAAC
Found at i:71523 original size:30 final size:30
Alignment explanation
Indices: 71487--71545 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
71477 ACCGAATTTA
71487 GTGCCCCCTCAACCACACTTATTTGACTTG
1 GTGCCCCCTCAACCACACTTATTTGACTTG
* * *
71517 GTGCCCCCTCAGCCGCATTTATTTGACTT
1 GTGCCCCCTCAACCACACTTATTTGACTT
71546 TACAGAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.17, C:0.36, G:0.15, T:0.32
Consensus pattern (30 bp):
GTGCCCCCTCAACCACACTTATTTGACTTG
Found at i:78552 original size:2 final size:2
Alignment explanation
Indices: 78545--78571 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
78535 TACATCCATC
78545 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
78572 TAATAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:83115 original size:18 final size:17
Alignment explanation
Indices: 83088--83121 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
83078 AGTCGCTCTC
83088 TCCCTCTTTTGTCTTTTT
1 TCCCTCTTTT-TCTTTTT
*
83106 TCCCTTTTTTTCTTTT
1 TCCCTCTTTTTCTTTT
83122 CCTTTGAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (17 bp):
TCCCTCTTTTTCTTTTT
Found at i:83253 original size:12 final size:13
Alignment explanation
Indices: 83231--83259 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
83221 GCCGGTTCTC
83231 TTTTCTCTTTGTT
1 TTTTCTCTTTGTT
83244 TTTTCT-TTTGTT
1 TTTTCTCTTTGTT
83256 TTTT
1 TTTT
83260 AATAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:83603 original size:22 final size:22
Alignment explanation
Indices: 83578--83632 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
83568 TCAGGAGTTA
*
83578 CAGGAGTTATATGATTTAATTT
1 CAGGAGTTATATGATATAATTT
* *
83600 CAGGAATTACATGATATAATTT
1 CAGGAGTTATATGATATAATTT
83622 CAGGAGTTATA
1 CAGGAGTTATA
83633 ACAGTTGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTT
Found at i:90078 original size:12 final size:13
Alignment explanation
Indices: 90056--90084 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
90046 GCCGGTTCTC
90056 TTTTCTCTTTGTT
1 TTTTCTCTTTGTT
90069 TTTTCT-TTTGTT
1 TTTTCTCTTTGTT
90081 TTTT
1 TTTT
90085 AATAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:90427 original size:22 final size:22
Alignment explanation
Indices: 90402--90455 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
90392 CAGGAGTTAC
* *
90402 AGGAGTTATATGATTTAATTTT
1 AGGAGTTATATAATATAATTTT
* *
90424 AGGAATTACATAATATAATTTT
1 AGGAGTTATATAATATAATTTT
90446 AGGAGTTATA
1 AGGAGTTATA
90456 ACAGTTGAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
AGGAGTTATATAATATAATTTT
Found at i:94376 original size:22 final size:23
Alignment explanation
Indices: 94344--94392 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
94334 CCACATTCTA
94344 CAAATATTTAC-CAAACTAACACC
1 CAAATATTTACACAAA-TAACACC
*
94367 CAAAT-TTTACACAAATAGCACC
1 CAAATATTTACACAAATAACACC
94389 CAAA
1 CAAA
94393 CAGAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (23 bp):
CAAATATTTACACAAATAACACC
Found at i:95588 original size:23 final size:23
Alignment explanation
Indices: 95539--95588 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
95529 AACATGTGTT
*
95539 GCACGTTTATCTCTGCCTGTATT
1 GCACGTTTATCTCTGCCTGTATG
* *
95562 GCACGTTTATCTCTGCCTTTGTG
1 GCACGTTTATCTCTGCCTGTATG
95585 GCAC
1 GCAC
95589 ATTTTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.20, T:0.40
Consensus pattern (23 bp):
GCACGTTTATCTCTGCCTGTATG
Found at i:98685 original size:35 final size:36
Alignment explanation
Indices: 98605--98674 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
98595 TTGGCGCAAA
* * * *
98605 GAGCAGTGTGGTTTTGTTTACATTAACCACCACATG
1 GAGCAATGTGGCTTTGTTTACACTAAACACCACATG
98641 GAGCAATGTGGCTTTGTTTACACTAAACA-CACAT
1 GAGCAATGTGGCTTTGTTTACACTAAACACCACAT
98675 TGCGCCATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 5 0.17
36 25 0.83
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (36 bp):
GAGCAATGTGGCTTTGTTTACACTAAACACCACATG
Found at i:110423 original size:42 final size:42
Alignment explanation
Indices: 110360--110454 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
110350 TTTCCCGGAA
* *
110360 TCCCGTGTTTGTTTCATGTAATTCGTTTTCCGGAAAATATTT
1 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATATTT
*
110402 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATATTT
*
110444 TCCAGTGTTTG
1 TCCCGTGTTTG
110455 GTTGGAGGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (42 bp):
TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATATTT
Found at i:110636 original size:19 final size:19
Alignment explanation
Indices: 110614--110652 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
110604 ATTTTATGAA
110614 TTTAATATTAAT-AAAATAT
1 TTTAAT-TTAATCAAAATAT
*
110633 TTTAATTTCATCAAAATAT
1 TTTAATTTAATCAAAATAT
110652 T
1 T
110653 AATTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAATTTAATCAAAATAT
Found at i:110707 original size:26 final size:25
Alignment explanation
Indices: 110623--110707 Score: 65
Period size: 24 Copynumber: 3.5 Consensus size: 25
110613 ATTTAATATT
* *
110623 AATAAAATATT-TTAAT-TTCATCAA
1 AATATAATATTATTAATATTTAT-AA
* *
110647 AATATTA-ATTATTAAAATATT-TAA
1 AATATAATATTATTAATAT-TTATAA
110671 AATAT-AT-TTATTAATATTTATAA
1 AATATAATATTATTAATATTTATAA
110694 TAATATAATATTAT
1 -AATATAATATTAT
110708 ATTTTTAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
22 2 0.04
23 16 0.33
24 21 0.44
25 4 0.08
26 5 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATAATATTATTAATATTTATAA
Found at i:110709 original size:22 final size:23
Alignment explanation
Indices: 110662--110725 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
110652 TAATTATTAA
* *
110662 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
110683 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
110706 -ATATTTTTAATACTATAATA
1 AATATTTATAATAATATAATA
110726 AACTAATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 11 0.30
22 22 0.59
23 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:110865 original size:19 final size:18
Alignment explanation
Indices: 110797--110867 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 18
110787 TATATTTTTT
*
110797 ATATATTTAATAATGAATA
1 ATAT-TTTAATAATTAATA
*
110816 ATATTATTTATATATTTAATA
1 ATA-T-TTTA-ATAATTAATA
* * *
110837 TTAATCTAATAATCTAATA
1 ATATTTTAATAAT-TAATA
110856 ATATTTTAATAA
1 ATATTTTAATAA
110868 AGATATTTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
18 4 0.10
19 20 0.50
20 6 0.15
21 10 0.25
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (18 bp):
ATATTTTAATAATTAATA
Found at i:112953 original size:14 final size:14
Alignment explanation
Indices: 112919--112954 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
112909 AAATGTAATT
*
112919 CATTTTACGGAAAA
1 CATTTTCCGGAAAA
112933 CATTTTCCGGAAAA
1 CATTTTCCGGAAAA
*
112947 CGTTTTCC
1 CATTTTCC
112955 ATAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (14 bp):
CATTTTCCGGAAAA
Found at i:112982 original size:14 final size:15
Alignment explanation
Indices: 112962--113031 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
112952 TCCATAAATT
*
112962 TAATTCATTTTCCAG
1 TAATTCAATTTCCAG
*
112977 -AATTCAAATTCCAG
1 TAATTCAATTTCCAG
112991 TAATTCAAATTT-CAG
1 TAATTC-AATTTCCAG
*
113006 TAATTCATTTTTCCAG
1 TAATTCA-ATTTCCAG
* *
113022 AAAATCAATT
1 TAATTCAATT
113032 ACAGCCAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
14 13 0.30
15 19 0.43
16 12 0.27
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (15 bp):
TAATTCAATTTCCAG
Found at i:113018 original size:15 final size:15
Alignment explanation
Indices: 112971--113012 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
112961 TTAATTCATT
112971 TTCCAG-AATTCAAA
1 TTCCAGTAATTCAAA
112985 TTCCAGTAATTCAAA
1 TTCCAGTAATTCAAA
*
113000 TTTCAGTAATTCA
1 TTCCAGTAATTCA
113013 TTTTTCCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (15 bp):
TTCCAGTAATTCAAA
Found at i:113413 original size:28 final size:28
Alignment explanation
Indices: 113363--113418 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
113353 TTGAATAGTT
* *
113363 TATGTATCTATTTTAACATAAAATATTA
1 TATGTACCTATTTTAACATAAAAGATTA
*
113391 TATGTACCTATTTTGACCA-AAAAGATTA
1 TATGTACCTATTTT-AACATAAAAGATTA
113419 CTTTAGGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (28 bp):
TATGTACCTATTTTAACATAAAAGATTA
Found at i:113437 original size:31 final size:28
Alignment explanation
Indices: 113399--113455 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 28
113389 TATATGTACC
113399 TATTTTGACCAAAAAGATTACTTTAGGTAGT
1 TATTTTGA-CAAAAA-A-TACTTTAGGTAGT
*
113430 TATTTTGACAAAAAATATTTTAGGTA
1 TATTTTGACAAAAAATACTTTAGGTA
113456 CTTAAGTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 1 0.04
30 6 0.24
31 8 0.32
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (28 bp):
TATTTTGACAAAAAATACTTTAGGTAGT
Found at i:122700 original size:17 final size:17
Alignment explanation
Indices: 122666--122701 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
122656 ATTTTTTTTC
* *
122666 AAAACAAAAAAGCCAAA
1 AAAACAAAAAAACAAAA
122683 AAAACAAAAAAACAAAA
1 AAAACAAAAAAACAAAA
122700 AA
1 AA
122702 GCCAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAACAAAAAAACAAAA
Found at i:122708 original size:9 final size:8
Alignment explanation
Indices: 122666--122701 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
122656 ATTTTTTTTC
122666 AAAACAAA
1 AAAACAAA
*
122674 AAAGCCAAA
1 AAA-ACAAA
122683 AAAACAAA
1 AAAACAAA
122691 AAAACAAA
1 AAAACAAA
122699 AAA
1 AAA
122702 GCCAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:125381 original size:17 final size:17
Alignment explanation
Indices: 125359--125392 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
125349 TTCATAAGTC
*
125359 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
*
125376 CAAAATCAAATAATCCA
1 CAAAATCAAACAATCCA
125393 AAATATCGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:127383 original size:21 final size:21
Alignment explanation
Indices: 127329--127391 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
127319 ATTCCCCTGT
127329 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
* *
127352 AGGGGGAATCGGTTCCCTCAG
1 GGGGGGAATCGGTTCCCTCAA
* *
127373 GGGGGGGATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
127392 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 19 0.54
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.25, G:0.38, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:136776 original size:20 final size:20
Alignment explanation
Indices: 136751--136792 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
136741 TTCCCTATCA
136751 AAGATGAAGAAAGGAGGAAG
1 AAGATGAAGAAAGGAGGAAG
*
136771 AAGATGGAGAAAGGAGGAAG
1 AAGATGAAGAAAGGAGGAAG
136791 AA
1 AA
136793 AAGATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.40, T:0.05
Consensus pattern (20 bp):
AAGATGAAGAAAGGAGGAAG
Found at i:137910 original size:24 final size:22
Alignment explanation
Indices: 137860--137910 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
137850 ATATTTTTTA
137860 TTTAAATAAAAAAATTAATTTC
1 TTTAAATAAAAAAATTAATTTC
*
137882 ATTAAATAAAATTAAATTAATATT-
1 TTTAAATAAAA--AAATTAAT-TTC
137906 TTTAA
1 TTTAA
137911 TTATATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 10 0.42
24 12 0.50
25 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAAATAAAAAAATTAATTTC
Found at i:144669 original size:25 final size:25
Alignment explanation
Indices: 144624--144671 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
144614 GTAAAAAATG
* *
144624 ATGTTTTATTTATAAGGTTTATATT
1 ATGTTTTATTTACAAGCTTTATATT
144649 ATGTTTTATTTACCAA-CTTTATA
1 ATGTTTTATTTA-CAAGCTTTATA
144672 ATGCTAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.56
Consensus pattern (25 bp):
ATGTTTTATTTACAAGCTTTATATT
Found at i:145387 original size:7 final size:7
Alignment explanation
Indices: 145375--145418 Score: 79
Period size: 7 Copynumber: 6.3 Consensus size: 7
145365 TATATTAAAT
145375 TACATTA
1 TACATTA
145382 TACATTA
1 TACATTA
145389 TACATTA
1 TACATTA
145396 TACATTA
1 TACATTA
145403 TACATTA
1 TACATTA
*
145410 CACATTA
1 TACATTA
145417 TA
1 TA
145419 TTACATTACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (7 bp):
TACATTA
Found at i:146398 original size:114 final size:112
Alignment explanation
Indices: 146183--146430 Score: 299
Period size: 113 Copynumber: 2.2 Consensus size: 112
146173 TTTTGTTTTG
* *
146183 AGGTGATATATCACTGAAAAGAAAAGGACATGAATAGTTATGAAGTTTTAATTTGAAAATTTTAT
1 AGGTGATATATCACTGAAAAAAAAAGAACATGAATAGTTATGAAGTTTTAATTTGAAAATTTTAT
* * *
146248 TATACCAGGTAAGATTTTTCATTCAATATGAAAGAAGTTCTTACTTA
66 TATACCAGATAAGATTTTTCATTCAATATGAAAGAAGTTATGACTTA
* *
146295 AGGTGATATATCACTAGAAAAAAAAAGAACGTTAATAGTTATG-A-TTCTATATCATTTG-AAAT
1 AGGTGATATATCACT-GAAAAAAAAAGAACATGAATAGTTATGAAGTT-T-TA--ATTTGAAAAT
* * *
146357 TATTATTATACTAGATAAGA-TTTTCATTTAATATGAAAGAAGTTATGATTTA
61 T-TTATTATACCAGATAAGATTTTTCATTCAATATGAAAGAAGTTATGACTTA
* *
146409 A-GTTATGTATCACTGAAAAAAA
1 AGGTGATATATCACTGAAAAAAA
146431 GGATGTGAAT
Statistics
Matches: 118, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
111 2 0.02
112 25 0.21
113 36 0.31
114 34 0.29
115 21 0.18
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (112 bp):
AGGTGATATATCACTGAAAAAAAAAGAACATGAATAGTTATGAAGTTTTAATTTGAAAATTTTAT
TATACCAGATAAGATTTTTCATTCAATATGAAAGAAGTTATGACTTA
Found at i:147760 original size:111 final size:110
Alignment explanation
Indices: 147490--147856 Score: 390
Period size: 110 Copynumber: 3.3 Consensus size: 110
147480 TTAACTCAAC
* * * * *
147490 AGTTAAGATTCTTTGTCATTTGAAATTATTGTTGTACTATATAATATTTCTCATTCAATATGAAA
1 AGTTAAGATTCTTTATCATTTGAAATTATTATTGTAC-CTATAATATTTTTCATTTAATATGAAA
* * *
147555 ATTCTGATTTGAGGTGATATATCATTG-AAAGAAAA-GAATATGAAT
65 GTTCTTATTTGAGGTGATATATCATTGAAAAGAAAAGGAA-GTGAAT
* * *
147600 AATTATGATT-TTCTATCACTTGAAATTATTATTGTACCATATAATATTTTTCATTTAATATGAA
1 AGTTAAGATTCTT-TATCATTTGAAATTATTATTGTACC-TATAATATTTTTCATTTAATATGAA
* * * *
147664 AGTTCTTATTTGAGGTGATACATAACTGAAAAGAAAAGGACGTGAAT
64 AGTTCTTATTTGAGGTGATATATCATTGAAAAGAAAAGGAAGTGAAT
* * *
147711 AGTTATGATTCTTTGTCATTTGAAATTATTATTGTACCTGATAAGATTTTTCATTTGAA-A-G-A
1 AGTTAAGATTCTTTATCATTTGAAATTATTATTGTACCT-ATAATATTTTTCATTT-AATATGAA
* * *
147773 AGTT-TTGA-TTCAGGGTGATGTATCATTGAAAAGAAAAAGAAGTGAAT
64 AGTTCTT-ATTTGA-GGTGATATATCATTGAAAAGAAAAGGAAGTGAAT
* * *
147820 AGATAAGATTCTCTATCATTTAAAATTATTATTGTAC
1 AGTTAAGATTCTTTATCATTTGAAATTATTATTGTAC
147857 AAGAAAATGA
Statistics
Matches: 217, Mismatches: 31, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
108 5 0.02
109 68 0.31
110 77 0.35
111 61 0.28
112 6 0.03
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (110 bp):
AGTTAAGATTCTTTATCATTTGAAATTATTATTGTACCTATAATATTTTTCATTTAATATGAAAG
TTCTTATTTGAGGTGATATATCATTGAAAAGAAAAGGAAGTGAAT
Found at i:148845 original size:15 final size:15
Alignment explanation
Indices: 148825--148859 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
148815 AAAATAATAC
148825 GCAGTTGGTAATCAA
1 GCAGTTGGTAATCAA
148840 GCAGTTGGTAATCAA
1 GCAGTTGGTAATCAA
148855 GCAGT
1 GCAGT
148860 ATTGCATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (15 bp):
GCAGTTGGTAATCAA
Found at i:150105 original size:29 final size:29
Alignment explanation
Indices: 150071--150129 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
150061 CCTAAATTAA
150071 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
150100 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
150129 T
1 T
150130 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:153662 original size:29 final size:29
Alignment explanation
Indices: 153628--153715 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
153618 CCTAAATTAA
*
153628 TTTGATGTCATTGTTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
153657 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
*
153686 TTTGATGTAATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
153715 T
1 T
153716 AGGTGAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:159784 original size:15 final size:15
Alignment explanation
Indices: 159764--159806 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
159754 CGATTGTAAG
*
159764 AAGAAAGATAGGGAA
1 AAGAAAGAAAGGGAA
*
159779 AAGAAAGAAAGGGAG
1 AAGAAAGAAAGGGAA
159794 AAGAAAGGAAAGG
1 AAGAAA-GAAAGG
159807 AAAGGGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGGGAA
Found at i:159797 original size:11 final size:11
Alignment explanation
Indices: 159783--159830 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
159773 AGGGAAAAGA
159783 AAGAAAGGGAG
1 AAGAAAGGGAG
159794 AAGAAA-GGA-
1 AAGAAAGGGAG
159803 AAGGAAAGGGAG
1 AA-GAAAGGGAG
* *
159815 AAGAAAAGAAG
1 AAGAAAGGGAG
159826 AAGAA
1 AAGAA
159831 TAAGGGCCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 7 0.22
11 21 0.66
12 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (11 bp):
AAGAAAGGGAG
Found at i:159811 original size:21 final size:20
Alignment explanation
Indices: 159776--159824 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
159766 GAAAGATAGG
159776 GAAAAGAAAGAAAGGGAGAA
1 GAAAAGAAAGAAAGGGAGAA
*
159796 GAAAGGAAAGGAAAGGGAGAA
1 GAAAAGAAA-GAAAGGGAGAA
159817 GAAAAGAA
1 GAAAAGAA
159825 GAAGAATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAGAAAGGGAGAA
Found at i:160719 original size:16 final size:16
Alignment explanation
Indices: 160698--160729 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
160688 ATTATTAGTA
160698 ATCATTACCAAATCAT
1 ATCATTACCAAATCAT
*
160714 ATCATTACTAAATCAT
1 ATCATTACCAAATCAT
160730 TAAATATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (16 bp):
ATCATTACCAAATCAT
Found at i:160720 original size:26 final size:26
Alignment explanation
Indices: 160691--160747 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
160681 ATAAATAATT
*
160691 ATTAGT-AATCATTACCAA-ATCATATC
1 ATTAGTAAATCATTA--AATATCAAATC
*
160717 ATTACTAAATCATTAAATATCAAATC
1 ATTAGTAAATCATTAAATATCAAATC
160743 ATTAG
1 ATTAG
160748 ATTATTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.08
26 16 0.62
27 8 0.31
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.35
Consensus pattern (26 bp):
ATTAGTAAATCATTAAATATCAAATC
Found at i:161215 original size:16 final size:16
Alignment explanation
Indices: 161194--161225 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
161184 ATTATTAGTA
161194 ATCATTACCAAATCAT
1 ATCATTACCAAATCAT
*
161210 ATCATTACTAAATCAT
1 ATCATTACCAAATCAT
161226 TAAATATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (16 bp):
ATCATTACCAAATCAT
Found at i:161216 original size:26 final size:26
Alignment explanation
Indices: 161187--161243 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
161177 ATAAATAATT
*
161187 ATTAGT-AATCATTACCAA-ATCATATC
1 ATTAGTAAATCATTA--AATATCAAATC
*
161213 ATTACTAAATCATTAAATATCAAATC
1 ATTAGTAAATCATTAAATATCAAATC
161239 ATTAG
1 ATTAG
161244 ATTATTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.08
26 16 0.62
27 8 0.31
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.35
Consensus pattern (26 bp):
ATTAGTAAATCATTAAATATCAAATC
Found at i:161413 original size:496 final size:496
Alignment explanation
Indices: 160480--161474 Score: 1936
Period size: 496 Copynumber: 2.0 Consensus size: 496
160470 TTTAAAAAAA
*
160480 TATTTTGTTTAATTTATATTAGATTATGTGTAAATTAGTAAGGAGTAAAAATTGAATCGAATATA
1 TATTTTGTTTAATTAATATTAGATTATGTGTAAATTAGTAAGGAGTAAAAATTGAATCGAATATA
160545 ATATTAAAATTTATAAAGATTAATTAACAAATTTATTTGATATTTAAAAAAATAAAAAATATTAT
66 ATATTAAAATTTATAAAGATTAATTAACAAATTTATTTGATATTTAAAAAAATAAAAAATATTAT
160610 CAAACTAATCATTATCATTAGTAATCATTACTAAATGATTAGTATCAAATCCAAATCATTAAATA
131 CAAACTAATCATTATCATTAGTAATCATTACTAAATGATTAGTATCAAATCCAAATCATTAAATA
160675 CTTATAATAAATAATTATTAGTAATCATTACCAAATCATATCATTACTAAATCATTAAATATCAA
196 CTTATAATAAATAATTATTAGTAATCATTACCAAATCATATCATTACTAAATCATTAAATATCAA
* *
160740 ATCATTAGATTATTAATAATTATTAAATCATTATTAATAATATTAGTGATCAACCAATCATGTTA
261 ATCATTAGATTATTAATAATTATCAAATCATTATTAATAATATTAGTAATCAACCAATCATGTTA
160805 AATAATATGTTTTATTTTATTGTTAATATAATAGTATAGTATAGTATATTTATTTATTTAATGAT
326 AATAATATGTTTTATTTTATTGTTAATATAATAGTATAGTATAGTATATTTATTTATTTAATGAT
*
160870 TTATGAAATTATTTTATCTATTTTTTTAATTTAAATTTATATATTTTTTATTTGTAGAGAAAATG
391 TTATGAAATTATTTTATCTAATTTTTTAATTTAAATTTATATATTTTTTATTTGTAGAGAAAATG
*
160935 AGTAATAATATTTTCATGATTGTCCATTATAATGGACATAT
456 AGTAATAATATTTTCATGATTGTCCATTATAATGGACAGAT
160976 TATTTTGTTTAATTAATATTAGATTATGTGTAAATTAGTAAGGAGTAAAAATTGAATCGAATATA
1 TATTTTGTTTAATTAATATTAGATTATGTGTAAATTAGTAAGGAGTAAAAATTGAATCGAATATA
161041 ATATTAAAATTTATAAAGATTAATTAACAAATTTATTTGATATTTAAAAAAATAAAAAATATTAT
66 ATATTAAAATTTATAAAGATTAATTAACAAATTTATTTGATATTTAAAAAAATAAAAAATATTAT
*
161106 CAAACTAATCATTATTATTAGTAATCATTACTAAATGATTAGTATCAAATCCAAATCATTAAATA
131 CAAACTAATCATTATCATTAGTAATCATTACTAAATGATTAGTATCAAATCCAAATCATTAAATA
161171 CTTATAATAAATAATTATTAGTAATCATTACCAAATCATATCATTACTAAATCATTAAATATCAA
196 CTTATAATAAATAATTATTAGTAATCATTACCAAATCATATCATTACTAAATCATTAAATATCAA
161236 ATCATTAGATTATTAATAATTATCAAATCATTATTAATAATATTAGTAATCAACCAATCATGTTA
261 ATCATTAGATTATTAATAATTATCAAATCATTATTAATAATATTAGTAATCAACCAATCATGTTA
161301 AATAATATGTTTTATTTTATTGTTAATATAATAGTATAGTATAGTATATTTATTTATTTAATGAT
326 AATAATATGTTTTATTTTATTGTTAATATAATAGTATAGTATAGTATATTTATTTATTTAATGAT
161366 TTATGAAATTATTTTATCTAATTTTTTAATTTAAATTTATATATTTTTTATTTGTAGAGAAAATG
391 TTATGAAATTATTTTATCTAATTTTTTAATTTAAATTTATATATTTTTTATTTGTAGAGAAAATG
161431 AGTAATAATATTTTCATGATTGTCCATTATAATGGACAGAT
456 AGTAATAATATTTTCATGATTGTCCATTATAATGGACAGAT
161472 TAT
1 TAT
161475 GGAAAATGAG
Statistics
Matches: 493, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
496 493 1.00
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (496 bp):
TATTTTGTTTAATTAATATTAGATTATGTGTAAATTAGTAAGGAGTAAAAATTGAATCGAATATA
ATATTAAAATTTATAAAGATTAATTAACAAATTTATTTGATATTTAAAAAAATAAAAAATATTAT
CAAACTAATCATTATCATTAGTAATCATTACTAAATGATTAGTATCAAATCCAAATCATTAAATA
CTTATAATAAATAATTATTAGTAATCATTACCAAATCATATCATTACTAAATCATTAAATATCAA
ATCATTAGATTATTAATAATTATCAAATCATTATTAATAATATTAGTAATCAACCAATCATGTTA
AATAATATGTTTTATTTTATTGTTAATATAATAGTATAGTATAGTATATTTATTTATTTAATGAT
TTATGAAATTATTTTATCTAATTTTTTAATTTAAATTTATATATTTTTTATTTGTAGAGAAAATG
AGTAATAATATTTTCATGATTGTCCATTATAATGGACAGAT
Found at i:162804 original size:65 final size:63
Alignment explanation
Indices: 162735--162894 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 63
162725 AATTAAATTG
* * * *
162735 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACAGA-CATGCACCAATGCACTCAGGATATTT-TG-
162799 A
63 A
* * *
162800 AACATCGAATGCATTTGATGCATCGATGCACCAGACATGCATCAATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAGACATGCACCAATGCACTCAGGATATTTTGA
* *
162864 AACATTGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
162895 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 1 0.01
64 29 0.35
65 48 0.57
66 6 0.07
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGACATGCACCAATGCACTCAGGATATTTTGA
Found at i:162894 original size:17 final size:19
Alignment explanation
Indices: 162872--162914 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
162862 GAAACATTGA
*
162872 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCAACG
*
162889 ATGCACTCTTAGTGCAACG
1 ATGCACTCTGAGTGCAACG
162908 ATGCACT
1 ATGCACT
162915 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCAACG
Found at i:168301 original size:42 final size:44
Alignment explanation
Indices: 168254--168348 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
168244 TTGTGCTTCA
* *
168254 TGCATCGATACACC-T-AACAGTGCATCGATGCA-TCCTTGAATG
1 TGCATCGATACACCATGAA-AGTGCACCGATGCACGCCTTGAATG
*
168296 TGCATCGATACACCATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
168340 TGCATCGAT
1 TGCATCGAT
168349 GCATCCATCG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 20 0.43
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
Found at i:168319 original size:21 final size:21
Alignment explanation
Indices: 168254--168348 Score: 86
Period size: 23 Copynumber: 4.4 Consensus size: 21
168244 TTGTGCTTCA
*
168254 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-TG
*
168274 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* *
168296 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
* *
168317 TGCACCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAATG
168340 TGCATCGAT
1 TGCATCGAT
168349 GCATCCATCG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 17 0.28
22 13 0.22
23 19 0.32
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:168342 original size:23 final size:23
Alignment explanation
Indices: 168273--168351 Score: 92
Period size: 23 Copynumber: 3.6 Consensus size: 23
168263 ACACCTAACA
*
168273 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
168295 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
168316 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
168339 GTGCATCGATGCA
1 GTGCATCGATGCA
168352 TCCATCGGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
22 10 0.22
23 20 0.43
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:172094 original size:21 final size:20
Alignment explanation
Indices: 172069--172107 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
172059 TCGTTGGTTA
*
172069 GTATTTTTTTTCTTTTTCTGT
1 GTATTTGTTTT-TTTTTCTGT
172090 GTATTTGTTTTTTTTTCT
1 GTATTTGTTTTTTTTTCT
172108 TTTTCGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.05, C:0.08, G:0.10, T:0.77
Consensus pattern (20 bp):
GTATTTGTTTTTTTTTCTGT
Found at i:172638 original size:3 final size:3
Alignment explanation
Indices: 172630--172712 Score: 105
Period size: 3 Copynumber: 27.7 Consensus size: 3
172620 TAATATAAAT
* *
172630 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA T-A TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** *
172677 TAA TAA TAA GGA TAA TAA TAA TATT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA
172713 TGGATAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
2 2 0.03
3 64 0.94
4 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:173162 original size:113 final size:113
Alignment explanation
Indices: 172964--173624 Score: 986
Period size: 113 Copynumber: 5.8 Consensus size: 113
172954 TCTTGATGAG
*
172964 TTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-C
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CTC
* *
173027 TGGTAATGTTGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAA
64 TGGAAAAGTTGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAA
* *
173077 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATTAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * ** * *
173142 GCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAG
66 GAAAAGTTGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAA
* *
173190 TTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
173255 GAAAAGTTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAA
66 GAAAAGTTGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAA
*
173303 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * ** * *
173368 GCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAG
66 GAAAAGTTGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAA
* *
173416 TTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * *
173481 GAAAAGCTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAA
66 GAAAAGTTGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAA
*
173529 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
173594 GAAAAGCT-ATTCCATCAAATGATGGATTCAA
66 GAAAAGTTGA-TCCATCAAATGATGAATTCAA
173625 ATCTTTGCTA
Statistics
Matches: 494, Mismatches: 51, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
112 2 0.00
113 491 0.99
114 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GAAAAGTTGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAA
Found at i:173356 original size:226 final size:226
Alignment explanation
Indices: 172962--173617 Score: 1156
Period size: 226 Copynumber: 2.9 Consensus size: 226
172952 GCTCTTGATG
*
172962 AGTTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC
1 AGTTCTTCTCATTATGAACTTCT-TCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-C
* * * * *
173026 -CTGGTAATGTTGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTAT
64 TCTGGAAAAGTTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAATTCTTCTTATTAT
* *
173090 GAATTTCTTCTTCCTTCTTCAGATTAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCC
129 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCC
173155 ATCAAATGATGAATTTAAACAAAAAGTTGAACA
194 ATCAAATGATGAATTTAAACAAAAAGTTGAACA
173188 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
173253 TGGAAAAGTTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAATTCTTCTTATTATGA
66 TGGAAAAGTTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAATTCTTCTTATTATGA
173318 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCAT
131 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCAT
173383 CAAATGATGAATTTAAACAAAAAGTTGAACA
196 CAAATGATGAATTTAAACAAAAAGTTGAACA
173414 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
173479 TGGAAAAGCTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAATTCTTCTTATTATGA
66 TGGAAAAGTTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAATTCTTCTTATTATGA
* * *
173544 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCT-ATTCCA
131 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGA-TCCA
173608 TCAAATGATG
195 TCAAATGATG
173618 GATTCAAATC
Statistics
Matches: 415, Mismatches: 12, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
225 2 0.00
226 412 0.99
227 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (226 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGTTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAATTCTTCTTATTATGA
ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCAT
CAAATGATGAATTTAAACAAAAAGTTGAACA
Found at i:174490 original size:82 final size:82
Alignment explanation
Indices: 174238--174992 Score: 1307
Period size: 82 Copynumber: 9.2 Consensus size: 82
174228 TTTACTATGA
* * * * *
174238 GCAAATTTATCTTCCAAATTCAATGATTGTTCT-ATCCAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCT-AAACCAGGTCAGATAACTCAAAGAACAC
174302 TTCCAGAAGATGCTATTG
65 TTCCAGAAGATGCTATTG
** * * * *
174320 GCAAATTCATCTTCCAAATTCAATGCTTGGTTCT-ATATAATCAGATCAAATAACTCAAAGAACA
1 GCAAATTCATCTTCCAAATTCAATGAAT-GTTCTGCTA-AACCAGGTCAGATAACTCAAAGAACA
174384 CTTCCAGAAGATGCTATTG
64 CTTCCAGAAGATGCTATTG
* *
174403 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
174468 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
*
174485 ACAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
174550 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
174567 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
174632 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
*
174649 GCAAATTCATCTTCCAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
174714 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
174731 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
174796 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
*
174813 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
174878 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
*
174895 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
174960 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
*
174977 GTAAATTCATCTTCCA
1 GCAAATTCATCTTCCA
174993 TTTAATGTTT
Statistics
Matches: 651, Mismatches: 19, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
82 573 0.88
83 78 0.12
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (82 bp):
GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
TCCAGAAGATGCTATTG
Found at i:176131 original size:11 final size:11
Alignment explanation
Indices: 176113--176198 Score: 81
Period size: 11 Copynumber: 7.8 Consensus size: 11
176103 CTTGACCCCC
176113 TTTCTTTTTCT
1 TTTCTTTTTCT
*
176124 TCTCTTTTTTCTAT
1 TTTC-TTTTTC--T
*
176138 TTTCTATTTTTT
1 TTTCT-TTTTCT
176150 TTTC-TTTTC-
1 TTTCTTTTTCT
176159 TTTCTTTTT-T
1 TTTCTTTTTCT
*
176169 TTT-TCTTTCT
1 TTTCTTTTTCT
176179 TTTCTTTTTCT
1 TTTCTTTTTCT
176190 TTTCTTTTT
1 TTTCTTTTT
176199 TCTTCAAGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
9 8 0.13
10 15 0.25
11 18 0.30
12 11 0.18
13 1 0.02
14 8 0.13
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:176142 original size:19 final size:17
Alignment explanation
Indices: 176113--176202 Score: 100
Period size: 15 Copynumber: 5.4 Consensus size: 17
176103 CTTGACCCCC
176113 TTTCTTTTTCTTCTCTTT
1 TTTCTTTTTCTT-TCTTT
*
176131 TTTCTATTTTCTATTTTTT
1 TTTCT-TTTTCT-TTCTTT
176150 TTTC-TTTTCTTTC-TT
1 TTTCTTTTTCTTTCTTT
176165 TTT-TTTTTCTTTC--T
1 TTTCTTTTTCTTTCTTT
176179 TTTCTTTTTCTTTTCTTT
1 TTTCTTTTTC-TTTCTTT
176197 TTTCTT
1 TTTCTT
176203 CAAGTATAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 14
0.80 0.03 0.18
Matches are distributed among these distances:
14 4 0.06
15 20 0.32
16 6 0.10
17 6 0.10
18 12 0.19
19 14 0.22
20 1 0.02
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTCTTTTTCTTTCTTT
Found at i:176151 original size:20 final size:19
Alignment explanation
Indices: 176113--176202 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
176103 CTTGACCCCC
* *
176113 TTTCTTTTTCT-TCTCTTT
1 TTTCTTTTTCTCTTTTTTT
*
176131 TTTCTATTTTCT-ATTTTTT
1 TTTCT-TTTTCTCTTTTTTT
*
176150 TTTCTTTTCTTTCTTTTTTT
1 TTTCTTTT-TCTCTTTTTTT
* *
176170 TTTCTTTCTTTTCTTTTTCT
1 TTTCTTT-TTCTCTTTTTTT
176190 TTTCTTTTT-TCTT
1 TTTCTTTTTCTCTT
176203 CAAGTATAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
18 12 0.19
19 19 0.31
20 30 0.48
21 1 0.02
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTCTTTTTCTCTTTTTTT
Found at i:176157 original size:5 final size:5
Alignment explanation
Indices: 176144--176197 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
176134 CTATTTTCTA
* *
176144 TTTTT TTTTC TTTTC -TTTC TTTT- TTTTT TCTTTC TTTTC TTTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC TTTTC -TTTTC TTTTC
176194 TTTT
1 TTTT
176198 TTCTTCAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 8 0.19
5 26 0.60
6 9 0.21
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTC
Done.