Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008311.1 Hibiscus syriacus cultivar Beakdansim tig00111002_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: 1790494
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:1766 original size:3 final size:3
Alignment explanation
Indices: 1758--1813 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
1748 ATTATGTTTG
1758 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
1804 T-T T-T TAT TAT
1 TAT TAT TAT TAT
1814 GATTGCCTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:7730 original size:3 final size:3
Alignment explanation
Indices: 7722--7839 Score: 211
Period size: 3 Copynumber: 39.0 Consensus size: 3
7712 TTTGATATGA
7722 TAT TAT TAT TAT TAT ATAT TAT TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7767 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7815 TAT TAT TAT TAT TAT TAT TGAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT
7840 GTCTCACTAA
Statistics
Matches: 112, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.02
3 104 0.93
4 6 0.05
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8761 original size:32 final size:32
Alignment explanation
Indices: 8715--8812 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
8705 ATAATACAAG
* *
8715 AATAATATTGGTACTACAACAGTATTGGTACTA-
1 AATAGTATTGGTACT--AACAGTATTGCTACTAC
* *
8748 GA-AGTATTGGTACTAATAGTATTGCTACTAC
1 AATAGTATTGGTACTAACAGTATTGCTACTAC
* *
8779 AATAGTATTGGTACTAACAGTATCGATACTAC
1 AATAGTATTGGTACTAACAGTATTGCTACTAC
8811 AA
1 AA
8813 AAACAATATC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
30 14 0.25
31 1 0.02
32 39 0.71
33 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (32 bp):
AATAGTATTGGTACTAACAGTATTGCTACTAC
Found at i:8809 original size:47 final size:47
Alignment explanation
Indices: 8715--8809 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 47
8705 ATAATACAAG
* * *
8715 AATAATATTGGTACTACAACAGTATTGGTACTAGAAGTATTGGTACT
1 AATAATATTGCTACTACAACAGTATTGGTACTAGAAGTATCGATACT
* *
8762 AATAGTATTGCTACTACAATAGTATTGGTACTA-ACAGTATCGATACT
1 AATAATATTGCTACTACAACAGTATTGGTACTAGA-AGTATCGATACT
8809 A
1 A
8810 CAAAAACAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 1 0.02
47 41 0.98
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.34
Consensus pattern (47 bp):
AATAATATTGCTACTACAACAGTATTGGTACTAGAAGTATCGATACT
Found at i:16068 original size:18 final size:18
Alignment explanation
Indices: 16045--16085 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
16035 AACTTAAACA
16045 AATTAATAATGAAAAATT
1 AATTAATAATGAAAAATT
**
16063 AATTAATAATTTAAAATT
1 AATTAATAATGAAAAATT
16081 AATTA
1 AATTA
16086 TATTCGTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
AATTAATAATGAAAAATT
Found at i:19856 original size:20 final size:20
Alignment explanation
Indices: 19831--19880 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19821 AGTGAACTTG
*
19831 GTATCGATGCCAC-CCTATGA
1 GTATCGATGCCACACCTA-CA
* *
19851 GTATCGATACCTCACCTACA
1 GTATCGATGCCACACCTACA
19871 GTATCGATGC
1 GTATCGATGC
19881 TTATTTCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (20 bp):
GTATCGATGCCACACCTACA
Found at i:22808 original size:116 final size:115
Alignment explanation
Indices: 22649--23090 Score: 440
Period size: 116 Copynumber: 3.8 Consensus size: 115
22639 TAAGGAGTTC
* * *
22649 GATCAACATTTTCAACGGAGAGTTCATAATGAGAAGAACTCATCCACGGATGAAGAAGAAGTTCA
1 GATCAACATTTTCAA-GG-GAGTTCATAATGAGAAAAACTCATCCACAGAGGAAGAAGAAGTTCA
* * * **
22714 CAATAAGAAGAACTTGTTCAACATTTTGCTCAAATCTATCAAAGAATAAGAAG
64 TAATAAGAAGAACTTGTTCAACATTTTGCTCAAATCCATCATAGAA-AAGGTG
*
22767 GATCAACATTTTCAATGGAGTTCATAATGAGAAAAACTCATCCACAGAGGAAGAAGAAGTTCATA
1 GATCAACATTTTCAAGGGAGTTCATAATGAGAAAAACTCATCCACAGAGGAAGAAGAAGTTCATA
* * * * *
22832 ATAAGAAGAACTTGTTCAACCTTATACTCAAATCCATCATATAAGGAGGTG
66 ATAAGAAGAACTTGTTCAACATTTTGCTCAAATCCATCATAGAA-AAGGTG
* * * * * * * * *
22883 GTTCAACATTTTCAAGGGAATTTATAATAAG-AACA-T-GTCTACGGAGGGAGAAGAAGTTCATA
1 GATCAACATTTTCAAGGGAGTTCATAATGAGAAAAACTCATCCACAGAGGAAGAAGAAGTTCATA
* * * * * *
22945 ATGAGAAGAATTTGTTCAACCTTTAGATCAACTCCATCATAGAAAGAGGTG
66 ATAAGAAGAACTTGTTCAACATTTTGCTCAAATCCATCATAGAAA-AGGTG
** *** * * * *
22996 GATCAACATTATAAATATAAAGTTCATAATGAGAAGAACTCACCCAAAGAGGAAGAATAAGTTCA
1 GATCAACATT-TTCA-AGGGAGTTCATAATGAGAAAAACTCATCCACAGAGGAAGAAGAAGTTCA
* *
23061 TAATGAGAAGAACTTGTTCGACATTTTGCT
64 TAATAAGAAGAACTTGTTCAACATTTTGCT
23091 AAGATCTATC
Statistics
Matches: 261, Mismatches: 57, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
113 72 0.28
114 3 0.01
115 14 0.05
116 113 0.43
117 2 0.01
118 57 0.22
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (115 bp):
GATCAACATTTTCAAGGGAGTTCATAATGAGAAAAACTCATCCACAGAGGAAGAAGAAGTTCATA
ATAAGAAGAACTTGTTCAACATTTTGCTCAAATCCATCATAGAAAAGGTG
Found at i:39423 original size:103 final size:103
Alignment explanation
Indices: 39244--39449 Score: 376
Period size: 103 Copynumber: 2.0 Consensus size: 103
39234 AGTTGCCATA
* * *
39244 TATTGGTGCATCTGCACCAGCAGCACCAGACCAGTAATGCTTACATTTTACTGTCTAGATGCCAT
1 TATTGGTGCATCTGCACCAGCAGCAACAGACCAGTAATGCTTACATATTACTATCTAGATGCCAT
39309 TAATAGCTTATTAGAACTAGGGGAACAGATCAGTTAAG
66 TAATAGCTTATTAGAACTAGGGGAACAGATCAGTTAAG
*
39347 TATTGGTGCATCTGCACCAGCAGCAACGGACCAGTAATGCTTACATATTACTATCTAGATGCCAT
1 TATTGGTGCATCTGCACCAGCAGCAACAGACCAGTAATGCTTACATATTACTATCTAGATGCCAT
39412 TAATAGCTTATTAGAACTAGGGGAACAGATCAGTTAAG
66 TAATAGCTTATTAGAACTAGGGGAACAGATCAGTTAAG
39450 CTTAGATTTC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (103 bp):
TATTGGTGCATCTGCACCAGCAGCAACAGACCAGTAATGCTTACATATTACTATCTAGATGCCAT
TAATAGCTTATTAGAACTAGGGGAACAGATCAGTTAAG
Found at i:44139 original size:12 final size:12
Alignment explanation
Indices: 44122--44179 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
44112 TAATATATAG
44122 TTTTGAAAACAT
1 TTTTGAAAACAT
44134 TTTTGAAAACAT
1 TTTTGAAAACAT
* * *
44146 ATAT-AATATATAT
1 TTTTGAA-A-ACAT
44159 TTTTGAAAACAT
1 TTTTGAAAACAT
44171 TTTTGAAAA
1 TTTTGAAAA
44180 TATATATAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.05
12 27 0.73
13 6 0.16
14 2 0.05
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:44147 original size:37 final size:36
Alignment explanation
Indices: 44071--44272 Score: 190
Period size: 37 Copynumber: 5.7 Consensus size: 36
44061 ATATATATAT
* *
44071 ATATATAATATATAGTTTTAAAAACA-TTTTGAAAGC
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAA-A
44107 ATATATAATATATAGTTTTGAAAACATTTTTGAAAA
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAA
*
44143 CATATATAATATATATTTTTGAAAACATTTTTG---A
1 -ATATATAATATATAGTTTTGAAAACATTTTTGAAAA
44177 A-A-AT-ATATATAGTTTTGAAAACA-TTTTGAAAATA
1 ATATATAATATATAGTTTTGAAAACATTTTTG-AAA-A
* ** *
44211 TATATATAAAATATATAATTTT-AAAATGTTTTTGGAAA
1 -ATATAT--AATATATAGTTTTGAAAACATTTTTGAAAA
*
44249 ATATATAAAATATA-TTTTAGAAAA
1 ATATATAATATATAGTTTT-GAAAA
44273 AAACATGTTG
Statistics
Matches: 141, Mismatches: 9, Indels: 32
0.77 0.05 0.18
Matches are distributed among these distances:
29 5 0.04
30 18 0.13
31 2 0.01
32 1 0.01
33 1 0.01
34 6 0.04
35 8 0.06
36 30 0.21
37 47 0.33
38 1 0.01
39 6 0.04
40 16 0.11
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (36 bp):
ATATATAATATATAGTTTTGAAAACATTTTTGAAAA
Found at i:44213 original size:29 final size:30
Alignment explanation
Indices: 44151--44216 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
44141 AACATATATA
*
44151 ATATATATTTTTGAAAACATTTTTGAAAAT
1 ATATATAGTTTTGAAAACATTTTTGAAAAT
44181 ATATATAGTTTTGAAAACA-TTTTGAAAAT
1 ATATATAGTTTTGAAAACATTTTTGAAAAT
44210 ATATATA
1 ATATATA
44217 TAAAATATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 17 0.49
30 18 0.51
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (30 bp):
ATATATAGTTTTGAAAACATTTTTGAAAAT
Found at i:44272 original size:105 final size:103
Alignment explanation
Indices: 44078--44272 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 103
44068 TATATATATA
* *
44078 ATATATAGTTTTAAAAACATTTTGAAAGCATATATAATATATAGTTTTGAAAACATTTTTGAAAA
1 ATATATAGTTTTAAAAACATTTTGAAAACATATATAATATATAATTTTGAAAACATTTTTGAAAA
* *
44143 CATATATAATATATATTTTTGAAAACATTTTTGAAAAT
66 CATATATAAAATATATTTTAGAAAACATTTTTGAAAAT
* * **
44181 ATATATAGTTTTGAAAACATTTTGAAAATATATATATAAAATATATAATTTT-AAAATGTTTTTG
1 ATATATAGTTTTAAAAACATTTTG-AAA-ACATATAT--AATATATAATTTTGAAAACATTTTTG
*
44245 GAAA-ATATATAAAATATATTTTAGAAAA
62 AAAACATATATAAAATATATTTTAGAAAA
44273 AAACATGTTG
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
103 23 0.29
104 3 0.04
105 28 0.35
106 13 0.16
107 12 0.15
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.42
Consensus pattern (103 bp):
ATATATAGTTTTAAAAACATTTTGAAAACATATATAATATATAATTTTGAAAACATTTTTGAAAA
CATATATAAAATATATTTTAGAAAACATTTTTGAAAAT
Found at i:45428 original size:4 final size:4
Alignment explanation
Indices: 45419--45463 Score: 65
Period size: 4 Copynumber: 11.0 Consensus size: 4
45409 TCCTTTACGT
45419 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA CTTT- TTTGA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTT-A TTTA
45464 GTATTTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 3 0.08
4 29 0.76
5 6 0.16
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:45571 original size:10 final size:10
Alignment explanation
Indices: 45556--45591 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
45546 TTATATTCGT
45556 TTTTATATTA
1 TTTTATATTA
45566 TTTTATATTA
1 TTTTATATTA
*
45576 TTTTTATTTTA
1 -TTTTATATTA
45587 TTTTA
1 TTTTA
45592 CTTTTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTATATTA
Found at i:45581 original size:21 final size:22
Alignment explanation
Indices: 45544--45591 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
45534 ATTTAACATT
*
45544 TTTTATATTCGTTTTTATATTA
1 TTTTATATTCATTTTTATATTA
*
45566 TTTTATATT-ATTTTTATTTTA
1 TTTTATATTCATTTTTATATTA
45587 TTTTA
1 TTTTA
45592 CTTTTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTATATTCATTTTTATATTA
Found at i:45584 original size:16 final size:17
Alignment explanation
Indices: 45563--45597 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
45553 CGTTTTTATA
45563 TTATTTTATATTA-TTT
1 TTATTTTATATTACTTT
*
45579 TTATTTTATTTTACTTT
1 TTATTTTATATTACTTT
45596 TT
1 TT
45598 TTTCTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (17 bp):
TTATTTTATATTACTTT
Found at i:56208 original size:25 final size:25
Alignment explanation
Indices: 56174--56221 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
56164 CCATATTTCC
56174 TTGTAGTCAGACACTTTTCAGAAAG
1 TTGTAGTCAGACACTTTTCAGAAAG
56199 TTGTAGTCAGACACTTTTCAGAA
1 TTGTAGTCAGACACTTTTCAGAA
56222 CTTTCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (25 bp):
TTGTAGTCAGACACTTTTCAGAAAG
Found at i:57044 original size:256 final size:258
Alignment explanation
Indices: 56587--57093 Score: 883
Period size: 256 Copynumber: 2.0 Consensus size: 258
56577 CACATTCGTA
*
56587 AAATGTGACATGGGCAGTTCATACCCAAAATCATTCATAAAACTTATTAAAAATATTATGGATAT
1 AAATGTGACATGGGCAATTCATACCCAAAATCATTCATAAAACTTATTAAAAATATTATGGATAT
56652 AATTCCATAATCAAAACATAATTCATATCTTTGAAATAAACAAGGTGAGGTTGACTTATCGCAAG
66 AATTCCATAATCAAAACATAATTCATATCTTTGAAATAAACAAGGTGAGGTTGACTTATCGCAAG
*
56717 TCGTCCTCGATCAAAATAATAAAATAATAAATTGCACTCACCTTTGCCTCACTACAGAACTTGTA
131 TCGTCCTCGATCAAAATAATAAAATAATAAACTGCACTCACCTTTGCCTCACTACAGAACTTGTA
** *
56782 TACGATAATCCTAGTCACGAGCTTTGTCCTTTCCTTTCAGATCGTTCGGATTGCTAGTTTCAT
196 TACGATAATCCTAGTCACGAGCTTTGTCAATTACTTTCAGATCGTTCGGATTGCTAGTTTCAT
* *
56845 AAATGTGTCATGGGCAATTCATACCCTAAATCATTCATAAAACTTATTAAAAA-ATTATGGATAT
1 AAATGTGACATGGGCAATTCATACCCAAAATCATTCATAAAACTTATTAAAAATATTATGGATAT
* *
56909 AATTTCATAATCAAAACATAATTCATATCTTTGAAA-AAACAAGGTGAGGTTGACTTATTGCAAG
66 AATTCCATAATCAAAACATAATTCATATCTTTGAAATAAACAAGGTGAGGTTGACTTATCGCAAG
* * *
56973 TTGTCCTCGATCAAAATAATAAAATAATAAACTGCATTCACCTTTGCCTCACTACAGAATTTGTA
131 TCGTCCTCGATCAAAATAATAAAATAATAAACTGCACTCACCTTTGCCTCACTACAGAACTTGTA
*
57038 TACGATAATCCTAGTCTCGAGCTTTGTCAATTACTTTCAGATCGTTCGGATTGCTA
196 TACGATAATCCTAGTCACGAGCTTTGTCAATTACTTTCAGATCGTTCGGATTGCTA
57094 ATTTTATTGT
Statistics
Matches: 236, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
256 140 0.59
257 46 0.19
258 50 0.21
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (258 bp):
AAATGTGACATGGGCAATTCATACCCAAAATCATTCATAAAACTTATTAAAAATATTATGGATAT
AATTCCATAATCAAAACATAATTCATATCTTTGAAATAAACAAGGTGAGGTTGACTTATCGCAAG
TCGTCCTCGATCAAAATAATAAAATAATAAACTGCACTCACCTTTGCCTCACTACAGAACTTGTA
TACGATAATCCTAGTCACGAGCTTTGTCAATTACTTTCAGATCGTTCGGATTGCTAGTTTCAT
Found at i:60825 original size:97 final size:99
Alignment explanation
Indices: 60694--60963 Score: 404
Period size: 97 Copynumber: 2.8 Consensus size: 99
60684 ATTATATGTG
* *
60694 TACAATAAAGCTTAAGTTGACCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTAATGGATAAGAT
1 TACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTAATGGATAAGAT
* *
60759 TCATCTATCCTGATAAAGGTGATTAT-A-ATATA
66 TCAGCTAGCCTGATAAAGGTGATTATAATATATA
* * ** * *
60791 TACAATAAAGCTTGAGTCGTCCCTCTAGAGCAATTGGTTAAACGACCTAGCTTTATGGATGAGAT
1 TACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTAATGGATAAGAT
60856 TCAGCTAGCCTGATAAAGGTGATTATAATATATA
66 TCAGCTAGCCTGATAAAGGTGATTATAATATATA
*
60890 TACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATT-GTTAAACGCCCCGACTTTAA-GGATAAGA
1 TACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGC-TTAATGGATAAGA
60953 TTCAGCTAGCC
65 TTCAGCTAGCC
60964 AGACAATGGC
Statistics
Matches: 153, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
97 81 0.53
98 30 0.20
99 42 0.27
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (99 bp):
TACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTAATGGATAAGAT
TCAGCTAGCCTGATAAAGGTGATTATAATATATA
Found at i:63390 original size:25 final size:25
Alignment explanation
Indices: 63361--63519 Score: 161
Period size: 25 Copynumber: 6.5 Consensus size: 25
63351 TTGAAAATAT
63361 TTTTGAAAACATATATAATATATAG
1 TTTTGAAAACATATATAATATATAG
63386 TTTTGAAAACATATATAATATATAG
1 TTTTGAAAACATATATAATATATAG
* *
63411 TTTTGAAAACATTTTTGAA-ATATA-
1 TTTTGAAAACATATAT-AATATATAG
* * * * *
63435 -TAT-AATATATAGTTTTGAA-A-ACA-
1 TTTTGAAAACATA--TAT-AATATATAG
63458 TTTTGAAAACATATATAATATATAG
1 TTTTGAAAACATATATAATATATAG
*
63483 TTTTGAAAACATATATAATATATAT
1 TTTTGAAAACATATATAATATATAG
63508 TTTTGAAAACAT
1 TTTTGAAAACAT
63520 TTTTCAAAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
22 7 0.06
23 7 0.06
24 11 0.10
25 86 0.76
26 2 0.02
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (25 bp):
TTTTGAAAACATATATAATATATAG
Found at i:63443 original size:36 final size:37
Alignment explanation
Indices: 63386--63660 Score: 275
Period size: 36 Copynumber: 7.9 Consensus size: 37
63376 TAATATATAG
*
63386 TTTTGAAAACATATATAATATATAGTTTTGAAAACAT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACAT
63423 TTTTG-AAATATATATAATATATAGTTTTGAAAACA-
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACAT
*
63458 TTTTGAAAACATATATAATATATAGTTTTGAAAACA-
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACAT
63494 ---T----ATATA-AT-ATATAT--TTTTGAAAACAT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACAT
* *
63520 TTTTCAAAATATATATAATATATAG---TCAAAACA-
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACAT
* *
63553 TTTTGAAAATATATATAATATATAATTTT-AAAACGT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACAT
* * *
63589 TTTTGGAAA-ATATATAATGTATAGTTTAGAAAACAT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACAT
* * * *
63625 GTTGGAAAACTATATATAATATTTGGGTTTTGAAAA
1 TTTTGAAAA-TATATATAATATAT-AGTTTTGAAAA
63661 TGTTAGTTTT
Statistics
Matches: 198, Mismatches: 19, Indels: 40
0.77 0.07 0.16
Matches are distributed among these distances:
25 11 0.06
27 6 0.03
28 2 0.01
29 5 0.03
33 29 0.15
34 9 0.05
35 32 0.16
36 79 0.40
37 5 0.03
38 11 0.06
39 9 0.05
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACAT
Found at i:63495 original size:97 final size:97
Alignment explanation
Indices: 63322--63586 Score: 412
Period size: 97 Copynumber: 2.7 Consensus size: 97
63312 AAAAAATTCG
* *
63322 ATTTTTGAAAAGATATATAATATATAGTTTTGAAAATATTTTTGAAAACATATATAATATATAGT
1 ATTTTTG-AAATATATATAATATATAGTTTTGAAAACA-TTTTGAAAACATATATAATATATAGT
63387 TTTGAAAACATATATAATATATAGTTTTGAAAAC
64 TTTGAAAACATATATAATATATAGTTTTGAAAAC
63421 ATTTTTGAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACATATATAATATATAGTTT
1 ATTTTTGAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACATATATAATATATAGTTT
*
63486 TGAAAACATATATAATATATATTTTTGAAAAC
66 TGAAAACATATATAATATATAGTTTTGAAAAC
* * * *
63518 ATTTTTCAAAATATATATAATATATAG---TCAAAACATTTTGAAAATATATATAATATATAATT
1 ATTTTT-GAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACATATATAATATATAGTT
63580 TT-AAAAC
65 TTGAAAAC
63587 GTTTTTGGAA
Statistics
Matches: 158, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
94 5 0.03
95 34 0.22
97 65 0.41
98 47 0.30
99 7 0.04
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.42
Consensus pattern (97 bp):
ATTTTTGAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACATATATAATATATAGTTT
TGAAAACATATATAATATATAGTTTTGAAAAC
Found at i:63497 original size:61 final size:61
Alignment explanation
Indices: 63361--63624 Score: 225
Period size: 61 Copynumber: 4.2 Consensus size: 61
63351 TTGAAAATAT
* * * * *
63361 TTTTGAAAACATATATAATATATAGTTTTGAAAACATATAT-AATATATAGTTTTGAA-A-ACAT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACAT-TTTGAAAATATA--TAT-AATATATAG
* *
63423 TTTTG-AAATATATATAATATATAGTTTTGAAAACATTTTGAAAACATATATAATATATAG
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAG
* *
63483 TTTTGAAAACATATATAATATATATTTTTGAAAACATTTTTCAAAATATATATAATATATAG
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACA-TTTTGAAAATATATATAATATATAG
* * * * *
63545 TCAAAACATTTTGAAAATATATATAATATATAATTTT-AAAACGTTTTTGGAAA-ATATATAATG
1 --------TTTTGAAAACATATATAATATATAGTTTTGAAAAC-ATTTTGAAAATATATATAATA
63608 TATAG
57 TATAG
*
63613 TTTAGAAAACAT
1 TTTTGAAAACAT
63625 GTTGGAAAAC
Statistics
Matches: 169, Mismatches: 19, Indels: 30
0.78 0.09 0.14
Matches are distributed among these distances:
58 2 0.01
59 3 0.02
60 19 0.11
61 64 0.38
62 28 0.17
68 14 0.08
69 12 0.07
70 27 0.16
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (61 bp):
TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAG
Found at i:63533 original size:35 final size:35
Alignment explanation
Indices: 63483--63624 Score: 121
Period size: 35 Copynumber: 4.0 Consensus size: 35
63473 TAATATATAG
*
63483 TTTTGAAAACATATATAATATATATTTTTGAAAACA
1 TTTTTAAAA-ATATATAATATATATTTTTGAAAACA
* *
63519 TTTTTCAAAATATATATAATATATA---GTCAAAACA
1 TTTTT-AAAA-ATATATAATATATATTTTTGAAAACA
* * *
63553 TTTTGAAAATATATATAATATATAATTTT-AAAACG
1 TTTTTAAAA-ATATATAATATATATTTTTGAAAACA
* * * *
63588 TTTTTGGAAAATATATAATGTATAGTTTAGAAAACA
1 TTTTT-AAAAATATATAATATATATTTTTGAAAACA
63624 T
1 T
63625 GTTGGAAAAC
Statistics
Matches: 87, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
33 19 0.22
34 11 0.13
35 25 0.29
36 14 0.16
37 18 0.21
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (35 bp):
TTTTTAAAAATATATAATATATATTTTTGAAAACA
Found at i:63562 original size:33 final size:34
Alignment explanation
Indices: 63483--63646 Score: 125
Period size: 33 Copynumber: 4.6 Consensus size: 34
63473 TAATATATAG
* * *
63483 TTTTGAAAACATATATAATATATATTTTTGAAAACA
1 TTTTGAAAATATATATAATATATA--TGTCAAAACA
*
63519 TTTTTCAAAATATATATAATATATA-GTCAAAACA
1 -TTTTGAAAATATATATAATATATATGTCAAAACA
* * *
63553 TTTTGAAAATATATATAATATATAATTTTAAAACGT
1 TTTTGAAAATATATATAATATAT-ATGTCAAAAC-A
* * * *
63589 TTTTGGAAA-ATATATAATGTATAGTTTAGAAAACA
1 TTTTGAAAATATATATAATATATA-TGT-CAAAACA
*
63624 TGTTGGAAAACTATATATAATAT
1 T-TTTGAAAA-TATATATAATAT
63647 TTGGGTTTTG
Statistics
Matches: 104, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
33 22 0.21
34 9 0.09
35 22 0.21
36 19 0.18
37 22 0.21
38 10 0.10
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (34 bp):
TTTTGAAAATATATATAATATATATGTCAAAACA
Found at i:63724 original size:21 final size:23
Alignment explanation
Indices: 63689--63731 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
63679 TTATAGTATA
*
63689 CCTTTTTTATTA-TTTATTTTTC
1 CCTTATTTATTATTTTATTTTTC
63711 CCTTATTT-TTATTTTATTTTT
1 CCTTATTTATTATTTTATTTTT
63732 GTTTTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (23 bp):
CCTTATTTATTATTTTATTTTTC
Found at i:64932 original size:14 final size:14
Alignment explanation
Indices: 64913--64947 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
64903 AAATTTAACA
*
64913 TTTTTTATATTCGT
1 TTTTTTATATTAGT
*
64927 TTTTTTATATTATT
1 TTTTTTATATTAGT
64941 TTTTTTA
1 TTTTTTA
64948 CTTTTTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTTTATATTAGT
Found at i:71902 original size:21 final size:22
Alignment explanation
Indices: 71877--71918 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
71867 TATCAATCTT
71877 CTAGTATGAG-TATCGATACTA
1 CTAGTATGAGATATCGATACTA
*
71898 CTAGTATGTGATATCGATACT
1 CTAGTATGAGATATCGATACT
71919 TTCCTGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (22 bp):
CTAGTATGAGATATCGATACTA
Found at i:74202 original size:22 final size:22
Alignment explanation
Indices: 74160--74202 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
74150 CAATTGAAAC
* *
74160 TTATTAAATTATTCTTATTTAA
1 TTATAAAATTATTATTATTTAA
74182 TTATAAAATATATTATT-TTTA
1 TTATAAAAT-TATTATTATTTA
74203 TGATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATAAAATTATTATTATTTAA
Found at i:75993 original size:81 final size:81
Alignment explanation
Indices: 75853--76259 Score: 580
Period size: 81 Copynumber: 5.0 Consensus size: 81
75843 ATTTTAAATA
* * * *
75853 AAAAAATTAATTGCCTAGTTGTGCATTTGACAAAAATGTGTCAACTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
75918 TTAAATACTTTTGAGT
66 TTAAATACCTTTGAGT
* * * *
75934 AAAAGATTAATTGTCTAGATGTGCATTTGACAGAAAGGTGTTAATTATGTCAGTTAGATGAAAGG
1 AAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
75999 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
76015 AAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
* *
76080 CTAAATGCCTTTGAGT
66 TTAAATACCTTTGAGT
* * * *
76096 TAAAGATTAAATGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
* *
76161 CTAAATGCCTTTGAGT
66 TTAAATACCTTTGAGT
* * * * * * *
76177 TAAACATTAAATGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATCATGCAAGTTAGATGAAAGG
1 AAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
* *
76242 TTAAATGCCTTTGGGT
66 TTAAATACCTTTGAGT
76258 AA
1 AA
76260 GAGACTAAAT
Statistics
Matches: 297, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 297 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
AAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
TTAAATACCTTTGAGT
Found at i:83724 original size:19 final size:19
Alignment explanation
Indices: 83696--83749 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
83686 AAGTGACTAG
83696 GGGTATCGGTACCATCTGA
1 GGGTATCGGTACCATCTGA
* *
83715 GGGTACCGGTACCATCTGG
1 GGGTATCGGTACCATCTGA
83734 GGGTATCGGTACCATC
1 GGGTATCGGTACCATC
83750 CGAGCATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (19 bp):
GGGTATCGGTACCATCTGA
Found at i:86431 original size:23 final size:23
Alignment explanation
Indices: 86393--86437 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
86383 GTATCGGTGC
* *
86393 CCATTCAAAGATGGTATTGATAA
1 CCATTCAAAGAGGGTATCGATAA
*
86416 CCATTCAAAGGGGGTATCGATA
1 CCATTCAAAGAGGGTATCGATA
86438 CCTAGCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (23 bp):
CCATTCAAAGAGGGTATCGATAA
Found at i:91847 original size:21 final size:20
Alignment explanation
Indices: 91777--91854 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
91767 AAGTGACTAA
91777 GGGTATCGGTACCATCTGGG
1 GGGTATCGGTACCATCTGGG
*
91797 GGGTATCGGTATCATCTGGG
1 GGGTATCGGTACCATCTGGG
91817 GGGTATCGGTACCATCTGAGG
1 GGGTATCGGTACCATCTG-GG
* *
91838 AGGTACCGGTACCATCT
1 GGGTATCGGTACCATCT
91855 AGTTTTTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 36 0.68
21 17 0.32
ACGTcount: A:0.18, C:0.21, G:0.36, T:0.26
Consensus pattern (20 bp):
GGGTATCGGTACCATCTGGG
Found at i:92254 original size:81 final size:82
Alignment explanation
Indices: 92132--92396 Score: 389
Period size: 81 Copynumber: 3.3 Consensus size: 82
92122 GGTTAAATAC
*
92132 CTTTGA-GTAAAAGATTAATTGCCTA-ATTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTT
1 CTTTGAGGTAAAAGATTAAATGCCTAGA-TGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTT
92195 AGATGAAAGGCTAAATGT
65 AGATGAAAGGCTAAATGT
*
92213 CTTTGAGGT-AAAGATTAAATGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTA
1 CTTTGAGGTAAAAGATTAAATGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTA
* *
92277 GATAAAAGGCTAAATGC
66 GATGAAAGGCTAAATGT
* * * *
92294 CTTTGA-GTTAAAGATTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATCATG-CATGTT
1 CTTTGAGGTAAAAGATTAAATGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGTCA-GTT
92357 AGATGAAAGGCTAAATGT
65 AGATGAAAGGCTAAATGT
*
92375 CTTTG-GGTAAAAGACTAAATGC
1 CTTTGAGGTAAAAGATTAAATGC
92397 TTAACAACGC
Statistics
Matches: 167, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
80 4 0.02
81 160 0.96
82 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (82 bp):
CTTTGAGGTAAAAGATTAAATGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTA
GATGAAAGGCTAAATGT
Found at i:92446 original size:162 final size:162
Alignment explanation
Indices: 92118--92431 Score: 418
Period size: 162 Copynumber: 1.9 Consensus size: 162
92108 TGTTTTCAAC
* *
92118 AAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAATTGTGCATTTGACAGAAAGGTGTCA
1 AAAAGGCTAAATACCTTTGAGTAAAAGATTAAATGCCTAATTGTGCATTTGACAGAAAGGTGTCA
* * ***
92183 ATTATGTCAGTTAGATGAAAGGCTAAATGTCTTTGAGGTAAAGATTAAATGCCTAGATGTGCATT
66 ATCATGTCAGTTAGATGAAAGGCTAAATGTCTTTGAGGTAAAGACTAAATGCCTAGAAACGCATT
* * *
92248 TGACAGAAATGTGTCAATTATGTCAGTTAGAT
131 TGACAGAAACGGGACAATTATGTCAGTTAGAT
* * * *
92280 AAAAGGCTAAATGCCTTTGAGTTAAAGATTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGTCA
1 AAAAGGCTAAATACCTTTGAGTAAAAGATTAAATGCCTAATTGTGCATTTGACAGAAAGGTGTCA
*
92345 ATCATG-CATGTTAGATGAAAGGCTAAATGTCTTTG-GGTAAAAGACTAAATGCTTA-ACAACGC
66 ATCATGTCA-GTTAGATGAAAGGCTAAATGTCTTTGAGGT-AAAGACTAAATGCCTAGA-AACGC
* *
92407 ATTTTGACATAAACGGGACATTTAT
128 A-TTTGACAGAAACGGGACAATTAT
92432 TGATTTGAAT
Statistics
Matches: 131, Mismatches: 17, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
161 6 0.05
162 107 0.82
163 18 0.14
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (162 bp):
AAAAGGCTAAATACCTTTGAGTAAAAGATTAAATGCCTAATTGTGCATTTGACAGAAAGGTGTCA
ATCATGTCAGTTAGATGAAAGGCTAAATGTCTTTGAGGTAAAGACTAAATGCCTAGAAACGCATT
TGACAGAAACGGGACAATTATGTCAGTTAGAT
Found at i:93760 original size:24 final size:23
Alignment explanation
Indices: 93721--93778 Score: 89
Period size: 24 Copynumber: 2.5 Consensus size: 23
93711 AGTCGAAACA
*
93721 GCCACATAGAATTGCACCGAAGT
1 GCCACGTAGAATTGCACCGAAGT
*
93744 GCCGCGTAGAATATGCACCGAAGT
1 GCCACGTAGAAT-TGCACCGAAGT
93768 GCCACGTAGAA
1 GCCACGTAGAA
93779 ATGTCCCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 10 0.32
24 21 0.68
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.16
Consensus pattern (23 bp):
GCCACGTAGAATTGCACCGAAGT
Found at i:93877 original size:47 final size:47
Alignment explanation
Indices: 93745--93894 Score: 153
Period size: 47 Copynumber: 3.2 Consensus size: 47
93735 CACCGAAGTG
* * *
93745 CCGCGTAGAATATG-CACCGAAGTG-CCACGTAGAAATGTCCCAAAAGA
1 CCGCGTAGAATATGTC-CCAAAG-GACCACATAGAAATGTCCCAAAGGA
* * * * * *
93792 TCACATAGAA-ATGTCCTAAAGGACCGCGTAGAAATGTCCCAAAGGA
1 CCGCGTAGAATATGTCCCAAAGGACCACATAGAAATGTCCCAAAGGA
* * *
93838 CCGCGTAGAATTTGTCCCAAAGGACCACATAGAATTGTCCCGAAGGA
1 CCGCGTAGAATATGTCCCAAAGGACCACATAGAAATGTCCCAAAGGA
93885 CCGCGTAGAA
1 CCGCGTAGAA
93895 CCCTCGACTC
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 35 0.42
47 48 0.57
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (47 bp):
CCGCGTAGAATATGTCCCAAAGGACCACATAGAAATGTCCCAAAGGA
Found at i:93893 original size:23 final size:23
Alignment explanation
Indices: 93772--93894 Score: 138
Period size: 23 Copynumber: 5.3 Consensus size: 23
93762 CGAAGTGCCA
* * * *
93772 CGTAGAAATGTCCCAAAAGATCA
1 CGTAGAATTGTCCCAAAGGACCG
* * *
93795 CATAGAAATGTCCTAAAGGACCG
1 CGTAGAATTGTCCCAAAGGACCG
*
93818 CGTAGAAATGTCCCAAAGGACCG
1 CGTAGAATTGTCCCAAAGGACCG
*
93841 CGTAGAATTTGTCCCAAAGGACCA
1 CGTAGAA-TTGTCCCAAAGGACCG
* *
93865 CATAGAATTGTCCCGAAGGACCG
1 CGTAGAATTGTCCCAAAGGACCG
93888 CGTAGAA
1 CGTAGAA
93895 CCCTCGACTC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
23 66 0.77
24 20 0.23
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.17
Consensus pattern (23 bp):
CGTAGAATTGTCCCAAAGGACCG
Found at i:95610 original size:32 final size:32
Alignment explanation
Indices: 95538--95659 Score: 138
Period size: 32 Copynumber: 3.8 Consensus size: 32
95528 CCTAAGGGAT
* * *
95538 TACCTTAGGGCCTTAGAGCCTACCCAA-GTAA
1 TACCTTAGGGCCTAAGAGCCTACCCAATGGAG
* * *
95569 TACCTTGGGGCCTTAGAGCCTACCTAATGGAG
1 TACCTTAGGGCCTAAGAGCCTACCCAATGGAG
* *
95601 TACCTTGGGGCCTAAGAACCTACCCAATGGAG
1 TACCTTAGGGCCTAAGAGCCTACCCAATGGAG
* * *
95633 CATCTCAGGGCCTAAGAGCCTACCCAA
1 TACCTTAGGGCCTAAGAGCCTACCCAA
95660 GGGTCACGTT
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
31 25 0.32
32 53 0.68
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (32 bp):
TACCTTAGGGCCTAAGAGCCTACCCAATGGAG
Found at i:99691 original size:88 final size:88
Alignment explanation
Indices: 99597--99833 Score: 366
Period size: 88 Copynumber: 2.7 Consensus size: 88
99587 TATTTTTAAT
* ** *
99597 CATTAAAATTTAAATTAATTCAATTATAACACTAAATTTTTATTTTGTTTTACCGTAAATACCAG
1 CATTAAAATTTAAATTAATTCAATCATAACACTAAATTTTTATTTTGTTTTAATGTAAATACCAA
* * *
99662 ACCTAAATGACAAATAATTTTAC
66 ACCAAAAGGACAAATAATTGTAC
* *
99685 CATTAAAATTTAAATTAAATCAATCATACCACTAAATTTTTATTTTGTTTTAATGTAAATACCAA
1 CATTAAAATTTAAATTAATTCAATCATAACACTAAATTTTTATTTTGTTTTAATGTAAATACCAA
*
99750 ACCAAAAGGACAAATAATTGTAT
66 ACCAAAAGGACAAATAATTGTAC
* *
99773 CATTAAAATTTAAATTAATCCAATCATAGCACTAAATTTTTATTTTGTTTTAATGTAAATA
1 CATTAAAATTTAAATTAATTCAATCATAACACTAAATTTTTATTTTGTTTTAATGTAAATA
99834 TTGGACTTAG
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 136 1.00
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (88 bp):
CATTAAAATTTAAATTAATTCAATCATAACACTAAATTTTTATTTTGTTTTAATGTAAATACCAA
ACCAAAAGGACAAATAATTGTAC
Found at i:100094 original size:2 final size:2
Alignment explanation
Indices: 100087--100121 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
100077 AATTATGAGT
100087 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
100122 GTTGAAGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:104755 original size:47 final size:47
Alignment explanation
Indices: 104686--104781 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
104676 GTAATAACTG
*
104686 ATTTGGATTTAGAGAGTTACACTTAAGGCATGAAATGAAGCATGAAC
1 ATTTGAATTTAGAGAGTTACACTTAAGGCATGAAATGAAGCATGAAC
*
104733 ATTTGAATTTAGAGAGTTACACTTAGGGCATGAAATGAAGCATGAAC
1 ATTTGAATTTAGAGAGTTACACTTAAGGCATGAAATGAAGCATGAAC
104780 AT
1 AT
104782 GTCATTTTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (47 bp):
ATTTGAATTTAGAGAGTTACACTTAAGGCATGAAATGAAGCATGAAC
Found at i:105163 original size:43 final size:43
Alignment explanation
Indices: 105096--105414 Score: 214
Period size: 42 Copynumber: 7.5 Consensus size: 43
105086 GAAAATGATT
* * * * * *
105096 AAATTATGGGCTTAAATTATAAAGGTAAGAAGTGATATT-AAA
1 AAATTAAGGGCATCAATTATAAAGGTAAAAACTGAGATTGAAA
*
105138 AAAGTTAAGGGCATCAATTTTAAAGGTAAAAACTGAGATTGAAA
1 AAA-TTAAGGGCATCAATTATAAAGGTAAAAACTGAGATTGAAA
* * * * *
105182 AAATTAGGGGCCTAAATTAT-AA-GTAAAAAATGAGTTTG-AA
1 AAATTAAGGGCATCAATTATAAAGGTAAAAACTGAGATTGAAA
* *
105222 AAATT-AGGTGCCTCAATTATAAGGGTTAAAAA-TGAGATT-AAA
1 AAATTAAGG-GCATCAATTATAAAGG-TAAAAACTGAGATTGAAA
* * * * *
105264 AAATT-AGAGTCCTCAATTATAAAGATAGAAAGTGAGATTG-AA
1 AAATTAAG-GGCATCAATTATAAAGGTAAAAACTGAGATTGAAA
* * * *
105306 AAATT-AGAAGC-TCAATTATAAAAGTACAAAGTGAGATTGAAA
1 AAATTAAG-GGCATCAATTATAAAGGTAAAAACTGAGATTGAAA
* ** * *
105348 AACTT-AGGGTCATCAA-TATAAACGCAAAAAAGTGAGGTTGAAAA
1 AAATTAAGGG-CATCAATTATAAA-GGTAAAAACTGAGATTG-AAA
*
105392 AAATTAAGTGCATCAATTATAAA
1 AAATTAAGGGCATCAATTATAAA
105415 TATAAAAAAT
Statistics
Matches: 225, Mismatches: 35, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
39 2 0.01
40 17 0.08
41 46 0.20
42 67 0.30
43 65 0.29
44 19 0.08
45 9 0.04
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.26
Consensus pattern (43 bp):
AAATTAAGGGCATCAATTATAAAGGTAAAAACTGAGATTGAAA
Found at i:105266 original size:83 final size:83
Alignment explanation
Indices: 105151--105354 Score: 225
Period size: 83 Copynumber: 2.4 Consensus size: 83
105141 GTTAAGGGCA
* *
105151 TCAATTTTAAAGGTAAAAACTGAGATTGAAAAAATTAGGGGCCTAAATTAT-AAG-TAAAAAATG
1 TCAATTATAAAGGTAAAAACTGAGATT-AAAAAATTAGAGGCCTAAATTATAAAGATAAAAAATG
* **
105214 AGTTTGAAAAATTAGGTGCC
65 AGATTGAAAAATTAGAAG-C
* * * * *
105234 TCAATTATAAGGGTTAAAAA-TGAGATTAAAAAATTAGAGTCCTCAATTATAAAGATAGAAAGTG
1 TCAATTATAAAGG-TAAAAACTGAGATTAAAAAATTAGAGGCCTAAATTATAAAGATAAAAAATG
105298 AGATTGAAAAATTAGAAGC
65 AGATTGAAAAATTAGAAGC
* * * *
105317 TCAATTATAAAAGTACAAAGTGAGATTGAAAAACTTAG
1 TCAATTATAAAGGTAAAAACTGAGATT-AAAAAATTAG
105355 GGTCATCAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
82 25 0.25
83 40 0.39
84 37 0.36
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (83 bp):
TCAATTATAAAGGTAAAAACTGAGATTAAAAAATTAGAGGCCTAAATTATAAAGATAAAAAATGA
GATTGAAAAATTAGAAGC
Found at i:105307 original size:84 final size:84
Alignment explanation
Indices: 105110--105465 Score: 305
Period size: 84 Copynumber: 4.2 Consensus size: 84
105100 TATGGGCTTA
* * * * *
105110 AATTATAAAGGTAAGAAGTGATATTAAAAAAGTTAAGG-GCATCAATTTTAAAGGTAAAAACTGA
1 AATTATAAAGATAAAAAGTGAGATTGAAAAA-TT-AGGTGCATCAATTATAAAGGTAAAAA-TGA
* *
105174 GATTGAAAAAATTAGGGGCCTA
63 GATTGAAAAAATTAGGGTCCTC
* * * *
105196 AATTAT-AAG-TAAAAAATGAGTTTGAAAAATTAGGTGCCTCAATTATAAGGGTTAAAAATGAGA
1 AATTATAAAGATAAAAAGTGAGATTGAAAAATTAGGTGCATCAATTATAAAGG-TAAAAATGAGA
*
105259 TT-AAAAAATTAGAGTCCTC
65 TTGAAAAAATTAGGGTCCTC
* ** * *
105278 AATTATAAAGATAGAAAGTGAGATTGAAAAATTAGAAGC-TCAATTATAAAAGTACAAAGTGAGA
1 AATTATAAAGATAAAAAGTGAGATTGAAAAATTAGGTGCATCAATTATAAAGGTA-AAAATGAGA
* *
105342 TTGAAAAACTTAGGGTCATC
65 TTGAAAAAATTAGGGTCCTC
* * **
105362 AA-TATAAACGCA-AAAAAGTGAGGTTGAAAAAAATTAAGTGCATCAATTATAAATATAAAAAAT
1 AATTATAAA-G-ATAAAAAGTGAGATTG--AAAAATTAGGTGCATCAATTATAAAGGT-AAAAAT
* * *
105425 AAAATT-ACAAAAATTAGGGACCTC
61 GAGATTGA-AAAAATTAGGGTCCTC
* *
105449 AACTATAAATATAAAAA
1 AATTATAAAGATAAAAA
105466 TTTAAATTTA
Statistics
Matches: 219, Mismatches: 36, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
82 25 0.11
83 52 0.24
84 73 0.33
85 4 0.02
86 18 0.08
87 40 0.18
88 7 0.03
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.26
Consensus pattern (84 bp):
AATTATAAAGATAAAAAGTGAGATTGAAAAATTAGGTGCATCAATTATAAAGGTAAAAATGAGAT
TGAAAAAATTAGGGTCCTC
Found at i:105437 original size:45 final size:43
Alignment explanation
Indices: 105388--105511 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 43
105378 AGTGAGGTTG
105388 AAAAAAATTAAGTGCATCAATTATAAATATAAAAAATAAAATT-
1 AAAAAAATTAAGTGC-TCAATTATAAATATAAAAAATAAAATTA
* * * * *
105431 ACAAAAATT-AGGGACCTCAACTATAAATATAAAAATTTAAATTTA
1 AAAAAAATTAAGTG--CTCAATTATAAATATAAAAA-ATAAAATTA
* *
105476 AAAAAATTTAAAAGT-CTCAATTATAAAAATAAAAAA
1 AAAAAAATT--AAGTGCTCAATTATAAATATAAAAAA
105512 ATATAATAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
42 3 0.05
43 26 0.41
44 7 0.11
45 25 0.40
48 2 0.03
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.27
Consensus pattern (43 bp):
AAAAAAATTAAGTGCTCAATTATAAATATAAAAAATAAAATTA
Found at i:107708 original size:24 final size:24
Alignment explanation
Indices: 107681--107734 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
107671 GTATTCGAAA
*
107681 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGATCAATACCCGGAC
* *
107705 TTTGATCTTGATCAATACTCGGAT
1 TTTGATCTTGATCAATACCCGGAC
107729 TTTGAT
1 TTTGAT
107735 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGATCAATACCCGGAC
Found at i:110179 original size:20 final size:20
Alignment explanation
Indices: 110154--110242 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
110144 CAACACGGAA
110154 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
110174 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
110194 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
110214 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
110234 ATCGCAACG
1 ATCGCAACG
110243 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 59 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:110264 original size:33 final size:33
Alignment explanation
Indices: 110214--110295 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
110204 GGAATTGACT
* **
110214 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
110248 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
110281 ATCGCAATGCGAAAT
1 ATCGCAATGCGAAAT
110296 TAGTTTCGCG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 35 0.80
34 9 0.20
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:110362 original size:33 final size:33
Alignment explanation
Indices: 110304--110399 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
110294 ATTAGTTTCG
*
110304 CGTTGCGATTTTCATTTTCGTATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
110338 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
** *
110371 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
110400 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 32 0.57
34 24 0.43
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:110598 original size:33 final size:33
Alignment explanation
Indices: 110541--110658 Score: 200
Period size: 33 Copynumber: 3.5 Consensus size: 33
110531 ATTAGTTTCG
*
110541 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
110575 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
110608 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
**
110641 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
110659 CGCGTTGCAA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 67 0.83
34 14 0.17
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:110728 original size:270 final size:270
Alignment explanation
Indices: 110304--111046 Score: 1432
Period size: 270 Copynumber: 2.7 Consensus size: 270
110294 ATTAGTTTCG
*
110304 CGTTGCGATTTTCATTTTCGTATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATTCT
110369 CTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAA
65 CTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAA
110434 ATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATT
130 ATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATT
*
110499 AAACAAATCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCAT
195 AAACAAATCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTACGATTTTCATTTTCGCAT
110564 TGCGATTCACT
260 TGCGATTCACT
*
110575 CGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATTCTC
*
110640 TCGTTGCGATAGTCATTTCCGCGTTGCAATAGTCTGTTTTGCATTCAACATAATGCAGATTGAAA
66 TCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAAA
110705 TCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATTA
131 TCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATTA
110770 AACAAATCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTACGATTTTCATTTTCGCATT
196 AACAAATCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTACGATTTTCATTTTCGCATT
110835 GCGATTCACT
261 GCGATTCACT
*
110845 CTTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATTCTC
110910 TCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAAA
66 TCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAAA
110975 TCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATTA
131 TCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATTA
111040 AACAAAT
196 AACAAAT
111047 TAACATTTAC
Statistics
Matches: 465, Mismatches: 7, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
270 451 0.97
271 14 0.03
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (270 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATTCTC
TCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAAA
TCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATTA
AACAAATCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTACGATTTTCATTTTCGCATT
GCGATTCACT
Found at i:110868 original size:33 final size:33
Alignment explanation
Indices: 110811--110939 Score: 186
Period size: 33 Copynumber: 3.8 Consensus size: 33
110801 ATTAGTTTCG
*
110811 CGTTACGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
110845 CTTTGCGATTTTCATTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
*
110878 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
** *
110911 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
110940 AGTCTGTTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
33 65 0.75
34 22 0.25
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:112978 original size:20 final size:20
Alignment explanation
Indices: 112955--113038 Score: 141
Period size: 20 Copynumber: 4.2 Consensus size: 20
112945 GAAACTTAAA
*
112955 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
112975 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
112995 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
113015 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
113035 ATCG
1 ATCG
113039 TAACGAGAGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:113111 original size:20 final size:20
Alignment explanation
Indices: 113086--113191 Score: 143
Period size: 20 Copynumber: 5.6 Consensus size: 20
113076 GCGATTCTTT
113086 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
113106 CATTGCGATAGTCATTTTTG
1 CATTGCGATAGTCATTTTCG
*
113126 CATTGCGAT--TC--TCTCG
1 CATTGCGATAGTCATTTTCG
113142 --TTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
113160 CGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
113180 CATTGCGATAGT
1 CATTGCGATAGT
113192 AAACTATTCT
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
14 7 0.09
16 5 0.07
18 6 0.08
20 57 0.76
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.41
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:113135 original size:54 final size:54
Alignment explanation
Indices: 113067--113188 Score: 208
Period size: 54 Copynumber: 2.3 Consensus size: 54
113057 GTGATTTTCA
*
113067 TTTCGCATTGCGATTCTTTCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATTCTCTCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* * *
113121 TTTTGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAT
1 TTTCGCATTGCGATTCTCTCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
113175 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
113189 AGTAAACTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.43
Consensus pattern (54 bp):
TTTCGCATTGCGATTCTCTCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
Found at i:114426 original size:35 final size:35
Alignment explanation
Indices: 114380--114489 Score: 130
Period size: 35 Copynumber: 3.1 Consensus size: 35
114370 AATAGTCCTT
* *
114380 AATTTCATTCTAAACCCCAATTTCCAAAGTAATTC
1 AATTTCATTCTAAACCCCAAATTCCAAAATAATTC
* *
114415 AATTTCATTCTAAACCCTAAATTCTAAAATAATTC
1 AATTTCATTCTAAACCCCAAATTCCAAAATAATTC
** * * * *
114450 AATTAAATTTTAAACCCCAAATTCTAAAATACTTT
1 AATTTCATTCTAAACCCCAAATTCCAAAATAATTC
114485 AATTT
1 AATTT
114490 AAGGTTTAGA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (35 bp):
AATTTCATTCTAAACCCCAAATTCCAAAATAATTC
Found at i:116148 original size:20 final size:20
Alignment explanation
Indices: 116105--116178 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
116095 GAAACTTTAA
**
116105 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
116125 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
** **
116145 ATCGCAATGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
*
116165 ATCGCAACGCGAAA
1 ATCGCAACACGAAA
116179 TGAAAACCGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:116229 original size:20 final size:20
Alignment explanation
Indices: 116204--116250 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
116194 GATTCTCTCG
116204 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
116224 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
116244 TTGCGAT
1 TTGCGAT
116251 TCACTCGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:116819 original size:20 final size:20
Alignment explanation
Indices: 116794--116845 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
116784 GCTATGTAAA
116794 TCGCATTGCGATAGTCAGAT
1 TCGCATTGCGATAGTCAGAT
116814 TCGCATTGCGATAGTCAGAT
1 TCGCATTGCGATAGTCAGAT
116834 TCGCATTGCGAT
1 TCGCATTGCGAT
116846 TTACGTATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (20 bp):
TCGCATTGCGATAGTCAGAT
Found at i:116855 original size:20 final size:20
Alignment explanation
Indices: 116832--116928 Score: 158
Period size: 20 Copynumber: 4.8 Consensus size: 20
116822 CGATAGTCAG
116832 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
116852 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
116872 AATCGCATTGCAATTTACGT
1 ATTCGCATTGCGATTTACGT
116892 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
116912 AATCGCATTGCTATTTA
1 ATTCGCATTGCGATTTA
116929 GGAAAATCGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:116856 original size:40 final size:38
Alignment explanation
Indices: 116812--116928 Score: 146
Period size: 40 Copynumber: 2.9 Consensus size: 38
116802 CGATAGTCAG
*
116812 ATTCGCATTGCGATA-GTCAGATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATACGT-A-A-TCGCATTGCAATTTACGT
116852 ATTCGCATTGCGATTTACGTAATCGCATTGCAATTTACGT
1 ATTCGCATTGCGA--TACGTAATCGCATTGCAATTTACGT
*
116892 ATTCGCATTGCGATTTACGTAATCGCATTGCTATTTA
1 ATTCGCATTGCGA--TACGTAATCGCATTGCAATTTA
116929 GGAAAATCGC
Statistics
Matches: 72, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
40 66 0.92
41 1 0.01
42 3 0.04
43 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (38 bp):
ATTCGCATTGCGATACGTAATCGCATTGCAATTTACGT
Found at i:116956 original size:21 final size:21
Alignment explanation
Indices: 116932--116987 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
116922 CTATTTAGGA
*
116932 AAATCGCTACGCGAATTTGGG
1 AAATCGCAACGCGAATTTGGG
116953 AAATCGCAACGCGAATTTGGG
1 AAATCGCAACGCGAATTTGGG
*
116974 AAATCGCAATGCGA
1 AAATCGCAACGCGA
116988 TAGTCAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.20
Consensus pattern (21 bp):
AAATCGCAACGCGAATTTGGG
Found at i:117661 original size:34 final size:32
Alignment explanation
Indices: 117601--117693 Score: 96
Period size: 33 Copynumber: 2.7 Consensus size: 32
117591 ATTGTCCTTA
* *
117601 TTATATATTTTTATAATATTACAAATTGTAAAATAT
1 TTATATATTTTT-TAAAATT--AAATT-CAAAATAT
*
117637 TTATATATTTCTTTAAAATTAAATTCATAATAT
1 TTATATATTT-TTTAAAATTAAATTCAAAATAT
117670 TTATATATTTTTTACAAAATTAAA
1 TTATATATTTTTT--AAAATTAAA
117694 ATATAAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
32 3 0.06
33 16 0.31
34 14 0.27
36 16 0.31
37 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (32 bp):
TTATATATTTTTTAAAATTAAATTCAAAATAT
Found at i:121671 original size:22 final size:23
Alignment explanation
Indices: 121629--121672 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
121619 AATATGTGGC
*
121629 ACTTCGATGTAACCCTATATGGA
1 ACTTCGATGCAACCCTATATGGA
*
121652 ACTTCGATGCAA-TCTATATGG
1 ACTTCGATGCAACCCTATATGG
121673 TCCTTCGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (23 bp):
ACTTCGATGCAACCCTATATGGA
Found at i:121779 original size:21 final size:21
Alignment explanation
Indices: 121755--121802 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
121745 TAGTACTCAA
121755 ATACCTAGATTTCTCAATAGT
1 ATACCTAGATTTCTCAATAGT
121776 ATACCTAGATTTCTCAATAGT
1 ATACCTAGATTTCTCAATAGT
121797 ATACCT
1 ATACCT
121803 TGGGCATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (21 bp):
ATACCTAGATTTCTCAATAGT
Found at i:123396 original size:23 final size:23
Alignment explanation
Indices: 123370--123427 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
123360 CATTTTATAT
*
123370 GGCACTTCGGTGCAATCCTATGC
1 GGCACTTCGGTGCAATCCTACGC
*
123393 GGCACTTCGGTGCAATCCTACGT
1 GGCACTTCGGTGCAATCCTACGC
123416 GGCACTTCGGTG
1 GGCACTTCGGTG
123428 TATTTATACG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (23 bp):
GGCACTTCGGTGCAATCCTACGC
Found at i:127791 original size:23 final size:23
Alignment explanation
Indices: 127765--127829 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
127755 TTTATATGAC
*
127765 ACTTCGATGCATTTCTACGCGGT
1 ACTTCGATGCATTTCTACGCGGA
* * * *
127788 ACTTCGGTGCAATCCTACGTGGA
1 ACTTCGATGCATTTCTACGCGGA
*
127811 ACTTC-AGTGCATTTATACG
1 ACTTCGA-TGCATTTCTACG
127830 AGCTGTGGTG
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (23 bp):
ACTTCGATGCATTTCTACGCGGA
Found at i:128785 original size:3 final size:3
Alignment explanation
Indices: 128777--128803 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
128767 AATTAAAAGT
128777 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
128804 CGAATCTCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:129321 original size:135 final size:132
Alignment explanation
Indices: 128991--129325 Score: 429
Period size: 132 Copynumber: 2.5 Consensus size: 132
128981 TGATTCATTC
*
128991 CACTATTCTTCAGGAAAGATTGAATATGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAAT
1 CACTACTCTTCAGGAAAGATTGAATATGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAAT
* * * *
129056 ATGAAGGAAGAAGAATTTGCTACACTACTATTTAGGGGAGATCAAACTCGAGAAAACTTGATTCA
66 ATGAAAGAAAAAGAATCTGCTACACTACTATTTAGGGGAGATCAAACTCGAGAAAACTTGATCCA
129121 CT
131 CT
* * * * * *
129123 CAATGCTCTTCAGGGAATATTGAATAAGAATCGATTTCCTTCACTGCTCTTCAGGAAGACCAAAT
1 CACTACTCTTCAGGAAAGATTGAATATGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAAT
* * * * * *
129188 TTGAAAGAAAAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAAACTTGAGAAAAATTTCGATC
66 ATGAAAGAAAAAGAATCTGCTACACTACTATTTAGGGGAGATCAAACTCGAG-AAAACTT-GATC
129253 CACTT
129 CAC-T
* * ** *
129258 CACTACTCTTCAGGAAAGATTTAAT-TGAACTTGATTTGCTTTGCTGTTCTTCAGGAAGACCAAA
1 CACTACTCTTCAGGAAAGATTGAATATGAA-TCGATTTGCTTCACTGCTCTTCAGGAAGACCAAA
129322 TATG
65 TATG
129326 TACTACAAGA
Statistics
Matches: 170, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
132 102 0.60
133 6 0.04
134 9 0.05
135 53 0.31
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (132 bp):
CACTACTCTTCAGGAAAGATTGAATATGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAAT
ATGAAAGAAAAAGAATCTGCTACACTACTATTTAGGGGAGATCAAACTCGAGAAAACTTGATCCA
CT
Found at i:129907 original size:32 final size:30
Alignment explanation
Indices: 129863--129923 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
129853 TTATTCCGCC
*
129863 ACTAAATATTTTTTATAACTTT-TTATTGTG
1 ACTAAATATTTTTTACAA-TTTGTTATTGTG
129893 ACTAAATAATTTTTTTACAATTTGTTATTGT
1 ACTAAAT-A-TTTTTTACAATTTGTTATTGT
129924 AAAAGAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 7 0.26
31 4 0.15
32 16 0.59
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (30 bp):
ACTAAATATTTTTTACAATTTGTTATTGTG
Found at i:130221 original size:25 final size:26
Alignment explanation
Indices: 130193--130241 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
130183 TTTTGATTAA
*
130193 ATAAAT-TTGTTACAATTTTTTTTCG
1 ATAAATATTGTGACAATTTTTTTTCG
130218 ATAAATATTGTGACAATTTTTTTT
1 ATAAATATTGTGACAATTTTTTTT
130242 TATAAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (26 bp):
ATAAATATTGTGACAATTTTTTTTCG
Found at i:131690 original size:2 final size:2
Alignment explanation
Indices: 131683--131709 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
131673 ATAATTGTGC
131683 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
131710 GGGATGGGCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131988 original size:23 final size:23
Alignment explanation
Indices: 131960--132006 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
131950 TAGCAGTCAA
131960 ATAAAGTATTATTTTTTGTCATG
1 ATAAAGTATTATTTTTTGTCATG
131983 ATAAAGTATTATTTTTTGTCATG
1 ATAAAGTATTATTTTTTGTCATG
132006 A
1 A
132007 GGAGATGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (23 bp):
ATAAAGTATTATTTTTTGTCATG
Found at i:134193 original size:174 final size:177
Alignment explanation
Indices: 133761--134242 Score: 409
Period size: 177 Copynumber: 2.7 Consensus size: 177
133751 ATATATGTTA
* * * * * * *
133761 TCACTATAGTTAAAATTTATAACTACAAATATAATTTGTCACAAAAACGTGAATATCATTATTTT
1 TCACTATAATTAAAATATATAACGACAAACAAAATTTGTCACAAAAACGTGAATCTCATTATTTG
* * * *
133826 TTGTGACAATGTTTTCTATAATAATTATTAACACTTATAGTTACAAAATTTGTCACTATATGATT
66 TTGTGA-ATTTTTTTCTACAATAATTATTAACACTTATAGTTACAAAATATGTCACTATATGATT
**
133891 TTTTTAACGCAAAACAATATGGAGGGAAATCTTTGTGACAATATTTTTG
130 TTTTTAACGCAAAACAATATGGA-GGAAATCTTTGTGACAATACATTTG
* *** * * *
133940 TCACTATAATT-AAA-ACATAACGACAAACACTGTTTTTTACTAAAAACTTGAATCTCATTA-TT
1 TCACTATAATTAAAATATATAACGACAAACAAAATTTGTCAC-AAAAACGTGAATCTCATTATTT
* * * *
134002 GTTCTGACAACTTTTTTTGTAACAATAATTA-T-A-GCTTATAGTTAC-AAATCATGTTACTATA
65 GTTGTG--AA-TTTTTTTCT-ACAATAATTATTAACACTTATAGTTACAAAAT-ATGTCACTATA
* *
134063 TGATTTTTTTTTAC-C-AAA-AAT-TGGA-GATAATCATTTGTGACTATACATTTG
125 TGA-TTTTTTTAACGCAAAACAATATGGAGGA-AATC-TTTGTGACAATACATTTG
*
134114 TCACTATAATTAAAATATATAATC-ACAAACAAAATTTGTCACAAAAAATC-TAAATCTCATTAT
1 TCACTATAATTAAAATATATAA-CGACAAACAAAATTTGTCAC-AAAAA-CGTGAATCTCATTAT
* * * * * *
134177 TTGTTGTGAATTTTTTTCCTGTC-ATAGTTACTAAAACTTTTAGTTACAAAAATTTGTCACTATA
63 TTGTTGTGAATTTTTTT-CT-ACAATAATTATTAACACTTATAGTTAC-AAAATATGTCACTATA
134241 TG
125 TG
134243 CCTTTAATTT
Statistics
Matches: 241, Mismatches: 42, Indels: 41
0.74 0.13 0.13
Matches are distributed among these distances:
172 2 0.01
173 4 0.02
174 43 0.18
175 11 0.05
176 42 0.17
177 66 0.27
178 42 0.17
179 22 0.09
180 9 0.04
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (177 bp):
TCACTATAATTAAAATATATAACGACAAACAAAATTTGTCACAAAAACGTGAATCTCATTATTTG
TTGTGAATTTTTTTCTACAATAATTATTAACACTTATAGTTACAAAATATGTCACTATATGATTT
TTTTAACGCAAAACAATATGGAGGAAATCTTTGTGACAATACATTTG
Found at i:134453 original size:15 final size:14
Alignment explanation
Indices: 134433--134466 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
134423 CCAAAAAGCT
134433 ATTAATAGTGACAAA
1 ATTAAT-GTGACAAA
*
134448 ATTAATTTGACAAA
1 ATTAATGTGACAAA
134462 ATTAA
1 ATTAA
134467 ATTTGTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (14 bp):
ATTAATGTGACAAA
Found at i:134460 original size:14 final size:15
Alignment explanation
Indices: 134441--134471 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
134431 CTATTAATAG
134441 TGACAAAATT-AATT
1 TGACAAAATTAAATT
134455 TGACAAAATTAAATT
1 TGACAAAATTAAATT
134470 TG
1 TG
134472 TCACAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (15 bp):
TGACAAAATTAAATT
Found at i:134975 original size:135 final size:133
Alignment explanation
Indices: 134498--135161 Score: 793
Period size: 135 Copynumber: 5.0 Consensus size: 133
134488 TTATTGTAGA
* * *
134498 AAGAAGAATCTGCTCCGCTACTTTTTAGGGGAGATCAAACTCGAGAAACTTTGATCCACTTCACT
1 AAGAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTGATCCACTTCACT
* * * * * ** * *
134563 GCTCTTTAGGGACGATGGAATCAGAATCGATTTGTTTTGCTGCTATTTAGGAAGACCAAATCTGA
66 GTTCTTCAGGGAAGATTGAATCAGAATTGATTTGTTTCACTGCTCTTCAGGAAGACCAAATCTGA
134628 AAG
131 AAG
* * * *
134631 AAGAAGAATCTCCTCTGCTACTCTTTAAGGGAGATCAGACTCGAG-AAATTTGATCCACTTCAAT
1 AAGAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTGATCCACTTCACT
* * * * *
134695 GCTCTTTAGGGAAGATTGAATCAGAATCGATTTG-TTCGCTGCTCTTCGGGAAGACCAAATCTG-
66 GTTCTTCAGGGAAGATTGAATCAGAATTGATTTGTTTCACTGCTCTTCAGGAAGACCAAATCTGA
134758 AAG
131 AAG
* *
134761 AAGAAGAATTTGCTCCGCTACTCTTTA-AGGAGATCAGACTCGAGAAAATTTTGATCCACTTCAC
1 AAGAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAA-TTTGATCCACTTCAC
* * *
134825 T-TCTCTTCAGGGAAGATTGAATCAGAATTGATTTGTTTCATTGCTCTTCAGGAAAACCAAATAT
65 TGT-TCTTCAGGGAAGATTGAATCAGAATTGATTTGTTTCACTGCTCTTCAGGAAGACCAAATCT
134889 GAAAG
129 GAAAG
* * * *
134894 AAGAAGAATCTACTTCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTCAATCAACTTCA
1 AAGAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAG-AAAATTT-GATCCACTTCA
* * * *
134959 CTGTTCTTCAGGGAAGATTGAATCAAAATTGATTTGCTTT-GCTGCTCCTCAGGAAGACCAAATA
64 CTGTTCTTCAGGGAAGATTGAATCAGAATTGATTTG-TTTCACTGCTCTTCAGGAAGACCAAATC
135023 TGAAAG
128 TGAAAG
* * ** * * * **
135029 AAAAAGAATCTGCTCCACTACTAATTGGGGGAGATCAAACTCGTGAAAATTTTGATTTACTTCAC
1 AAGAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAA-TTTGATCCACTTCAC
* * * *
135094 T-TCTCTTCAAGGAAGATTGAATCAGAATTGATTTGCTTCACTACTTTTCAGGAAGACCAAATCT
65 TGT-TCTTCAGGGAAGATTGAATCAGAATTGATTTGTTTCACTGCTCTTCAGGAAGACCAAATCT
135158 GAAA
129 GAAA
135162 TAATGACTCA
Statistics
Matches: 461, Mismatches: 57, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
129 16 0.03
130 30 0.07
131 70 0.15
132 73 0.16
133 70 0.15
134 87 0.19
135 111 0.24
136 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (133 bp):
AAGAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTGATCCACTTCACT
GTTCTTCAGGGAAGATTGAATCAGAATTGATTTGTTTCACTGCTCTTCAGGAAGACCAAATCTGA
AAG
Found at i:135223 original size:45 final size:45
Alignment explanation
Indices: 135159--135345 Score: 211
Period size: 45 Copynumber: 4.2 Consensus size: 45
135149 ACCAAATCTG
* *
135159 AAATAATGACTCATCTTCGCGAGAAAGTCAAGAAGGACAACACTA
1 AAATATTGACTCATCTTCGCGAGAAAGTCAAGAAGGACAACAATA
135204 AAATATTGACTCCA-CTTCGCGAGAAAGTCAATGAA-GACAACAATA
1 AAATATTGACT-CATCTTCGCGAGAAAGTCAA-GAAGGACAACAATA
* * * *
135249 AAAGACTGACTCCA-CTTCGCGAGAAAGTTAAAGAAGG-CAACACTA
1 AAATATTGACT-CATCTTCGCGAGAAAG-TCAAGAAGGACAACAATA
* * * * *
135294 GAATATTGACTCATATTCACGAGAAAGTCAAAAAGGAAAACAATA
1 AAATATTGACTCATCTTCGCGAGAAAGTCAAGAAGGACAACAATA
135339 AAATATT
1 AAATATT
135346 AAGAGATTGA
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
44 9 0.08
45 102 0.85
46 9 0.08
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.19
Consensus pattern (45 bp):
AAATATTGACTCATCTTCGCGAGAAAGTCAAGAAGGACAACAATA
Found at i:135267 original size:90 final size:90
Alignment explanation
Indices: 135165--135341 Score: 236
Period size: 90 Copynumber: 2.0 Consensus size: 90
135155 TCTGAAATAA
* * *
135165 TGACTCATCTTCGCGAGAAAG-TCAAGAAGGACAACACTAAAATATTGACTCCA-CTTCGCGAGA
1 TGACTCATCTTCGCGAGAAAGTTAAAGAAGG-CAACACTAAAATATTGACT-CATATTCACGAGA
* *
135228 AAGTCAATGAA-GACAACAATAAAAGAC
64 AAGTCAA-AAAGGAAAACAATAAAAGAC
*
135255 TGACTCCA-CTTCGCGAGAAAGTTAAAGAAGGCAACACTAGAATATTGACTCATATTCACGAGAA
1 TGACT-CATCTTCGCGAGAAAGTTAAAGAAGGCAACACTAAAATATTGACTCATATTCACGAGAA
135319 AGTCAAAAAGGAAAACAATAAAA
65 AGTCAAAAAGGAAAACAATAAAA
135342 TATTAAGAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
89 4 0.05
90 63 0.82
91 10 0.13
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (90 bp):
TGACTCATCTTCGCGAGAAAGTTAAAGAAGGCAACACTAAAATATTGACTCATATTCACGAGAAA
GTCAAAAAGGAAAACAATAAAAGAC
Found at i:135479 original size:38 final size:38
Alignment explanation
Indices: 135435--136047 Score: 719
Period size: 38 Copynumber: 15.8 Consensus size: 38
135425 AAGAAACACT
*
135435 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
135473 ACAGATTGACTTCTCTTCACGAGTAAGTCAAGAA-AAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
135510 AAAGATTGACTTCTTTTCACGAGGGAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
135548 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
** * *
135586 AAAGATCAACTTTTCTTCATGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* ** * * *
135624 ATTGAAAGATTGACTCCTCTTTGCAAGTG-AGTTAGGAATAAC
1 ----AAAGATTGACTTCTCTTCACGAG-GAAGTCAAGAATAAC
* *
135666 AAATATTGACTTCTCTTCACGAGGAAGTCAAGAGTTAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGA-ATAAC
* * *
135705 AAAGATTGACTTCTCTTCAAGAGAAAGTCAAGAATAAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
135743 AAAGATTGATTTCTCTTCACGATGAAGTCAA-AATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
135780 AAAGATCGAATTCTCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * * *
135818 ATTGAAAGATTGACTCCTCTTCGCGAGGGAGTCAGGAATAAC
1 ----AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
135860 AAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
135898 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAACAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
135936 ATTGAAAGATTGACTTTTTTTCACGAGGAAGTCAAAAATAAC
1 ----AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
** * *
135978 AAAGATTGACTTCTCTTCACGTTGAAGTCAAGAGTAGC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
136016 AAAAATTGACTTCTCTTCACGAGGAAGTCAAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAG
136048 TTGAAGCTTC
Statistics
Matches: 486, Mismatches: 72, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
37 67 0.14
38 292 0.60
39 34 0.07
42 92 0.19
43 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (38 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:135683 original size:118 final size:112
Alignment explanation
Indices: 135435--136047 Score: 681
Period size: 118 Copynumber: 5.3 Consensus size: 112
135425 AAGAAACACT
* * *
135435 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACACAGATTGACTTCTCTTCACGAGTAAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
* *
135500 TCAAGAA-AACAAAGATTGACTTCTTTTCACGAGGGAGTCAAGAATAAC
66 TCAAGAATAACAAAGATTGACTTCTCTTCA--AGTGAGTCAAGAATAAC
* ** * *
135548 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATCAACTTTTCTTCATGAGGAAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
* * *
135613 TCAAGAATAACATTGAAAGATTGACTCCTCTTTGCAAGTGAGTTAGGAATAAC
66 TCAAGAATAAC----AAAGATTGACTTCTC-TT-CAAGTGAGTCAAGAATAAC
* * * *
135666 AAATATTGACTTCTCTTCACGAGGAAGTCAAGAGTTAACAAAGATTGACTTCTCTTCAAGAGAAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGA-ATAACAAAGATTGACTTCTCTTCACGAGGAA
* * *
135731 GTCAAGAATAAAAAAGATTGATTTCTCTTCACGATGAAGTCAA-AATAAC
65 GTCAAGAATAACAAAGATTGACTTCTCTTCAAG-TG-AGTCAAGAATAAC
* * * *
135780 AAAGATCGAATTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCGCGAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AAAGATTGACTTCTCTTCACGAG
* * **
135845 GGAGTCAGGAATAACAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATAAC
62 GAAGTCAAGAATAACAAAGATTGACTTCTCTTCA--AGTGAGTCAAGAATAAC
* * *
135898 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAACAACATTGAAAGATTGACTTTTTTTCACGAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AAAGATTGACTTCTCTTCACGAG
* * * *
135963 GAAGTCAAAAATAACAAAGATTGACTTCTCTTCACGTTGAAGTCAAGAGTAGC
62 GAAGTCAAGAATAACAAAGATTGACTTCTCTTCAAG-TG-AGTCAAGAATAAC
*
136016 AAAAATTGACTTCTCTTCACGAGGAAGTCAAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAG
136048 TTGAAGCTTC
Statistics
Matches: 423, Mismatches: 58, Indels: 33
0.82 0.11 0.06
Matches are distributed among these distances:
113 71 0.17
114 43 0.10
115 17 0.04
116 1 0.00
117 55 0.13
118 195 0.46
119 39 0.09
120 2 0.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (112 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
TCAAGAATAACAAAGATTGACTTCTCTTCAAGTGAGTCAAGAATAAC
Found at i:143427 original size:19 final size:19
Alignment explanation
Indices: 143403--143442 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
143393 GACTAATTTC
143403 AATTAAACTAAAATAATAA
1 AATTAAACTAAAATAATAA
*
143422 AATTAAATTAAAATAATAA
1 AATTAAACTAAAATAATAA
143441 AA
1 AA
143443 AATTATTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
AATTAAACTAAAATAATAA
Found at i:145467 original size:6 final size:6
Alignment explanation
Indices: 145458--145522 Score: 121
Period size: 6 Copynumber: 10.8 Consensus size: 6
145448 TATTGTACGT
*
145458 GTATGC GTATGC ATATGC GTATGC GTATGC GTATGC GTATGC GTATGC
1 GTATGC GTATGC GTATGC GTATGC GTATGC GTATGC GTATGC GTATGC
145506 GTATGC GTATGC GTATG
1 GTATGC GTATGC GTATG
145523 TATGCTTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.18, C:0.15, G:0.32, T:0.34
Consensus pattern (6 bp):
GTATGC
Found at i:146139 original size:46 final size:46
Alignment explanation
Indices: 146079--146253 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
146069 ACATACCAAT
* * * *
146079 GTATTCTTACCGAATGATAATTCTAATAACCAAATAATATGTAGGA
1 GTATCCTTATCGAATGATAATTCTAATAACCGAATAATATGTTGGA
* * *
146125 GTATCCTTATCGAATGGTAATTCTAATAACCGAATAATAGGTTGAA
1 GTATCCTTATCGAATGATAATTCTAATAACCGAATAATATGTTGGA
* * * * * * *
146171 ATATCCTTATC-ATATGGTAATT-TCAATGACTGGATAATTTGTTGGT
1 GTATCCTTATCGA-ATGATAATTCT-AATAACCGAATAATATGTTGGA
* **
146217 GCATTATTATCGAATGATAATTCTAATAACCGAATAA
1 GTATCCTTATCGAATGATAATTCTAATAACCGAATAA
146254 CAAACTGATG
Statistics
Matches: 102, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
45 2 0.02
46 98 0.96
47 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (46 bp):
GTATCCTTATCGAATGATAATTCTAATAACCGAATAATATGTTGGA
Found at i:146475 original size:38 final size:38
Alignment explanation
Indices: 146433--146546 Score: 219
Period size: 38 Copynumber: 3.0 Consensus size: 38
146423 CATTGCATTA
146433 ATCATGTTTGATGTTGTATCAATATTTTATGTCTAAAT
1 ATCATGTTTGATGTTGTATCAATATTTTATGTCTAAAT
*
146471 ATCATGTTTGATGTTGTATCTATATTTTATGTCTAAAT
1 ATCATGTTTGATGTTGTATCAATATTTTATGTCTAAAT
146509 ATCATGTTTGATGTTGTATCAATATTTTATGTCTAAAT
1 ATCATGTTTGATGTTGTATCAATATTTTATGTCTAAAT
146547 TATAGCTTAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 74 1.00
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (38 bp):
ATCATGTTTGATGTTGTATCAATATTTTATGTCTAAAT
Found at i:149502 original size:20 final size:19
Alignment explanation
Indices: 149479--149531 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
149469 CTTTAAGGAG
149479 AGTTTCAAAACTTTGATGAA
1 AGTTTCAAAACTTTGA-GAA
*
149499 AGTTTTAAAACTATTGAGAA
1 AGTTTCAAAACT-TTGAGAA
* *
149519 AATTTCGAAACTT
1 AGTTTCAAAACTT
149532 CTATAATAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 23 0.82
21 4 0.14
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (19 bp):
AGTTTCAAAACTTTGAGAA
Found at i:159115 original size:21 final size:21
Alignment explanation
Indices: 159089--159144 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
159079 GTTGGACTTT
159089 ACCGTACTACCTTCAACAAGG
1 ACCGTACTACCTTCAACAAGG
159110 ACCGTACTACCTTCAACAAGG
1 ACCGTACTACCTTCAACAAGG
*
159131 ACCGTACTATCTTC
1 ACCGTACTACCTTC
159145 TAATCTTTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.23
Consensus pattern (21 bp):
ACCGTACTACCTTCAACAAGG
Found at i:161900 original size:31 final size:31
Alignment explanation
Indices: 161862--162038 Score: 129
Period size: 31 Copynumber: 5.3 Consensus size: 31
161852 AAACTATCTA
161862 TTTGGTCACTTATATATTATCTAATTTATGT
1 TTTGGTCACTTATATATTATCTAATTTATGT
** ** **
161893 TTTGGTCACTTGATTATTATTTAGGGTAAACTACCT
1 TTTGGTCACTT-A-TA-TA-TTA-TCTAATTTATGT
161929 ATTTGGTCACTTATATATTATCTAATTTATGT
1 -TTTGGTCACTTATATATTATCTAATTTATGT
* ** ** **
161961 TTTGGTCACTCAATTATTATTTAGGGTAAACTACCT
1 TTTGGTCACT-TA-TA-TA-TTA-TCTAATTTATGT
161997 ATTTGGTCACTTATATATTATCTAATTTATGT
1 -TTTGGTCACTTATATATTATCTAATTTATGT
162029 TTTGGTCACT
1 TTTGGTCACT
162039 CGATTATTTT
Statistics
Matches: 108, Mismatches: 26, Indels: 24
0.68 0.16 0.15
Matches are distributed among these distances:
31 31 0.29
32 14 0.13
33 10 0.09
34 8 0.07
35 10 0.09
36 14 0.13
37 21 0.19
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.49
Consensus pattern (31 bp):
TTTGGTCACTTATATATTATCTAATTTATGT
Found at i:161947 original size:68 final size:68
Alignment explanation
Indices: 161844--162046 Score: 370
Period size: 68 Copynumber: 3.0 Consensus size: 68
161834 AATTGAATTT
* * *
161844 TTTATGGTAAACTATCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTTGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
161909 TTA
66 TTA
*
161912 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
161977 TTA
66 TTA
161980 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
162045 TT
66 TT
162047 TTTTTCCAAA
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 130 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (68 bp):
TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
TTA
Found at i:161948 original size:37 final size:37
Alignment explanation
Indices: 161893--162017 Score: 122
Period size: 37 Copynumber: 3.5 Consensus size: 37
161883 TAATTTATGT
161893 TTTGGTCACTTGAT-TATTATTTAGGGTAAACTACCTA
1 TTTGGTCACTT-ATATATTATTTAGGGTAAACTACCTA
* ** **
161930 TTTGGTCACTTATATATTA--T---CTAATTTATGT-
1 TTTGGTCACTTATATATTATTTAGGGTAAACTACCTA
*
161961 TTTGGTCACTCA-ATTATTATTTAGGGTAAACTACCTA
1 TTTGGTCACTTATA-TATTATTTAGGGTAAACTACCTA
161998 TTTGGTCACTTATATATTAT
1 TTTGGTCACTTATATATTAT
162018 CTAATTTATG
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
30 1 0.01
31 16 0.24
32 6 0.09
33 1 0.01
35 1 0.01
36 8 0.12
37 33 0.49
38 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (37 bp):
TTTGGTCACTTATATATTATTTAGGGTAAACTACCTA
Found at i:164235 original size:159 final size:156
Alignment explanation
Indices: 164031--164445 Score: 452
Period size: 159 Copynumber: 2.6 Consensus size: 156
164021 TTTTTATAAA
* * * * *
164031 TTATAAATAAAATATTTATTTA--TTTAAAACATCAGAA-AATGACATCTAGTTGCTTTAAGACT
1 TTATAAATCAGATATTTATTTATTTTTAAAATATCAGAATAGT-ACATCTAGTT-ATTTAAGACT
*
164093 GCTCTTTCTTAATATTTGAAAAATAAATAAATATT-A-AA-AATAATAAT-TTTTCCTAAGAAAA
64 GCCCTTTCTTAATATTT-AAAAATAAATAAATATTAAGAAGAAT-ATAATATTTTCCTAA-AAAA
** * * *
164154 TAATTTAAATAAAACAATATGTATTTTCTGATTT
126 TAATAAAAATAAAACAA-ATATA-TATAT-ATTT
*
164188 TTATAAGT-AGGATATTTATTTATTTTTAAAATATCAGAATAGTACATCTAGTTATATTAAGACT
1 TTATAAATCA-GATATTTATTTATTTTTAAAATATCAGAATAGTACATCTAGTTAT-TTAAGACT
* * *
164252 TCCCTTTTCTTTAATA-TTAAAAATAAATAAATATTAAGAAGAATATAATGATTTTTCTTAAAAA
64 GCCC-TTTC-TTAATATTTAAAAATAAATAAATATTAAGAAGAATATAAT-ATTTTCCTAAAAAA
**
164316 TAATAAAAATAAAGTAAATATATATATATTT
126 TAATAAAAATAAAACAAATATATATATATTT
* *
164347 TTATAAATCAGATATTTATTTATTTTTAAAATACCAGAATAGGACATCTAGTTATTTTAAGACTG
1 TTATAAATCAGATATTTATTTATTTTTAAAATATCAGAATAGTACATCTAGTTA-TTTAAGACTG
* *
164412 CCCTTACTGAATATTTAAAAATAAATAAATATTA
65 CCCTTTCTTAATATTTAAAAATAAATAAATATTA
164446 TTATTTAATT
Statistics
Matches: 221, Mismatches: 22, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
156 1 0.00
157 23 0.10
158 24 0.11
159 115 0.52
160 14 0.06
161 17 0.08
162 20 0.09
163 7 0.03
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (156 bp):
TTATAAATCAGATATTTATTTATTTTTAAAATATCAGAATAGTACATCTAGTTATTTAAGACTGC
CCTTTCTTAATATTTAAAAATAAATAAATATTAAGAAGAATATAATATTTTCCTAAAAAATAATA
AAAATAAAACAAATATATATATATTT
Found at i:164339 original size:41 final size:41
Alignment explanation
Indices: 164268--164348 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
164258 TTCTTTAATA
* *
164268 TTAAAAATAAATAAATATTAAGAAGAATATA-ATGATTTTTC
1 TTAAAAATAAATAAAAATAAAGAAGAATATATAT-ATTTTTC
164309 TTAAAAAT-AATAAAAATAAAGTAA-ATATATATATATTTTT
1 TTAAAAATAAATAAAAATAAAG-AAGA-ATATATATATTTTT
164349 ATAAATCAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 12 0.34
41 21 0.60
42 2 0.06
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (41 bp):
TTAAAAATAAATAAAAATAAAGAAGAATATATATATTTTTC
Found at i:165710 original size:3 final size:3
Alignment explanation
Indices: 165702--165740 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
165692 GCCTTGTAAT
165702 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA -AA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
165741 AAGTAAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.18
3 28 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:165722 original size:15 final size:15
Alignment explanation
Indices: 165702--165740 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
165692 GCCTTGTAAT
165702 TAATAATAATAATAA
1 TAATAATAATAATAA
165717 TAATAAT-ATAATAA
1 TAATAATAATAATAA
165731 -AA-AATAATAA
1 TAATAATAATAA
165741 AAGTAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.13
13 6 0.26
14 7 0.30
15 7 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:165738 original size:21 final size:21
Alignment explanation
Indices: 165698--165758 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
165688 TTGGGCCTTG
165698 TAAT-TAATAATAATAATAATAA
1 TAATATAATAA-AA-AATAATAA
165720 TAATATAATAAAAAATAATAA
1 TAATATAATAAAAAATAATAA
* *
165741 -AAGTAAAATGAAAAATAA
1 TAA-TATAATAAAAAATAA
165759 CTGTCTACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 2 0.06
21 21 0.60
22 6 0.17
23 6 0.17
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
TAATATAATAAAAAATAATAA
Found at i:166188 original size:76 final size:76
Alignment explanation
Indices: 166045--166518 Score: 695
Period size: 76 Copynumber: 6.3 Consensus size: 76
166035 GAGGTCTTAT
* * * * * *
166045 CATCTTGCACTGTAGGTCTTACAGATGACCCAAAGG-TTT-TAAATATCAAAAAGCTCTCGAAGG
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGG
166108 CTTTTTGAAAA
66 CTTTTTGAAAA
* * * * *
166119 CATCATGCACTGTAGGTCTTA-ATTATGACCCGAAGACTTTGAAAACATCAAAAAGCTCCCGAAG
1 CATCATGCACTGAAGGGCTTACA-GATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAG
166183 GCTTTTTGAAAA
65 GCTTTTTGAAAA
* * *
166195 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATAAAAAAGCTTCCGAAGG
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGG
166260 CTTTTTGAAAA
66 CTTTTTGAAAA
* * *
166271 CATTATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGG
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGG
166336 CTTTTTGAAAA
66 CTTTTTGAAAA
* * *
166347 CATCATACATTGAAGGGCTTACAGATGACCCAAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGG
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGG
166412 CTTTTTGAAAA
66 CTTTTTGAAAA
166423 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTG-AAATATCAAAAAGCTCCCGAAGG
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGG
*
166487 CTTTTTAAAAA
66 CTTTTTGAAAA
* * *
166498 CATCCTGCACTGTAGGTCTTA
1 CATCATGCACTGAAGGGCTTA
166519 TGGATGGCCC
Statistics
Matches: 366, Mismatches: 30, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
73 1 0.00
74 30 0.08
75 54 0.15
76 280 0.77
77 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (76 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGG
CTTTTTGAAAA
Found at i:166603 original size:190 final size:191
Alignment explanation
Indices: 166364--166714 Score: 562
Period size: 190 Copynumber: 1.8 Consensus size: 191
166354 CATTGAAGGG
166364 CTTACAGATGACCCAAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGC-TTTTTGAAAACATCA
1 CTTACAGATGACCCAAAGGCTTT--AAATATCAAAAAGCTCCCGAAGGCTTTTTTGAAAACATCA
*
166428 TGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAATATCAAAAAGCTCCCGAAGGCTTTTT
64 TGCACTGAAGGGCTTACAGATGACCCGAAGGCTTT-AAATATCAAAAAGCTCCCGAAGACTTTTT
166493 AAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACACTGTAGGT
128 AAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACACTGTAGGT
** * *
166557 CTTACAGATGACCCGGAGGCTTT-AATATCAAAAAGCTCCTGAAGGCTTTTTTGAAAACATCTTG
1 CTTACAGATGACCCAAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTTGAAAACATCATG
* * * * * *
166621 CACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAATAAGCTCCTGAAGACTTTTTGAA
66 CACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGACTTTTTAAA
166686 AACATCCTGCACTGTAGGTCTTATGGATG
131 AACATCCTGCACTGTAGGTCTTATGGATG
166715 TGGGAAATAG
Statistics
Matches: 146, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
190 79 0.54
191 46 0.32
193 21 0.14
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (191 bp):
CTTACAGATGACCCAAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTTGAAAACATCATG
CACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGACTTTTTAAA
AACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACACTGTAGGT
Found at i:166682 original size:74 final size:74
Alignment explanation
Indices: 166540--166708 Score: 286
Period size: 74 Copynumber: 2.3 Consensus size: 74
166530 GAGGTCTTAT
* *
166540 CATCTTACACTGTAGGTCTTACAGATGACCCGGAGGCTTTAATATCAAAAAGCTCCTGAAGGCTT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAATATCAAAAAGCTCCTGAAGACTT
166605 TTTTGAAAA
66 TTTTGAAAA
*
166614 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAATAAGCTCCTGAAGAC-
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTT-AATATCAAAAAGCTCCTGAAGACT
166678 TTTTTGAAAA
65 TTTTTGAAAA
*
166688 CATCCTGCACTGTAGGTCTTA
1 CATCTTGCACTGTAGGTCTTA
166709 TGGATGTGGG
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
74 69 0.77
75 21 0.23
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (74 bp):
CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAATATCAAAAAGCTCCTGAAGACTT
TTTTGAAAA
Found at i:167432 original size:22 final size:22
Alignment explanation
Indices: 167377--167434 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
167367 AATAAAGCTT
*
167377 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
167399 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
167421 TCATCTTTGAAGAG
1 TCATCTTTGAAGAG
167435 TGTAGATGTA
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:167878 original size:54 final size:54
Alignment explanation
Indices: 167795--168004 Score: 287
Period size: 54 Copynumber: 3.9 Consensus size: 54
167785 CAAAATAATT
* * *
167795 GGTTCGTAAAAACATTTGACAACACATTCATCGTCTCATGTGGTTTCTTTCCAGA
1 GGTTCGT-AAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTTTCCAGA
*
167850 GGTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTC-TGCACAGA
1 GGTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTTTC-CAGA
* * * * * *
167904 TGTTCATAAAACATTTGACAACACATTCATCTTTTCTTGTGGCTTCTATCCAGA
1 GGTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTTTCCAGA
* *
167958 GGTTCGTAAAACATTTGATAGCACATTCATCATTTCCTGTGGTTTCT
1 GGTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCT
168005 GCCCATATTT
Statistics
Matches: 135, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
53 2 0.01
54 125 0.93
55 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (54 bp):
GGTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTTTCCAGA
Found at i:167992 original size:108 final size:108
Alignment explanation
Indices: 167803--168006 Score: 345
Period size: 108 Copynumber: 1.9 Consensus size: 108
167793 TTGGTTCGTA
* *
167803 AAAACATTTGACAACACATTCATCGTCTCATGTGGTTTCTTTCCAGAGGTTCGTAAAACATTTGA
1 AAAACATTTGACAACACATTCATCGTCTCATGTGGCTTCTATCCAGAGGTTCGTAAAACATTTGA
167868 CAACACATTCATCATTTCCTGTGGTTTCTGCACAGATGTTCAT
66 CAACACATTCATCATTTCCTGTGGTTTCTGCACAGATGTTCAT
* * *
167911 AAAACATTTGACAACACATTCATCTTTTCTTGTGGCTTCTATCCAGAGGTTCGTAAAACATTTGA
1 AAAACATTTGACAACACATTCATCGTCTCATGTGGCTTCTATCCAGAGGTTCGTAAAACATTTGA
* *
167976 TAGCACATTCATCATTTCCTGTGGTTTCTGC
66 CAACACATTCATCATTTCCTGTGGTTTCTGC
168007 CCATATTTCT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 89 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (108 bp):
AAAACATTTGACAACACATTCATCGTCTCATGTGGCTTCTATCCAGAGGTTCGTAAAACATTTGA
CAACACATTCATCATTTCCTGTGGTTTCTGCACAGATGTTCAT
Found at i:168995 original size:75 final size:75
Alignment explanation
Indices: 168868--169028 Score: 232
Period size: 75 Copynumber: 2.1 Consensus size: 75
168858 GGGCCTTCAG
** ** * *
168868 CAGCATTTGCTGATATGAACATTCAAAATACATCAATATTCCTGATTCTGATTGAAATGGTCTTT
1 CAGCATTTGCTGATACAAATGTTCAAAATACATCAATATTCCTGATTATGATTGAAATGGGCTTT
168933 CAACATGCCC
66 CAACATGCCC
* * *
168943 CAGTATTTGCTGATACAAATGTTCAAAATGCGTCAATATTCCTGATTATGATTGAAATGGGCTTT
1 CAGCATTTGCTGATACAAATGTTCAAAATACATCAATATTCCTGATTATGATTGAAATGGGCTTT
*
169008 CAGCATGCCC
66 CAACATGCCC
169018 CAGCATTTGCT
1 CAGCATTTGCT
169029 TTTTTTGTTG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (75 bp):
CAGCATTTGCTGATACAAATGTTCAAAATACATCAATATTCCTGATTATGATTGAAATGGGCTTT
CAACATGCCC
Found at i:170942 original size:27 final size:26
Alignment explanation
Indices: 170904--171015 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 26
170894 TTGATTCAAT
*
170904 TTTTTCTTCTTTCCTTTTTCTTTTTTC
1 TTTTTCTTCTTT-CTTTCTCTTTTTTC
170931 TTTTTCTTCTTTCTCTTCT-TTTTCATCTC
1 TTTTTCTTCTTTCT-TTCTCTTTT--T-TC
*
170960 TTCTTTCTT-TTTC-ATCTCTTTTTTC
1 TT-TTTCTTCTTTCTTTCTCTTTTTTC
*
170985 TTTTTTTTCTTT-TTTCTCTTTTTTC
1 TTTTTCTTCTTTCTTTCTCTTTTTTC
171010 TCTTTT
1 T-TTTT
171016 TTCCGATGAA
Statistics
Matches: 72, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
24 5 0.07
25 19 0.26
26 11 0.15
27 18 0.25
28 5 0.07
29 8 0.11
30 6 0.08
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTTTCTTCTTTCTTTCTCTTTTTTC
Found at i:170951 original size:36 final size:33
Alignment explanation
Indices: 170905--171010 Score: 108
Period size: 36 Copynumber: 3.0 Consensus size: 33
170895 TGATTCAATT
170905 TTTTCTTCTTTCCTTTTTCTTTTTTCTTTTTCTTC
1 TTTTCTTCTTT--TTTTTCTTTTTTCTTTTTCTTC
* *
170940 TTTCTCTTCTTTTTCATCTCTTCTTTCTTTTTCATCTC
1 TTT-TCTTCTTTTT--TTTCTTTTTTCTTTTTC-T-TC
170978 TTTT-TTCTTTTTTTTCTTTTTTCTCTTTT-TTC
1 TTTTCTTCTTTTTTTTCTTTTTTCT-TTTTCTTC
171010 T
1 T
171011 CTTTTTTCCG
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
32 3 0.05
33 1 0.02
34 12 0.20
35 7 0.11
36 31 0.51
37 2 0.03
38 5 0.08
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (33 bp):
TTTTCTTCTTTTTTTTCTTTTTTCTTTTTCTTC
Found at i:171015 original size:7 final size:6
Alignment explanation
Indices: 170904--171016 Score: 58
Period size: 6 Copynumber: 18.8 Consensus size: 6
170894 TTGATTCAAT
*
170904 TTTTTC TTCTTTCC TTTTTC TTTTTTC TTTTTC TTCTTTC -TCTTC TTTTTC
1 TTTTTC TT-TTT-C TTTTTC -TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC
* * * * *
170955 -ATCTC TTCTTTC TTTTTC -ATCTC TTTTT- TCTTT- TTTTTC TTTTTTC
1 TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC
* *
171001 TCTTT- TTTCTC TTTTT
1 TTTTTC TTTTTC TTTTT
171017 TCCGATGAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 20 0.25
6 30 0.38
7 27 0.34
8 3 0.04
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:171016 original size:27 final size:29
Alignment explanation
Indices: 170903--171017 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 29
170893 CTTGATTCAA
* *
170903 TTTTTTCTTC-TT-TC-CTTTTTCTTTTT
1 TTTTTTCTTCTTTCTCTCTTTTTCATCTT
*
170929 TCTTTTTCTTCTTTCTCTTCTTTTTCATCTC
1 T-TTTTTCTTCTTTCTC-TCTTTTTCATCTT
*
170960 TTCTTTCTT-TTTCATCTCTTTTT--TCTT
1 TTTTTTCTTCTTTC-TCTCTTTTTCATCTT
*
170987 TTTTTTCTTTTTTCTCT-TTTTTC-TCTT
1 TTTTTTCTTCTTTCTCTCTTTTTCATCTT
171014 TTTT
1 TTTT
171018 CCGATGAATG
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
26 6 0.08
27 31 0.41
28 6 0.08
29 13 0.17
30 9 0.12
31 10 0.13
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (29 bp):
TTTTTTCTTCTTTCTCTCTTTTTCATCTT
Found at i:171017 original size:9 final size:9
Alignment explanation
Indices: 170903--171018 Score: 82
Period size: 9 Copynumber: 12.8 Consensus size: 9
170893 CTTGATTCAA
170903 TTTTTTCTTC
1 TTTTTTC-TC
*
170913 TTTCCTTTTTC
1 TTT--TTTCTC
170924 TTTTTTCT-
1 TTTTTTCTC
170932 TTTTCTTCT-
1 TTTT-TTCTC
*
170941 TTCTCTTCT-
1 TT-TTTTCTC
*
170950 TTTTCATCTC
1 TTTT-TTCTC
*
170960 TTCTTTCT-
1 TTTTTTCTC
*
170968 TTTTCATCTC
1 TTTT-TTCTC
170978 TTTTTTCT-
1 TTTTTTCTC
170986 TTTTTT-TC
1 TTTTTTCTC
170994 TTTTTTCTC
1 TTTTTTCTC
171003 TTTTTTCTC
1 TTTTTTCTC
171012 TTTTTTC
1 TTTTTTC
171019 CGATGAATGA
Statistics
Matches: 86, Mismatches: 10, Indels: 21
0.74 0.09 0.18
Matches are distributed among these distances:
7 1 0.01
8 20 0.23
9 46 0.53
10 11 0.13
11 5 0.06
12 3 0.03
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:176697 original size:159 final size:156
Alignment explanation
Indices: 176494--176905 Score: 424
Period size: 159 Copynumber: 2.6 Consensus size: 156
176484 TTTTTATAAA
* * * *
176494 TTATAAATAAAATATTTATTTA--TTTAAAACATCAGAAAAAGACATCTAGTTGCTTTAAGACTG
1 TTATAAATAAGATATTTATTTATTTTTAAAATATCAGAATAAGACATCTAGTT-ATTTAAGACTG
176557 CCCTTTCTTAATATTTGAAAAATAAATAAATATT-A-AA-AATAATAA-ATTTTCCTAAGAAAAT
65 CCCTTTCTTAATATTT-AAAAATAAATAAATATTAAGAAGAAT-ATAAGATTTTCCTAA-AAAAT
** * * * * *
176618 AATTTAAATAAAACAATATGTATTTTCTGGTTT
127 AATAAAAAT-AAACAATATATA-TATAT-ATAT
* * * * * *
176651 TTATAAGTAGGATATTTTTTTATTTTTAAAATATCAGAATATGACATCTAATTATACTAAGACTG
1 TTATAAATAAGATATTTATTTATTTTTAAAATATCAGAATAAGACATCTAGTTAT-TTAAGACTG
** * * *
176716 TCATTTTCTTTGATA-TTAAAAATAAATAAATATTAAGAAGAATATAATGATTTTTCTTAAAAAT
65 -CCCTTTC-TTAATATTTAAAAATAAATAAATATTAAGAAGAATATAA-GATTTTCCTAAAAAAT
***
176780 AATAAAAATAATGTATATATATATATATAT
127 AATAAAAATAAACAATATATATATATATAT
176810 TTATAAATAAGATATTTATTTATTTTTAAAATATCAGAATAAGACATCTAGTTATTTTAAGACTG
1 TTATAAATAAGATATTTATTTATTTTTAAAATATCAGAATAAGACATCTAGTTA-TTTAAGACTG
* *
176875 CCCTTACTGAATATTTAAAAATAAATAAATA
65 CCCTTTCTTAATATTTAAAAATAAATAAATA
176906 ATATTATTTA
Statistics
Matches: 207, Mismatches: 36, Indels: 23
0.78 0.14 0.09
Matches are distributed among these distances:
157 22 0.11
158 22 0.11
159 109 0.53
160 12 0.06
161 19 0.09
162 15 0.07
163 8 0.04
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (156 bp):
TTATAAATAAGATATTTATTTATTTTTAAAATATCAGAATAAGACATCTAGTTATTTAAGACTGC
CCTTTCTTAATATTTAAAAATAAATAAATATTAAGAAGAATATAAGATTTTCCTAAAAAATAATA
AAAATAAACAATATATATATATATAT
Found at i:178162 original size:3 final size:3
Alignment explanation
Indices: 178154--178204 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
178144 GCCTTGTAAT
*
178154 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA T-A TAA -AA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
178199 TAA TAA
1 TAA TAA
178205 AAGTAGAGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
2 6 0.14
3 38 0.86
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:178178 original size:17 final size:17
Alignment explanation
Indices: 178156--178204 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
178146 CTTGTAATTA
178156 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
178173 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
*
178190 ATAA-AAAAATAATAA
1 ATAATAATAATAATAA
178205 AAGTAGAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 10 0.32
17 21 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:181537 original size:30 final size:30
Alignment explanation
Indices: 181501--181560 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
181491 GACTTGTGCC
181501 TATTCTAGATATAAAGGACAAAAGGATGTA
1 TATTCTAGATATAAAGGACAAAAGGATGTA
181531 TATTCTAGATATAAAGGACAAAAGGATGTA
1 TATTCTAGATATAAAGGACAAAAGGATGTA
181561 ATACATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (30 bp):
TATTCTAGATATAAAGGACAAAAGGATGTA
Found at i:194891 original size:2 final size:2
Alignment explanation
Indices: 194886--194925 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
194876 TTCTAAAAAC
*
194886 AT AT AT A- AT AT AT AT AT AT AT AT -T AA AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
194925 A
1 A
194926 GTTTTTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:194906 original size:15 final size:15
Alignment explanation
Indices: 194886--194925 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
194876 TTCTAAAAAC
*
194886 ATATATAATATATAT
1 ATATATAATATAAAT
194901 ATATAT-AT-TAAAT
1 ATATATAATATAAAT
194914 ATATATAATATA
1 ATATATAATATA
194926 GTTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 10 0.45
14 4 0.18
15 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATAATATAAAT
Found at i:194994 original size:21 final size:20
Alignment explanation
Indices: 194892--194993 Score: 82
Period size: 21 Copynumber: 4.9 Consensus size: 20
194882 AAACATATAT
* *
194892 AATATAT-ATATATATATTAA
1 AATATATAATATAT-TTTTGA
194912 ATATATATAATATAGTTTTTGAA
1 A-ATATATAATATA-TTTTTG-A
* *
194935 AACATATTATATATTTTTGTA
1 AATATATAATATATTTTTG-A
*
194956 AATATATAATATAGTTTTGA
1 AATATATAATATATTTTTGA
*
194976 AAGTATATCATAT-TTTTT
1 AA-TATATAATATATTTTT
194994 TAATTTATAG
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
20 8 0.12
21 38 0.57
22 18 0.27
23 3 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (20 bp):
AATATATAATATATTTTTGA
Found at i:196170 original size:31 final size:31
Alignment explanation
Indices: 196113--196171 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
196103 TTAGGTCTAT
* *
196113 AAGGAATTACCAGTCAATGCTAAACCTATAC
1 AAGGAATTACCAGACAAAGCTAAACCTATAC
*
196144 AAGGAATTACCA-ACAAAGACTGAACCTA
1 AAGGAATTACCAGACAAAG-CTAAACCTA
196172 GCAGTGTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.19
Consensus pattern (31 bp):
AAGGAATTACCAGACAAAGCTAAACCTATAC
Found at i:211655 original size:27 final size:27
Alignment explanation
Indices: 211592--211655 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
211582 AAGGTGAGAT
* *
211592 AAAAC-ATAAAAGATCATAATTACTTC
1 AAAACAATAAAACATCATAAATACTTC
* *
211618 AAAATATTAAAACATCATAAATACTTC
1 AAAACAATAAAACATCATAAATACTTC
211645 AAAACAATAAA
1 AAAACAATAAA
211656 TATAACTCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAACAATAAAACATCATAAATACTTC
Found at i:214833 original size:18 final size:18
Alignment explanation
Indices: 214801--214835 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
214791 TTGGATCGAT
**
214801 TTTAAATTTTTATTTTTA
1 TTTAAATTTAAATTTTTA
214819 TTTAAATTTAAATTTTT
1 TTTAAATTTAAATTTTT
214836 GTGATTAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAAATTTAAATTTTTA
Found at i:221182 original size:2 final size:2
Alignment explanation
Indices: 221175--221212 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
221165 GAGATAGTTT
221175 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
221213 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:223313 original size:3 final size:3
Alignment explanation
Indices: 223305--223330 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
223295 TTTATTTACT
223305 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
223331 TCTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Done.