Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000215.1 Hibiscus syriacus cultivar Beakdansim tig00000383_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: 166501
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:9487 original size:15 final size:15
Alignment explanation
Indices: 9467--9498 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9457 AGTCGCCCCT
9467 CCTCCTCCTCCACCA
1 CCTCCTCCTCCACCA
*
9482 CCTCCTCCTCCTCCA
1 CCTCCTCCTCCACCA
9497 CC
1 CC
9499 ACGGCCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.69, G:0.00, T:0.22
Consensus pattern (15 bp):
CCTCCTCCTCCACCA
Found at i:9487 original size:18 final size:18
Alignment explanation
Indices: 9464--9500 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9454 CGTAGTCGCC
9464 CCTCCTCCTCCTCCACCA
1 CCTCCTCCTCCTCCACCA
9482 CCTCCTCCTCCTCCACCA
1 CCTCCTCCTCCTCCACCA
9500 C
1 C
9501 GGCCCAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.68, G:0.00, T:0.22
Consensus pattern (18 bp):
CCTCCTCCTCCTCCACCA
Found at i:15012 original size:11 final size:11
Alignment explanation
Indices: 14992--15030 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
14982 TTTAGTGGGC
14992 GGGCGGATGCG
1 GGGCGGATGCG
*
15003 GGGTGGATGCG
1 GGGCGGATGCG
*
15014 GGGCGGATACG
1 GGGCGGATGCG
15025 GGGCGG
1 GGGCGG
15031 GTAAGGTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.10, C:0.15, G:0.64, T:0.10
Consensus pattern (11 bp):
GGGCGGATGCG
Found at i:16068 original size:11 final size:11
Alignment explanation
Indices: 16054--16102 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
16044 TTTGTTAGAG
16054 TGTTATTAGTT
1 TGTTATTAGTT
*
16065 TGTTA-TGGTT
1 TGTTATTAGTT
*
16075 TGTTATTAGCT
1 TGTTATTAGTT
*
16086 TGTTATTTGTT
1 TGTTATTAGTT
16097 TGTTAT
1 TGTTAT
16103 GCTTTGTTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.14, C:0.02, G:0.20, T:0.63
Consensus pattern (11 bp):
TGTTATTAGTT
Found at i:16080 original size:21 final size:22
Alignment explanation
Indices: 16054--16102 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
16044 TTTGTTAGAG
*
16054 TGTTATTAGTTTGTTA-TGGTT
1 TGTTATTAGCTTGTTATTGGTT
*
16075 TGTTATTAGCTTGTTATTTGTT
1 TGTTATTAGCTTGTTATTGGTT
16097 TGTTAT
1 TGTTAT
16103 GCTTTGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.14, C:0.02, G:0.20, T:0.63
Consensus pattern (22 bp):
TGTTATTAGCTTGTTATTGGTT
Found at i:18812 original size:31 final size:31
Alignment explanation
Indices: 18735--18820 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
18725 GAGTCGAGGG
* * *
18735 TTACCTAT-TTCTTTCAAGACATATGGATAGT
1 TTACCTATGTTC-TTCGAGACATATGAAAAGT
*
18766 TTACCTATGTCCTTCGAGACATATGAAAAGT
1 TTACCTATGTTCTTCGAGACATATGAAAAGT
18797 TTACCTATGTTCTTCG-GAACATAT
1 TTACCTATGTTCTTCGAG-ACATAT
18821 AGATAGGTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
30 1 0.02
31 45 0.94
32 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGAGACATATGAAAAGT
Found at i:23343 original size:31 final size:31
Alignment explanation
Indices: 23291--23382 Score: 130
Period size: 31 Copynumber: 3.0 Consensus size: 31
23281 GAGTCGAGGG
* *
23291 TTACCTATGTCTTTCGAGACATATGGATAGT
1 TTACCTATGTCCTTCGGGACATATGGATAGT
* *
23322 TTAGCTATGTCCTTCGGGACATATGGAAAGT
1 TTACCTATGTCCTTCGGGACATATGGATAGT
* *
23353 TTACCTATGTTCTTCGGAACATATGGATAG
1 TTACCTATGTCCTTCGGGACATATGGATAG
23383 GTCCTTCGAG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (31 bp):
TTACCTATGTCCTTCGGGACATATGGATAGT
Found at i:23389 original size:22 final size:21
Alignment explanation
Indices: 23364--23413 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
23354 TACCTATGTT
* *
23364 CTTCGGAACATATGGATAGGTC
1 CTTCGGAA-ACATGCATAGGTC
23386 CTTCGAGAAACATGCATAGGTC
1 CTTCG-GAAACATGCATAGGTC
23408 CTTCGG
1 CTTCGG
23414 GATATTTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.84
23 3 0.12
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (21 bp):
CTTCGGAAACATGCATAGGTC
Found at i:25170 original size:11 final size:11
Alignment explanation
Indices: 25156--25193 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25146 AATGTTAGAG
25156 TGTTATTAGTT
1 TGTTATTAGTT
*
25167 TGTTA-TGGTT
1 TGTTATTAGTT
*
25177 TGTTATTAGCT
1 TGTTATTAGTT
25188 TGTTAT
1 TGTTAT
25194 GGTTTGTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.16, C:0.03, G:0.21, T:0.61
Consensus pattern (11 bp):
TGTTATTAGTT
Found at i:25210 original size:21 final size:21
Alignment explanation
Indices: 25156--25201 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
25146 AATGTTAGAG
*
25156 TGTTATTAGTTTGTTATGGTT
1 TGTTATTAGCTTGTTATGGTT
25177 TGTTATTAGCTTGTTATGGTT
1 TGTTATTAGCTTGTTATGGTT
25198 TGTT
1 TGTT
25202 GGTTACTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.02, G:0.24, T:0.61
Consensus pattern (21 bp):
TGTTATTAGCTTGTTATGGTT
Found at i:26472 original size:16 final size:18
Alignment explanation
Indices: 26445--26482 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
26435 TATTTTTTAA
26445 AATTATAAACATTATT-T
1 AATTATAAACATTATTAT
26462 AATTA-AAACATTATTAT
1 AATTATAAACATTATTAT
26479 AATT
1 AATT
26483 GTTATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTATAAACATTATTAT
Found at i:27527 original size:85 final size:85
Alignment explanation
Indices: 27379--27557 Score: 313
Period size: 85 Copynumber: 2.1 Consensus size: 85
27369 AACAGATAAA
* *
27379 TACATAATCATACTCACATCTATCCCTTCATCTATGACTGCTCAAACTTTTGTTCATATCCTTGC
1 TACACAATCATACTCACATCTATCCCTTCATCCATGACTGCTCAAACTTTTGTTCATATCCTTGC
27444 TTCACCTTTCATAAAATTCG
66 TTCACCTTTCATAAAATTCG
* * *
27464 TACACAATCATACTTACATCTATCCCTTCATCCATGACTGGTCAAACTTTTGTTCCTATCCTTGC
1 TACACAATCATACTCACATCTATCCCTTCATCCATGACTGCTCAAACTTTTGTTCATATCCTTGC
27529 TTCACCTTTCATAAAATTCG
66 TTCACCTTTCATAAAATTCG
27549 TACACAATC
1 TACACAATC
27558 CTCGTCCAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.27, C:0.29, G:0.06, T:0.37
Consensus pattern (85 bp):
TACACAATCATACTCACATCTATCCCTTCATCCATGACTGCTCAAACTTTTGTTCATATCCTTGC
TTCACCTTTCATAAAATTCG
Found at i:28943 original size:21 final size:21
Alignment explanation
Indices: 28919--28960 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
28909 AAAATCTTGA
28919 AGAAAG-TAGAGGTTGAGGTTG
1 AGAAAGATAG-GGTTGAGGTTG
* *
28940 AGAATGATAGGGTTGTGGTTG
1 AGAAAGATAGGGTTGAGGTTG
28961 GGGCTAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.00, G:0.43, T:0.29
Consensus pattern (21 bp):
AGAAAGATAGGGTTGAGGTTG
Found at i:31730 original size:2 final size:2
Alignment explanation
Indices: 31723--31780 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
31713 AAGTCAAAAC
31723 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31765 TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA T
31781 TAAGTCAGTT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32218 original size:4 final size:4
Alignment explanation
Indices: 32209--32991 Score: 1566
Period size: 4 Copynumber: 195.8 Consensus size: 4
32199 TTTTTAATTA
32209 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32257 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32305 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32353 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32401 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32449 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32497 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32545 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32593 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32641 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32689 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32737 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32785 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32833 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32881 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32929 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
32977 GATG GATG GATG GAT
1 GATG GATG GATG GAT
32992 AGATATTAGG
Statistics
Matches: 779, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 779 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (4 bp):
GATG
Found at i:40857 original size:22 final size:22
Alignment explanation
Indices: 40830--40872 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
40820 TGCAAAATAT
40830 ATAATAA-AACTAATTAATATTA
1 ATAATAATAA-TAATTAATATTA
*
40852 ATAATAATAATATTTAATATT
1 ATAATAATAATAATTAATATT
40873 TTTGGCCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAATAATAATAATTAATATTA
Found at i:41320 original size:129 final size:132
Alignment explanation
Indices: 41037--41356 Score: 328
Period size: 129 Copynumber: 2.4 Consensus size: 132
41027 GTTCTGGTCG
* * * * * *
41037 TCTAAGGGTGATACGGTTCCTACATAATGAAGAAATCTAGTCAGGGGATGACACTG-CTCATACG
1 TCTAGGGGTGACACGGCTCCTACATAATGAGGAGATCTGGTCA-GGGATGACAC-GACTCATACG
* * * ****
41101 TGATGAAAAGTTCTTGGTCATCTTTAGGAAGGGTGATAACACGACTTATACGTGATGAAGATTTT
64 CGATGAAAAGTTCTTGGCCATC-TTA-GAAGAGTGATAACACGACTTATACGTGATGAAGACAGC
41166 TGGTTA
127 TGGTTA
* * * *
41172 TCAAGGGTTGACACAGCTCCTACATAATGAGGAGATCTGGTCAGGTGATAACACGACTCATACGC
1 TCTAGGGGTGACACGGCTCCTACATAATGAGGAGATCTGGTCAGG-GATGACACGACTCATACGC
* * * *
41237 GATGAAGAGTTC-TGGCCATC-TA-AA-AGTGATAACAC-AGTTCCTACGTGATGAGGACAGCTG
65 GATGAAAAGTTCTTGGCCATCTTAGAAGAGTGATAACACGACTT-ATACGTGATGAAGACAGCTG
41297 GTTA
129 GTTA
* *
41301 TCTAGGGGTGACACGGCTCCTACATGATGAGGAGGTCTGGTCAAGGGATGACACGA
1 TCTAGGGGTGACACGGCTCCTACATAATGAGGAGATCTGGTC-AGGGATGACACGA
41357 TTCCTATGTG
Statistics
Matches: 154, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
128 3 0.02
129 74 0.48
130 5 0.03
132 2 0.01
134 10 0.06
135 60 0.39
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (132 bp):
TCTAGGGGTGACACGGCTCCTACATAATGAGGAGATCTGGTCAGGGATGACACGACTCATACGCG
ATGAAAAGTTCTTGGCCATCTTAGAAGAGTGATAACACGACTTATACGTGATGAAGACAGCTGGT
TA
Found at i:43293 original size:99 final size:99
Alignment explanation
Indices: 43122--43308 Score: 275
Period size: 99 Copynumber: 1.9 Consensus size: 99
43112 TAATTTGCCA
* * * * * * *
43122 TTATCTGGCTAGCTGGATTTTATCCATAAAACTGGGGCGTTTAACCAATTGCTCTAGAGGGATAG
1 TTATCAGGCTAGATGAATCTTATCCATAAAACCGGGGCGTTTAACCAATTGCTCTAGAGGGACAA
*
43187 CTCAAGCTTTATTGTATATATATTATAATCACCT
66 CTCAAGCTTTATTGTATACATATTATAATCACCT
* * *
43221 TTATCAGGCTAGATGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGTTTTAGAGGGACAA
1 TTATCAGGCTAGATGAATCTTATCCATAAAACCGGGGCGTTTAACCAATTGCTCTAGAGGGACAA
43286 CTCAAGCTTTATTGTATACATAT
66 CTCAAGCTTTATTGTATACATAT
43309 AATATTTTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (99 bp):
TTATCAGGCTAGATGAATCTTATCCATAAAACCGGGGCGTTTAACCAATTGCTCTAGAGGGACAA
CTCAAGCTTTATTGTATACATATTATAATCACCT
Found at i:47929 original size:32 final size:32
Alignment explanation
Indices: 47886--47963 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
47876 TACAATCAAG
* *
47886 AGAAATAAGTTAGTGTACATAAACAAAAGGAA
1 AGAAATAAGTTAATGTACACAAACAAAAGGAA
*
47918 AGAAATTAGTTAATGTACACAAACAAAAGGAA
1 AGAAATAAGTTAATGTACACAAACAAAAGGAA
*
47950 ATAAATCAA-TTAAT
1 AGAAAT-AAGTTAAT
47964 ACAGGTGCGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 39 0.98
33 1 0.03
ACGTcount: A:0.56, C:0.08, G:0.14, T:0.22
Consensus pattern (32 bp):
AGAAATAAGTTAATGTACACAAACAAAAGGAA
Found at i:51825 original size:22 final size:23
Alignment explanation
Indices: 51798--51845 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
51788 TGCAAAATAT
51798 ATAATAA-AACTAATTAATA-TTA
1 ATAATAATAA-TAATTAATATTTA
*
51820 ATAATAATAATATTTAATATTTA
1 ATAATAATAATAATTAATATTTA
51843 ATA
1 ATA
51846 TTTTTGGCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAATAATAATAATTAATATTTA
Found at i:54126 original size:2 final size:2
Alignment explanation
Indices: 54119--54162 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
54109 CTTAGGTGTA
54119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54161 AT
1 AT
54163 GCTTTGTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54566 original size:21 final size:20
Alignment explanation
Indices: 54541--54587 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
54531 AGCGGTGCAT
*
54541 AAAAACGCCGCTATATGAAAA
1 AAAAAC-CCGCTAAATGAAAA
54562 AAAAA-CCGCTAAATGAAAA
1 AAAAACCCGCTAAATGAAAA
*
54581 CAAAACC
1 AAAAACC
54588 ACTAAAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 17 0.74
20 1 0.04
21 5 0.22
ACGTcount: A:0.57, C:0.21, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAACCCGCTAAATGAAAA
Found at i:54570 original size:19 final size:19
Alignment explanation
Indices: 54548--54593 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
54538 CATAAAAACG
*
54548 CCGCTATATGAAAAAAAAA
1 CCGCTAAATGAAAAAAAAA
*
54567 CCGCTAAATGAAAACAAAA
1 CCGCTAAATGAAAAAAAAA
*
54586 CCACTAAA
1 CCGCTAAA
54594 AACCCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.57, C:0.22, G:0.09, T:0.13
Consensus pattern (19 bp):
CCGCTAAATGAAAAAAAAA
Found at i:55271 original size:36 final size:37
Alignment explanation
Indices: 55207--55276 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 37
55197 AATCGATATT
* ** *
55207 GTTTTGATGTAGCTATATAATCCTCTAAAATGATGTC
1 GTTTTGAAGTAGCTATATAAAACACTAAAATGATGTC
*
55244 GTTTTGAAGTA-CTATATAAAACACTAAATTGAT
1 GTTTTGAAGTAGCTATATAAAACACTAAAATGAT
55277 ATAATTACAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 18 0.64
37 10 0.36
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (37 bp):
GTTTTGAAGTAGCTATATAAAACACTAAAATGATGTC
Found at i:66320 original size:41 final size:41
Alignment explanation
Indices: 66263--66344 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
66253 GCCATCAGAA
66263 ATTCAGAATCAAAGAAGAAACTTGTTCCTCTTTCTAATGTT
1 ATTCAGAATCAAAGAAGAAACTTGTTCCTCTTTCTAATGTT
66304 ATTCAGAATCAAAGAAGAAACTTGTTCCTCTTTCTAATGTT
1 ATTCAGAATCAAAGAAGAAACTTGTTCCTCTTTCTAATGTT
66345 TCTTGCTCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (41 bp):
ATTCAGAATCAAAGAAGAAACTTGTTCCTCTTTCTAATGTT
Found at i:66407 original size:2 final size:2
Alignment explanation
Indices: 66402--66432 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
66392 TAACTCCAAA
66402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66433 GATAGTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:81081 original size:40 final size:40
Alignment explanation
Indices: 81021--81131 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
81011 ACCGTAGTGC
81021 TACACATAAGGTCA-TGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGT-AGTGCCCACCATATACACTGAAGTGTAT
* * *
81061 TAGACATAAGGTAGTTCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTAGTGCCCACCATATACACTGAAGTGTAT
* * *
81101 TACACATAAGGTCGTGCCTACCATGTACACT
1 TACACATAAGGTAGTGCCCACCATATACACT
81132 TAGTGTCCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.02
40 60 0.98
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTAGTGCCCACCATATACACTGAAGTGTAT
Found at i:81144 original size:40 final size:39
Alignment explanation
Indices: 81021--81146 Score: 144
Period size: 40 Copynumber: 3.2 Consensus size: 39
81011 ACCGTAGTGC
*
81021 TACACATAAGGTCATGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACT-AAGTGTAT
* * * *
81061 TAGACATAAGGTAGTTCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACA-CTAAGTGTAT
* * * *
81101 TACACATAAGGTCGTGCCTACCATGTACACTTAGTGTCCT
1 TACACATAAGGTCGTGCCCACCATATACACTAAGTGT-AT
81141 TACACA
1 TACACA
81147 CTATAGTGTA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
39 6 0.08
40 64 0.90
41 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (39 bp):
TACACATAAGGTCGTGCCCACCATATACACTAAGTGTAT
Found at i:83041 original size:30 final size:30
Alignment explanation
Indices: 82979--83061 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
82969 ACCCATATGT
* *
82979 AACTTTTTAAAA-TTATATTTTGGTCCTTA
1 AACTTTTTAAAATTTATAATTTGGTCCTCA
*
83008 AACTTTTTAAAATTTATACTTTGGTCAC-CA
1 AACTTTTTAAAATTTATAATTTGGTC-CTCA
*
83038 AACTTTACT-AAATTTATAATTTGG
1 AACTTT-TTAAAATTTATAATTTGG
83062 ACACTAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 12 0.26
30 33 0.70
31 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (30 bp):
AACTTTTTAAAATTTATAATTTGGTCCTCA
Found at i:87102 original size:16 final size:16
Alignment explanation
Indices: 87081--87112 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
87071 TTAATGTTAT
87081 TTTAAAATTAAATTAA
1 TTTAAAATTAAATTAA
*
87097 TTTAAATTTAAATTAA
1 TTTAAAATTAAATTAA
87113 ATTTTTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAAATTAAATTAA
Found at i:87964 original size:13 final size:13
Alignment explanation
Indices: 87946--87975 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
87936 ATTTTTATTT
87946 TTAAAATAAAATA
1 TTAAAATAAAATA
87959 TTAAAATAAAATA
1 TTAAAATAAAATA
87972 TTAA
1 TTAA
87976 TATTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAAAATAAAATA
Found at i:98556 original size:31 final size:31
Alignment explanation
Indices: 98521--98585 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
98511 CAAACGATTC
98521 TCTGCATTCTTGATTGAAATCAAAGTTCTTT
1 TCTGCATTCTTGATTGAAATCAAAGTTCTTT
*
98552 TCTGCATTCTTGATTGAAATCAAAGTTTTTT
1 TCTGCATTCTTGATTGAAATCAAAGTTCTTT
98583 TCT
1 TCT
98586 CTTTTTTATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (31 bp):
TCTGCATTCTTGATTGAAATCAAAGTTCTTT
Found at i:100251 original size:27 final size:27
Alignment explanation
Indices: 100221--100277 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
100211 TTGGTTGAAA
100221 GGTTAGATGCTAGTGCTGACATTGAGT
1 GGTTAGATGCTAGTGCTGACATTGAGT
*
100248 GGTTAGATGCTAGTGCTGACGTTGAGT
1 GGTTAGATGCTAGTGCTGACATTGAGT
100275 GGT
1 GGT
100278 ATTTTCGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.11, G:0.37, T:0.33
Consensus pattern (27 bp):
GGTTAGATGCTAGTGCTGACATTGAGT
Found at i:100936 original size:2 final size:2
Alignment explanation
Indices: 100929--100957 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100919 TTACTTTGTC
100929 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100958 GTTTTACTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105540 original size:36 final size:36
Alignment explanation
Indices: 105499--105571 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
105489 AGATGATAAT
105499 ACACAATGGCCAGACTAATAAGAGAGATGCCATTTG
1 ACACAATGGCCAGACTAATAAGAGAGATGCCATTTG
105535 ACACAATGGCCAGACTAATAAGAGAGATGCCATTTG
1 ACACAATGGCCAGACTAATAAGAGAGATGCCATTTG
105571 A
1 A
105572 ATGGTTTCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (36 bp):
ACACAATGGCCAGACTAATAAGAGAGATGCCATTTG
Found at i:109790 original size:46 final size:44
Alignment explanation
Indices: 109720--109809 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 44
109710 ACAATAACTC
*
109720 TAATTTTCATTACCTATTTATAGAGTTAATTACTTGAAAGAAAAAA
1 TAATTTTCATTACCTATTTATAGAGTTAATCACTT--AAGAAAAAA
*
109766 TAATTTTCATTACCTATTTTTAGAGTTAATCACTTAAGAAAAAA
1 TAATTTTCATTACCTATTTATAGAGTTAATCACTTAAGAAAAAA
109810 ATCTATTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 9 0.21
46 33 0.79
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (44 bp):
TAATTTTCATTACCTATTTATAGAGTTAATCACTTAAGAAAAAA
Found at i:110918 original size:20 final size:21
Alignment explanation
Indices: 110875--110918 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
110865 TGTAACAAGG
* *
110875 ATAAAATTGAGTTAAAAGAAT
1 ATAAAATTGAATTAAAACAAT
*
110896 ATAAAA-TGAATTAAAACATT
1 ATAAAATTGAATTAAAACAAT
110916 ATA
1 ATA
110919 GGAGCATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (21 bp):
ATAAAATTGAATTAAAACAAT
Found at i:114325 original size:6 final size:6
Alignment explanation
Indices: 114311--114353 Score: 59
Period size: 6 Copynumber: 6.7 Consensus size: 6
114301 TGAATTGGAT
114311 TTTTAAA TTTTAA TTTTAA TTTTAA TTTTAAA TTTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTT-AA -TTTTAA TTTT
114354 CGCAATTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 22 0.65
7 8 0.24
8 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:114331 original size:25 final size:26
Alignment explanation
Indices: 114296--114353 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
114286 CAGAGGTAAG
* *
114296 TAATTTGAATTGGATTTTTAAA-TTT
1 TAATTTTAATTGGAATTTTAAATTTT
**
114321 TAATTTTAATTTTAATTTTAAATTTT
1 TAATTTTAATTGGAATTTTAAATTTT
114347 TAATTTT
1 TAATTTT
114354 CGCAATTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TAATTTTAATTGGAATTTTAAATTTT
Found at i:114333 original size:12 final size:13
Alignment explanation
Indices: 114311--114353 Score: 70
Period size: 12 Copynumber: 3.3 Consensus size: 13
114301 TGAATTGGAT
114311 TTTTAAATTTTAA
1 TTTTAAATTTTAA
114324 TTTT-AATTTTAA
1 TTTTAAATTTTAA
114336 TTTTAAATTTTTAA
1 TTTTAAA-TTTTAA
114350 TTTT
1 TTTT
114354 CGCAATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 6 0.21
14 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:118136 original size:211 final size:211
Alignment explanation
Indices: 117767--119887 Score: 3653
Period size: 211 Copynumber: 10.1 Consensus size: 211
117757 TACAGCCTTT
117767 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
117832 CGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
*
117896 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-A
*
117961 AAAAATTTCTCGATTTC
195 AAAAATTTCTCAATTTC
*
117978 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
118043 CGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
*
118107 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-A
* *
118172 AACAATTTCTCGATTTC
195 AAAAATTTCTCAATTTC
* *
118189 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
118254 CGAAGGGACCGCTGGTTGTCAACAAA-TATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
118318 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-A
* *
118383 AACAATTTCTCGATTTC
195 AAAAATTTCTCAATTTC
*
118400 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
118465 CGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
118529 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-A
* * *
118594 AACAATTTCTCGATTTT
195 AAAAATTTCTCAATTTC
*
118611 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
118676 CGAAGGGACCGCTGGTTATCAATAAACAATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
*
118741 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAA
*
118806 AACATTTCTCAATTTC
196 AAAATTTCTCAATTTC
118822 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
118887 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
*
118952 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAA
*
119017 AACATTTCTCAATTTC
196 AAAATTTCTCAATTTC
119033 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
119098 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCGATTTTAGAGTCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
*
119163 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAA
*
119228 AACATTTCTCAATTTC
196 AAAATTTCTCAATTTC
119244 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
119309 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
*
119374 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAA
*
119439 AACATTTCTCAATTTC
196 AAAATTTCTCAATTTC
119455 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
119520 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
*
119585 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAA
* * *
119650 AACATTTTTCGATTTC
196 AAAATTTCTCAATTTC
* *
119666 AGAGTCAATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* **
119731 CGAAGGGACCGCTGGTTGTC-A-AAAC-ATTTCCCAATTTCAGAGCCAATTTTGACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
* *
119793 AAGGATATTGGACTCCAGACAACGCAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCATTA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA-AA
* * *
119858 AACAACTTCCCAATTTC
195 AAAAATTTCTCAATTTC
*
119875 AGAACCAATTTCA
1 AGAGCCAATTTCA
119888 GATAGGTTTG
Statistics
Matches: 1867, Mismatches: 39, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
208 93 0.05
209 26 0.01
210 1 0.00
211 1649 0.88
212 98 0.05
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (211 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAA
AAAATTTCTCAATTTC
Found at i:120340 original size:84 final size:84
Alignment explanation
Indices: 120222--120520 Score: 393
Period size: 84 Copynumber: 3.6 Consensus size: 84
120212 CAGCTTCGAG
* * * * * *
120222 GGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTTGAGT
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTC-ACCAAAAGACCTTTGAGT
120286 TCGACTACGCTCAGCTCCAA
65 TCGACTACGCTCAGCTCCAA
* * *
120306 GGCACATTATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
*
120371 CGACTACGTTCAGCTCCAA
66 CGACTACGCTCAGCTCCAA
* * * * *
120390 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTCTTTGTCACCAAAAGACCTTCGAGTT
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
*
120455 CGATTACGCTCAGCTCCAA
66 CGACTACGCTCAGCTCCAA
* * * * *
120474 GGCACATCATTTACAGCATAGCCCAAAGCAAAAAGGGTTATATGTCA
1 GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCA
120521 ATAAAATTAT
Statistics
Matches: 188, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
83 3 0.02
84 185 0.98
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (84 bp):
GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTT
CGACTACGCTCAGCTCCAA
Found at i:120456 original size:168 final size:161
Alignment explanation
Indices: 120152--120520 Score: 427
Period size: 168 Copynumber: 2.2 Consensus size: 161
120142 AAAAACAAAC
* * * *
120152 TATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATATGCCACAAAGACCTTCGATTACACTCAGCT
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCACAAAGACCTTCGATTACACTCAGCT
* * * * * * *
120217 TCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTT
66 TCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTC
120282 GAGTTCGACTACGCTCAGCTCCAAGGCACAT
131 GAGTTCGACTACGCTCAGCTCCAAGGCACAT
* *
120313 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTTCGACTAC
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCA-C-AAAGACCTTCGA-TT--AC-AC
* * * * *
120378 GTTCAGC-TCCAAGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTCTTTGTC-ACCAA
60 --TCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACC-A
*
120441 AAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACAT
122 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * * *
120481 CATTTACAGCATAGCCCAAAGCAAAAAGGGTTATATGTCA
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCA
120521 ATAAAATTAT
Statistics
Matches: 174, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
161 35 0.20
162 1 0.01
163 11 0.06
164 2 0.01
166 2 0.01
167 5 0.03
168 113 0.65
169 5 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (161 bp):
TATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATATGTCACAAAGACCTTCGATTACACTCAGCT
TCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTC
GAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:122237 original size:6 final size:6
Alignment explanation
Indices: 122223--122265 Score: 59
Period size: 6 Copynumber: 6.7 Consensus size: 6
122213 TGAATTGGAT
122223 TTTTAAA TTTTAA TTTTAA TTTTAA TTTTAAA TTTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTT-AA -TTTTAA TTTT
122266 CGCAATTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 22 0.65
7 8 0.24
8 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:122243 original size:25 final size:26
Alignment explanation
Indices: 122208--122265 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
122198 CAGAGGTAAG
* *
122208 TAATTTGAATTGGATTTTTAAA-TTT
1 TAATTTTAATTGGAATTTTAAATTTT
**
122233 TAATTTTAATTTTAATTTTAAATTTT
1 TAATTTTAATTGGAATTTTAAATTTT
122259 TAATTTT
1 TAATTTT
122266 CGCAATTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TAATTTTAATTGGAATTTTAAATTTT
Found at i:122245 original size:12 final size:13
Alignment explanation
Indices: 122223--122265 Score: 70
Period size: 12 Copynumber: 3.3 Consensus size: 13
122213 TGAATTGGAT
122223 TTTTAAATTTTAA
1 TTTTAAATTTTAA
122236 TTTT-AATTTTAA
1 TTTTAAATTTTAA
122248 TTTTAAATTTTTAA
1 TTTTAAA-TTTTAA
122262 TTTT
1 TTTT
122266 CGCAATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 6 0.21
14 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:125384 original size:42 final size:42
Alignment explanation
Indices: 125325--125404 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
125315 CAAGCCATAT
125325 TCTCTGACATGGTTGAGGATTATCTTGAGATTTTCATGAATG
1 TCTCTGACATGGTTGAGGATTATCTTGAGATTTTCATGAATG
125367 TCTCTGACATGGTTGAGGATTATCTTGAGATTTTCATG
1 TCTCTGACATGGTTGAGGATTATCTTGAGATTTTCATG
125405 GATGATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.41
Consensus pattern (42 bp):
TCTCTGACATGGTTGAGGATTATCTTGAGATTTTCATGAATG
Found at i:134929 original size:21 final size:21
Alignment explanation
Indices: 134903--134944 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
134893 CCAGAATGGG
*
134903 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
134924 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
134945 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:135097 original size:19 final size:19
Alignment explanation
Indices: 135049--135097 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
135039 TGAGCCTCGG
135049 ATTACTGTTCAAATAGTAA
1 ATTACTGTTCAAATAGTAA
* *
135068 TTTATTGTTCAAATAGTAA
1 ATTACTGTTCAAATAGTAA
*
135087 ATTACTATTCA
1 ATTACTGTTCA
135098 TAAAAACATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (19 bp):
ATTACTGTTCAAATAGTAA
Found at i:135194 original size:29 final size:31
Alignment explanation
Indices: 135162--135221 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
135152 AAATTTTGAA
*
135162 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
135191 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
135222 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:140986 original size:32 final size:31
Alignment explanation
Indices: 140932--141051 Score: 134
Period size: 32 Copynumber: 3.8 Consensus size: 31
140922 TGTTCCTTAG
*
140932 AACATAGGT-ATACTGTCCATATGTCTCAAA
1 AACATAGGTAATTCTGTCCATATGTCTCAAA
* * *
140962 ATACACAGGTAATTCTATCCATATGTCATGAAA
1 A-ACATAGGTAATTCTGTCCATATGTC-TCAAA
* *
140995 AACATAGGTAATTCTGTCCATTTGTCCCGAAA
1 AACATAGGTAATTCTGTCCATATGTCTC-AAA
* *
141027 GACATAGGTAATTATGTCCATATGT
1 AACATAGGTAATTCTGTCCATATGT
141052 TCCGTAGAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
30 1 0.01
31 7 0.09
32 61 0.82
33 5 0.07
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (31 bp):
AACATAGGTAATTCTGTCCATATGTCTCAAA
Found at i:141063 original size:64 final size:64
Alignment explanation
Indices: 140914--141069 Score: 181
Period size: 64 Copynumber: 2.5 Consensus size: 64
140904 CTAGGTAAAC
* * * *
140914 TGTCCATATGTTCCTTAGAACATAGGT-ATACTGTCCATATGTCTCAAAATACACAGGTAATTC
1 TGTCCATATGTTCCGTAGAACATAGGTAATACTGTCCATATGTCCCAAAAGACACAGGTAATTA
* * * * * * * *
140977 TATCCATATG-TCATGAAAAACATAGGTAATTCTGTCCATTTGTCCCGAAAGACATAGGTAATTA
1 TGTCCATATGTTC-CGTAGAACATAGGTAATACTGTCCATATGTCCCAAAAGACACAGGTAATTA
141041 TGTCCATATGTTCCGTAGAACATAGGTAA
1 TGTCCATATGTTCCGTAGAACATAGGTAA
141070 ATCCTCGACT
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
62 2 0.03
63 19 0.26
64 51 0.69
65 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (64 bp):
TGTCCATATGTTCCGTAGAACATAGGTAATACTGTCCATATGTCCCAAAAGACACAGGTAATTA
Found at i:141064 original size:32 final size:32
Alignment explanation
Indices: 140883--141069 Score: 127
Period size: 32 Copynumber: 5.9 Consensus size: 32
140873 CCTTGGCAAC
* * * *
140883 TGTCCATAGGTCCCGAAGAACCTAGGTAA--A
1 TGTCCATATGTTCCGAAAAACATAGGTAATTA
** *
140913 CTGTCCATATGTTCCTTAGAACATAGGT-A-TA
1 -TGTCCATATGTTCCGAAAAACATAGGTAATTA
* *
140944 CTGTCCATATG-TCTC-AAAATACACAGGTAATTC
1 -TGTCCATATGTTC-CGAAAA-ACATAGGTAATTA
* * *
140977 TATCCATATG-TCATGAAAAACATAGGTAATTC
1 TGTCCATATGTTC-CGAAAAACATAGGTAATTA
* * *
141009 TGTCCATTTGTCCCGAAAGACATAGGTAATTA
1 TGTCCATATGTTCCGAAAAACATAGGTAATTA
* *
141041 TGTCCATATGTTCCGTAGAACATAGGTAA
1 TGTCCATATGTTCCGAAAAACATAGGTAA
141070 ATCCTCGACT
Statistics
Matches: 125, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
30 5 0.04
31 42 0.34
32 72 0.58
33 6 0.05
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (32 bp):
TGTCCATATGTTCCGAAAAACATAGGTAATTA
Found at i:141257 original size:5 final size:5
Alignment explanation
Indices: 141247--141287 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
141237 GTAACTGTAT
141247 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC A
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC A
141288 CAAGTGTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATC
Found at i:141466 original size:10 final size:11
Alignment explanation
Indices: 141444--141475 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
141434 GTCTTATTCT
141444 TATAT-TATCA
1 TATATATATCA
141454 TATATATAT-A
1 TATATATATCA
141464 TATATATATCA
1 TATATATATCA
141475 T
1 T
141476 CTATGTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.75
11 5 0.25
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (11 bp):
TATATATATCA
Found at i:144132 original size:192 final size:192
Alignment explanation
Indices: 143805--144189 Score: 752
Period size: 192 Copynumber: 2.0 Consensus size: 192
143795 TTGAAATGAA
143805 AGTGTTTTAATTTTGAAAGTAAGGTCGATTGCTAAACTAATAAATAGAAAATCGAGAATGTAGCC
1 AGTGTTTTAATTTTGAAAGTAAGGTCGATTGCTAAACTAATAAATAGAAAATCGAGAATGTAGCC
*
143870 CAAAGACTCTAAAGTGCTTTTGAATTCTCACTTATGGAATTGAGTCATTGGTAGTTCTCAGCTAA
66 CAAAGACTCTAAAGTGCTTTTGAATTCTCACTTATGGAATTGAGTCATTGGTAGTTCTCAACTAA
*
143935 TAAATGTCACATCGAAAATTAGGGCCTAAAATTTTCTTAAAACTTTTCAGATGACTAAATTG
131 TAAATGTCACATCGAAAATTAGGGCCTAAAATTTTCTTAAAACTTTTCAGAGGACTAAATTG
143997 AGTGTTTTAATTTTGAAAGTAAGGTCGATTGCTAAACTAATAAATAGAAAATCGAGAATGTAGCC
1 AGTGTTTTAATTTTGAAAGTAAGGTCGATTGCTAAACTAATAAATAGAAAATCGAGAATGTAGCC
144062 CAAAGACTCTAAAGTGCTTTTGAATTCTCACTTATGGAATTGAGTCATTGGTAGTTCTCAACTAA
66 CAAAGACTCTAAAGTGCTTTTGAATTCTCACTTATGGAATTGAGTCATTGGTAGTTCTCAACTAA
144127 TAAATGTCACATCGAAAATTAGGGCCTAAAATTTTCTTAAAACTTTTCAGAGGACTAAATTG
131 TAAATGTCACATCGAAAATTAGGGCCTAAAATTTTCTTAAAACTTTTCAGAGGACTAAATTG
144189 A
1 A
144190 AATCTTAATT
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 191 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (192 bp):
AGTGTTTTAATTTTGAAAGTAAGGTCGATTGCTAAACTAATAAATAGAAAATCGAGAATGTAGCC
CAAAGACTCTAAAGTGCTTTTGAATTCTCACTTATGGAATTGAGTCATTGGTAGTTCTCAACTAA
TAAATGTCACATCGAAAATTAGGGCCTAAAATTTTCTTAAAACTTTTCAGAGGACTAAATTG
Found at i:145708 original size:39 final size:38
Alignment explanation
Indices: 145634--145769 Score: 132
Period size: 39 Copynumber: 3.5 Consensus size: 38
145624 GGCTCATCGA
**
145634 CTTTGTGCTTAGGGTAAGTCAATACC-ACGGACTCCTCAG
1 CTTTGTGCTTAGGGTAAGTCCTTACCTA-GG-CTCCTCAG
145673 CTTTGTGCTTAGGGTAAGTCCTTACCTTAGGCTCCTC-G
1 CTTTGTGCTTAGGGTAAGTCCTTACC-TAGGCTCCTCAG
* * * * *
145711 TCTTTGTGCTTAAGATAAGTCCTTACAGTAGGCTCCCCAA
1 -CTTTGTGCTTAGGGTAAGTCCTTAC-CTAGGCTCCTCAG
* *
145751 CTTTGTGATCAGGGTAAGT
1 CTTTGTGCTTAGGGTAAGT
145770 TCATATCGCA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 77 0.95
40 2 0.02
41 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.33
Consensus pattern (38 bp):
CTTTGTGCTTAGGGTAAGTCCTTACCTAGGCTCCTCAG
Found at i:148858 original size:39 final size:39
Alignment explanation
Indices: 148815--148906 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 39
148805 TTGTATTTAG
* *
148815 GGTAAGTCATT-TCTGCAAGCTCCTCA-GTTTTGTGCTCAA
1 GGTAAGTCATTACCT-CAAGCTCCT-AGGATTTGTGCTCAA
* * * *
148854 GGTAAGACCTTACCTCATGCTCCTAGGATTTGTGCTCAG
1 GGTAAGTCATTACCTCAAGCTCCTAGGATTTGTGCTCAA
148893 GGTAAGTCATTACC
1 GGTAAGTCATTACC
148907 GTAGGCTCCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.02
39 40 0.93
40 2 0.05
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (39 bp):
GGTAAGTCATTACCTCAAGCTCCTAGGATTTGTGCTCAA
Found at i:148915 original size:39 final size:39
Alignment explanation
Indices: 148843--148954 Score: 102
Period size: 39 Copynumber: 2.9 Consensus size: 39
148833 GCTCCTCAGT
* * * *
148843 TTTGTGCTCAAGGTAAGACCTTACC-TCATGCTCCTAGGA
1 TTTGTGCTCAGGGTAAGTCATTACCGT-AGGCTCCTAGGA
** *
148882 TTTGTGCTCAGGGTAAGTCATTACCGTAGGCTCCTCTGC
1 TTTGTGCTCAGGGTAAGTCATTACCGTAGGCTCCTAGGA
** * *
148921 TTTGTGAACAGGATAAGTCTTTACCGTAGG-TCCT
1 TTTGTGCTCAGGGTAAGTCATTACCGTAGGCTCCT
148955 TATGTTGTGT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
38 4 0.07
39 56 0.92
40 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (39 bp):
TTTGTGCTCAGGGTAAGTCATTACCGTAGGCTCCTAGGA
Found at i:157209 original size:950 final size:951
Alignment explanation
Indices: 154483--157779 Score: 5449
Period size: 950 Copynumber: 3.5 Consensus size: 951
154473 GAATTTGATT
* * *
154483 TAGAGATTGTAGATAGGAAAGGTAATGAGAATCAAGTCACTGACCATATTTCTAGGCTAGAGAAC
1 TAGAGGTTGTAGATAAGAAAGGTAATGAGAATCAAGTTACTGACCATATTTCTAGGCTAGAGAAC
* *
154548 AATTCAGCAAGCCATGACAACTTAGATATTAAAGAGAAATTCCCTAATGAGGAAATTTTACATGC
66 AATTCAGCAAGCCATGTCAACTTAGATATTAAAGAGAAATTCCCTAATGAGAAAATTTTACATGC
* * * * * * *
154613 TATGACAATTTCGTGATACGTTAACCTTGTTAATTTCCTTATTAGTCGTATTTTGTCTTATGACA
131 CACGACAATTTCGTGGTACGCTAACATTGTTAATTTCCTTATTAGTGGTATTTTGTCTTATGAAA
* *
154678 TGAACAACCAAGGAAAGATGAAATTCAGGCATGATGCAAGA-TTTATTTTTGGGATGAGCCATAC
196 TGAACAACCAAGGAAAGAGGAAATTCAGGCATGACGCAAGATTTTATTTTTGGGATGAGCCATAC
* * * *
154742 TTGTTCAAGCAATATACCCACTAGAATAT-AGAAGGTGTGTCCCCGAGGAGGAGAAAAAAAGACA
261 TTGTTCAAGCAATGTGCCCACCAGAATATCCGAAGGTGTGTCCCCGAGGAGGAG-AAAAAAGACA
* * *
154806 TCTTACACCATTGCCATTCGACACCATGTGGAGGTCACTTTGGAGGACCAATGACTGCTGCAAAT
325 TCTTACACCATTGACATTCGACACCATGTGGAGGTCACTTTGGAGGAGCAAGGACTGCTGCAAAT
*
154871 GTCTTTCAGTTAGGTTTCTATTGGCCCACTTTATTTAAGGATGCTCATGAATTTTACAAGGCGTG
390 GTCTTTCAGTTAGGTTTCTATTGGCCCACTCTATTTAAGGATGCTCATGAATTTTACAAGGCGTG
154936 TAATAGATGCCAACGCACGGGAAATATCTCTAGACGACATGAAATGTCATTGCAAAATATCTTGG
455 TAATAGATGCCAACGCACGGGAAATATCTCTAGACGACATGAAATGTCATTGCAAAATATCTTGG
* *
155001 AGATAGAACTTTTTTATGAGT-AGGGA-ATACTTTATGGGACCCTTCCCATCCTCGTTTGGTGGC
520 AGATAGAACATTTTTATGAGTGAGGCATATACTTTATGGGACCCTTCCCATCCTCGTTTGGTGGC
* * *
155064 TTATATATTTTTCTCGCTTTGGACTACATGTCTAAGTGGGTTGAAGCAATTGGGATACCAAAGAA
585 TTATATATTTTTCTCGCTTTGGAATACATGTCTAAGTGGGTTGAAGCAATTGGGATGCC-AAGGA
155129 ACGATTCAAAAACTATTCCTAAGTTTCTGCATAAGTACATCTTCACGAGATTTGGTGCACCTAGA
649 ACGATTCAAAAACTATTCCTAAGTTTCTGCATAAGTACATCTTCACGAGATTTGGTGCACCTAGA
*
155194 GATATCATCAAAGACGAAGGTACCCACTTCGATAAGAAGTTAATTGGCAAAGTACTACAAAGATA
714 GATATCATCAAAGACGAAGGTACCCACTTCGATAAGAAATTAATTGGCAAAGTACTACAAAGATA
* * *
155259 TGGGGTGGGACACAAAATTGCAATGAAAAATTATCCGCAGACCAATGGGCAAGATGAAGTGTCAA
779 TGGGGTGGGACACAAAATTGCCATGAAAAATTACCCGCAGACCAATGGGCAAGCTGAAGTGTCAA
* *
155324 ACCGCAAGATTAAGCAAATCCTTGAGAATATGGTGAACCCTAGACGAAAGGACTGGTCACCAACG
844 ACCGCAAGATTAAGCAAATCCTTGAGAATATGGTGAACCCTAGACGAAAGGACTGGTCGCCAAAG
* *
155389 CTTGATGAAGTATTATGTTCTTACAACACATTTTACATATTTC
909 CTTGATGAAGAATTATGGTCTTACAACACATTTTACATATTTC
* *
155432 TAGAGGTTGTATATAAGAAAGGTAATGAGAATCAAGTTACTGACCATATTTCTAGGCTAGAGAAT
1 TAGAGGTTGTAGATAAGAAAGGTAATGAGAATCAAGTTACTGACCATATTTCTAGGCTAGAGAAC
155497 AATT---C-AGCCATGTCAACTTAGATATTAAAGAGAAATTCCCTAATGAGAAAATTTTACATGC
66 AATTCAGCAAGCCATGTCAACTTAGATATTAAAGAGAAATTCCCTAATGAGAAAATTTTACATGC
*
155558 CACGACAATTTCGTGGTATGCTAACATTGTTAATTTCCTTATTAGTGGTATTTTGTCTTATGAAA
131 CACGACAATTTCGTGGTACGCTAACATTGTTAATTTCCTTATTAGTGGTATTTTGTCTTATGAAA
155623 TGAACAACCAAGGAAAGAGGAAATTCAGGCATGACGCAAGATTTTATTTTTGGGATGAGCCATAC
196 TGAACAACCAAGGAAAGAGGAAATTCAGGCATGACGCAAGATTTTATTTTTGGGATGAGCCATAC
155688 TTGTTCAAGCAATGTGCCCACCAGAATATCCGAAGGTGTGTCCCCGAGGAGGAGAAAAAAGACAT
261 TTGTTCAAGCAATGTGCCCACCAGAATATCCGAAGGTGTGTCCCCGAGGAGGAGAAAAAAGACAT
* * *
155753 CTTACACCATTGACATTCGACACCATATGGAGGTCACTTTGGAGGAGCAAGGACTACTACAAATG
326 CTTACACCATTGACATTCGACACCATGTGGAGGTCACTTTGGAGGAGCAAGGACTGCTGCAAATG
*
155818 TCTTTCAGTTAGGTTTCTATTGGCCCACTCTATTTAAGAATGCTCATGAATTTTACAAGGCGTGT
391 TCTTTCAGTTAGGTTTCTATTGGCCCACTCTATTTAAGGATGCTCATGAATTTTACAAGGCGTGT
155883 AATAGATGCCAACGCACGGGAAATATCTCTAGACGACATGAAATGTCATTGCAAAATATCTTGGA
456 AATAGATGCCAACGCACGGGAAATATCTCTAGACGACATGAAATGTCATTGCAAAATATCTTGGA
*
155948 GATAGAA-ATTTTTTATGAGTGGGGCATATACTTTATGGGACCCTTCCCATCCTCGTTTGGTGGC
521 GATAGAACA-TTTTTATGAGTGAGGCATATACTTTATGGGACCCTTCCCATCCTCGTTTGGTGGC
*
156012 TTATATATTTTTCTCGCTTTGGAATACATGTCTAAGTGGGTTAAAGCAATTGGGATGCCAAGGAA
585 TTATATATTTTTCTCGCTTTGGAATACATGTCTAAGTGGGTTGAAGCAATTGGGATGCCAAGGAA
*
156077 CGATTCAAAAACTATTCCTAAGTTTCTGCATAAGTACATCTTCATGAGATTTGGTGCACCTAGAG
650 CGATTCAAAAACTATTCCTAAGTTTCTGCATAAGTACATCTTCACGAGATTTGGTGCACCTAGAG
* *
156142 ATATCATCAAAGACGAAGGTACCCACTTCGATAAGAATTTAATTGGAAAAGTACTACAAAGATAT
715 ATATCATCAAAGACGAAGGTACCCACTTCGATAAGAAATTAATTGGCAAAGTACTACAAAGATAT
* *
156207 GGGGTGGGACACAAAATTTCCATGAAAAATTACTCGCAGACCAATGGGCAAGCTGAAGTGTCAAA
780 GGGGTGGGACACAAAATTGCCATGAAAAATTACCCGCAGACCAATGGGCAAGCTGAAGTGTCAAA
156272 CCGCAAGATTAAGCAAATCCTTGAGAATATGGTGAACCCTAGACGAAAGGACTGGTCGCCAAAGC
845 CCGCAAGATTAAGCAAATCCTTGAGAATATGGTGAACCCTAGACGAAAGGACTGGTCGCCAAAGC
* *
156337 TTGATGAAGCATTATGGTCTTATAACACATTTTACATATTTC
910 TTGATGAAGAATTATGGTCTTACAACACATTTTACATATTTC
* *
156379 TAGAGGTTGTATATAAGAAAGGTAATGAGAATCAAGTTACTGACCATATTTCTAGGCTAGAGAAT
1 TAGAGGTTGTAGATAAGAAAGGTAATGAGAATCAAGTTACTGACCATATTTCTAGGCTAGAGAAC
*
156444 AATTCAGCAAGCCATGTCAACTTAGATATTAAAGAGAAATTCCCTAATAAGAAAATTTTACATGC
66 AATTCAGCAAGCCATGTCAACTTAGATATTAAAGAGAAATTCCCTAATGAGAAAATTTTACATGC
* * *
156509 CACGACAATTTTGTGGTATGCTAACATTGTTAATTTCCTTATTAGTGGTATTTTATCTTATGAAA
131 CACGACAATTTCGTGGTACGCTAACATTGTTAATTTCCTTATTAGTGGTATTTTGTCTTATGAAA
*
156574 TAAACAACCAAGGAAAGAGGAAATTCAGGCATGACGCAAGATTTTATTTTTGGGATGAGCCATAC
196 TGAACAACCAAGGAAAGAGGAAATTCAGGCATGACGCAAGATTTTATTTTTGGGATGAGCCATAC
*
156639 TTGTTCAAGCAATTTGCCCACCAGAATATCCGAAGGTGTGTCCCCGAGGAGGAGAAAAAAGACAT
261 TTGTTCAAGCAATGTGCCCACCAGAATATCCGAAGGTGTGTCCCCGAGGAGGAGAAAAAAGACAT
*
156704 CTTACACCATTGACATTCGACACCATGTGGAGGTCACTTTGGAGGAGCAAGGACTGCTGTAAATG
326 CTTACACCATTGACATTCGACACCATGTGGAGGTCACTTTGGAGGAGCAAGGACTGCTGCAAATG
* *
156769 TCTTTCAGTTAGGTTTCTATTGGCCCACTATA-TTAAGGATGCTCATGAATTTTACAAGGCATGT
391 TCTTTCAGTTAGGTTTCTATTGGCCCACTCTATTTAAGGATGCTCATGAATTTTACAAGGCGTGT
* *
156833 AATAGATGCCAACGCACGAGG-AATATCTCTAGACGACATAAAATTTCATTGCAAAATATCTTGG
456 AATAGATGCCAACGCACG-GGAAATATCTCTAGACGACATGAAATGTCATTGCAAAATATCTTGG
*
156897 AGATAGAACATTTTTATGTGTGAGGCATATACTTTATGGGACCCTTCCCATCCTCGTTTGGTGGC
520 AGATAGAACATTTTTATGAGTGAGGCATATACTTTATGGGACCCTTCCCATCCTCGTTTGGTGGC
*
156962 TTATATATTTTTCTCGCTTTGGAATACATGTCTAAGTGGGTTGAAGCAATTGAGATGCCAAGGAA
585 TTATATATTTTTCTCGCTTTGGAATACATGTCTAAGTGGGTTGAAGCAATTGGGATGCCAAGGAA
* * * * *
157027 CGATTCAAAGACTATTCTTAAGTTTATGTATAAGTACATCTTCACGAGATTTGGCGCACCTAGAG
650 CGATTCAAAAACTATTCCTAAGTTTCTGCATAAGTACATCTTCACGAGATTTGGTGCACCTAGAG
* *
157092 ATATCATCAGAGACGAAGGTACCCACTTCGATAAGAAATTAATTGGCAAAGCACTGA-AAAGATA
715 ATATCATCAAAGACGAAGGTACCCACTTCGATAAGAAATTAATTGGCAAAGTACT-ACAAAGATA
** ** * * * ** *
157156 TGCAGTGCAACACAAAATTGCCACGACATATTACCCATAGACCAATTGGCAAGCTGAAGTGTCAA
779 TGGGGTGGGACACAAAATTGCCATGAAAAATTACCCGCAGACCAATGGGCAAGCTGAAGTGTCAA
* * *
157221 ACCACAAGATTAAGCAAATCCTTGAGAATATGGTGAACCCTAGACGAAAAGACTGGTCGCCGAAG
844 ACCGCAAGATTAAGCAAATCCTTGAGAATATGGTGAACCCTAGACGAAAGGACTGGTCGCCAAAG
* *
157286 CTTGATGAAGAACTATGAG-CTTACAGCACATTTTACATATTTC
909 CTTGATGAAGAATTATG-GTCTTACAACACATTTTACATATTTC
* * *
157329 TAGAGGTTGTAGATAGGAAAGATAATGAGAATCAAGTTACTAACCATATTTCTAGGCTAGAGAAC
1 TAGAGGTTGTAGATAAGAAAGGTAATGAGAATCAAGTTACTGACCATATTTCTAGGCTAGAGAAC
* * * *
157394 AATTCAGCAAGCCATGTCAAC-TAGATATTAAAGAGAAATTTCTTGATGAGCAAATTTTACATGC
66 AATTCAGCAAGCCATGTCAACTTAGATATTAAAGAGAAATTCCCTAATGAGAAAATTTTACATGC
**
157458 CACGACAATTTCGTGGTACGCTAACATTGTTAATTTCCTTATTAGTGGTATTTTGTCTTATGACG
131 CACGACAATTTCGTGGTACGCTAACATTGTTAATTTCCTTATTAGTGGTATTTTGTCTTATGAAA
* * *
157523 TGAACAACCAAGGAAAGAGAAAATTTAGGCATGATGCAAGATTTTATTTTTGGGATGAGCCATAC
196 TGAACAACCAAGGAAAGAGGAAATTCAGGCATGACGCAAGATTTTATTTTTGGGATGAGCCATAC
*
157588 TTGTTCAAGCAATGTGCCCACCAGAATATCCGAAGGTGTGTCCCC---GAGGAGAAAAAATACAT
261 TTGTTCAAGCAATGTGCCCACCAGAATATCCGAAGGTGTGTCCCCGAGGAGGAGAAAAAAGACAT
* * *
157650 CTTACACCATTGCCATTCGACACCATGTGGAGGTCACTTTGGAGGAGCAAGGATTGCTGCAAATA
326 CTTACACCATTGACATTCGACACCATGTGGAGGTCACTTTGGAGGAGCAAGGACTGCTGCAAATG
* ** *
157715 TCTTTTAGTTAGGTTTCTATTATCCCACTCTATTTAAGGATGCTCATGAATTTTTCAAGGCGTGT
391 TCTTTCAGTTAGGTTTCTATTGGCCCACTCTATTTAAGGATGCTCATGAATTTTACAAGGCGTGT
157780 TTTTAGGGCA
Statistics
Matches: 2207, Mismatches: 127, Indels: 30
0.93 0.05 0.01
Matches are distributed among these distances:
945 150 0.07
946 371 0.17
947 419 0.19
948 93 0.04
949 267 0.12
950 564 0.26
951 343 0.16
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (951 bp):
TAGAGGTTGTAGATAAGAAAGGTAATGAGAATCAAGTTACTGACCATATTTCTAGGCTAGAGAAC
AATTCAGCAAGCCATGTCAACTTAGATATTAAAGAGAAATTCCCTAATGAGAAAATTTTACATGC
CACGACAATTTCGTGGTACGCTAACATTGTTAATTTCCTTATTAGTGGTATTTTGTCTTATGAAA
TGAACAACCAAGGAAAGAGGAAATTCAGGCATGACGCAAGATTTTATTTTTGGGATGAGCCATAC
TTGTTCAAGCAATGTGCCCACCAGAATATCCGAAGGTGTGTCCCCGAGGAGGAGAAAAAAGACAT
CTTACACCATTGACATTCGACACCATGTGGAGGTCACTTTGGAGGAGCAAGGACTGCTGCAAATG
TCTTTCAGTTAGGTTTCTATTGGCCCACTCTATTTAAGGATGCTCATGAATTTTACAAGGCGTGT
AATAGATGCCAACGCACGGGAAATATCTCTAGACGACATGAAATGTCATTGCAAAATATCTTGGA
GATAGAACATTTTTATGAGTGAGGCATATACTTTATGGGACCCTTCCCATCCTCGTTTGGTGGCT
TATATATTTTTCTCGCTTTGGAATACATGTCTAAGTGGGTTGAAGCAATTGGGATGCCAAGGAAC
GATTCAAAAACTATTCCTAAGTTTCTGCATAAGTACATCTTCACGAGATTTGGTGCACCTAGAGA
TATCATCAAAGACGAAGGTACCCACTTCGATAAGAAATTAATTGGCAAAGTACTACAAAGATATG
GGGTGGGACACAAAATTGCCATGAAAAATTACCCGCAGACCAATGGGCAAGCTGAAGTGTCAAAC
CGCAAGATTAAGCAAATCCTTGAGAATATGGTGAACCCTAGACGAAAGGACTGGTCGCCAAAGCT
TGATGAAGAATTATGGTCTTACAACACATTTTACATATTTC
Found at i:160954 original size:23 final size:23
Alignment explanation
Indices: 160928--160994 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
160918 CGGTCCTACA
160928 GGACAAATCTACGTGGTCCTTTG
1 GGACAAATCTACGTGGTCCTTTG
** *
160951 GGACATTTCTACGCGGTCCTTTG
1 GGACAAATCTACGTGGTCCTTTG
* *
160974 GGA-TAATACTATGTGGTCCTT
1 GGACAAAT-CTACGTGGTCCTT
160995 CGAGATAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.34
Consensus pattern (23 bp):
GGACAAATCTACGTGGTCCTTTG
Found at i:161283 original size:28 final size:28
Alignment explanation
Indices: 161251--161307 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
161241 ATAAGACTAA
161251 ATGTTTTTAATATTTTGTGAAATGCATT
1 ATGTTTTTAATATTTTGTGAAATGCATT
*
161279 ATGTTTTTAATGTTTTGTGAAATGCATT
1 ATGTTTTTAATATTTTGTGAAATGCATT
161307 A
1 A
161308 CGTGTGAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.53
Consensus pattern (28 bp):
ATGTTTTTAATATTTTGTGAAATGCATT
Done.