Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012919.1 Kokia drynarioides strain JFW-HI SEQ_127935, 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: 150943
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Warning! 92 characters in sequence are not A, C, G, or T
Found at i:743 original size:205 final size:205
Alignment explanation
Indices: 378--882 Score: 663
Period size: 205 Copynumber: 2.5 Consensus size: 205
368 TTGACTTGAC
* * *** * ** * *
378 CTTCTTCTCAGTATCTTATCAGGAAGACGACCATATCACTTGTTTTGATCCACTTCTCTGTATTT
1 CTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCATTTGTTTCAATTCACTTCTCTGTATCT
* ** * * * *
443 CATCAGGAAGATGGTTTTGGTTCACCTCATCGTACTTCATTAGGAAGATAACCTTGCATTGCTTC
66 CATCAGGAAGACGAATTTGGTTCACTTCTTAGTACTTCATCAGGAAGATAACCTTGCATTGCTTC
* * * *
508 GACCTGCTTCTTAGTGTCACATCAAGAAGCTGGGGTTCGAAGATTTGCTCTCATCGAGCGTGAGT
131 GACCTACTTCTTAGTATCACATCAAGAAGCTGGGGTTCGAAGATTTGCCCACATCGAGCGTGAGT
573 TTGATTTGGT
196 TTGATTTGGT
**
583 CTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCATTTGTTTCAATTTGCTTCTCTGTATCT
1 CTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCATTTGTTTCAATTCACTTCTCTGTATCT
* * **
648 CATCAGGAAGACGAATTTGGTCCACTTCTTAGTA-TCTCATCAGGAAGCTAACCTTTTATTGCTT
66 CATCAGGAAGACGAATTTGGTTCACTTCTTAGTACT-TCATCAGGAAGATAACCTTGCATTGCTT
* * *
712 C-ACCCTACTTCTTAGTATCTCATCCAGAAGCTTGGGTTCGAAGATTTGCCCACATCGAGCGTGA
130 CGA-CCTACTTCTTAGTATCACATCAAGAAGCTGGGGTTCGAAGATTTGCCCACATCGAGCGTGA
776 GTTTGATTTGGT
194 GTTTGATTTGGT
* * *
788 CTTCTTCTCAGTATCTCATCAGGAAGATGATTGCGTTATTTGTTTCAATTCACTTCTCTGTATCT
1 CTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCATTTGTTTCAATTCACTTCTCTGTATCT
* *
853 CATCAGGAAGACAAATTTGATTCACTTCTT
66 CATCAGGAAGACGAATTTGGTTCACTTCTT
883 GCTATCCCTG
Statistics
Matches: 260, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
204 2 0.01
205 258 0.99
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (205 bp):
CTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCATTTGTTTCAATTCACTTCTCTGTATCT
CATCAGGAAGACGAATTTGGTTCACTTCTTAGTACTTCATCAGGAAGATAACCTTGCATTGCTTC
GACCTACTTCTTAGTATCACATCAAGAAGCTGGGGTTCGAAGATTTGCCCACATCGAGCGTGAGT
TTGATTTGGT
Found at i:6658 original size:28 final size:28
Alignment explanation
Indices: 6627--6717 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 28
6617 AAAAATGAAC
*
6627 ATTTTAGACATTCGAGGGTAAAAGGGTA
1 ATTTTAGACATTCGAGGGTAAAATGGTA
** *
6655 ATTTTGAGAGTTTC-AAGGTCAAATATGG-A
1 ATTTT-AGACATTCGAGGGT-AAA-ATGGTA
* *
6684 ATTTTTGGACATACGAGGGTAAAATGGTA
1 A-TTTTAGACATTCGAGGGTAAAATGGTA
6713 ATTTT
1 ATTTT
6718 TGGAAGTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
28 17 0.35
29 20 0.42
30 11 0.23
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (28 bp):
ATTTTAGACATTCGAGGGTAAAATGGTA
Found at i:6701 original size:58 final size:59
Alignment explanation
Indices: 6628--6747 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 59
6618 AAAATGAACA
* *
6628 TTTTAGACATTCGAGGGTAAAAGGGTAA-TTTT-GAGAGTTTCAAGGTCAAATATGGAAT
1 TTTTAGACATACGAGGGTAAAAGGGTAATTTTTGGA-AGTTTCAAGGTCAAAAATGGAAT
* * * *
6686 TTTTGGACATACGAGGGTAAAATGGTAATTTTTGGAAGTTTTAGGGTCAAAAATGGAAT
1 TTTTAGACATACGAGGGTAAAAGGGTAATTTTTGGAAGTTTCAAGGTCAAAAATGGAAT
6745 TTT
1 TTT
6748 GGAAGTTTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
58 25 0.46
59 27 0.50
60 2 0.04
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (59 bp):
TTTTAGACATACGAGGGTAAAAGGGTAATTTTTGGAAGTTTCAAGGTCAAAAATGGAAT
Found at i:6731 original size:29 final size:29
Alignment explanation
Indices: 6699--7160 Score: 382
Period size: 29 Copynumber: 15.8 Consensus size: 29
6689 TGGACATACG
6699 AGGGT-AAAATGGTAATTTTTGGAAGTTTT
1 AGGGTAAAAATGG-AATTTTTGGAAGTTTT
*
6728 AGGGTCAAAAATGGAA-TTTTGGAAGTTTC
1 AGGGT-AAAAATGGAATTTTTGGAAGTTTT
* ** *
6757 AAGGTCAAAAATGGAATTTTTAAAAGTTTC
1 AGGGT-AAAAATGGAATTTTTGGAAGTTTT
* * * * **
6787 GGGGTAAAGAATAGAAATTTTGGAAGCTCG
1 AGGGTAAA-AATGGAATTTTTGGAAGTTTT
*
6817 AGGGTAAAAATGAAATTTTTGGAAGTTTT
1 AGGGTAAAAATGGAATTTTTGGAAGTTTT
* * * * **
6846 GGGGTCAAACATAGAA-TTTAGGAAGTTCG
1 AGGGT-AAAAATGGAATTTTTGGAAGTTTT
*
6875 GGGGTAAAAAT-GAGATTTTTGGAAGTTTT
1 AGGGTAAAAATGGA-ATTTTTGGAAGTTTT
* **
6904 AGGGTCAAAAATGGAATTTTAGGAAGTTCG
1 AGGGT-AAAAATGGAATTTTTGGAAGTTTT
* *
6934 AGGGTAAAAATGAAATTTTAGGAAGTTTT
1 AGGGTAAAAATGGAATTTTTGGAAGTTTT
* * *
6963 GGGGTCAAAAATGGAATTTTGGGAAGTTTG
1 AGGGT-AAAAATGGAATTTTTGGAAGTTTT
* *
6993 AGGTTAAAAAAGG-ATTTTTGGAAGTTTT
1 AGGGTAAAAATGGAATTTTTGGAAGTTTT
* *
7021 GGGGTCAAAAATGGAATTTTGGGAAGTTTGT
1 AGGGT-AAAAATGGAATTTTTGGAAGTTT-T
* *
7052 -GGGTAAAAATGGAA-TTTTGGGAGTTTC
1 AGGGTAAAAATGGAATTTTTGGAAGTTTT
* * * **
7079 GGGGTGAAAAATGGAATTTTAGGATGTTCG
1 AGGGT-AAAAATGGAATTTTTGGAAGTTTT
* *
7109 GGGGTAAAAAT-GAGATTTTTGGAAGTTCT
1 AGGGTAAAAATGGA-ATTTTTGGAAGTTTT
**
7138 AGGGTAAAAACAGAATTTTTGGA
1 AGGGTAAAAATGGAATTTTTGGA
7161 CAATTTAAGG
Statistics
Matches: 351, Mismatches: 64, Indels: 36
0.78 0.14 0.08
Matches are distributed among these distances:
27 2 0.01
28 38 0.11
29 178 0.51
30 123 0.35
31 10 0.03
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (29 bp):
AGGGTAAAAATGGAATTTTTGGAAGTTTT
Found at i:6748 original size:58 final size:58
Alignment explanation
Indices: 6671--7135 Score: 514
Period size: 58 Copynumber: 7.9 Consensus size: 58
6661 AGAGTTTCAA
* * *
6671 GGTCAAATATGGAATTTTTGGACA-TACGAGGGT-AAAATGGTAATTTTTGGAAGTTTTAG
1 GGTCAAAAATGGAA-TTTTGGA-AGTTCGAGGGTAAAAATGG-AATTTTTGGAAGTTTTGG
* ** *
6730 GGTCAAAAATGGAATTTTGGAAGTTTC-AAGGTCAAAAATGGAATTTTTAAAAGTTTCGG
1 GGTCAAAAATGGAATTTTGGAAG-TTCGAGGGT-AAAAATGGAATTTTTGGAAGTTTTGG
* * *
6789 GGT-AAAGAATAGAAATTTTGGAAGCTCGAGGGTAAAAATGAAATTTTTGGAAGTTTTGG
1 GGTCAAA-AAT-GGAATTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGG
* * * * *
6848 GGTCAAACATAGAATTTAGGAAGTTCGGGGGTAAAAAT-GAGATTTTTGGAAGTTTTAG
1 GGTCAAAAATGGAATTTTGGAAGTTCGAGGGTAAAAATGGA-ATTTTTGGAAGTTTTGG
* *
6906 GGTCAAAAATGGAATTTTAGGAAGTTCGAGGGTAAAAATGAAATTTTAGGAAGTTTTGG
1 GGTCAAAAATGGAATTTT-GGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGG
* * *
6965 GGTCAAAAATGGAATTTTGGGAAGTTTGAGGTTAAAAAAGG-ATTTTTGGAAGTTTTGG
1 GGTCAAAAATGGAATTTT-GGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGG
* * * *
7023 GGTCAAAAATGGAATTTTGGGAAGTTTGTGGGTAAAAATGGAA-TTTTGGGAGTTTCGG
1 GGTCAAAAATGGAATTTT-GGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGG
* * *
7081 GGTGAAAAATGGAATTTTAGGATGTTCGGGGGTAAAAAT-GAGATTTTTGGAAGTT
1 GGTCAAAAATGGAATTTT-GGAAGTTCGAGGGTAAAAATGGA-ATTTTTGGAAGTT
7136 CTAGGGTAAA
Statistics
Matches: 346, Mismatches: 46, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
57 4 0.01
58 170 0.49
59 145 0.42
60 27 0.08
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.32
Consensus pattern (58 bp):
GGTCAAAAATGGAATTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGG
Found at i:7126 original size:117 final size:116
Alignment explanation
Indices: 6671--7135 Score: 530
Period size: 117 Copynumber: 4.0 Consensus size: 116
6661 AGAGTTTCAA
* * * *
6671 GGTCAAATATGGAATTTTTGGACA-TACGAGGGT-AAAATGGTAATTTTTGGAAGTTTTAGGGTC
1 GGTCAAAAATGGAA-TTTTGGA-AGTTCGAGGGTAAAAAT-GAAATTTTTGGAAGTTTTGGGGTC
* ** *
6734 AAAAATGGAATTTT-GGAAGTTTC-AAGGTCAAAAATGGAATTTTTAAAAGTTTCGG
63 AAAAATGGAATTTTAGGAAG-TTCGAGGGT-AAAAATGG-ATTTTTGGAAGTTTTGG
* *
6789 GGT-AAAGAATAGAAATTTTGGAAGCTCGAGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCA
1 GGTCAAA-AAT-GGAATTTTGGAAGTTCGAGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCA
* * * *
6853 AACATAGAA-TTTAGGAAGTTCGGGGGTAAAAATGAGATTTTTGGAAGTTTTAG
64 AAAATGGAATTTTAGGAAGTTCGAGGGTAAAAATG-GATTTTTGGAAGTTTTGG
*
6906 GGTCAAAAATGGAATTTTAGGAAGTTCGAGGGTAAAAATGAAATTTTAGGAAGTTTTGGGGTCAA
1 GGTCAAAAATGGAATTTT-GGAAGTTCGAGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCAA
* * * *
6971 AAATGGAATTTTGGGAAGTTTGAGGTTAAAAAAGGATTTTTGGAAGTTTTGG
65 AAATGGAATTTTAGGAAGTTCGAGGGTAAAAATGGATTTTTGGAAGTTTTGG
* * * * * *
7023 GGTCAAAAATGGAATTTTGGGAAGTTTGTGGGTAAAAATGGAA-TTTTGGGAGTTTCGGGGTGAA
1 GGTCAAAAATGGAATTTT-GGAAGTTCGAGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCAA
* *
7087 AAATGGAATTTTAGGATGTTCGGGGGTAAAAATGAGATTTTTGGAAGTT
65 AAATGGAATTTTAGGAAGTTCGAGGGTAAAAATG-GATTTTTGGAAGTT
7136 CTAGGGTAAA
Statistics
Matches: 297, Mismatches: 39, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
116 52 0.18
117 156 0.53
118 81 0.27
119 8 0.03
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.32
Consensus pattern (116 bp):
GGTCAAAAATGGAATTTTGGAAGTTCGAGGGTAAAAATGAAATTTTTGGAAGTTTTGGGGTCAAA
AATGGAATTTTAGGAAGTTCGAGGGTAAAAATGGATTTTTGGAAGTTTTGG
Found at i:9086 original size:17 final size:17
Alignment explanation
Indices: 9076--9177 Score: 89
Period size: 17 Copynumber: 5.9 Consensus size: 17
9066 TTTTAAATTC
9076 ATTTAAATTTTAATTAA
1 ATTTAAATTTTAATTAA
* **
9093 ATTTAAATTTAAAGCAA
1 ATTTAAATTTTAATTAA
* *
9110 ATTTAAATTTAAAAGATAA
1 ATTTAAATTT-TAA-TTAA
* *
9129 ATTTAAATTTAAAATAA
1 ATTTAAATTTTAATTAA
* *
9146 ATTTAAATTTAAAAATAA
1 ATTTAAATTT-TAATTAA
9164 ATTTAAA-TTTAATT
1 ATTTAAATTTTAATT
9178 TAAACCCAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
16 3 0.04
17 40 0.53
18 20 0.27
19 12 0.16
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTTAATTAA
Found at i:9090 original size:6 final size:6
Alignment explanation
Indices: 9076--9181 Score: 103
Period size: 6 Copynumber: 18.2 Consensus size: 6
9066 TTTTAAATTC
* **
9076 ATTTAA ATTTTA A-TTAA ATTTAA ATTTAA A-GCAA ATTTAA ATTTAAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA
** * **
9123 AGATAA ATTTAA ATTTAA A-ATAA ATTTAA ATTTAA AAATAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
9170 ATTT-A ATTTAA A
1 ATTTAA ATTTAA A
9182 CCCAATAAAA
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
5 16 0.20
6 59 0.75
7 4 0.05
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:9094 original size:11 final size:11
Alignment explanation
Indices: 9078--9181 Score: 68
Period size: 11 Copynumber: 9.0 Consensus size: 11
9068 TTAAATTCAT
*
9078 TTAAATTTTAA
1 TTAAATTTAAA
9089 TTAAATTTAAA
1 TTAAATTTAAA
**
9100 TTTAAA-GCAAA
1 -TTAAATTTAAA
9111 TTTAAATTTAAAA
1 -TTAAATTT-AAA
*
9124 GATAAATTTAAA
1 -TTAAATTTAAA
*
9136 TTTAAA-ATAAA
1 -TTAAATTTAAA
9147 TTTAAATTTAAAA
1 -TTAAATTT-AAA
*
9160 ATAAATTTAAA
1 TTAAATTTAAA
*
9171 TTTAATTTAAA
1 TTAAATTTAAA
9182 CCCAATAAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
11 41 0.55
12 20 0.27
13 13 0.18
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:9136 original size:36 final size:35
Alignment explanation
Indices: 9076--9175 Score: 148
Period size: 36 Copynumber: 2.9 Consensus size: 35
9066 TTTTAAATTC
* * *
9076 ATTTAAATTT-TAATTAAATTTAAATTTAAAGCAA
1 ATTTAAATTTAAAAATAAATTTAAATTTAAAACAA
*
9110 ATTTAAATTTAAAAGATAAATTTAAATTTAAAATAA
1 ATTTAAATTTAAAA-ATAAATTTAAATTTAAAACAA
9146 ATTTAAATTTAAAAATAAATTTAAATTTAA
1 ATTTAAATTTAAAAATAAATTTAAATTTAA
9176 TTTAAACCCA
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
34 10 0.17
35 18 0.30
36 32 0.53
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (35 bp):
ATTTAAATTTAAAAATAAATTTAAATTTAAAACAA
Found at i:11430 original size:209 final size:208
Alignment explanation
Indices: 10954--11805 Score: 1033
Period size: 209 Copynumber: 4.2 Consensus size: 208
10944 GTTTCATCTC
* * *
10954 TTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACGGCTTCATTGTTTTAACCCACTTCTC-GT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACGGCTTCATTATTTTAATCCACTTCTCTGT
* * *
11018 ACCTCATCAGGAAGACGGATTTGATTCACTTATCTACATCTCGTCAAGAAGATGACCACTTTATT
66 ATCTCATCAGGAAGACGGATTTGATTCACTTCTCT-CATCTCGTCAGGAAGATGACCACTTTATT
*
11083 GCTTCGACCCA-TT-TC----TCT-A--AGGAAGATGAGGTTTGGAAGTTTCACTCACATCGAGC
130 GCTTCGACCCACTTCTCTATATCTCATCAGGAAGATGAGGTTTGGAAGTTTCACTCACATTGAGC
*
11139 TTCGCTTCATTGAA
195 TTCGTTTCATTGAA
* * * * * *
11153 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACTGTTTTATTGTTTTAATCCATTTCTTTGT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACGGCTTCATTATTTTAATCCACTTCTCTGT
* *
11218 ATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTCAATCTCGTCAGGAAGATGAACACTTTATT
66 ATCTCATCAGGAAGACGGATTTGATTCACTTCTCTC-ATCTCGTCAGGAAGATGACCACTTTATT
* * * * *
11283 GCTTCAACCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAAGTTTCACTCTCATTGAGA
130 GCTTCGACCCACTTCTCTATATCTCATCAGGAAGATGAGGTTTGGAAGTTTCACTCACATTGAGC
* *
11348 TTCGTTTCACTAAA
195 TTCGTTTCATTGAA
* *
11362 TTGATCTACTTCTCTGTATCTCATTAGGAAGATGATC-GCTTCATTATTTTAATCCACTTCTCTG
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGA-CGGCTTCATTATTTTAATCCACTTCTCTG
* * * *
11426 TATCTCATCAGGAAGACAGATTTG-GT---TT-T-GCATCTCGTCAGGAAGATGATCACTTTATT
65 TATCTCATCAGGAAGACGGATTTGATTCACTTCTCTCATCTCGTCAGGAAGATGACCACTTTATT
* * * * *
11485 GCTTCGACCCAATTATTTGTATCTCATCAGGAAGATGAGTTTTGGAAGTTTCACTCACATTGAGC
130 GCTTCGACCCACTTCTCTATATCTCATCAGGAAGATGAGGTTTGGAAGTTTCACTCACATTGAGC
*
11550 TTAGCTTT-ATTGAA
195 TTCG-TTTCATTGAA
* * *
11564 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTATTTTAATCCACTTCTCCGC
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACGGCTTCATTATTTTAATCCACTTCTCTGT
* * * *
11629 ATCTCATCAAGAAGACGGATTTGATTCACTTCTCTGCATCTTGTTAGGAAGATGTCCACTTTATT
66 ATCTCATCAGGAAGACGGATTTGATTCACTTCTCT-CATCTCGTCAGGAAGATGACCACTTTATT
* * * **
11694 GTTTCGACCCACTTCTCTATATCTTATCAGGAAGATG-GAGTTTCGAAGTTTCACTCGTATTGAG
130 GCTTCGACCCACTTCTCTATATCTCATCAGGAAGATGAG-GTTTGGAAGTTTCACTCACATTGAG
* **
11758 CTTC-TCATCATTGTT
194 CTTCGT-TTCATTGAA
* *
11773 TTGGTCTGCTTCTCTGTATCTCATCAAGAAGAT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGAT
11806 AACCTTTTGA
Statistics
Matches: 556, Mismatches: 73, Indels: 38
0.83 0.11 0.06
Matches are distributed among these distances:
199 56 0.10
200 70 0.13
201 3 0.01
202 171 0.31
203 5 0.01
204 1 0.00
205 2 0.00
206 5 0.01
207 3 0.01
208 3 0.01
209 236 0.42
210 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (208 bp):
TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACGGCTTCATTATTTTAATCCACTTCTCTGT
ATCTCATCAGGAAGACGGATTTGATTCACTTCTCTCATCTCGTCAGGAAGATGACCACTTTATTG
CTTCGACCCACTTCTCTATATCTCATCAGGAAGATGAGGTTTGGAAGTTTCACTCACATTGAGCT
TCGTTTCATTGAA
Found at i:15346 original size:16 final size:16
Alignment explanation
Indices: 15327--15359 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15317 CTTGTATGGC
15327 TTTGACTTTGTTTGGA
1 TTTGACTTTGTTTGGA
15343 TTTGACTTTGTTTGGA
1 TTTGACTTTGTTTGGA
15359 T
1 T
15360 CAATTTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.24, T:0.58
Consensus pattern (16 bp):
TTTGACTTTGTTTGGA
Found at i:22308 original size:11 final size:11
Alignment explanation
Indices: 22266--22308 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
22256 CCAGGTAGGA
22266 AAAAGAAAAAG
1 AAAAGAAAAAG
* *
22277 AAAAGGAGAAG
1 AAAAGAAAAAG
22288 AAAATG-AAAAG
1 AAAA-GAAAAAG
22299 AAAAGAAAAA
1 AAAAGAAAAA
22309 AGGTACAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 1 0.04
11 25 0.93
12 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:23198 original size:12 final size:12
Alignment explanation
Indices: 23181--23218 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
23171 AAATGGGAGA
23181 TGAAGAAGATAG
1 TGAAGAAGATAG
*
23193 TGAAGATGA-AG
1 TGAAGAAGATAG
23204 ATGAAGAAGATAG
1 -TGAAGAAGATAG
23217 TG
1 TG
23219 TAGCAACCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.18
Consensus pattern (12 bp):
TGAAGAAGATAG
Found at i:24157 original size:24 final size:24
Alignment explanation
Indices: 24112--24157 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
24102 ATAAATAATA
* *
24112 ATATATTTTTAAATATTTTAAAAC
1 ATATATTTTGAAATATTATAAAAC
24136 ATATATTTTGAAA-ATCTATAAA
1 ATATATTTTGAAATAT-TATAAA
24158 GTATTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
ATATATTTTGAAATATTATAAAAC
Found at i:24398 original size:18 final size:18
Alignment explanation
Indices: 24384--24418 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24374 TGTTGTGGCC
*
24384 ACGGACGACGTTGTGACA
1 ACGGACAACGTTGTGACA
*
24402 ACGGACAACGTCGTGAC
1 ACGGACAACGTTGTGAC
24419 GACGCGAATG
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:0.29, C:0.26, G:0.31, T:0.14
Consensus pattern (18 bp):
ACGGACAACGTTGTGACA
Found at i:26307 original size:21 final size:21
Alignment explanation
Indices: 26282--26331 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
26272 AGAGGTGTTA
26282 GAGGCAGACTCCGCGGAAGAG
1 GAGGCAGACTCCGCGGAAGAG
26303 GAGGCAGACTCCGCGGAAGAG
1 GAGGCAGACTCCGCGGAAGAG
26324 GAGGCAGA
1 GAGGCAGA
26332 AGCAATGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.44, T:0.04
Consensus pattern (21 bp):
GAGGCAGACTCCGCGGAAGAG
Found at i:38147 original size:14 final size:15
Alignment explanation
Indices: 38128--38161 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38118 TTGAACAAGT
*
38128 AAAAAGCAA-ATTAC
1 AAAAAGAAATATTAC
38142 AAAAAGAAATATTAC
1 AAAAAGAAATATTAC
38157 AAAAA
1 AAAAA
38162 ATGGCAACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAAAGAAATATTAC
Found at i:38634 original size:26 final size:26
Alignment explanation
Indices: 38602--38667 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
38592 TAACTACTAA
* *
38602 TGTCGCTGCATGAGCATGTCCATAAT
1 TGTCGCTGCATGAACATGTCCAGAAT
*
38628 TGTCGCTGCA-GAAACTTGTCCAGAAT
1 TGTCGCTGCATG-AACATGTCCAGAAT
*
38654 TATCGCTGCATGAA
1 TGTCGCTGCATGAA
38668 TATTTCAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 32 0.94
27 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (26 bp):
TGTCGCTGCATGAACATGTCCAGAAT
Found at i:42643 original size:12 final size:12
Alignment explanation
Indices: 42628--42720 Score: 70
Period size: 12 Copynumber: 8.2 Consensus size: 12
42618 AAAATCGTAG
42628 CAAAAATAACAA
1 CAAAAATAACAA
* *
42640 C-AAAACAATAA
1 CAAAAATAACAA
42651 C--AAA-AACAA
1 CAAAAATAACAA
*
42660 CAAAAATAGCAA
1 CAAAAATAACAA
* *
42672 CAAGAA-AACAG
1 CAAAAATAACAA
* *
42683 TAAAAATAGCAA
1 CAAAAATAACAA
* *
42695 CAAAAACATCAA
1 CAAAAATAACAA
42707 CAAAAATAACAA
1 CAAAAATAACAA
42719 CA
1 CA
42721 TCAAAACAAT
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
9 5 0.08
10 3 0.05
11 19 0.31
12 34 0.56
ACGTcount: A:0.70, C:0.18, G:0.04, T:0.08
Consensus pattern (12 bp):
CAAAAATAACAA
Found at i:42674 original size:35 final size:35
Alignment explanation
Indices: 42635--42754 Score: 91
Period size: 35 Copynumber: 3.4 Consensus size: 35
42625 TAGCAAAAAT
* *
42635 AACAACAAAACAATAACAAAAACAACAAAAATAGC
1 AACAAAAAAACAATAACAAAAACAACAAAAACAGC
* * * *
42670 AACAAGAAAACAGTAA-AAATAGCAACAAAAACATC
1 AACAAAAAAACAATAACAAA-AACAACAAAAACAGC
* * * *
42705 AACAAAAATAACAACATC-AAAACAATAAAAAAAGGC
1 AACAAAAA-AACAATAACAAAAACAACAAAAACA-GC
* *
42741 ACCAAAACAACAAT
1 AACAAAAAAACAAT
42755 CAAAACAGTA
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
34 3 0.05
35 48 0.74
36 14 0.22
ACGTcount: A:0.68, C:0.19, G:0.05, T:0.07
Consensus pattern (35 bp):
AACAAAAAAACAATAACAAAAACAACAAAAACAGC
Found at i:42679 original size:23 final size:22
Alignment explanation
Indices: 42610--42759 Score: 92
Period size: 24 Copynumber: 6.5 Consensus size: 22
42600 AATAACATCC
42610 AAACAACAAAAATCGTAGCAA-AAA
1 AAACAACAAAAA---TAGCAACAAA
* *
42634 TAACAACAAAACA-A-TAAC-AA
1 AAACAACAAAA-ATAGCAACAAA
42654 AAACAACAAAAATAGCAACAAGA
1 AAACAACAAAAATAGCAACAA-A
**
42677 AAACAGTAAAAATAGCAACAAA
1 AAACAACAAAAATAGCAACAAA
* *
42699 AACATCAACAAAAATAACAACATCA
1 AA-A-CAACAAAAATAGCAACA-AA
* * *
42724 AAACAATAAAAAAAGGCACCAAA
1 AAACAACAAAAATA-GCAACAAA
42747 ACAACAATCAAAA
1 A-AACAA-CAAAA
42760 CAGTAAAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
19 1 0.01
20 15 0.15
21 4 0.04
22 4 0.04
23 32 0.33
24 34 0.35
25 8 0.08
ACGTcount: A:0.68, C:0.19, G:0.05, T:0.08
Consensus pattern (22 bp):
AAACAACAAAAATAGCAACAAA
Found at i:42748 original size:47 final size:47
Alignment explanation
Indices: 42655--42786 Score: 133
Period size: 47 Copynumber: 2.7 Consensus size: 47
42645 CAATAACAAA
* * *
42655 AACAACAAAAATAGCAACAAGAAAACAGTAAAAATAGCAACAAAAAC
1 AACAACAAAAATAACAACAACAAAACAGTAAAAAAAGCAACAAAAAC
* * * *
42702 ATCAACAAAAATAACAACATCAAAACAATAAAAAAAGGC-ACCAAAAC
1 AACAACAAAAATAACAACAACAAAACAGTAAAAAAA-GCAACAAAAAC
*
42749 AACAATCAAAACAGTAA-AAAAACCAAAACAGTAAAAAA
1 AACAA-CAAAA-A-TAACAACAA-CAAAACAGTAAAAAA
42787 TAACATGAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
47 41 0.59
48 7 0.10
49 4 0.06
50 17 0.25
ACGTcount: A:0.68, C:0.18, G:0.06, T:0.08
Consensus pattern (47 bp):
AACAACAAAAATAACAACAACAAAACAGTAAAAAAAGCAACAAAAAC
Found at i:42774 original size:29 final size:30
Alignment explanation
Indices: 42714--42778 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 30
42704 CAACAAAAAT
42714 AACAACATCAAAACAATAAAAAAAGGCACCAA
1 AACAACATCAAAACAATAAAAAAA-G-ACCAA
*
42746 AACAACAATCAAAACAGT-AAAAAA-ACCAA
1 AACAAC-ATCAAAACAATAAAAAAAGACCAA
42775 AACA
1 AACA
42779 GTAAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 9 0.29
32 12 0.39
33 10 0.32
ACGTcount: A:0.68, C:0.22, G:0.05, T:0.06
Consensus pattern (30 bp):
AACAACATCAAAACAATAAAAAAAGACCAA
Found at i:42811 original size:20 final size:21
Alignment explanation
Indices: 42773--42811 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
42763 TAAAAAAACC
*
42773 AAAACAGTAAAAAATAACATG
1 AAAACAGCAAAAAATAACATG
42794 AAAACAGCAAAAAA-AACA
1 AAAACAGCAAAAAATAACA
42812 GCAACCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.72, C:0.13, G:0.08, T:0.08
Consensus pattern (21 bp):
AAAACAGCAAAAAATAACATG
Found at i:43234 original size:14 final size:14
Alignment explanation
Indices: 43215--43253 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
43205 TTGTTTCATT
*
43215 AAAAATAATTTCCG
1 AAAAATGATTTCCG
**
43229 AAAAATGATTTTTG
1 AAAAATGATTTCCG
43243 AAAAATGATTT
1 AAAAATGATTT
43254 ATTTTCTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (14 bp):
AAAAATGATTTCCG
Found at i:43657 original size:18 final size:16
Alignment explanation
Indices: 43625--43659 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
43615 TGAAAAAATA
43625 TAATATTTTAATATTT
1 TAATATTTTAATATTT
43641 TAATAATTTTAAATATTT
1 TAAT-ATTTT-AATATTT
43659 T
1 T
43660 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAATATTTTAATATTT
Found at i:43663 original size:10 final size:8
Alignment explanation
Indices: 43625--43659 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
43615 TGAAAAAATA
43625 TAATATTT
1 TAATATTT
43633 TAATATTT
1 TAATATTT
43641 TAATAATTT
1 TAAT-ATTT
43650 TAAATATTT
1 T-AATATTT
43659 T
1 T
43660 TAAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 12 0.48
9 10 0.40
10 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TAATATTT
Found at i:47870 original size:19 final size:19
Alignment explanation
Indices: 47815--47873 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 19
47805 TCAAAGTGTT
47815 TTTAATATA-TATTAATATA
1 TTTAATATATTATTAA-ATA
47834 TTTAATATTTATTTATTAAATA
1 TTTAATA--TA-TTATTAAATA
47856 -TTAATATACTTATTAAAT
1 TTTAATATA-TTATTAAAT
47874 GCTATTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 18 0.51
21 8 0.23
22 3 0.09
23 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAATATATTATTAAATA
Found at i:48866 original size:30 final size:30
Alignment explanation
Indices: 48830--49036 Score: 218
Period size: 30 Copynumber: 6.9 Consensus size: 30
48820 CTAGGTCCCT
* *
48830 AAACTTTTCTAAAATCATATTTTAACCCCC
1 AAACTTTTCCAAAATCACATTTTAACCCCC
* * *
48860 AAACTTTTCTAAAATTACATTTTAACCCTC
1 AAACTTTTCCAAAATCACATTTTAACCCCC
* * *
48890 GAACTTTTCCAAAATCATATTTTCA-CCCC
1 AAACTTTTCCAAAATCACATTTTAACCCCC
* ** **
48919 AAACTTTTCCATAATCACATTTCGATACCC
1 AAACTTTTCCAAAATCACATTTTAACCCCC
* * *
48949 AAACTTCTCCAAAATCATATTTTGACCCCC
1 AAACTTTTCCAAAATCACATTTTAACCCCC
* **
48979 AAACCTTTCCAAAATCACATTTTAACCCTT
1 AAACTTTTCCAAAATCACATTTTAACCCCC
* *
49009 AAACTTTTCCAAAATTACGTTTTAACCC
1 AAACTTTTCCAAAATCACATTTTAACCC
49037 TAAATTCTTC
Statistics
Matches: 146, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
29 23 0.16
30 123 0.84
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.35
Consensus pattern (30 bp):
AAACTTTTCCAAAATCACATTTTAACCCCC
Found at i:49013 original size:60 final size:60
Alignment explanation
Indices: 48829--49023 Score: 252
Period size: 60 Copynumber: 3.3 Consensus size: 60
48819 ACTAGGTCCC
* * *
48829 TAAACTTTTCTAAAATCATATTTTAACCCCCAAACTTTTCTAAAATTACATTTTAACCCT
1 TAAACTTTTCCAAAATCATATTTTAACCCCCAAACTTTTCCAAAATCACATTTTAACCCT
** * * *
48889 CGAACTTTTCCAAAATCATATTTTCA-CCCCAAACTTTTCCATAATCACATTTCGATACCC-
1 TAAACTTTTCCAAAATCATATTTTAACCCCCAAACTTTTCCAAAATCACATTT-TA-ACCCT
* * *
48949 -AAACTTCTCCAAAATCATATTTTGACCCCCAAACCTTTCCAAAATCACATTTTAACCCT
1 TAAACTTTTCCAAAATCATATTTTAACCCCCAAACTTTTCCAAAATCACATTTTAACCCT
49008 TAAACTTTTCCAAAAT
1 TAAACTTTTCCAAAAT
49024 TACGTTTTAA
Statistics
Matches: 115, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
58 4 0.03
59 46 0.40
60 61 0.53
61 4 0.03
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (60 bp):
TAAACTTTTCCAAAATCATATTTTAACCCCCAAACTTTTCCAAAATCACATTTTAACCCT
Found at i:49972 original size:6 final size:6
Alignment explanation
Indices: 49961--50045 Score: 70
Period size: 6 Copynumber: 14.3 Consensus size: 6
49951 TAAATGTATT
**
49961 TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTATCTT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA
** *
50010 TTT-GC TTTAAA TTTAAA TTT-AA TTAAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
50046 GATTTAAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
4 2 0.03
5 9 0.15
6 45 0.73
7 2 0.03
8 4 0.06
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:49984 original size:17 final size:17
Alignment explanation
Indices: 49948--50060 Score: 97
Period size: 17 Copynumber: 6.4 Consensus size: 17
49938 GTTTAAATTG
* *
49948 ATTTAAATGTATTTTTAA
1 ATTTAAATTTA-TCTTAA
49966 ATTTAAATTTATCTTAA
1 ATTTAAATTTATCTTAA
49983 ATTTAAATTTATCTTTTTAA
1 ATTTAAATTTATC---TTAA
*
50003 ATTTAAATTT-GCTTTAA
1 ATTTAAATTTATC-TTAA
*
50020 ATTTAAATTTAAT-TAAA
1 ATTTAAATTT-ATCTTAA
*
50037 ATTTAAATTGAT-TTAAA
1 ATTTAAATTTATCTT-AA
50054 ATTTAAA
1 ATTTAAA
50061 ACTTAATATT
Statistics
Matches: 82, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
16 3 0.04
17 54 0.66
18 10 0.12
19 1 0.01
20 14 0.17
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (17 bp):
ATTTAAATTTATCTTAA
Found at i:50007 original size:37 final size:37
Alignment explanation
Indices: 49959--50030 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 37
49949 TTTAAATGTA
*
49959 TTTTTAAATTTAAATTT-ATCTTAAATTTAAATTTATC
1 TTTTTAAATTTAAATTTGCT-TTAAATTTAAATTTATC
49996 TTTTTAAATTTAAATTTGCTTTAAATTTAAATTTA
1 TTTTTAAATTTAAATTTGCTTTAAATTTAAATTTA
50031 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (37 bp):
TTTTTAAATTTAAATTTGCTTTAAATTTAAATTTATC
Found at i:52436 original size:27 final size:28
Alignment explanation
Indices: 52389--52442 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
52379 AAAAAGAATC
*
52389 AATAATTTTTATATGACAAATTTTAAAA
1 AATAATTTTTATATGAAAAATTTTAAAA
*
52417 AATATTTTTTATAT-AAAAATTTTAAA
1 AATAATTTTTATATGAAAAATTTTAAA
52443 TTATTTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
AATAATTTTTATATGAAAAATTTTAAAA
Found at i:52560 original size:12 final size:12
Alignment explanation
Indices: 52543--52569 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
52533 TAAATTTTTT
52543 TTTTAAATTTCA
1 TTTTAAATTTCA
52555 TTTTAAATTTCA
1 TTTTAAATTTCA
52567 TTT
1 TTT
52570 CTACACCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTAAATTTCA
Found at i:68638 original size:23 final size:23
Alignment explanation
Indices: 68612--68703 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
68602 GCTCTCTATT
68612 ATTAGCACTGTGTGTGCTCTCTG
1 ATTAGCACTGTGTGTGCTCTCTG
* * *
68635 ATTAACACTTTGTGTGCTCTTTG
1 ATTAGCACTGTGTGTGCTCTCTG
* * *
68658 ATTAGTACTTTGTGTACTCTCT-
1 ATTAGCACTGTGTGTGCTCTCTG
68680 ATTTAGCACTGTGTGTGCTCTCTG
1 A-TTAGCACTGTGTGTGCTCTCTG
68704 TTGCCCAGCA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
22 1 0.02
23 56 0.98
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.45
Consensus pattern (23 bp):
ATTAGCACTGTGTGTGCTCTCTG
Found at i:68690 original size:69 final size:68
Alignment explanation
Indices: 68603--68748 Score: 190
Period size: 69 Copynumber: 2.1 Consensus size: 68
68593 ACGTCTCATG
*
68603 CTCTCTATTATTAGCACTGTGTGTGCTCTCTGATT-AACACTTTGTGTGCTCTTTGATTAGTACT
1 CTCTCTATTATTAGCACTGTGTGTGCTCTCTG-TTCAACAC-TTATGTGCTCTTTG-TTAGTACT
68667 TTGTGTA
63 TTG-GTA
*
68674 CTCTCTA-T-TTAGCACTGTGTGTGCTCTCTGTTGCCCAGCACTTATGTGCTCTTTGTTAGTACT
1 CTCTCTATTATTAGCACTGTGTGTGCTCTCTGTT---CAACACTTATGTGCTCTTTGTTAGTACT
68737 TTGGTA
63 TTGGTA
68743 CTCTCT
1 CTCTCT
68749 GTTTGTTCCA
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
68 2 0.03
69 31 0.45
70 12 0.17
71 20 0.29
72 4 0.06
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.45
Consensus pattern (68 bp):
CTCTCTATTATTAGCACTGTGTGTGCTCTCTGTTCAACACTTATGTGCTCTTTGTTAGTACTTTG
GTA
Found at i:74181 original size:30 final size:30
Alignment explanation
Indices: 74145--74204 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
74135 GAGTAAAGAG
*
74145 GTATATGATGATATA-TATGTGAATAACAAT
1 GTATATG-TGAAATATTATGTGAATAACAAT
**
74175 GTATATGTGAAATATTATGTGTTTAACAAT
1 GTATATGTGAAATATTATGTGAATAACAAT
74205 AAATATTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (30 bp):
GTATATGTGAAATATTATGTGAATAACAAT
Found at i:80314 original size:84 final size:84
Alignment explanation
Indices: 80173--80392 Score: 289
Period size: 84 Copynumber: 2.6 Consensus size: 84
80163 GGTGTGTCTA
*
80173 GGGTGTGTGTGGCACATGGGCTGGCACACGGGGGTGTGTCAG-GGTGTGTGTGTATACTGTTTAG
1 GGGTGTGTGTGGCACACGGGCTGGCACACGGGGGTGTGTCAGAGG-GTGTGTGTATACTGTTTAG
** * * *
80237 AGGCACATTGGTTGGAATAC
65 AGGCACACGGGCTAGAACAC
* * * * * *
80257 GGGTGTGTGTGGCGCACAGGCTGACACACAGAGGTGTGTCAGAGGGTGTGTGTATACTGTTTGGA
1 GGGTGTGTGTGGCACACGGGCTGGCACACGGGGGTGTGTCAGAGGGTGTGTGTATACTGTTTAGA
80322 GGCACACGGGCTAGAACAC
66 GGCACACGGGCTAGAACAC
* * *
80341 GGGTGTGTGTGGCATACGGGCTGGCACACGGGGGTGTGTTAGAGTGTGTGTG
1 GGGTGTGTGTGGCACACGGGCTGGCACACGGGGGTGTGTCAGAGGGTGTGTG
80393 GCACATGGGC
Statistics
Matches: 115, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
84 113 0.98
85 2 0.02
ACGTcount: A:0.17, C:0.15, G:0.43, T:0.25
Consensus pattern (84 bp):
GGGTGTGTGTGGCACACGGGCTGGCACACGGGGGTGTGTCAGAGGGTGTGTGTATACTGTTTAGA
GGCACACGGGCTAGAACAC
Found at i:80369 original size:29 final size:29
Alignment explanation
Indices: 80322--80379 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
80312 ACTGTTTGGA
*
80322 GGCACACGGGCTAGAACACGGGTGTGTGT
1 GGCACACGGGCTAGAACACGGGGGTGTGT
* * *
80351 GGCATACGGGCTGGCACACGGGGGTGTGT
1 GGCACACGGGCTAGAACACGGGGGTGTGT
80380 TAGAGTGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.17, C:0.21, G:0.45, T:0.17
Consensus pattern (29 bp):
GGCACACGGGCTAGAACACGGGGGTGTGT
Found at i:80420 original size:41 final size:41
Alignment explanation
Indices: 80343--80420 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
80333 TAGAACACGG
* **
80343 GTGTGTGTGGCATACGGGCTGGCACACGGGGGTGTGTTAGA
1 GTGTGTGTGGCACACGGGCTGGCACACGGGCATGTGTTAGA
* * *
80384 GTGTGTGTGGCACATGGGCTTGCACATGGGCATGTGT
1 GTGTGTGTGGCACACGGGCTGGCACACGGGCATGTGT
80421 CAAGATGTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.14, C:0.15, G:0.44, T:0.27
Consensus pattern (41 bp):
GTGTGTGTGGCACACGGGCTGGCACACGGGCATGTGTTAGA
Found at i:80430 original size:41 final size:41
Alignment explanation
Indices: 80343--80432 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
80333 TAGAACACGG
* ** *
80343 GTGTGTGTGGCATACGGGCTGGCACACGGGGGTGTGTTAGA
1 GTGTGTGTGGCACACGGGCTGGCACACGGGCATGTGTAAGA
* * *
80384 GTGTGTGTGGCACATGGGCTTGCACATGGGCATGTGTCAAGA
1 GTGTGTGTGGCACACGGGCTGGCACACGGGCATGTGT-AAGA
80426 -TGTGTGT
1 GTGTGTGT
80433 ATACTGTTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 38 0.93
42 3 0.07
ACGTcount: A:0.16, C:0.14, G:0.42, T:0.28
Consensus pattern (41 bp):
GTGTGTGTGGCACACGGGCTGGCACACGGGCATGTGTAAGA
Found at i:81154 original size:29 final size:29
Alignment explanation
Indices: 81045--81156 Score: 100
Period size: 29 Copynumber: 3.9 Consensus size: 29
81035 ATGGGGGTAT
* * * * * *
81045 CATGTCTGCATCTGTAACTATATTTGTGA
1 CATGACTGTATCTGTAACTGTATCTCTAA
* *
81074 CATGACTGCATCTTTAACTGTATCTCTAA
1 CATGACTGTATCTGTAACTGTATCTCTAA
* * *
81103 -TTCGATTGTATCTGTAACAGTATCTCTAA
1 CAT-GACTGTATCTGTAACTGTATCTCTAA
*
81132 CATGACTGTATCTGTAATTGTATCT
1 CATGACTGTATCTGTAACTGTATCT
81157 GTATTATTTT
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
28 1 0.02
29 64 0.97
30 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (29 bp):
CATGACTGTATCTGTAACTGTATCTCTAA
Found at i:83536 original size:43 final size:43
Alignment explanation
Indices: 83488--83579 Score: 134
Period size: 41 Copynumber: 2.2 Consensus size: 43
83478 GGGGTATGTT
*
83488 AGGGTGTATGTGTATACTGTTTAGAGGCACACGGGCATGTGTC
1 AGGGTGTATGTGTATACTGTTTAGAGGCACACGAGCATGTGTC
* * *
83531 AGGGTG--TGTGTATACTGTTTGGAGGCACACGAGCGTGTGTT
1 AGGGTGTATGTGTATACTGTTTAGAGGCACACGAGCATGTGTC
83572 AGGGTGTA
1 AGGGTGTA
83580 AGTGGCACAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 37 0.86
43 6 0.14
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.30
Consensus pattern (43 bp):
AGGGTGTATGTGTATACTGTTTAGAGGCACACGAGCATGTGTC
Found at i:83644 original size:86 final size:86
Alignment explanation
Indices: 83534--83709 Score: 262
Period size: 86 Copynumber: 2.0 Consensus size: 86
83524 ATGTGTCAGG
* *
83534 GTGTGTGTATACTGTTTGGAGGCACACGAGCGTGTGTTAGGGTGTAAGTGGCACACGGGCTGGAA
1 GTGTGTGTATACTGTTTGGAGGCACACAAGCGTGTGTCAGGGTGTAAGTGGCACACGGGCTGGAA
*
83599 CACGGGGGTGTGTCAAGGTGT
66 CACGGGCGTGTGTCAAGGTGT
** ** *
83620 GTGTGTGTATTTTGTTTGGAGGCACACAAGCGTGTGTCAGGGTGTGTGTGGCACACGGGCTGGTA
1 GTGTGTGTATACTGTTTGGAGGCACACAAGCGTGTGTCAGGGTGTAAGTGGCACACGGGCTGGAA
* *
83685 CATGGGCGTGTGTCAGGGTGT
66 CACGGGCGTGTGTCAAGGTGT
83706 GTGT
1 GTGT
83710 ATACTGTTCT
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.16, C:0.14, G:0.42, T:0.28
Consensus pattern (86 bp):
GTGTGTGTATACTGTTTGGAGGCACACAAGCGTGTGTCAGGGTGTAAGTGGCACACGGGCTGGAA
CACGGGCGTGTGTCAAGGTGT
Found at i:83749 original size:41 final size:42
Alignment explanation
Indices: 83704--83785 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
83694 GTGTCAGGGT
* *
83704 GTGTGTATACTGTTCTAGGG-CACACGGGCTGACACATGGGC
1 GTGTGTATACTGTTCTAGGGAAACACAGGCTGACACATGGGC
* * *
83745 GTGTGTATACTGTTTTGGGGAAACATAGGCTGACACATGGG
1 GTGTGTATACTGTTCTAGGGAAACACAGGCTGACACATGGG
83786 TGTGGGTACA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 18 0.51
42 17 0.49
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (42 bp):
GTGTGTATACTGTTCTAGGGAAACACAGGCTGACACATGGGC
Found at i:84270 original size:40 final size:40
Alignment explanation
Indices: 84226--84334 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
84216 AGAATATTTA
*
84226 ACTAAACCGACAGTGACACTGTAATCACTGCAAGGTTACC
1 ACTAAACCGACAGTGACACTGTAAACACTGCAAGGTTACC
* * *
84266 ACTAAACTGGCAGTGACACTGTAAACACTGTAAGGTTACC
1 ACTAAACCGACAGTGACACTGTAAACACTGCAAGGTTACC
* * ** *
84306 ACTGAACTGGTAGTGACACTATAAACACT
1 ACTAAACCGACAGTGACACTGTAAACACT
84335 ACAACGTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (40 bp):
ACTAAACCGACAGTGACACTGTAAACACTGCAAGGTTACC
Found at i:93094 original size:57 final size:57
Alignment explanation
Indices: 92983--93158 Score: 228
Period size: 57 Copynumber: 3.1 Consensus size: 57
92973 TATTTCTGTT
* * * * * * *
92983 AAAGGACAGCCTTTGTGGCAAATCTTTTAAAAAGGTAAACATTTGTGGTGAACCTCTC
1 AAAGGACAACCTTTATGACTAATC-TCTAAAAAGGTAAGCCTTTGTGGTGAACCTCTC
* * *
93041 AAAGGACAACCTTTAT-AGCTAATCTCTAGAAAGGTAAGTCTTTTTGGTGAACCTCTC
1 AAAGGACAACCTTTATGA-CTAATCTCTAAAAAGGTAAGCCTTTGTGGTGAACCTCTC
*
93098 AAAGGACAACCTTTGTGACTAATCTCTAAAAAGGTAAGCCTTTGTGGTGAACCTCTC
1 AAAGGACAACCTTTATGACTAATCTCTAAAAAGGTAAGCCTTTGTGGTGAACCTCTC
93155 AAAG
1 AAAG
93159 TATGTGGTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
57 82 0.80
58 20 0.20
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (57 bp):
AAAGGACAACCTTTATGACTAATCTCTAAAAAGGTAAGCCTTTGTGGTGAACCTCTC
Found at i:93153 original size:29 final size:29
Alignment explanation
Indices: 93010--93153 Score: 93
Period size: 29 Copynumber: 5.0 Consensus size: 29
93000 GCAAATCTTT
*
93010 TAAAAAGGTAAACATTTGTGGTGAACCTC
1 TAAAAAGGTAAACCTTTGTGGTGAACCTC
* * * *
93039 T-CAAAGG-ACAACCTTTATAGCT-AATCTC
1 TAAAAAGGTA-AACCTTTGT-GGTGAACCTC
* ** *
93067 TAGAAAGGTAAGTCTTTTTGGTGAACCTC
1 TAAAAAGGTAAACCTTTGTGGTGAACCTC
* * *
93096 T-CAAAGG-ACAACCTTTGTGACT-AATCTC
1 TAAAAAGGTA-AACCTTTGTG-GTGAACCTC
*
93124 TAAAAAGGTAAGCCTTTGTGGTGAACCTC
1 TAAAAAGGTAAACCTTTGTGGTGAACCTC
93153 T
1 T
93154 CAAAGTATGT
Statistics
Matches: 84, Mismatches: 21, Indels: 20
0.67 0.17 0.16
Matches are distributed among these distances:
27 2 0.02
28 39 0.46
29 41 0.49
30 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (29 bp):
TAAAAAGGTAAACCTTTGTGGTGAACCTC
Found at i:93276 original size:28 final size:28
Alignment explanation
Indices: 93244--93328 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 28
93234 TAAAGAAAAC
*
93244 ACCTTCGTGGTGATCTCTATTAAAGGAA
1 ACCTTCATGGTGATCTCTATTAAAGGAA
*
93272 ACCTTCATGGCT-ATCTCTA-TAAAAGAA
1 ACCTTCATGG-TGATCTCTATTAAAGGAA
* *
93299 ATGCCTTCATGGCGATCTCTATTGAAGGAA
1 A--CCTTCATGGTGATCTCTATTAAAGGAA
93329 GCCATCGTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
27 8 0.17
28 16 0.34
29 17 0.36
30 6 0.13
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (28 bp):
ACCTTCATGGTGATCTCTATTAAAGGAA
Found at i:93306 original size:57 final size:57
Alignment explanation
Indices: 93172--93328 Score: 156
Period size: 57 Copynumber: 2.7 Consensus size: 57
93162 GTGGTTAATT
* * * * *
93172 TCTATAAAAGGACATGCCTTCGTGGCT-ATGTCTGTTAAAGGAATCCTTCATCGCTATT
1 TCTATAAAA-GAAATGCCTTCGTGG-TGATCTCTATTAAAGGAAACCTTCATCGCTATC
* * ** *
93230 TTTGT-AAAGAAAACACCTTCGTGGTGATCTCTATTAAAGGAAACCTTCATGGCTATC
1 TCTATAAAAG-AAATGCCTTCGTGGTGATCTCTATTAAAGGAAACCTTCATCGCTATC
* * *
93287 TCTATAAAAGAAATGCCTTCATGGCGATCTCTATTGAAGGAA
1 TCTATAAAAGAAATGCCTTCGTGGTGATCTCTATTAAAGGAA
93329 GCCATCGTGG
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
56 2 0.03
57 70 0.89
58 7 0.09
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (57 bp):
TCTATAAAAGAAATGCCTTCGTGGTGATCTCTATTAAAGGAAACCTTCATCGCTATC
Found at i:102567 original size:12 final size:12
Alignment explanation
Indices: 102550--102584 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
102540 ACGGAGTGAC
102550 AAGAAAGAGAAG
1 AAGAAAGAGAAG
102562 AAGAAAGAGAAG
1 AAGAAAGAGAAG
*
102574 AAGCAAGAGAA
1 AAGAAAGAGAA
102585 TGGTCTGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.66, C:0.03, G:0.31, T:0.00
Consensus pattern (12 bp):
AAGAAAGAGAAG
Found at i:102791 original size:32 final size:32
Alignment explanation
Indices: 102753--102826 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
102743 AAATTATTTG
*
102753 GTTGGATTTTAAAATTATTATGTTTTAAAG-TT
1 GTTGGATATTAAAATTATTATGTTTT-AAGTTT
* *
102785 GTTGGATATTGAATTTATTATGTTTTAAGTTT
1 GTTGGATATTAAAATTATTATGTTTTAAGTTT
102817 GTTGGATATT
1 GTTGGATATT
102827 TTGATGTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 3 0.08
32 35 0.92
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (32 bp):
GTTGGATATTAAAATTATTATGTTTTAAGTTT
Found at i:103848 original size:59 final size:59
Alignment explanation
Indices: 103766--103880 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
103756 AATTATATGG
* * * *
103766 TGTAATACTAGTTATGCAGTTGGACAATTTTTTAGTTATAATGTGGTGTACTACTAATT
1 TGTAATACTAGTTATGCACTTGGACAATGTTGTAGTTATAATGTGGTGTAATACTAATT
* * *
103825 TGTAATATTAGTTATGCACTTGGACGATGTTGTAGTTATCATGTGGTGTAATACTA
1 TGTAATACTAGTTATGCACTTGGACAATGTTGTAGTTATAATGTGGTGTAATACTA
103881 GTTATGCACT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (59 bp):
TGTAATACTAGTTATGCACTTGGACAATGTTGTAGTTATAATGTGGTGTAATACTAATT
Found at i:103885 original size:22 final size:22
Alignment explanation
Indices: 103857--103931 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
103847 GACGATGTTG
103857 TAGTTATCATGTGGTGTAATAC
1 TAGTTATCATGTGGTGTAATAC
** *
103879 TAGTTATGCACT-TGG-AAAATATTA
1 TAGTTAT-CA-TGTGGTGTAATA--C
*
103903 TAGTTATCATGTAGTGTAATAC
1 TAGTTATCATGTGGTGTAATAC
103925 TAGTTAT
1 TAGTTAT
103932 GCACTTGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
22 19 0.47
23 9 0.22
24 12 0.30
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (22 bp):
TAGTTATCATGTGGTGTAATAC
Found at i:103892 original size:46 final size:46
Alignment explanation
Indices: 103825--103972 Score: 233
Period size: 46 Copynumber: 3.2 Consensus size: 46
103815 ACTACTAATT
* ** *
103825 TGTAATATTAGTTATGCACTTGGACGATGTTGTAGTTATCATGTGG
1 TGTAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGG
* *
103871 TGTAATACTAGTTATGCACTTGGAAAATATTATAGTTATCATGTAG
1 TGTAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGG
103917 TGTAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGG
1 TGTAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGG
*
103963 TGTACTACTA
1 TGTAATACTA
103973 ATTTGTAATA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 93 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (46 bp):
TGTAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGG
Found at i:103907 original size:24 final size:24
Alignment explanation
Indices: 103879--103955 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 24
103869 GGTGTAATAC
103879 TAGTTATGCACTTGGAAAATATTA
1 TAGTTATGCACTTGGAAAATATTA
* *** *
103903 TAGTTAT-CA--TGTAGTGTAATA
1 TAGTTATGCACTTGGAAAATATTA
*
103924 CTAGTTATGCACTTGGAAAATATTG
1 -TAGTTATGCACTTGGAAAATATTA
103949 TAGTTAT
1 TAGTTAT
103956 CATGTGGTGT
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
21 7 0.18
22 7 0.18
23 4 0.11
24 14 0.37
25 6 0.16
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (24 bp):
TAGTTATGCACTTGGAAAATATTA
Found at i:103945 original size:22 final size:22
Alignment explanation
Indices: 103874--103945 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
103864 CATGTGGTGT
103874 AATACTAGTTATGCACTTGGAA
1 AATACTAGTTATGCACTTGGAA
* *
103896 AATATTATAGTTAT-CA-TGTAGTG-T
1 AATA--CTAGTTATGCACT-T-G-GAA
103920 AATACTAGTTATGCACTTGGAA
1 AATACTAGTTATGCACTTGGAA
103942 AATA
1 AATA
103946 TTGTAGTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
21 1 0.03
22 17 0.45
23 6 0.16
24 13 0.34
25 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (22 bp):
AATACTAGTTATGCACTTGGAA
Found at i:118951 original size:22 final size:22
Alignment explanation
Indices: 118924--118966 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
118914 TCGACTTCTT
118924 TATTTTCTATTT-CTTTTAATTA
1 TATTTTCT-TTTACTTTTAATTA
*
118946 TATTTTCTTTTATTTTTAATT
1 TATTTTCTTTTACTTTTAATT
118967 TTGTTTCTTC
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:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTTCTTTTACTTTTAATTA
Found at i:124569 original size:6 final size:6
Alignment explanation
Indices: 124558--124615 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
124548 GGCAACCCAA
* * *
124558 TTATTT TTATTT TTATTTT ATTATTA TTATTT TTCTATC TTA-TT TTATTT
1 TTATTT TTATTT TTA-TTT -TTATTT TTATTT TTAT-TT TTATTT TTATTT
124608 TTATTT TT
1 TTATTT TT
124616 TTTGTCCAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 4 0.10
6 27 0.64
7 8 0.19
8 3 0.07
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:124600 original size:27 final size:26
Alignment explanation
Indices: 124557--124618 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
124547 AGGCAACCCA
*
124557 ATTATTTTTATTTTTATTTTATTATT
1 ATTATTTTTATTCTTATTTTATTATT
* *
124583 ATTATTTTTCTATCTTATTTTATTTTT
1 ATTATTTTTAT-TCTTATTTTATTATT
*
124610 ATTTTTTTT
1 ATTATTTTT
124619 GTCCAAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (26 bp):
ATTATTTTTATTCTTATTTTATTATT
Found at i:125529 original size:104 final size:103
Alignment explanation
Indices: 125394--125588 Score: 236
Period size: 104 Copynumber: 1.9 Consensus size: 103
125384 ATGTGTTAGA
* * * *
125394 CTGAGTAACCAGGGTGGAGTGCTTGGTTGTCATTACACTTCACGTC-AAAGGGGCAAACATATTC
1 CTGAGTAACCAGGGTGAAGTGCGTGGGTGTCATTACACTTCACGTCAAAAGGGCCAAA-ATATTC
125458 -TACAA-AAAAAAAAGAAGAAAAAAATTGAGAGCATGTTGGG
65 TTA-AAGAAAAAAAA-AAG-AAAAAATTGAGAGCATGTTGGG
* * * * *
125498 CTGAGTAATC-GGGATGAAGTGCGTGGGTGTCATTTCATTTCACGTCAAAAGGTCCAAAGTATTC
1 CTGAGTAACCAGGG-TGAAGTGCGTGGGTGTCATTACACTTCACGTCAAAAGGGCCAAAATATTC
125562 TTAAAGAAAAAAAAAAGAAAAAATTGA
65 TTAAAGAAAAAAAAAAGAAAAAATTGA
125589 CAAAATAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
103 13 0.17
104 46 0.59
105 19 0.24
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (103 bp):
CTGAGTAACCAGGGTGAAGTGCGTGGGTGTCATTACACTTCACGTCAAAAGGGCCAAAATATTCT
TAAAGAAAAAAAAAAGAAAAAATTGAGAGCATGTTGGG
Found at i:127174 original size:15 final size:15
Alignment explanation
Indices: 127123--127199 Score: 64
Period size: 15 Copynumber: 5.1 Consensus size: 15
127113 TACATGCTCA
* *
127123 CAACGTGAGTGTTTG
1 CAACATGAGTGTTCG
*
127138 CAACATCAGTGTTCG
1 CAACATGAGTGTTCG
** *
127153 CGTCATGTGTGTTCG
1 CAACATGAGTGTTCG
*
127168 CAACATGAGTGCTCG
1 CAACATGAGTGTTCG
* * *
127183 TAACATCAGTGCTCG
1 CAACATGAGTGTTCG
127198 CA
1 CA
127200 TCTTCCAAGC
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (15 bp):
CAACATGAGTGTTCG
Found at i:133666 original size:15 final size:15
Alignment explanation
Indices: 133615--133679 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
133605 TCCATGCTCA
* *
133615 CAACGTGAGTGTTCA
1 CAACATGAGTGTTCG
*
133630 CAACATCAGTGTTCG
1 CAACATGAGTGTTCG
** *
133645 CGTCATGTGTGTTCG
1 CAACATGAGTGTTCG
*
133660 CAACATGAGTGCTCG
1 CAACATGAGTGTTCG
133675 CAACA
1 CAACA
133680 CCAATGCTCG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (15 bp):
CAACATGAGTGTTCG
Found at i:138011 original size:37 final size:37
Alignment explanation
Indices: 137961--138035 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
137951 TTGTCACACG
137961 ATTCTATATGCCTTCTAACCTCATAATTTCATCGACA
1 ATTCTATATGCCTTCTAACCTCATAATTTCATCGACA
137998 ATTCTATATGCCTTCTAACCTCATAATTTCATCGACA
1 ATTCTATATGCCTTCTAACCTCATAATTTCATCGACA
138035 A
1 A
138036 CTTCCCGCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.37
Consensus pattern (37 bp):
ATTCTATATGCCTTCTAACCTCATAATTTCATCGACA
Found at i:142205 original size:30 final size:30
Alignment explanation
Indices: 142170--142454 Score: 192
Period size: 30 Copynumber: 9.6 Consensus size: 30
142160 ATTTTATTTA
*
142170 AAAATTACATTCTAACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* ** * * * *
142200 TAAATTTTATTTCAACCCTTAAACTATCCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* * * *
142230 AAAATTACATTGTGACCCTTACACTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* *
142260 AAAATTGCATTTTGAA-CCC-AAACTTTTCA
1 AAAATTACATTTT-AACCCCTAAACTTTTCC
* *
142289 AAAATCACATTTTGACTCCC-AAAC-TTTCC
1 AAAATTACATTTTAAC-CCCTAAACTTTTCC
* * * * * *
142318 ACAATAACATTTTGATCCCTAAACCTTTCT
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* * *
142348 AAAATCT-CATTTTGATCCCTAAACCTTTCC
1 AAAAT-TACATTTTAACCCCTAAACTTTTCC
*
142378 AAAATCACA-TTTAGACCCC-AAAC-TTTCC
1 AAAATTACATTTTA-ACCCCTAAACTTTTCC
* * **
142406 TAAAATTATA-TTTGACCCCTAATTTTTTCC
1 -AAAATTACATTTTAACCCCTAAACTTTTCC
142436 AAAATTACATTTTAACCCC
1 AAAATTACATTTTAACCCC
142455 AAATTCTTCG
Statistics
Matches: 199, Mismatches: 44, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
28 14 0.07
29 67 0.34
30 117 0.59
31 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTTCC
Found at i:142715 original size:19 final size:19
Alignment explanation
Indices: 142688--142726 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
142678 TTTTTCCATT
* *
142688 ATTTGCGCATTCATATTTA
1 ATTTACGCACTCATATTTA
*
142707 ATTTACGCACTCATCTTTA
1 ATTTACGCACTCATATTTA
142726 A
1 A
142727 ATTAAAATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.44
Consensus pattern (19 bp):
ATTTACGCACTCATATTTA
Found at i:148740 original size:50 final size:50
Alignment explanation
Indices: 148675--148849 Score: 172
Period size: 50 Copynumber: 3.5 Consensus size: 50
148665 GAGAAAATAT
* *
148675 GAAGATATGAAGGGAAAGGTTGAGACTGTAATGGCGAACCCGATACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCTGTAATGGCGAACCCGATACCTTA
* * *** ** ** * *
148725 GAAGATGTGACGGGAAATGTTGAGGCCACAACAGCGAATTCGGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCTGTAATGGCGAACCCGATACCTTA
* * * *
148774 GAATATTTGAAGGGAACGATTGAGGCTGTAATGGCGAACCCGATACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCTGTAATGGCGAACCCGATACCTTA
* *
148824 GAAGATGTGACGGGAAATGTTGAGGC
1 GAAGATGTGAAGGGAAAGGTTGAGGC
148850 CACAACAGTG
Statistics
Matches: 90, Mismatches: 34, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
49 34 0.38
50 56 0.62
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (50 bp):
GAAGATGTGAAGGGAAAGGTTGAGGCTGTAATGGCGAACCCGATACCTTA
Found at i:148798 original size:49 final size:48
Alignment explanation
Indices: 148743--148919 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 48
148733 GACGGGAAAT
*
148743 GTTGAGGCCACAACAGCGAATTCGGTACCATGAATATTTGAAGGGAAC
1 GTTGAGGCCACAACAGCGAACTCGGTACCATGAATATTTGAAGGGAAC
*** ** * * * * * * *
148791 GATTGAGGCTGTAATGGCGAACCCGATACCTTAGAAGATGTGACGGGAAAT
1 G-TTGAGGCCACAACAGCGAACTCGGTACCAT-GAATATTTGAAGGG-AAC
* *
148842 GTTGAGGCCACAACAGTGAACTCGGTACCATGAATATTTAAAGGGAAC
1 GTTGAGGCCACAACAGCGAACTCGGTACCATGAATATTTGAAGGGAAC
* *
148890 GGTTGAGGCCACAACGGCGAACTTGGTACC
1 -GTTGAGGCCACAACAGCGAACTCGGTACC
148920 TCAGAAGATG
Statistics
Matches: 95, Mismatches: 30, Indels: 7
0.72 0.23 0.05
Matches are distributed among these distances:
48 3 0.03
49 57 0.60
50 32 0.34
51 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (48 bp):
GTTGAGGCCACAACAGCGAACTCGGTACCATGAATATTTGAAGGGAAC
Found at i:148844 original size:99 final size:99
Alignment explanation
Indices: 148673--149056 Score: 411
Period size: 99 Copynumber: 3.9 Consensus size: 99
148663 CTGAGAAAAT
* * * * * *
148673 ATGAAGATATGAAGGGAAAGGTTGAGACTGTAATGGCGAACCCGATACCTTAGAAGATGTGACGG
1 ATGAATATTTGAAGGGAACGGTTGAGGCTGCAACGGCGAACCCGATACCTTAGAAGATGTGACGG
*
148738 GAAATGTTGAGGCCACAACAGCGAATTCGGTACC
66 GAAATGTTGAGGCCACAACAGTGAATTCGGTACC
* * *
148772 ATGAATATTTGAAGGGAACGATTGAGGCTGTAATGGCGAACCCGATACCTTAGAAGATGTGACGG
1 ATGAATATTTGAAGGGAACGGTTGAGGCTGCAACGGCGAACCCGATACCTTAGAAGATGTGACGG
*
148837 GAAATGTTGAGGCCACAACAGTGAACTCGGTACC
66 GAAATGTTGAGGCCACAACAGTGAATTCGGTACC
* ** ** * * **
148871 ATGAATATTTAAAGGGAACGGTTGAGGCCACAACGGCGAACTTGGTACCTCAGAAGATGTGATTG
1 ATGAATATTTGAAGGGAACGGTTGAGGCTGCAACGGCGAACCCGATACCTTAGAAGATGTGACGG
* * * *
148936 GAAA-GATTAAGGCCACAACGGTGAATCCAGTACC
66 GAAATG-TTGAGGCCACAACAGTGAATTCGGTACC
* * * * * *
148970 ATGAA-ATGTGATGGGTAA-GGTTGAGGCTGCAACGGCAAACCCAATACC--ACGAAGATTTGAA
1 ATGAATATTTGAAGGG-AACGGTTGAGGCTGCAACGGCGAACCCGATACCTTA-GAAGATGTGAC
* *
149031 GGGAAAGGTTGAGGCCA-AACGGTGAA
64 GGGAAATGTTGAGGCCACAACAGTGAA
149057 CCCAGTACCT
Statistics
Matches: 243, Mismatches: 38, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
96 10 0.04
97 22 0.09
98 32 0.13
99 179 0.74
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.20
Consensus pattern (99 bp):
ATGAATATTTGAAGGGAACGGTTGAGGCTGCAACGGCGAACCCGATACCTTAGAAGATGTGACGG
GAAATGTTGAGGCCACAACAGTGAATTCGGTACC
Found at i:149073 original size:49 final size:50
Alignment explanation
Indices: 148675--149283 Score: 395
Period size: 48 Copynumber: 12.4 Consensus size: 50
148665 GAGAAAATAT
* * *** * * *
148675 GAAGATATGAAGGGAAAGGTTGAGACTGTAATGGCGAACCCGATACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
* * * **
148725 GAAGATGTGACGGGAAATGTTGAGGCCACAACAGCGAATTCGGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
* * * * *** * * *
148774 GAATATTTGAAGGGAACGATTGAGGCTGTAATGGCGAACCCGATACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
* * * * *
148824 GAAGATGTGACGGGAAATGTTGAGGCCACAACAGTGAACTCGGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
* * * * **
148873 GAATATTTAAAGGGAACGGTTGAGGCCACAACGGCGAACTTGGTACC-TCA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCAT-A
** * * * * *
148923 GAAGATGTGATTGGAAAGATTAAGGCCACAACGGTGAATCCAGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
* * ** * ** *
148972 GAA-ATGTGATGGGTAAGGTTGAGGCTGCAACGGCAAACCCAATACCA-C
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
* * * *
149020 GAAGATTTGAAGGGAAAGGTTGAGGCCA-AACGGTGAACCCAGTACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
* * * * *
149069 GAAGATGTG-ATGGAAAGATTGAGGCCACAACGGTGAATCTGGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
* ** * *
149117 GAA-ATGTGATGGGAAAGGTTGAGGCCACAATAGCAAACCCGGTACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
* * * * * * * *
149166 AAAGATGTGATGGGGAGAA--TTAAGGCCGCAATGGTGAATCCGGTTCCAT-
1 GAAGATGTGA-AGGGA-AAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
* * *
149215 GAA-ATGTGATGGAAAAGGTTGAGGCCACAACGGCGAACCCAGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
*
149263 GAAGA-GTCGAAGGAAAAGGTT
1 GAAGATGT-GAAGGGAAAGGTT
149284 AAAGTCGCAA
Statistics
Matches: 419, Mismatches: 123, Indels: 35
0.73 0.21 0.06
Matches are distributed among these distances:
46 2 0.00
47 8 0.02
48 135 0.32
49 135 0.32
50 132 0.32
51 5 0.01
52 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (50 bp):
GAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCGGTACCATA
Found at i:149093 original size:97 final size:97
Alignment explanation
Indices: 148828--149260 Score: 262
Period size: 98 Copynumber: 4.4 Consensus size: 97
148818 ACCTTAGAAG
* * * * * * * * * * * *
148828 ATGTGACGGGAAATGTTGAGGCCACAACAGTGAACTCGGTACCAT-GAATATTTAAAGGGAACGG
1 ATGTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCAGTACCTTAGAAGATGT-GATGGAAAGA
* **** *
148892 TTGAGGCCACAACGGCGAACTTGGTACCTCAGAA
65 TTGAGGCCACAACGGCAAACCCAATACCAC-GAA
** * * * * *
148926 GATGTGATTGGAAAGATTAAGGCCACAACGGTGAATCCAGTACCAT-GAA-ATGTGATGGGTAAG
1 -ATGTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCAGTACCTTAGAAGATGTGAT-GGAAAG
* **
148989 GTTGAGGCTGCAACGGCAAACCCAATACCACGAA
64 ATTGAGGCCACAACGGCAAACCCAATACCACGAA
*
149023 GATTTGAAGGGAAAGGTTGAGGCCA-AACGGTGAACCCAGTACCTTAGAAGATGTGATGGAAAGA
1 -ATGTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCAGTACCTTAGAAGATGTGATGGAAAGA
** * *** *
149087 TTGAGGCCACAACGGTGAATCTGGTACCATGAA
65 TTGAGGCCACAACGGCAAACCCAATACCACGAA
* ** ** * * **
149120 ATGTGATGGGAAAGGTTGAGGCCACAATAGCAAACCCGGTACCTTAAAAGATGTGATGGGGAGAA
1 ATGTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCAGTACCTTAGAAGATGTGATGGAAAG-A
* * * ** * ** * *
149185 TTAAGGCCGCAATGGTGAATCCGGTTCCATGAA
65 TTGAGGCCACAACGGCAAACCCAATACCACGAA
* * *
149218 ATGTGATGGAAAAGGTTGAGGCCACAACGGCGAACCCAGTACC
1 ATGTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCAGTACC
149261 ATGAAGAGTC
Statistics
Matches: 269, Mismatches: 60, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
96 40 0.15
97 86 0.32
98 104 0.39
99 39 0.14
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (97 bp):
ATGTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCAGTACCTTAGAAGATGTGATGGAAAGAT
TGAGGCCACAACGGCAAACCCAATACCACGAA
Found at i:149153 original size:145 final size:147
Alignment explanation
Indices: 148828--149156 Score: 428
Period size: 145 Copynumber: 2.3 Consensus size: 147
148818 ACCTTAGAAG
* * ** * ** * * *
148828 ATGTGACGGGAAATGTTGAGGCCACAACAGTGAACTCGGTACCATGAATATTTAAAGGGAACGGT
1 ATGTGATGGGAAAGGTTGAGGCCACAACAGCAAACCCAATACCACGAAGATTTAAAGGGAAAGGT
***
148893 TGAGGCCACAACGGCGAACTTGGTACCTCAGAAGATGTGATTGGAAAGATTAAGGCCACAACGGT
66 TGAGGCCACAACGGCGAACCCAGTACCTCAGAAGATGTGATTGGAAAGATTAAGGCCACAACGGT
148958 GAATCCAGTACCATGAA
131 GAATCCAGTACCATGAA
* ** * *
148975 ATGTGATGGGTAAGGTTGAGGCTGCAACGGCAAACCCAATACCACGAAGATTTGAAGGGAAAGGT
1 ATGTGATGGGAAAGGTTGAGGCCACAACAGCAAACCCAATACCACGAAGATTTAAAGGGAAAGGT
* * *
149040 TGAGGCCA-AACGGTGAACCCAGTACCTTAGAAGATGTGA-TGGAAAGATTGAGGCCACAACGGT
66 TGAGGCCACAACGGCGAACCCAGTACCTCAGAAGATGTGATTGGAAAGATTAAGGCCACAACGGT
**
149103 GAATCTGGTACCATGAA
131 GAATCCAGTACCATGAA
*
149120 ATGTGATGGGAAAGGTTGAGGCCACAATAGCAAACCC
1 ATGTGATGGGAAAGGTTGAGGCCACAACAGCAAACCC
149157 GGTACCTTAA
Statistics
Matches: 154, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
145 70 0.45
146 26 0.17
147 58 0.38
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (147 bp):
ATGTGATGGGAAAGGTTGAGGCCACAACAGCAAACCCAATACCACGAAGATTTAAAGGGAAAGGT
TGAGGCCACAACGGCGAACCCAGTACCTCAGAAGATGTGATTGGAAAGATTAAGGCCACAACGGT
GAATCCAGTACCATGAA
Found at i:149174 original size:243 final size:246
Alignment explanation
Indices: 148768--149283 Score: 623
Period size: 243 Copynumber: 2.1 Consensus size: 246
148758 GCGAATTCGG
* * * ** *
148768 TACCATGAATATTTGAAGGGAACGATTGAGGCTGTAATGGCGAACCCGATACCTTAGAAGATGTG
1 TACCATGAAGATTTGAAGGGAAAGGTTGAGGCTCAAACGGCGAACCCGATACCTTAGAAGATGTG
* *
148833 ACGGGAAATGTTGAGGCCACAACAGTGAACTCGGTACCATGAATATTTAAAGGGAACGGTTGAGG
66 ACGGGAAATGTTGAGGCCACAACAGTGAACTCGGTACCATGAATATGTAAAGGGAAAGGTTGAGG
* * ** *
148898 CCACAACGGCGAACTTGGTACCTCAGAAGATGTGATTGGAAAG-ATTAAGGCCACAACGGTGAAT
131 CCACAACAGCAAACCCGGTACCTCAAAAGATGTGA-TGGAAAGAATTAAGGCCACAACGGTGAAT
** **
148962 CCAGTACCATGAAATGTGATGGGTAAGGTTGAGGCTGCAACGGCAAACCCAA
195 CCAGTACCATGAAATGTGATGGAAAAGGTTGAGGCCACAACGGCAAACCCAA
* *
149014 TACCACGAAGATTTGAAGGGAAAGGTTGAGGC-CAAACGGTGAACCC-AGTACCTTAGAAGATGT
1 TACCATGAAGATTTGAAGGGAAAGGTTGAGGCTCAAACGGCGAACCCGA-TACCTTAGAAGATGT
* * * *
149077 GA-TGGAAA-GATTGAGGCCACAACGGTGAA-TCTGGTACCATGAA-ATGTGATGGGAAAGGTTG
65 GACGGGAAATG-TTGAGGCCACAACAGTGAACTC-GGTACCATGAATATGTAAAGGGAAAGGTTG
* * ** * *
149138 AGGCCACAATAGCAAACCCGGTACCTTAAAAGATGTGATGGGGAGAATTAAGGCCGCAATGGTGA
128 AGGCCACAACAGCAAACCCGGTACCTCAAAAGATGTGATGGAAAGAATTAAGGCCACAACGGTGA
* * * *
149203 ATCCGGTTCCATGAAATGTGATGGAAAAGGTTGAGGCCACAACGGCGAACCCAG
193 ATCCAGTACCATGAAATGTGATGGAAAAGGTTGAGGCCACAACGGCAAACCCAA
* * *
149257 TACCATGAAGAGTCGAAGGAAAAGGTT
1 TACCATGAAGATTTGAAGGGAAAGGTT
149284 AAAGTCGCAA
Statistics
Matches: 229, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
242 5 0.02
243 134 0.59
244 35 0.15
245 27 0.12
246 28 0.12
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.19
Consensus pattern (246 bp):
TACCATGAAGATTTGAAGGGAAAGGTTGAGGCTCAAACGGCGAACCCGATACCTTAGAAGATGTG
ACGGGAAATGTTGAGGCCACAACAGTGAACTCGGTACCATGAATATGTAAAGGGAAAGGTTGAGG
CCACAACAGCAAACCCGGTACCTCAAAAGATGTGATGGAAAGAATTAAGGCCACAACGGTGAATC
CAGTACCATGAAATGTGATGGAAAAGGTTGAGGCCACAACGGCAAACCCAA
Found at i:149222 original size:98 final size:97
Alignment explanation
Indices: 149031--149260 Score: 300
Period size: 98 Copynumber: 2.4 Consensus size: 97
149021 AAGATTTGAA
* ** * *
149031 GGGAAAGGTTGAGGCCA-AACGGTGAACCCAGTACCTTAGAAGATGTGATGGAAAGATTGAGGCC
1 GGGAAAGGTTGAGGCCACAACAGCAAACCCAGTACCTTAAAAGATGTGATGGAAAGATTAAGGCC
*
149095 ACAACGGTGAATCTGGTACCATGAAATGTGAT
66 ACAACGGTGAATCCGGTACCATGAAATGTGAT
* * **
149127 GGGAAAGGTTGAGGCCACAATAGCAAACCCGGTACCTTAAAAGATGTGATGGGGAGAATTAAGGC
1 GGGAAAGGTTGAGGCCACAACAGCAAACCCAGTACCTTAAAAGATGTGATGGAAAG-ATTAAGGC
* * *
149192 CGCAATGGTGAATCCGGTTCCATGAAATGTGAT
65 CACAACGGTGAATCCGGTACCATGAAATGTGAT
* * *
149225 GGAAAAGGTTGAGGCCACAACGGCGAACCCAGTACC
1 GGGAAAGGTTGAGGCCACAACAGCAAACCCAGTACC
149261 ATGAAGAGTC
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
96 17 0.15
97 30 0.26
98 67 0.59
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (97 bp):
GGGAAAGGTTGAGGCCACAACAGCAAACCCAGTACCTTAAAAGATGTGATGGAAAGATTAAGGCC
ACAACGGTGAATCCGGTACCATGAAATGTGAT
Found at i:149222 original size:145 final size:144
Alignment explanation
Indices: 148922--149265 Score: 381
Period size: 145 Copynumber: 2.4 Consensus size: 144
148912 TTGGTACCTC
* *
148922 AGAAGATGTGATTGGAAAGATTAAGGCCACAACGGTGAATCCAGTACCATGAAATGTGATGGGTA
1 AGAAGATGTGA-TGGAAAGATTGAGGCCACAACGGTGAATCCAGTACCATGAAATGTGATGGGAA
** * * * *
148987 AGGTTGAGGCTGCAACGGCAAACCCAATACCACGAAGATTTGAAGGGAAAGGTTGAGGCCAAACG
65 AGGTTGAGGCCACAACAGCAAACCCAATACCACAAAGATGTGAAGGGAAA-GTTAAGGCCAAACG
*
149052 GTGAACCCAGTACCTT
129 GTGAACCCAGTACCAT
**
149068 AGAAGATGTGATGGAAAGATTGAGGCCACAACGGTGAATCTGGTACCATGAAATGTGATGGGAAA
1 AGAAGATGTGATGGAAAGATTGAGGCCACAACGGTGAATCCAGTACCATGAAATGTGATGGGAAA
* ** * *
149133 GGTTGAGGCCACAATAGCAAACCCGGTACCTTA-AAAGATGTGATGGGGAGAA-TTAAGGCCGCA
66 GGTTGAGGCCACAACAGCAAACCCAATACC--ACAAAGATGTGA-AGGGA-AAGTTAAGGCC-AA
* * * *
149196 ATGGTGAATCCGGTTCCAT
126 ACGGTGAACCCAGTACCAT
* * *
149215 -GAA-ATGTGATGGAAAAGGTTGAGGCCACAACGGCGAACCCAGTACCATGAA
1 AGAAGATGTGATGG-AAAGATTGAGGCCACAACGGTGAATCCAGTACCATGAA
149266 GAGTCGAAGG
Statistics
Matches: 167, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
145 83 0.50
146 62 0.37
147 20 0.12
148 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.19
Consensus pattern (144 bp):
AGAAGATGTGATGGAAAGATTGAGGCCACAACGGTGAATCCAGTACCATGAAATGTGATGGGAAA
GGTTGAGGCCACAACAGCAAACCCAATACCACAAAGATGTGAAGGGAAAGTTAAGGCCAAACGGT
GAACCCAGTACCAT
Found at i:149627 original size:44 final size:44
Alignment explanation
Indices: 149545--149693 Score: 166
Period size: 44 Copynumber: 3.4 Consensus size: 44
149535 AAACTGCAGT
* * *
149545 CATTCCAATCTTTTACCCCT-AGTCAAGAGGGGCAGATTGAACA
1 CATTTCAATCTTTTACCCCTAAGTCAAAAAGGGCAGATTGAACA
149588 CATTTCAATCTTTTACCCCTAAGTCAAAAAGGGCAGATTGAAGC-
1 CATTTCAATCTTTTACCCCTAAGTCAAAAAGGGCAGATTGAA-CA
*
149632 CATATTCCAATCTTTTACCCCTAA-TC-AAGAGGGCCAGATTG-A-A
1 CAT-TT-CAATCTTTTACCCCTAAGTCAAAAAGGG-CAGATTGAACA
* *
149675 GATTTCAATCTCTTACCCC
1 CATTTCAATCTTTTACCCC
149694 AATCATGAGG
Statistics
Matches: 94, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
41 13 0.14
42 2 0.02
43 21 0.22
44 29 0.31
45 12 0.13
46 17 0.18
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (44 bp):
CATTTCAATCTTTTACCCCTAAGTCAAAAAGGGCAGATTGAACA
Found at i:149762 original size:39 final size:39
Alignment explanation
Indices: 149680--149861 Score: 154
Period size: 39 Copynumber: 4.7 Consensus size: 39
149670 TTGAAGATTT
* * * *
149680 CAATCTCTTACCCCAATCATGAGG-AAGATTACAGTCA-C
1 CAATCTCTTACCCCGATCATGGGGCAA-ATTGCAGCCATC
* *
149718 TCGATCTTTTACCCCGATCATGGGGCAAATTGCAGCCATC
1 -CAATCTCTTACCCCGATCATGGGGCAAATTGCAGCCATC
* * * * ** * * *
149758 CGATCTTTTATCCCGATAATCTGGTAGATTACCA-CCATC
1 CAATCTCTTACCCCGATCATGGGGCAAATT-GCAGCCATC
*
149797 CAATCTCTTACCCCGATCATGGGGAAAATTGCAGCCATC
1 CAATCTCTTACCCCGATCATGGGGCAAATTGCAGCCATC
* *
149836 TAATCTCTTACCCCTATCATGGGGCA
1 CAATCTCTTACCCCGATCATGGGGCA
149862 TATTACAGTT
Statistics
Matches: 114, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
38 2 0.02
39 107 0.94
40 5 0.04
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (39 bp):
CAATCTCTTACCCCGATCATGGGGCAAATTGCAGCCATC
Found at i:149867 original size:78 final size:78
Alignment explanation
Indices: 149721--149867 Score: 186
Period size: 78 Copynumber: 1.9 Consensus size: 78
149711 CAGTCACTCG
* * * * * * *
149721 ATCTTTTACCCCGATCATGGGGCAAATTGCAGCCATCCGATCTTTTATCCCGATAATCTGGTAGA
1 ATCTCTTACCCCGATCATGGGGAAAATTGCAGCCATCCAATCTCTTACCCCGATAATCGGGCAGA
149786 TTACCACCATCCA
66 TTACCACCATCCA
* * * * *
149799 ATCTCTTACCCCGATCATGGGGAAAATTGCAGCCATCTAATCTCTTACCCCTATCATGGGGCATA
1 ATCTCTTACCCCGATCATGGGGAAAATTGCAGCCATCCAATCTCTTACCCCGATAATCGGGCAGA
149864 TTAC
66 TTAC
149868 AGTTATCTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 57 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (78 bp):
ATCTCTTACCCCGATCATGGGGAAAATTGCAGCCATCCAATCTCTTACCCCGATAATCGGGCAGA
TTACCACCATCCA
Found at i:150311 original size:22 final size:22
Alignment explanation
Indices: 150269--150328 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
150259 CGATCTGAGG
* *
150269 AAAAATAGAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAATT
*
150290 AAAAATAAAAGAAAATATAATT
1 AAAAATAAAAGAAAATAGAATT
*
150312 AAAAGA-AATAGAAAATA
1 AAAA-ATAAAAGAAAATA
150329 AAGAAGTAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.30
22 22 0.67
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.10, T:0.17
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Done.